./tassel5.0_standalone/lib/batik-awt-util.jar:./tassel5.0_standalone/lib/batik-gui-util.jar:./tassel5.0_standalone/lib/itextpdf-5.1.0.jar:./tassel5.0_standalone/lib/cisd-jhdf5-batteries_included_lin_win_mac.jar:./tassel5.0_standalone/lib/guava-14.0.1.jar:./tassel5.0_standalone/lib/LiuExt.jar:./tassel5.0_standalone/lib/batik-xml.jar:./tassel5.0_standalone/lib/batik-dom.jar:./tassel5.0_standalone/lib/poi-3.0.1-FINAL-20070705.jar:./tassel5.0_standalone/lib/batik-css.jar:./tassel5.0_standalone/lib/ejml-0.23.jar:./tassel5.0_standalone/lib/jcommon-1.0.6.jar:./tassel5.0_standalone/lib/batik-svg-dom.jar:./tassel5.0_standalone/lib/xercesImpl.jar:./tassel5.0_standalone/lib/xml.jar:./tassel5.0_standalone/lib/batik-parser.jar:./tassel5.0_standalone/lib/biojava3-alignment-3.0.jar:./tassel5.0_standalone/lib/mail-1.4.jar:./tassel5.0_standalone/lib/biojava3-core-3.0.jar:./tassel5.0_standalone/lib/batik-svggen.jar:./tassel5.0_standalone/lib/batik-gvt.jar:./tassel5.0_standalone/lib/batik-ext.jar:./tassel5.0_standalone/lib/batik-util.jar:./tassel5.0_standalone/lib/geronimo-spec-activation-1.0.2-rc4.jar:./tassel5.0_standalone/lib/colt.jar:./tassel5.0_standalone/lib/junit-4.10.jar:./tassel5.0_standalone/lib/forester.jar:./tassel5.0_standalone/lib/commons-math-2.2.jar:./tassel5.0_standalone/lib/xmlParserAPIs.jar:./tassel5.0_standalone/lib/json-simple-1.1.1.jar:./tassel5.0_standalone/lib/log4j-1.2.13.jar:./tassel5.0_standalone/lib/jfreechart-1.0.3.jar:./tassel5.0_standalone/lib/biojava3-phylo-3.0.jar:./tassel5.0_standalone/sTASSEL.jar Memory Settings: -Xms512m -Xmx24g Tassel Pipeline Arguments: -fork1 -i ./fastq/fastq4/ -k ./key/igdSamplesKey_20140722.txt -e ApeKI -m ./productionTOPM/cassava_IGD_prodTOPM_201400724.topm -o ./indHapmaps/hapmap_fastq04.h5 -endPlugin -runfork1 [main] INFO net.maizegenetics.pipeline.TasselPipeline - Tassel Version: 5.0.9 Date: July 24, 2014 [main] INFO net.maizegenetics.pipeline.TasselPipeline - Max Available Memory Reported by JVM: 21845 MB [main] INFO net.maizegenetics.pipeline.TasselPipeline - Java Version: 1.7.0_51 [main] ERROR net.maizegenetics.pipeline.TasselPipeline - java.lang.IllegalArgumentException: TasselPipeline: parseArgs: Unknown parameter: -i ./tassel5.0_standalone/lib/batik-awt-util.jar:./tassel5.0_standalone/lib/batik-gui-util.jar:./tassel5.0_standalone/lib/itextpdf-5.1.0.jar:./tassel5.0_standalone/lib/cisd-jhdf5-batteries_included_lin_win_mac.jar:./tassel5.0_standalone/lib/guava-14.0.1.jar:./tassel5.0_standalone/lib/LiuExt.jar:./tassel5.0_standalone/lib/batik-xml.jar:./tassel5.0_standalone/lib/batik-dom.jar:./tassel5.0_standalone/lib/poi-3.0.1-FINAL-20070705.jar:./tassel5.0_standalone/lib/batik-css.jar:./tassel5.0_standalone/lib/ejml-0.23.jar:./tassel5.0_standalone/lib/jcommon-1.0.6.jar:./tassel5.0_standalone/lib/batik-svg-dom.jar:./tassel5.0_standalone/lib/xercesImpl.jar:./tassel5.0_standalone/lib/xml.jar:./tassel5.0_standalone/lib/batik-parser.jar:./tassel5.0_standalone/lib/biojava3-alignment-3.0.jar:./tassel5.0_standalone/lib/mail-1.4.jar:./tassel5.0_standalone/lib/biojava3-core-3.0.jar:./tassel5.0_standalone/lib/batik-svggen.jar:./tassel5.0_standalone/lib/batik-gvt.jar:./tassel5.0_standalone/lib/batik-ext.jar:./tassel5.0_standalone/lib/batik-util.jar:./tassel5.0_standalone/lib/geronimo-spec-activation-1.0.2-rc4.jar:./tassel5.0_standalone/lib/colt.jar:./tassel5.0_standalone/lib/junit-4.10.jar:./tassel5.0_standalone/lib/forester.jar:./tassel5.0_standalone/lib/commons-math-2.2.jar:./tassel5.0_standalone/lib/xmlParserAPIs.jar:./tassel5.0_standalone/lib/json-simple-1.1.1.jar:./tassel5.0_standalone/lib/log4j-1.2.13.jar:./tassel5.0_standalone/lib/jfreechart-1.0.3.jar:./tassel5.0_standalone/lib/biojava3-phylo-3.0.jar:./tassel5.0_standalone/sTASSEL.jar Memory Settings: -Xms512m -Xmx24g Tassel Pipeline Arguments: -fork1 -ProductionSNPCallerPlugin -i ./fastq/fastq4/ -k ./key/igdSamplesKey_20140722.txt -e ApeKI -m ./productionTOPM/cassava_IGD_prodTOPM_201400724.topm -o ./indHapmaps/hapmap_fastq04.h5 -endPlugin -runfork1 [main] INFO net.maizegenetics.pipeline.TasselPipeline - Tassel Version: 5.0.9 Date: July 24, 2014 [main] INFO net.maizegenetics.pipeline.TasselPipeline - Max Available Memory Reported by JVM: 21845 MB [main] INFO net.maizegenetics.pipeline.TasselPipeline - Java Version: 1.7.0_51 net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - ProductionSNPCallerPlugin: The following GBS raw sequence data files were found in the input folder (and sub-folders): /local/workdir/rp444/./fastq/fastq4/C0DC8ACXX_7_fastq.gz /local/workdir/rp444/./fastq/fastq4/C0T4NACXX_6_fastq.gz /local/workdir/rp444/./fastq/fastq4/C14VRACXX_1_fastq.gz /local/workdir/rp444/./fastq/fastq4/C14VRACXX_2_fastq.gz /local/workdir/rp444/./fastq/fastq4/C14VRACXX_3_fastq.gz /local/workdir/rp444/./fastq/fastq4/D0KLPACXX_5_fastq.gz /local/workdir/rp444/./fastq/fastq4/D17NUACXX_1_fastq.gz File = ./productionTOPM/cassava_IGD_prodTOPM_201400724.topm TagMapFile Row Read:0 TagMapFile Row Read:1000000 TagMapFile Row Read:2000000 TagMapFile Row Read:3000000 TagMapFile Row Read:4000000 TagMapFile Row Read:5000000 TagMapFile Row Read:6000000 TagMapFile Row Read:7000000 TagMapFile Row Read:8000000 TagMapFile Row Read:9000000 TagMapFile Row Read:10000000 TagMapFile Row Read:11000000 TagMapFile Row Read:12000000 TagMapFile Row Read:13000000 TagMapFile Row Read:14000000 TagMapFile Row Read:15000000 TagMapFile Row Read:16000000 TagMapFile Row Read:17000000 Count of Tags=17131464 initPhysicalSort Position index sort begin. Position index sort end. [Thread-0] INFO net.maizegenetics.plugindef.AbstractPlugin - ProductionSNPCallerPlugin Parameters i: ./fastq/fastq4/ k: ./key/igdSamplesKey_20140722.txt e: ApeKI m: ./productionTOPM/cassava_IGD_prodTOPM_201400724.topm o: ./indHapmaps/hapmap_fastq04.h5 eR: 0.01 d: 0 ko: false ndo: false [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - The following raw sequence files in the input directory conform to one of our file naming conventions and have corresponding samples in the barcode key file: /local/workdir/rp444/./fastq/fastq4/C0DC8ACXX_7_fastq.gz /local/workdir/rp444/./fastq/fastq4/C0T4NACXX_6_fastq.gz /local/workdir/rp444/./fastq/fastq4/C14VRACXX_1_fastq.gz /local/workdir/rp444/./fastq/fastq4/C14VRACXX_2_fastq.gz /local/workdir/rp444/./fastq/fastq4/C14VRACXX_3_fastq.gz /local/workdir/rp444/./fastq/fastq4/D0KLPACXX_5_fastq.gz /local/workdir/rp444/./fastq/fastq4/D17NUACXX_1_fastq.gz [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Counting sites in TOPM file chrSum0 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - In total, the TOPM contains 19 chromosomes and 1363071 sites. [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - The target HDF5 file: ./indHapmaps/hapmap_fastq04.h5 does not exist. A new HDF5 file of that name will be created to hold the genotypes from this run. [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Looking for known SNPs in sequence reads from file: [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - /local/workdir/rp444/./fastq/fastq4/C0DC8ACXX_7_fastq.gz Enzyme: ApeKI CTCC 1152:C0DC8ACXX:7:250060160 TTCTC 1014:C0DC8ACXX:7:250060161 GCTTA 1029:C0DC8ACXX:7:250060162 AACGCCT 1043:C0DC8ACXX:7:250060163 AGGC 1023:C0DC8ACXX:7:250060164 TCGTT 1107:C0DC8ACXX:7:250060165 TGGCTA 1203:C0DC8ACXX:7:250060166 TGCTGGA 1074:C0DC8ACXX:7:250060167 TGCA 1198:C0DC8ACXX:7:250060168 AGCCC 1125:C0DC8ACXX:7:250060169 CTTCCA 1105:C0DC8ACXX:7:250060170 AATATGC 1206:C0DC8ACXX:7:250060171 GATC 1024:C0DC8ACXX:7:250060172 ACCTAA 1166:C0DC8ACXX:7:250060173 ACGTGTT 1002:C0DC8ACXX:7:250060174 AACCGAGA 1128:C0DC8ACXX:7:250060175 ACTA 1032:C0DC8ACXX:7:250060176 GTATT 1184:C0DC8ACXX:7:250060177 GAGATA 1122:C0DC8ACXX:7:250060178 ACGACTAC 1148:C0DC8ACXX:7:250060179 TCAC 1101:C0DC8ACXX:7:250060180 ATATGT 1191:C0DC8ACXX:7:250060181 ATTAATT 1045:C0DC8ACXX:7:250060182 ACAGGGAA 1161:C0DC8ACXX:7:250060183 CAGA 1189:C0DC8ACXX:7:250060184 CTGTA TME117-1:C0DC8ACXX:7:250060185 ATGCCT 1060:C0DC8ACXX:7:250060186 GGTGT 1127:C0DC8ACXX:7:250060187 AGGAT 1050:C0DC8ACXX:7:250060188 ATCGTA 1138:C0DC8ACXX:7:250060189 ATTGGAT 1092:C0DC8ACXX:7:250060190 ACGTGGTA 1097:C0DC8ACXX:7:250060191 AACT 1104:C0DC8ACXX:7:250060192 ACCGT 1193:C0DC8ACXX:7:250060193 TATTTTT 1176:C0DC8ACXX:7:250060194 TAGCATGC 1039:C0DC8ACXX:7:250060195 ATTGA 1197:C0DC8ACXX:7:250060196 CATCGT 1165:C0DC8ACXX:7:250060197 CATAAGT 1178:C0DC8ACXX:7:250060198 CCATGGGT 1192:C0DC8ACXX:7:250060199 GCGT 1170:C0DC8ACXX:7:250060200 GTAA 1042:C0DC8ACXX:7:250060201 CTTGCTT 1123:C0DC8ACXX:7:250060202 AGTGGA 1157:C0DC8ACXX:7:250060203 CATCT 1047:C0DC8ACXX:7:250060204 CGCGGT 1195:C0DC8ACXX:7:250060205 CGCTGAT 1079:C0DC8ACXX:7:250060206 CGCGGAGA 30572-1:C0DC8ACXX:7:250060207 TGCGA 1186:C0DC8ACXX:7:250060208 GGTTGT 1098:C0DC8ACXX:7:250060209 ATGAAAC 1020:C0DC8ACXX:7:250060210 TAGGCCAT 1121:C0DC8ACXX:7:250060211 CCTAC 1038:C0DC8ACXX:7:250060212 CTATTA 1154:C0DC8ACXX:7:250060213 CGGTAGA 1004:C0DC8ACXX:7:250060214 CGTGTGGT 1070:C0DC8ACXX:7:250060215 CGAT 1135:C0DC8ACXX:7:250060216 CCAGCT 1009:C0DC8ACXX:7:250060217 AAAAGTT 1142:C0DC8ACXX:7:250060218 TGCAAGGA 1143:C0DC8ACXX:7:250060219 GAGGA 1076:C0DC8ACXX:7:250060220 GCCAGT 1053:C0DC8ACXX:7:250060221 CTACGGA 1141:C0DC8ACXX:7:250060222 GCTGTGGA 1041:C0DC8ACXX:7:250060223 CGCTT 1111:C0DC8ACXX:7:250060224 TTCAGA 1150:C0DC8ACXX:7:250060225 GAATTCA 1180:C0DC8ACXX:7:250060226 TGGTACGT 1190:C0DC8ACXX:7:250060227 GGAAC 1031:C0DC8ACXX:7:250060228 GGAAGA 1072:C0DC8ACXX:7:250060229 GCGGAAT 1207:C0DC8ACXX:7:250060230 GGATTGGT 1116:C0DC8ACXX:7:250060231 TCACC 1022:C0DC8ACXX:7:250060232 TAGGAA 1185:C0DC8ACXX:7:250060233 GAACTTC 1110:C0DC8ACXX:7:250060234 TCTCAGTC 1049:C0DC8ACXX:7:250060235 GTCAA 1100:C0DC8ACXX:7:250060236 GTACTT 1086:C0DC8ACXX:7:250060237 TAGCGGA 1133:C0DC8ACXX:7:250060238 GTGAGGGT 1147:C0DC8ACXX:7:250060239 CTAGC 1081:C0DC8ACXX:7:250060240 GCTCTA 1202:C0DC8ACXX:7:250060241 GGACCTA 1126:C0DC8ACXX:7:250060242 CCGGATAT 1069:C0DC8ACXX:7:250060243 TAATA blank:C0DC8ACXX:7:250060244 GTTGAA 1106:C0DC8ACXX:7:250060245 TCGAAGA 1171:C0DC8ACXX:7:250060246 TATCGGGA 1099:C0DC8ACXX:7:250060247 ACAAA 1064:C0DC8ACXX:7:250060248 CCACAA 1068:C0DC8ACXX:7:250060249 GTCGATT 1088:C0DC8ACXX:7:250060250 CGCCTTAT 1040:C0DC8ACXX:7:250060251 TACAT 1003:C0DC8ACXX:7:250060252 TAACGA 1051:C0DC8ACXX:7:250060253 TCTGTGA 1156:C0DC8ACXX:7:250060254 TTCCTGGA 1194:C0DC8ACXX:7:250060255 Total barcodes found in lane:96 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Working on GBS raw sequence file: /local/workdir/rp444/./fastq/fastq4/C0DC8ACXX_7_fastq.gz This file is assumed to be in fastq format Total barcodes found in key file for this lane:96 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:0 goodBarcodedReads:0 goodMatchedToTOPM:0 cumulReadSequenceTime: 0.0 sec cumulProcessSequenceTime: 0.0 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:1000000 goodBarcodedReads:966479 goodMatchedToTOPM:940308 cumulReadSequenceTime: 6.44900452 sec cumulProcessSequenceTime: 2.748844772 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:2000000 goodBarcodedReads:1928731 goodMatchedToTOPM:1875588 cumulReadSequenceTime: 12.54370305 sec cumulProcessSequenceTime: 5.402984851 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:3000000 goodBarcodedReads:2890662 goodMatchedToTOPM:2810221 cumulReadSequenceTime: 18.717194547 sec cumulProcessSequenceTime: 8.085926486 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:4000000 goodBarcodedReads:3852412 goodMatchedToTOPM:3744416 cumulReadSequenceTime: 24.837021246 sec cumulProcessSequenceTime: 10.750350338 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:5000000 goodBarcodedReads:4813920 goodMatchedToTOPM:4677273 cumulReadSequenceTime: 31.437850297 sec cumulProcessSequenceTime: 13.452179582 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:6000000 goodBarcodedReads:5775127 goodMatchedToTOPM:5609828 cumulReadSequenceTime: 38.052927257 sec cumulProcessSequenceTime: 16.153207584 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:7000000 goodBarcodedReads:6741427 goodMatchedToTOPM:6546231 cumulReadSequenceTime: 44.723368391 sec cumulProcessSequenceTime: 18.887753104 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:8000000 goodBarcodedReads:7701120 goodMatchedToTOPM:7476410 cumulReadSequenceTime: 51.414961355 sec cumulProcessSequenceTime: 21.590913009 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:9000000 goodBarcodedReads:8660706 goodMatchedToTOPM:8405402 cumulReadSequenceTime: 57.993573928 sec cumulProcessSequenceTime: 24.283628476 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:10000000 goodBarcodedReads:9619786 goodMatchedToTOPM:9333556 cumulReadSequenceTime: 64.640486136 sec cumulProcessSequenceTime: 26.972371097 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:11000000 goodBarcodedReads:10585970 goodMatchedToTOPM:10266038 cumulReadSequenceTime: 71.306312425 sec cumulProcessSequenceTime: 29.677880263 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:12000000 goodBarcodedReads:11544986 goodMatchedToTOPM:11191877 cumulReadSequenceTime: 77.920961254 sec cumulProcessSequenceTime: 32.368713382 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:13000000 goodBarcodedReads:12502962 goodMatchedToTOPM:12114170 cumulReadSequenceTime: 84.684540349 sec cumulProcessSequenceTime: 35.064465579 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:14000000 goodBarcodedReads:13467868 goodMatchedToTOPM:13044264 cumulReadSequenceTime: 91.333659721 sec cumulProcessSequenceTime: 37.764283441 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:15000000 goodBarcodedReads:14424829 goodMatchedToTOPM:13965615 cumulReadSequenceTime: 97.934500995 sec cumulProcessSequenceTime: 40.43939667 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:16000000 goodBarcodedReads:15389387 goodMatchedToTOPM:14892245 cumulReadSequenceTime: 104.703732114 sec cumulProcessSequenceTime: 43.134791913 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:17000000 goodBarcodedReads:16345637 goodMatchedToTOPM:15811264 cumulReadSequenceTime: 111.321619051 sec cumulProcessSequenceTime: 45.807693041 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:18000000 goodBarcodedReads:17308672 goodMatchedToTOPM:16733600 cumulReadSequenceTime: 117.975047623 sec cumulProcessSequenceTime: 48.490574589 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:19000000 goodBarcodedReads:18263246 goodMatchedToTOPM:17650181 cumulReadSequenceTime: 124.734418799 sec cumulProcessSequenceTime: 51.167739403 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:20000000 goodBarcodedReads:19223551 goodMatchedToTOPM:18571418 cumulReadSequenceTime: 131.386355698 sec cumulProcessSequenceTime: 53.846356397 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:21000000 goodBarcodedReads:20180157 goodMatchedToTOPM:19488138 cumulReadSequenceTime: 137.995794268 sec cumulProcessSequenceTime: 56.51261457 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:22000000 goodBarcodedReads:21142774 goodMatchedToTOPM:20409029 cumulReadSequenceTime: 144.742514017 sec cumulProcessSequenceTime: 59.184687046 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:23000000 goodBarcodedReads:22095028 goodMatchedToTOPM:21321103 cumulReadSequenceTime: 151.366659948 sec cumulProcessSequenceTime: 61.836016938 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:24000000 goodBarcodedReads:23054960 goodMatchedToTOPM:22232990 cumulReadSequenceTime: 158.041414383 sec cumulProcessSequenceTime: 64.491854923 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:25000000 goodBarcodedReads:24013177 goodMatchedToTOPM:23158845 cumulReadSequenceTime: 164.725317084 sec cumulProcessSequenceTime: 67.193278347 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:26000000 goodBarcodedReads:24978069 goodMatchedToTOPM:24096057 cumulReadSequenceTime: 171.361805943 sec cumulProcessSequenceTime: 69.912520825 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:27000000 goodBarcodedReads:25942641 goodMatchedToTOPM:25032683 cumulReadSequenceTime: 177.969713294 sec cumulProcessSequenceTime: 72.632605716 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:28000000 goodBarcodedReads:26906882 goodMatchedToTOPM:25968443 cumulReadSequenceTime: 184.568123756 sec cumulProcessSequenceTime: 75.349195941 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:29000000 goodBarcodedReads:27870277 goodMatchedToTOPM:26903595 cumulReadSequenceTime: 191.240339643 sec cumulProcessSequenceTime: 78.057772646 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:30000000 goodBarcodedReads:28838835 goodMatchedToTOPM:27843068 cumulReadSequenceTime: 197.86116405 sec cumulProcessSequenceTime: 80.787544407 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:31000000 goodBarcodedReads:29800338 goodMatchedToTOPM:28774815 cumulReadSequenceTime: 204.449035859 sec cumulProcessSequenceTime: 83.494300662 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:32000000 goodBarcodedReads:30762281 goodMatchedToTOPM:29706563 cumulReadSequenceTime: 211.181636867 sec cumulProcessSequenceTime: 86.212268859 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:33000000 goodBarcodedReads:31729421 goodMatchedToTOPM:30643229 cumulReadSequenceTime: 217.824064617 sec cumulProcessSequenceTime: 88.933680992 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:34000000 goodBarcodedReads:32690368 goodMatchedToTOPM:31573912 cumulReadSequenceTime: 224.412172823 sec cumulProcessSequenceTime: 91.63561862 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:35000000 goodBarcodedReads:33649937 goodMatchedToTOPM:32502123 cumulReadSequenceTime: 231.069086377 sec cumulProcessSequenceTime: 94.339491238 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:36000000 goodBarcodedReads:34616108 goodMatchedToTOPM:33434751 cumulReadSequenceTime: 237.803677601 sec cumulProcessSequenceTime: 97.054063547 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:37000000 goodBarcodedReads:35576112 goodMatchedToTOPM:34361686 cumulReadSequenceTime: 244.431517194 sec cumulProcessSequenceTime: 99.747681951 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:38000000 goodBarcodedReads:36535186 goodMatchedToTOPM:35287460 cumulReadSequenceTime: 251.014493766 sec cumulProcessSequenceTime: 102.436283808 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:39000000 goodBarcodedReads:37501215 goodMatchedToTOPM:36218756 cumulReadSequenceTime: 257.788266421 sec cumulProcessSequenceTime: 105.154102475 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:40000000 goodBarcodedReads:38459470 goodMatchedToTOPM:37142257 cumulReadSequenceTime: 264.412063571 sec cumulProcessSequenceTime: 107.837565746 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:41000000 goodBarcodedReads:39424271 goodMatchedToTOPM:38069797 cumulReadSequenceTime: 271.076575328 sec cumulProcessSequenceTime: 110.544092296 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:42000000 goodBarcodedReads:40381500 goodMatchedToTOPM:38990403 cumulReadSequenceTime: 277.75262202 sec cumulProcessSequenceTime: 113.222818445 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:43000000 goodBarcodedReads:41345717 goodMatchedToTOPM:39916269 cumulReadSequenceTime: 284.467852974 sec cumulProcessSequenceTime: 115.914219062 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:44000000 goodBarcodedReads:42300985 goodMatchedToTOPM:40833314 cumulReadSequenceTime: 291.102268662 sec cumulProcessSequenceTime: 118.58077817 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:45000000 goodBarcodedReads:43263942 goodMatchedToTOPM:41756957 cumulReadSequenceTime: 297.749288316 sec cumulProcessSequenceTime: 121.274261741 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:46000000 goodBarcodedReads:44218108 goodMatchedToTOPM:42671826 cumulReadSequenceTime: 304.50021962 sec cumulProcessSequenceTime: 123.936283159 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:47000000 goodBarcodedReads:45181024 goodMatchedToTOPM:43592117 cumulReadSequenceTime: 311.176405238 sec cumulProcessSequenceTime: 126.61609795 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:48000000 goodBarcodedReads:46134673 goodMatchedToTOPM:44506206 cumulReadSequenceTime: 317.7990524 sec cumulProcessSequenceTime: 129.274001167 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:49000000 goodBarcodedReads:47093629 goodMatchedToTOPM:45409927 cumulReadSequenceTime: 324.538530435 sec cumulProcessSequenceTime: 131.905430006 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:50000000 goodBarcodedReads:48018700 goodMatchedToTOPM:46278687 cumulReadSequenceTime: 331.173979279 sec cumulProcessSequenceTime: 134.453121346 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:51000000 goodBarcodedReads:48983354 goodMatchedToTOPM:47213649 cumulReadSequenceTime: 337.747483976 sec cumulProcessSequenceTime: 137.168197765 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:52000000 goodBarcodedReads:49952909 goodMatchedToTOPM:48153518 cumulReadSequenceTime: 344.307094479 sec cumulProcessSequenceTime: 139.901203326 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:53000000 goodBarcodedReads:50917804 goodMatchedToTOPM:49089016 cumulReadSequenceTime: 350.98403186 sec cumulProcessSequenceTime: 142.619891852 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:54000000 goodBarcodedReads:51882294 goodMatchedToTOPM:50023832 cumulReadSequenceTime: 357.566091441 sec cumulProcessSequenceTime: 145.334168736 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:55000000 goodBarcodedReads:52846414 goodMatchedToTOPM:50958272 cumulReadSequenceTime: 364.123746164 sec cumulProcessSequenceTime: 148.047050238 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:56000000 goodBarcodedReads:53810133 goodMatchedToTOPM:51891432 cumulReadSequenceTime: 370.738636051 sec cumulProcessSequenceTime: 150.760717261 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:57000000 goodBarcodedReads:54777774 goodMatchedToTOPM:52826965 cumulReadSequenceTime: 377.394000772 sec cumulProcessSequenceTime: 153.477956978 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:58000000 goodBarcodedReads:55741378 goodMatchedToTOPM:53759765 cumulReadSequenceTime: 383.986658599 sec cumulProcessSequenceTime: 156.189684641 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:59000000 goodBarcodedReads:56703807 goodMatchedToTOPM:54690691 cumulReadSequenceTime: 390.535233209 sec cumulProcessSequenceTime: 158.900046472 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:60000000 goodBarcodedReads:57671705 goodMatchedToTOPM:55623451 cumulReadSequenceTime: 397.26954697 sec cumulProcessSequenceTime: 161.605925028 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:61000000 goodBarcodedReads:58633379 goodMatchedToTOPM:56551569 cumulReadSequenceTime: 403.875239752 sec cumulProcessSequenceTime: 164.321215851 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:62000000 goodBarcodedReads:59594627 goodMatchedToTOPM:57475975 cumulReadSequenceTime: 410.560065128 sec cumulProcessSequenceTime: 167.039534575 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:63000000 goodBarcodedReads:60562261 goodMatchedToTOPM:58408010 cumulReadSequenceTime: 417.88339657 sec cumulProcessSequenceTime: 169.951792821 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:64000000 goodBarcodedReads:61522390 goodMatchedToTOPM:59330006 cumulReadSequenceTime: 425.255672374 sec cumulProcessSequenceTime: 172.843659497 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:65000000 goodBarcodedReads:62488934 goodMatchedToTOPM:60258444 cumulReadSequenceTime: 432.292411569 sec cumulProcessSequenceTime: 175.667722551 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:66000000 goodBarcodedReads:63448427 goodMatchedToTOPM:61179171 cumulReadSequenceTime: 440.026311671 sec cumulProcessSequenceTime: 178.72376353 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:67000000 goodBarcodedReads:64414686 goodMatchedToTOPM:62091875 cumulReadSequenceTime: 447.837696048 sec cumulProcessSequenceTime: 181.740885038 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:68000000 goodBarcodedReads:65373336 goodMatchedToTOPM:63009047 cumulReadSequenceTime: 456.97081005 sec cumulProcessSequenceTime: 185.209898704 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:69000000 goodBarcodedReads:66331775 goodMatchedToTOPM:63923311 cumulReadSequenceTime: 466.534969969 sec cumulProcessSequenceTime: 188.839523111 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:70000000 goodBarcodedReads:67295938 goodMatchedToTOPM:64844798 cumulReadSequenceTime: 476.439833193 sec cumulProcessSequenceTime: 192.588918173 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:71000000 goodBarcodedReads:68252369 goodMatchedToTOPM:65755528 cumulReadSequenceTime: 485.300436823 sec cumulProcessSequenceTime: 195.879510045 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:72000000 goodBarcodedReads:69216445 goodMatchedToTOPM:66674450 cumulReadSequenceTime: 494.250772773 sec cumulProcessSequenceTime: 199.155371761 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:73000000 goodBarcodedReads:70179085 goodMatchedToTOPM:67594093 cumulReadSequenceTime: 503.953350997 sec cumulProcessSequenceTime: 202.728814348 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:74000000 goodBarcodedReads:71133744 goodMatchedToTOPM:68503395 cumulReadSequenceTime: 514.390123982 sec cumulProcessSequenceTime: 206.580722526 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:75000000 goodBarcodedReads:72088476 goodMatchedToTOPM:69389313 cumulReadSequenceTime: 523.793214745 sec cumulProcessSequenceTime: 209.521184676 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:76000000 goodBarcodedReads:73044409 goodMatchedToTOPM:70307660 cumulReadSequenceTime: 533.927627483 sec cumulProcessSequenceTime: 212.731894918 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:77000000 goodBarcodedReads:74005733 goodMatchedToTOPM:71242080 cumulReadSequenceTime: 543.246457977 sec cumulProcessSequenceTime: 215.898920328 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:78000000 goodBarcodedReads:74966733 goodMatchedToTOPM:72176361 cumulReadSequenceTime: 550.744921187 sec cumulProcessSequenceTime: 218.397835881 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:79000000 goodBarcodedReads:75927981 goodMatchedToTOPM:73110256 cumulReadSequenceTime: 559.252898878 sec cumulProcessSequenceTime: 221.170505804 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:80000000 goodBarcodedReads:76889091 goodMatchedToTOPM:74043652 cumulReadSequenceTime: 568.026238866 sec cumulProcessSequenceTime: 223.933388383 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:81000000 goodBarcodedReads:77849888 goodMatchedToTOPM:74976414 cumulReadSequenceTime: 575.870880325 sec cumulProcessSequenceTime: 226.468410397 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:82000000 goodBarcodedReads:78816046 goodMatchedToTOPM:75914144 cumulReadSequenceTime: 583.455967235 sec cumulProcessSequenceTime: 228.929803279 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:83000000 goodBarcodedReads:79776218 goodMatchedToTOPM:76845553 cumulReadSequenceTime: 592.004170009 sec cumulProcessSequenceTime: 231.595797596 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:84000000 goodBarcodedReads:80736327 goodMatchedToTOPM:77776490 cumulReadSequenceTime: 599.332895629 sec cumulProcessSequenceTime: 233.949368711 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:85000000 goodBarcodedReads:81695440 goodMatchedToTOPM:78705539 cumulReadSequenceTime: 607.686656946 sec cumulProcessSequenceTime: 236.621807273 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:86000000 goodBarcodedReads:82661195 goodMatchedToTOPM:79622811 cumulReadSequenceTime: 615.714663726 sec cumulProcessSequenceTime: 239.180040387 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:87000000 goodBarcodedReads:83620284 goodMatchedToTOPM:80542168 cumulReadSequenceTime: 623.769977131 sec cumulProcessSequenceTime: 241.787630408 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:88000000 goodBarcodedReads:84578270 goodMatchedToTOPM:81448291 cumulReadSequenceTime: 632.470468111 sec cumulProcessSequenceTime: 244.505696139 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:89000000 goodBarcodedReads:85543343 goodMatchedToTOPM:82365556 cumulReadSequenceTime: 640.880723425 sec cumulProcessSequenceTime: 247.157671107 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:90000000 goodBarcodedReads:86473493 goodMatchedToTOPM:83242474 cumulReadSequenceTime: 647.898213083 sec cumulProcessSequenceTime: 249.313880519 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:91000000 goodBarcodedReads:87416817 goodMatchedToTOPM:84135100 cumulReadSequenceTime: 655.840580637 sec cumulProcessSequenceTime: 251.774947741 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:92000000 goodBarcodedReads:88325755 goodMatchedToTOPM:84991955 cumulReadSequenceTime: 664.026032038 sec cumulProcessSequenceTime: 254.557397174 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:93000000 goodBarcodedReads:89289888 goodMatchedToTOPM:85879076 cumulReadSequenceTime: 673.160953427 sec cumulProcessSequenceTime: 257.998964171 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:94000000 goodBarcodedReads:90244194 goodMatchedToTOPM:86769346 cumulReadSequenceTime: 681.915401854 sec cumulProcessSequenceTime: 261.268886491 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:95000000 goodBarcodedReads:91206670 goodMatchedToTOPM:87692499 cumulReadSequenceTime: 690.658074806 sec cumulProcessSequenceTime: 264.655826856 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:96000000 goodBarcodedReads:92161148 goodMatchedToTOPM:88610157 cumulReadSequenceTime: 697.962137086 sec cumulProcessSequenceTime: 267.499466028 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:97000000 goodBarcodedReads:93099068 goodMatchedToTOPM:89492419 cumulReadSequenceTime: 707.456914239 sec cumulProcessSequenceTime: 270.995266011 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:98000000 goodBarcodedReads:94034434 goodMatchedToTOPM:90389534 cumulReadSequenceTime: 716.30365536 sec cumulProcessSequenceTime: 274.490893196 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:99000000 goodBarcodedReads:94925183 goodMatchedToTOPM:91213170 cumulReadSequenceTime: 726.554688845 sec cumulProcessSequenceTime: 278.077499921 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:100000000 goodBarcodedReads:95850723 goodMatchedToTOPM:92018714 cumulReadSequenceTime: 736.120731222 sec cumulProcessSequenceTime: 281.359999508 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:101000000 goodBarcodedReads:96815124 goodMatchedToTOPM:92814486 cumulReadSequenceTime: 747.050599389 sec cumulProcessSequenceTime: 285.081184256 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:102000000 goodBarcodedReads:97779005 goodMatchedToTOPM:93625918 cumulReadSequenceTime: 755.919216543 sec cumulProcessSequenceTime: 288.222772377 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:103000000 goodBarcodedReads:98614150 goodMatchedToTOPM:94332026 cumulReadSequenceTime: 765.501378234 sec cumulProcessSequenceTime: 291.175764227 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:104000000 goodBarcodedReads:98614150 goodMatchedToTOPM:94332026 cumulReadSequenceTime: 770.541895705 sec cumulProcessSequenceTime: 291.328062459 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:105000000 goodBarcodedReads:99475548 goodMatchedToTOPM:95059224 cumulReadSequenceTime: 778.580931407 sec cumulProcessSequenceTime: 293.923026397 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:106000000 goodBarcodedReads:99868774 goodMatchedToTOPM:95391361 cumulReadSequenceTime: 785.649817401 sec cumulProcessSequenceTime: 295.011891038 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:107000000 goodBarcodedReads:100090984 goodMatchedToTOPM:95578759 cumulReadSequenceTime: 790.95770244 sec cumulProcessSequenceTime: 295.663873125 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:108000000 goodBarcodedReads:101058970 goodMatchedToTOPM:96332652 cumulReadSequenceTime: 801.206346188 sec cumulProcessSequenceTime: 298.543089678 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:109000000 goodBarcodedReads:101232328 goodMatchedToTOPM:96478733 cumulReadSequenceTime: 805.648721007 sec cumulProcessSequenceTime: 299.087480783 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:110000000 goodBarcodedReads:101232328 goodMatchedToTOPM:96478733 cumulReadSequenceTime: 809.368552321 sec cumulProcessSequenceTime: 299.192385467 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:111000000 goodBarcodedReads:101232328 goodMatchedToTOPM:96478733 cumulReadSequenceTime: 814.093931188 sec cumulProcessSequenceTime: 299.3433678 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:112000000 goodBarcodedReads:101232328 goodMatchedToTOPM:96478733 cumulReadSequenceTime: 819.240949681 sec cumulProcessSequenceTime: 299.524795625 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:113000000 goodBarcodedReads:101385745 goodMatchedToTOPM:96607505 cumulReadSequenceTime: 824.15946387 sec cumulProcessSequenceTime: 300.128893813 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:114000000 goodBarcodedReads:102353245 goodMatchedToTOPM:97415458 cumulReadSequenceTime: 835.114506816 sec cumulProcessSequenceTime: 303.751189495 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:115000000 goodBarcodedReads:103304947 goodMatchedToTOPM:98214072 cumulReadSequenceTime: 843.927632618 sec cumulProcessSequenceTime: 306.799146983 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:116000000 goodBarcodedReads:104231733 goodMatchedToTOPM:98984879 cumulReadSequenceTime: 852.016069735 sec cumulProcessSequenceTime: 309.388378959 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:117000000 goodBarcodedReads:104580057 goodMatchedToTOPM:99276675 cumulReadSequenceTime: 860.478983211 sec cumulProcessSequenceTime: 311.062638527 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:118000000 goodBarcodedReads:104580057 goodMatchedToTOPM:99276675 cumulReadSequenceTime: 864.642291175 sec cumulProcessSequenceTime: 311.178771571 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:119000000 goodBarcodedReads:105274430 goodMatchedToTOPM:99838842 cumulReadSequenceTime: 871.185679205 sec cumulProcessSequenceTime: 312.844145498 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:120000000 goodBarcodedReads:106238791 goodMatchedToTOPM:100644202 cumulReadSequenceTime: 879.5319704 sec cumulProcessSequenceTime: 315.407633828 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:121000000 goodBarcodedReads:106468832 goodMatchedToTOPM:100833835 cumulReadSequenceTime: 883.936976876 sec cumulProcessSequenceTime: 316.014458297 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:122000000 goodBarcodedReads:106468832 goodMatchedToTOPM:100833835 cumulReadSequenceTime: 888.202175309 sec cumulProcessSequenceTime: 316.136414753 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:123000000 goodBarcodedReads:106468832 goodMatchedToTOPM:100833835 cumulReadSequenceTime: 891.79161028 sec cumulProcessSequenceTime: 316.237575896 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:124000000 goodBarcodedReads:106468832 goodMatchedToTOPM:100833835 cumulReadSequenceTime: 895.3261782 sec cumulProcessSequenceTime: 316.3354973 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:125000000 goodBarcodedReads:106698694 goodMatchedToTOPM:101057303 cumulReadSequenceTime: 900.791979678 sec cumulProcessSequenceTime: 317.187002927 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:126000000 goodBarcodedReads:107662591 goodMatchedToTOPM:101969339 cumulReadSequenceTime: 908.159121918 sec cumulProcessSequenceTime: 319.918091391 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:127000000 goodBarcodedReads:108630933 goodMatchedToTOPM:102887176 cumulReadSequenceTime: 915.222561598 sec cumulProcessSequenceTime: 322.550997403 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:128000000 goodBarcodedReads:109594624 goodMatchedToTOPM:103818965 cumulReadSequenceTime: 922.294526731 sec cumulProcessSequenceTime: 325.278266509 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:129000000 goodBarcodedReads:110557927 goodMatchedToTOPM:104753837 cumulReadSequenceTime: 929.311688404 sec cumulProcessSequenceTime: 327.992870657 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:130000000 goodBarcodedReads:111521277 goodMatchedToTOPM:105689122 cumulReadSequenceTime: 936.391611478 sec cumulProcessSequenceTime: 330.596072477 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:131000000 goodBarcodedReads:112462231 goodMatchedToTOPM:106602175 cumulReadSequenceTime: 943.517997098 sec cumulProcessSequenceTime: 333.453309699 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:132000000 goodBarcodedReads:113390813 goodMatchedToTOPM:107494494 cumulReadSequenceTime: 950.786021227 sec cumulProcessSequenceTime: 336.310592213 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:133000000 goodBarcodedReads:114353592 goodMatchedToTOPM:108400589 cumulReadSequenceTime: 957.859036813 sec cumulProcessSequenceTime: 338.80228554 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:134000000 goodBarcodedReads:115316076 goodMatchedToTOPM:109330180 cumulReadSequenceTime: 964.909762367 sec cumulProcessSequenceTime: 341.305221018 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:135000000 goodBarcodedReads:116279455 goodMatchedToTOPM:110258339 cumulReadSequenceTime: 972.074431784 sec cumulProcessSequenceTime: 343.852116328 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:136000000 goodBarcodedReads:117240965 goodMatchedToTOPM:111187597 cumulReadSequenceTime: 979.187318404 sec cumulProcessSequenceTime: 346.625926527 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:137000000 goodBarcodedReads:118194405 goodMatchedToTOPM:112092938 cumulReadSequenceTime: 986.202812189 sec cumulProcessSequenceTime: 349.500697827 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:138000000 goodBarcodedReads:119161659 goodMatchedToTOPM:113025167 cumulReadSequenceTime: 993.434239628 sec cumulProcessSequenceTime: 352.34462115 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:139000000 goodBarcodedReads:120114614 goodMatchedToTOPM:113922284 cumulReadSequenceTime: 1000.559931129 sec cumulProcessSequenceTime: 354.963000581 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:140000000 goodBarcodedReads:121081545 goodMatchedToTOPM:114843027 cumulReadSequenceTime: 1007.858626368 sec cumulProcessSequenceTime: 357.645844946 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:141000000 goodBarcodedReads:121989828 goodMatchedToTOPM:115682317 cumulReadSequenceTime: 1014.805903942 sec cumulProcessSequenceTime: 360.129736408 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:142000000 goodBarcodedReads:122875826 goodMatchedToTOPM:116408991 cumulReadSequenceTime: 1021.902837006 sec cumulProcessSequenceTime: 362.323873428 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:143000000 goodBarcodedReads:123841738 goodMatchedToTOPM:117307120 cumulReadSequenceTime: 1029.357104451 sec cumulProcessSequenceTime: 365.004884409 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:144000000 goodBarcodedReads:124799260 goodMatchedToTOPM:118182710 cumulReadSequenceTime: 1036.624150396 sec cumulProcessSequenceTime: 367.598193088 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:145000000 goodBarcodedReads:125764023 goodMatchedToTOPM:119094054 cumulReadSequenceTime: 1043.723104421 sec cumulProcessSequenceTime: 370.243284471 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:146000000 goodBarcodedReads:126652124 goodMatchedToTOPM:119922312 cumulReadSequenceTime: 1050.807545829 sec cumulProcessSequenceTime: 372.687889974 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:147000000 goodBarcodedReads:127539049 goodMatchedToTOPM:120768568 cumulReadSequenceTime: 1057.780446377 sec cumulProcessSequenceTime: 375.125249185 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:148000000 goodBarcodedReads:128503540 goodMatchedToTOPM:121678351 cumulReadSequenceTime: 1065.070982075 sec cumulProcessSequenceTime: 377.775176132 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:149000000 goodBarcodedReads:129450456 goodMatchedToTOPM:122558597 cumulReadSequenceTime: 1072.287908187 sec cumulProcessSequenceTime: 380.491025049 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:150000000 goodBarcodedReads:130253630 goodMatchedToTOPM:123304991 cumulReadSequenceTime: 1079.047489982 sec cumulProcessSequenceTime: 382.703709578 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: readSequenceTime: 1081.098140255 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: processSequenceTime: 383.330415835 sec ProductionSNPCallerPlugin: performFunction: readRawSequencesAndRecordDepth: /local/workdir/rp444/./fastq/fastq4/C0DC8ACXX_7_fastq.gz: 1599.597208811 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Calling genotypes... [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1002:250060174 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1003:250060252 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1004:250060214 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1009:250060217 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1014:250060161 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1020:250060210 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1022:250060232 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1023:250060164 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1024:250060172 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1029:250060162 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1031:250060228 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1032:250060176 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1038:250060212 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1039:250060195 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1040:250060251 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1041:250060223 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1042:250060201 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - 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finished calling genotypes for 1189:250060184 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1190:250060227 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1191:250060181 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1192:250060199 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1193:250060193 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1194:250060255 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1195:250060205 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1197:250060196 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1198:250060168 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1202:250060241 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1203:250060166 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1206:250060171 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 1207:250060230 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 30572-1:250060207 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for TME117-1:250060185 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for blank:250060244 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished calling genotypes for 96 taxa ProductionSNPCallerPlugin: performFunction: callGenotypes: /local/workdir/rp444/./fastq/fastq4/C0DC8ACXX_7_fastq.gz: 83.225166962 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of reads in lane=150344791 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads=130463262 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads matched to the TOPM=123498748 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished reading 1 of 7 sequence files: /local/workdir/rp444/./fastq/fastq4/C0DC8ACXX_7_fastq.gz [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Looking for known SNPs in sequence reads from file: [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - /local/workdir/rp444/./fastq/fastq4/C0T4NACXX_6_fastq.gz Enzyme: ApeKI CTCC I30572:C0T4NACXX:6:250090764 TTCTC TMEB419:C0T4NACXX:6:250090765 GCTTA I9102324:C0T4NACXX:6:250090766 AACGCCT I980505:C0T4NACXX:6:250090767 AGGC I920326:C0T4NACXX:6:250090768 TCGTT I011371:C0T4NACXX:6:250090769 TGGCTA I011797:C0T4NACXX:6:250090770 TGCTGGA Z000156:C0T4NACXX:6:250090771 TGCA I991702:C0T4NACXX:6:250090772 AGCCC I010760:C0T4NACXX:6:250090773 CTTCCA M000112:C0T4NACXX:6:250090774 AATATGC M000004:C0T4NACXX:6:250090775 GATC I996076:C0T4NACXX:6:250090776 ACCTAA I993151:C0T4NACXX:6:250090777 ACGTGTT I011734:C0T4NACXX:6:250090778 AACCGAGA M000063:C0T4NACXX:6:250090779 ACTA I011551:C0T4NACXX:6:250090780 GTATT I010265:C0T4NACXX:6:250090781 GAGATA Z000012:C0T4NACXX:6:250090782 ACGACTAC I000345:C0T4NACXX:6:250090783 TCAC M000044:C0T4NACXX:6:250090784 ATATGT Z000104:C0T4NACXX:6:250090785 ATTAATT I990313:C0T4NACXX:6:250090786 ACAGGGAA I997032:C0T4NACXX:6:250090787 CAGA I980378:C0T4NACXX:6:250090788 CTGTA M980057:C0T4NACXX:6:250090789 ATGCCT I960325:C0T4NACXX:6:250090790 GGTGT I996016:C0T4NACXX:6:250090791 AGGAT I982132:C0T4NACXX:6:250090792 ATCGTA I960532:C0T4NACXX:6:250090793 ATTGGAT I990503:C0T4NACXX:6:250090794 ACGTGGTA I982101:C0T4NACXX:6:250090795 AACT I970219:C0T4NACXX:6:250090796 ACCGT I974045:C0T4NACXX:6:250090797 TATTTTT MM971909:C0T4NACXX:6:250090798 TAGCATGC I961569:C0T4NACXX:6:250090799 ATTGA I960590:C0T4NACXX:6:250090800 CATCGT I961039:C0T4NACXX:6:250090801 CATAAGT I990411:C0T4NACXX:6:250090802 CCATGGGT Z980139:C0T4NACXX:6:250090803 GCGT I970290:C0T4NACXX:6:250090804 GTAA I970353:C0T4NACXX:6:250090805 CTTGCTT MM971899:C0T4NACXX:6:250090806 AGTGGA MM970227:C0T4NACXX:6:250090807 CATCT I961556:C0T4NACXX:6:250090808 CGCGGT MM990477:C0T4NACXX:6:250090809 CGCTGAT I980406:C0T4NACXX:6:250090810 CGCGGAGA I970162:C0T4NACXX:6:250090811 TGCGA Z970474:C0T4NACXX:6:250090812 GGTTGT I961087:C0T4NACXX:6:250090813 ATGAAAC I960129:C0T4NACXX:6:250090814 TAGGCCAT MM990214:C0T4NACXX:6:250090815 CCTAC Z980135:C0T4NACXX:6:250090816 CTATTA Z960058:C0T4NACXX:6:250090817 CGGTAGA I960249:C0T4NACXX:6:250090818 CGTGTGGT MM990276:C0T4NACXX:6:250090819 CGAT I970103:C0T4NACXX:6:250090820 CCAGCT MM971405:C0T4NACXX:6:250090821 AAAAGTT I961613:C0T4NACXX:6:250090822 TGCAAGGA I950925:C0T4NACXX:6:250090823 GAGGA I920417:C0T4NACXX:6:250090824 GCCAGT I940561:C0T4NACXX:6:250090825 CTACGGA I940006:C0T4NACXX:6:250090826 GCTGTGGA I930007:C0T4NACXX:6:250090827 CGCTT Z950826:C0T4NACXX:6:250090828 TTCAGA Z950415:C0T4NACXX:6:250090829 GAATTCA I940330:C0T4NACXX:6:250090830 TGGTACGT I070576:C0T4NACXX:6:250090831 GGAAC I070498:C0T4NACXX:6:250090832 GGAAGA I051652:C0T4NACXX:6:250090833 GCGGAAT I070835:C0T4NACXX:6:250090834 GGATTGGT I070910:C0T4NACXX:6:250090835 TCACC I40764:C0T4NACXX:6:250090836 TAGGAA I051274:C0T4NACXX:6:250090837 GAACTTC I90853:C0T4NACXX:6:250090838 TCTCAGTC I050286:C0T4NACXX:6:250090839 GTCAA I050186:C0T4NACXX:6:250090840 GTACTT I030057:C0T4NACXX:6:250090841 TAGCGGA I020129:C0T4NACXX:6:250090842 GTGAGGGT MM965055:C0T4NACXX:6:250090843 CTAGC I020510:C0T4NACXX:6:250090844 GCTCTA MM980471:C0T4NACXX:6:250090845 GGACCTA I030265:C0T4NACXX:6:250090846 CCGGATAT MM961669:C0T4NACXX:6:250090847 TAATA I030060:C0T4NACXX:6:250090848 GTTGAA I030224:C0T4NACXX:6:250090849 TCGAAGA MM972961:C0T4NACXX:6:250090850 TATCGGGA MM961839:C0T4NACXX:6:250090851 ACAAA blank:C0T4NACXX:6:250090852 CCACAA I030242:C0T4NACXX:6:250090853 GTCGATT EXCEL:C0T4NACXX:6:250090854 CGCCTTAT MM964019:C0T4NACXX:6:250090855 TACAT CARICASS_1:C0T4NACXX:6:250090856 TAACGA MM968676:C0T4NACXX:6:250090857 TCTGTGA CH92108:C0T4NACXX:6:250090858 TTCCTGGA NASE_10:C0T4NACXX:6:250090859 Total barcodes found in lane:96 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Working on GBS raw sequence file: /local/workdir/rp444/./fastq/fastq4/C0T4NACXX_6_fastq.gz This file is assumed to be in fastq format Total barcodes found in key file for this lane:96 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:0 goodBarcodedReads:0 goodMatchedToTOPM:0 cumulReadSequenceTime: 0.0 sec cumulProcessSequenceTime: 0.0 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:1000000 goodBarcodedReads:935762 goodMatchedToTOPM:890146 cumulReadSequenceTime: 6.64274402 sec cumulProcessSequenceTime: 3.040486421 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:2000000 goodBarcodedReads:1870513 goodMatchedToTOPM:1779837 cumulReadSequenceTime: 12.962294565 sec cumulProcessSequenceTime: 6.018866936 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:3000000 goodBarcodedReads:2808483 goodMatchedToTOPM:2672386 cumulReadSequenceTime: 19.383929543 sec cumulProcessSequenceTime: 9.050592606 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:4000000 goodBarcodedReads:3743926 goodMatchedToTOPM:3557581 cumulReadSequenceTime: 25.882786205 sec cumulProcessSequenceTime: 12.079626678 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:5000000 goodBarcodedReads:4681536 goodMatchedToTOPM:4445135 cumulReadSequenceTime: 32.513263036 sec cumulProcessSequenceTime: 15.125530759 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:6000000 goodBarcodedReads:5622925 goodMatchedToTOPM:5336537 cumulReadSequenceTime: 38.913223644 sec cumulProcessSequenceTime: 18.121462322 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:7000000 goodBarcodedReads:6568227 goodMatchedToTOPM:6230889 cumulReadSequenceTime: 45.445240465 sec cumulProcessSequenceTime: 21.199471317 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:8000000 goodBarcodedReads:7522080 goodMatchedToTOPM:7135324 cumulReadSequenceTime: 52.050149899 sec cumulProcessSequenceTime: 24.03427344 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:9000000 goodBarcodedReads:8479052 goodMatchedToTOPM:8040927 cumulReadSequenceTime: 58.676493807 sec cumulProcessSequenceTime: 26.853275257 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:10000000 goodBarcodedReads:9435482 goodMatchedToTOPM:8945814 cumulReadSequenceTime: 65.250729354 sec cumulProcessSequenceTime: 29.78668351 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:11000000 goodBarcodedReads:10389273 goodMatchedToTOPM:9843857 cumulReadSequenceTime: 71.858236669 sec cumulProcessSequenceTime: 32.59879629 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:12000000 goodBarcodedReads:11344006 goodMatchedToTOPM:10740211 cumulReadSequenceTime: 78.614398894 sec cumulProcessSequenceTime: 35.538656398 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:13000000 goodBarcodedReads:12301013 goodMatchedToTOPM:11643401 cumulReadSequenceTime: 85.307471901 sec cumulProcessSequenceTime: 38.357151069 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:14000000 goodBarcodedReads:13255298 goodMatchedToTOPM:12545624 cumulReadSequenceTime: 91.939826821 sec cumulProcessSequenceTime: 41.256321847 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:15000000 goodBarcodedReads:14205711 goodMatchedToTOPM:13437040 cumulReadSequenceTime: 98.340619021 sec cumulProcessSequenceTime: 44.240148731 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:16000000 goodBarcodedReads:15161566 goodMatchedToTOPM:14333126 cumulReadSequenceTime: 104.91294465 sec cumulProcessSequenceTime: 46.923146741 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:17000000 goodBarcodedReads:16116209 goodMatchedToTOPM:15234146 cumulReadSequenceTime: 112.171924255 sec cumulProcessSequenceTime: 49.992854665 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:18000000 goodBarcodedReads:17070821 goodMatchedToTOPM:16133925 cumulReadSequenceTime: 119.571204268 sec cumulProcessSequenceTime: 53.128927165 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:19000000 goodBarcodedReads:18024867 goodMatchedToTOPM:17031331 cumulReadSequenceTime: 126.709836266 sec cumulProcessSequenceTime: 56.149815409 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:20000000 goodBarcodedReads:18971959 goodMatchedToTOPM:17918372 cumulReadSequenceTime: 133.956724927 sec cumulProcessSequenceTime: 59.182730602 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:21000000 goodBarcodedReads:19922850 goodMatchedToTOPM:18803908 cumulReadSequenceTime: 141.04506265 sec cumulProcessSequenceTime: 62.183858178 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:22000000 goodBarcodedReads:20872296 goodMatchedToTOPM:19686732 cumulReadSequenceTime: 148.161639565 sec cumulProcessSequenceTime: 65.185770624 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:23000000 goodBarcodedReads:21821545 goodMatchedToTOPM:20571176 cumulReadSequenceTime: 155.355691671 sec cumulProcessSequenceTime: 68.282429603 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:24000000 goodBarcodedReads:22769780 goodMatchedToTOPM:21453322 cumulReadSequenceTime: 162.543975057 sec cumulProcessSequenceTime: 71.271908678 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:25000000 goodBarcodedReads:23710343 goodMatchedToTOPM:22325883 cumulReadSequenceTime: 169.583005881 sec cumulProcessSequenceTime: 74.24530236 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:26000000 goodBarcodedReads:24646504 goodMatchedToTOPM:23195539 cumulReadSequenceTime: 176.763141764 sec cumulProcessSequenceTime: 77.303818355 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:27000000 goodBarcodedReads:25587510 goodMatchedToTOPM:24066487 cumulReadSequenceTime: 183.919890226 sec cumulProcessSequenceTime: 80.317199808 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:28000000 goodBarcodedReads:26528677 goodMatchedToTOPM:24933288 cumulReadSequenceTime: 191.102268158 sec cumulProcessSequenceTime: 83.335461976 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:29000000 goodBarcodedReads:27468335 goodMatchedToTOPM:25796765 cumulReadSequenceTime: 198.276515117 sec cumulProcessSequenceTime: 86.324591607 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:30000000 goodBarcodedReads:28401463 goodMatchedToTOPM:26651762 cumulReadSequenceTime: 205.277882459 sec cumulProcessSequenceTime: 89.186580176 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:31000000 goodBarcodedReads:29333210 goodMatchedToTOPM:27486275 cumulReadSequenceTime: 212.441229722 sec cumulProcessSequenceTime: 92.083138273 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:32000000 goodBarcodedReads:30251256 goodMatchedToTOPM:28307935 cumulReadSequenceTime: 219.480539863 sec cumulProcessSequenceTime: 94.87806682 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:33000000 goodBarcodedReads:31117395 goodMatchedToTOPM:28980731 cumulReadSequenceTime: 226.350838639 sec cumulProcessSequenceTime: 97.241935051 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:34000000 goodBarcodedReads:32021709 goodMatchedToTOPM:29673698 cumulReadSequenceTime: 233.304835137 sec cumulProcessSequenceTime: 99.610549698 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:35000000 goodBarcodedReads:32927158 goodMatchedToTOPM:30452734 cumulReadSequenceTime: 240.342122738 sec cumulProcessSequenceTime: 102.296352434 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:36000000 goodBarcodedReads:33895034 goodMatchedToTOPM:31379349 cumulReadSequenceTime: 247.481760162 sec cumulProcessSequenceTime: 105.440361184 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:37000000 goodBarcodedReads:34861346 goodMatchedToTOPM:32305000 cumulReadSequenceTime: 254.648305879 sec cumulProcessSequenceTime: 108.630926111 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:38000000 goodBarcodedReads:35828145 goodMatchedToTOPM:33227734 cumulReadSequenceTime: 261.7617063 sec cumulProcessSequenceTime: 111.756694099 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:39000000 goodBarcodedReads:36791207 goodMatchedToTOPM:34147845 cumulReadSequenceTime: 269.040128957 sec cumulProcessSequenceTime: 114.944395782 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:40000000 goodBarcodedReads:37757740 goodMatchedToTOPM:35072351 cumulReadSequenceTime: 276.164854144 sec cumulProcessSequenceTime: 118.098283276 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:41000000 goodBarcodedReads:38723178 goodMatchedToTOPM:35994332 cumulReadSequenceTime: 283.260332484 sec cumulProcessSequenceTime: 121.193663353 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:42000000 goodBarcodedReads:39687687 goodMatchedToTOPM:36913321 cumulReadSequenceTime: 290.437019242 sec cumulProcessSequenceTime: 124.357739825 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:43000000 goodBarcodedReads:40648057 goodMatchedToTOPM:37828121 cumulReadSequenceTime: 297.553190824 sec cumulProcessSequenceTime: 127.438663045 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:44000000 goodBarcodedReads:41612820 goodMatchedToTOPM:38747973 cumulReadSequenceTime: 304.750419657 sec cumulProcessSequenceTime: 130.589242005 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:45000000 goodBarcodedReads:42576527 goodMatchedToTOPM:39665714 cumulReadSequenceTime: 311.782703274 sec cumulProcessSequenceTime: 133.63712921 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:46000000 goodBarcodedReads:43539216 goodMatchedToTOPM:40580199 cumulReadSequenceTime: 318.955446677 sec cumulProcessSequenceTime: 136.768466096 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:47000000 goodBarcodedReads:44496621 goodMatchedToTOPM:41480742 cumulReadSequenceTime: 326.269251729 sec cumulProcessSequenceTime: 139.844847471 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:48000000 goodBarcodedReads:45458710 goodMatchedToTOPM:42391491 cumulReadSequenceTime: 333.463069101 sec cumulProcessSequenceTime: 142.930467113 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:49000000 goodBarcodedReads:46419791 goodMatchedToTOPM:43299814 cumulReadSequenceTime: 340.771635577 sec cumulProcessSequenceTime: 146.076752908 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:50000000 goodBarcodedReads:47380814 goodMatchedToTOPM:44201328 cumulReadSequenceTime: 348.024940234 sec cumulProcessSequenceTime: 149.165381105 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:51000000 goodBarcodedReads:48335550 goodMatchedToTOPM:45104190 cumulReadSequenceTime: 355.207884152 sec cumulProcessSequenceTime: 152.267963261 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:52000000 goodBarcodedReads:49294500 goodMatchedToTOPM:46003439 cumulReadSequenceTime: 362.46326372 sec cumulProcessSequenceTime: 155.372504667 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:53000000 goodBarcodedReads:50253479 goodMatchedToTOPM:46900160 cumulReadSequenceTime: 369.702023501 sec cumulProcessSequenceTime: 158.4705893 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:54000000 goodBarcodedReads:51211000 goodMatchedToTOPM:47803241 cumulReadSequenceTime: 376.983262295 sec cumulProcessSequenceTime: 161.589380272 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:55000000 goodBarcodedReads:52166958 goodMatchedToTOPM:48700794 cumulReadSequenceTime: 384.511502561 sec cumulProcessSequenceTime: 164.773551022 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:56000000 goodBarcodedReads:53117956 goodMatchedToTOPM:49592881 cumulReadSequenceTime: 391.674929687 sec cumulProcessSequenceTime: 167.790756713 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:57000000 goodBarcodedReads:54072008 goodMatchedToTOPM:50484665 cumulReadSequenceTime: 398.872656631 sec cumulProcessSequenceTime: 170.849308881 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:58000000 goodBarcodedReads:55024859 goodMatchedToTOPM:51365263 cumulReadSequenceTime: 406.111740641 sec cumulProcessSequenceTime: 173.887383786 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:59000000 goodBarcodedReads:55976721 goodMatchedToTOPM:52244197 cumulReadSequenceTime: 413.365339133 sec cumulProcessSequenceTime: 176.938983922 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:60000000 goodBarcodedReads:56927357 goodMatchedToTOPM:53127355 cumulReadSequenceTime: 420.56226358 sec cumulProcessSequenceTime: 179.977670213 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:61000000 goodBarcodedReads:57871552 goodMatchedToTOPM:54002881 cumulReadSequenceTime: 427.725357237 sec cumulProcessSequenceTime: 183.034796324 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:62000000 goodBarcodedReads:58813631 goodMatchedToTOPM:54875229 cumulReadSequenceTime: 437.671598458 sec cumulProcessSequenceTime: 186.155459409 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:63000000 goodBarcodedReads:59758397 goodMatchedToTOPM:55750663 cumulReadSequenceTime: 444.913536689 sec cumulProcessSequenceTime: 189.212738225 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:64000000 goodBarcodedReads:60702335 goodMatchedToTOPM:56618673 cumulReadSequenceTime: 452.210693855 sec cumulProcessSequenceTime: 192.191215954 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:65000000 goodBarcodedReads:61641136 goodMatchedToTOPM:57481119 cumulReadSequenceTime: 459.511888656 sec cumulProcessSequenceTime: 195.055597281 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:66000000 goodBarcodedReads:62574865 goodMatchedToTOPM:58335542 cumulReadSequenceTime: 466.700047246 sec cumulProcessSequenceTime: 197.860139275 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:67000000 goodBarcodedReads:63510134 goodMatchedToTOPM:59184339 cumulReadSequenceTime: 473.981521999 sec cumulProcessSequenceTime: 200.52026862 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:68000000 goodBarcodedReads:64439919 goodMatchedToTOPM:60018819 cumulReadSequenceTime: 481.117963643 sec cumulProcessSequenceTime: 203.32142597 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:69000000 goodBarcodedReads:65278486 goodMatchedToTOPM:60641512 cumulReadSequenceTime: 488.002980725 sec cumulProcessSequenceTime: 205.507681593 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:70000000 goodBarcodedReads:66153697 goodMatchedToTOPM:61067913 cumulReadSequenceTime: 494.83143486 sec cumulProcessSequenceTime: 207.049479144 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:71000000 goodBarcodedReads:67034682 goodMatchedToTOPM:61717721 cumulReadSequenceTime: 501.832345144 sec cumulProcessSequenceTime: 209.345807672 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:72000000 goodBarcodedReads:67965280 goodMatchedToTOPM:62562895 cumulReadSequenceTime: 509.140663763 sec cumulProcessSequenceTime: 212.239736319 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:73000000 goodBarcodedReads:68931435 goodMatchedToTOPM:63489286 cumulReadSequenceTime: 516.501883922 sec cumulProcessSequenceTime: 215.000040387 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:74000000 goodBarcodedReads:69896408 goodMatchedToTOPM:64412974 cumulReadSequenceTime: 523.694344611 sec cumulProcessSequenceTime: 217.917174621 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:75000000 goodBarcodedReads:70858839 goodMatchedToTOPM:65330474 cumulReadSequenceTime: 530.900157996 sec cumulProcessSequenceTime: 220.967626348 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:76000000 goodBarcodedReads:71825260 goodMatchedToTOPM:66254051 cumulReadSequenceTime: 538.105384697 sec cumulProcessSequenceTime: 223.953817875 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:77000000 goodBarcodedReads:72790583 goodMatchedToTOPM:67175877 cumulReadSequenceTime: 545.383076863 sec cumulProcessSequenceTime: 226.976239317 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:78000000 goodBarcodedReads:73755038 goodMatchedToTOPM:68093031 cumulReadSequenceTime: 552.523559788 sec cumulProcessSequenceTime: 229.898667837 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:79000000 goodBarcodedReads:74715622 goodMatchedToTOPM:69007166 cumulReadSequenceTime: 559.729067233 sec cumulProcessSequenceTime: 233.069588456 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:80000000 goodBarcodedReads:75679458 goodMatchedToTOPM:69923946 cumulReadSequenceTime: 566.977129023 sec cumulProcessSequenceTime: 236.245107007 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:81000000 goodBarcodedReads:76642631 goodMatchedToTOPM:70841556 cumulReadSequenceTime: 574.296476016 sec cumulProcessSequenceTime: 239.260362743 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:82000000 goodBarcodedReads:77605238 goodMatchedToTOPM:71756428 cumulReadSequenceTime: 581.60870162 sec cumulProcessSequenceTime: 242.102535931 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:83000000 goodBarcodedReads:78565366 goodMatchedToTOPM:72664151 cumulReadSequenceTime: 588.926028053 sec cumulProcessSequenceTime: 244.986339815 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:84000000 goodBarcodedReads:79522256 goodMatchedToTOPM:73566855 cumulReadSequenceTime: 596.160774299 sec cumulProcessSequenceTime: 247.851290771 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:85000000 goodBarcodedReads:80482768 goodMatchedToTOPM:74471074 cumulReadSequenceTime: 603.382007046 sec cumulProcessSequenceTime: 250.658653923 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:86000000 goodBarcodedReads:81442866 goodMatchedToTOPM:75377966 cumulReadSequenceTime: 610.575596369 sec cumulProcessSequenceTime: 253.504943782 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:87000000 goodBarcodedReads:82402820 goodMatchedToTOPM:76285360 cumulReadSequenceTime: 618.287532264 sec cumulProcessSequenceTime: 256.613735495 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:88000000 goodBarcodedReads:83356728 goodMatchedToTOPM:77183036 cumulReadSequenceTime: 625.430526272 sec cumulProcessSequenceTime: 259.385040426 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:89000000 goodBarcodedReads:84314648 goodMatchedToTOPM:78079762 cumulReadSequenceTime: 632.662900867 sec cumulProcessSequenceTime: 262.380977244 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:90000000 goodBarcodedReads:85272019 goodMatchedToTOPM:78979343 cumulReadSequenceTime: 639.916083332 sec cumulProcessSequenceTime: 265.541914206 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:91000000 goodBarcodedReads:86227830 goodMatchedToTOPM:79879504 cumulReadSequenceTime: 647.0824612 sec cumulProcessSequenceTime: 268.639092548 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:92000000 goodBarcodedReads:87183807 goodMatchedToTOPM:80775634 cumulReadSequenceTime: 654.404419387 sec cumulProcessSequenceTime: 271.740656305 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:93000000 goodBarcodedReads:88134173 goodMatchedToTOPM:81664479 cumulReadSequenceTime: 661.661020214 sec cumulProcessSequenceTime: 274.648841648 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:94000000 goodBarcodedReads:89088475 goodMatchedToTOPM:82555527 cumulReadSequenceTime: 668.989287193 sec cumulProcessSequenceTime: 277.650631095 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:95000000 goodBarcodedReads:90041742 goodMatchedToTOPM:83427903 cumulReadSequenceTime: 676.32147297 sec cumulProcessSequenceTime: 280.750513813 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:96000000 goodBarcodedReads:90993257 goodMatchedToTOPM:84305106 cumulReadSequenceTime: 683.656923139 sec cumulProcessSequenceTime: 283.845738405 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:97000000 goodBarcodedReads:91942486 goodMatchedToTOPM:85184307 cumulReadSequenceTime: 691.025417314 sec cumulProcessSequenceTime: 286.661625532 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:98000000 goodBarcodedReads:92887418 goodMatchedToTOPM:86054312 cumulReadSequenceTime: 698.301410161 sec cumulProcessSequenceTime: 289.636296011 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:99000000 goodBarcodedReads:93832788 goodMatchedToTOPM:86923363 cumulReadSequenceTime: 705.533762898 sec cumulProcessSequenceTime: 292.466304391 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:100000000 goodBarcodedReads:94772343 goodMatchedToTOPM:87784686 cumulReadSequenceTime: 712.86366228 sec cumulProcessSequenceTime: 295.421816418 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:101000000 goodBarcodedReads:95703105 goodMatchedToTOPM:88624495 cumulReadSequenceTime: 720.181256971 sec cumulProcessSequenceTime: 298.228164859 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:102000000 goodBarcodedReads:96628252 goodMatchedToTOPM:89468945 cumulReadSequenceTime: 727.34893471 sec cumulProcessSequenceTime: 301.13640772 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:103000000 goodBarcodedReads:97554749 goodMatchedToTOPM:90316505 cumulReadSequenceTime: 734.510157788 sec cumulProcessSequenceTime: 304.136359846 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:104000000 goodBarcodedReads:98487391 goodMatchedToTOPM:91159693 cumulReadSequenceTime: 742.308398533 sec cumulProcessSequenceTime: 307.204243687 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:105000000 goodBarcodedReads:99417990 goodMatchedToTOPM:91989581 cumulReadSequenceTime: 749.466468615 sec cumulProcessSequenceTime: 309.831307947 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:106000000 goodBarcodedReads:100330502 goodMatchedToTOPM:92761242 cumulReadSequenceTime: 756.638364607 sec cumulProcessSequenceTime: 312.321315359 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:107000000 goodBarcodedReads:101243835 goodMatchedToTOPM:93508528 cumulReadSequenceTime: 763.674082155 sec cumulProcessSequenceTime: 314.926737783 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:108000000 goodBarcodedReads:102145813 goodMatchedToTOPM:94262732 cumulReadSequenceTime: 770.998056952 sec cumulProcessSequenceTime: 317.587074884 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:109000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 774.999108757 sec cumulProcessSequenceTime: 317.964148326 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:110000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 778.562496453 sec cumulProcessSequenceTime: 318.063087752 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:111000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 782.111517387 sec cumulProcessSequenceTime: 318.161485475 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:112000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 785.685531041 sec cumulProcessSequenceTime: 318.260842345 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:113000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 789.294541453 sec cumulProcessSequenceTime: 318.360747404 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:114000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 792.984475427 sec cumulProcessSequenceTime: 318.46351931 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:115000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 796.725692233 sec cumulProcessSequenceTime: 318.565968415 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:116000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 800.348813222 sec cumulProcessSequenceTime: 318.664398617 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:117000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 803.945976691 sec cumulProcessSequenceTime: 318.763553968 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:118000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 807.552962209 sec cumulProcessSequenceTime: 318.863349329 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:119000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 811.159204296 sec cumulProcessSequenceTime: 318.962722949 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:120000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 814.798040839 sec cumulProcessSequenceTime: 319.0626959 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:121000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 818.458827348 sec cumulProcessSequenceTime: 319.161978873 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:122000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 822.031824793 sec cumulProcessSequenceTime: 319.261472304 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:123000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 825.716511499 sec cumulProcessSequenceTime: 319.361853468 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:124000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 829.439558261 sec cumulProcessSequenceTime: 319.464718435 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:125000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 833.086651965 sec cumulProcessSequenceTime: 319.565984097 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:126000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 836.794821293 sec cumulProcessSequenceTime: 319.667930421 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:127000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 840.455042818 sec cumulProcessSequenceTime: 319.767395735 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:128000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 844.122154334 sec cumulProcessSequenceTime: 319.866874598 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:129000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 847.910707373 sec cumulProcessSequenceTime: 319.970012758 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:130000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 851.590532986 sec cumulProcessSequenceTime: 320.070778659 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:131000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 855.357392814 sec cumulProcessSequenceTime: 320.171275784 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:132000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 859.114577153 sec cumulProcessSequenceTime: 320.271707166 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:133000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 862.901632853 sec cumulProcessSequenceTime: 320.374724353 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:134000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 866.613045002 sec cumulProcessSequenceTime: 320.474836147 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:135000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 870.303972711 sec cumulProcessSequenceTime: 320.574759324 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:136000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 874.150381264 sec cumulProcessSequenceTime: 320.679349767 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:137000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 878.17737341 sec cumulProcessSequenceTime: 320.790554914 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:138000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 881.900311005 sec cumulProcessSequenceTime: 320.891299099 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:139000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 885.583542044 sec cumulProcessSequenceTime: 320.992250279 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:140000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 889.225181739 sec cumulProcessSequenceTime: 321.091220026 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:141000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 892.892504885 sec cumulProcessSequenceTime: 321.188882715 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:142000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 896.527109066 sec cumulProcessSequenceTime: 321.288145677 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:143000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 900.043387555 sec cumulProcessSequenceTime: 321.386347021 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:144000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 903.707373345 sec cumulProcessSequenceTime: 321.486236321 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:145000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 907.665428478 sec cumulProcessSequenceTime: 321.596908729 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:146000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 911.387612389 sec cumulProcessSequenceTime: 321.701263355 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:147000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 914.893482496 sec cumulProcessSequenceTime: 321.800248946 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:148000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 918.409064555 sec cumulProcessSequenceTime: 321.899685235 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:149000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 922.019371392 sec cumulProcessSequenceTime: 321.999931173 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:150000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 925.614884434 sec cumulProcessSequenceTime: 322.100043203 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:151000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 929.277827301 sec cumulProcessSequenceTime: 322.201529324 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:152000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 932.841000532 sec cumulProcessSequenceTime: 322.301769431 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:153000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 936.830635543 sec cumulProcessSequenceTime: 322.425946707 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:154000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 940.975749518 sec cumulProcessSequenceTime: 322.543122817 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:155000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 944.574326064 sec cumulProcessSequenceTime: 322.643403882 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:156000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 948.148566979 sec cumulProcessSequenceTime: 322.74333348 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:157000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 951.752514067 sec cumulProcessSequenceTime: 322.844260425 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:158000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 955.424935163 sec cumulProcessSequenceTime: 322.945231616 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:159000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 959.10296932 sec cumulProcessSequenceTime: 323.04666287 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:160000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 962.815581113 sec cumulProcessSequenceTime: 323.147899195 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:161000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 966.447835111 sec cumulProcessSequenceTime: 323.247166163 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:162000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 970.115661639 sec cumulProcessSequenceTime: 323.347161437 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:163000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 973.770274333 sec cumulProcessSequenceTime: 323.446272003 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:164000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 977.376196895 sec cumulProcessSequenceTime: 323.543978972 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:165000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 981.004939019 sec cumulProcessSequenceTime: 323.642372082 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:166000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 984.665169153 sec cumulProcessSequenceTime: 323.741387391 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:167000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 988.380626732 sec cumulProcessSequenceTime: 323.840647425 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:168000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 992.045755702 sec cumulProcessSequenceTime: 323.93834546 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:169000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 995.735610326 sec cumulProcessSequenceTime: 324.037793217 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:170000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 999.44910315 sec cumulProcessSequenceTime: 324.138019658 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:171000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1003.112383458 sec cumulProcessSequenceTime: 324.236989598 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:172000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1006.864142241 sec cumulProcessSequenceTime: 324.336968205 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:173000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1010.55336749 sec cumulProcessSequenceTime: 324.435846262 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:174000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1014.219405474 sec cumulProcessSequenceTime: 324.534529892 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:175000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1017.963837514 sec cumulProcessSequenceTime: 324.634011207 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:176000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1021.708975518 sec cumulProcessSequenceTime: 324.732594867 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:177000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1025.523632723 sec cumulProcessSequenceTime: 324.83417604 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:178000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1029.232740152 sec cumulProcessSequenceTime: 324.933713964 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:179000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1032.852317546 sec cumulProcessSequenceTime: 325.033536495 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:180000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1036.356099577 sec cumulProcessSequenceTime: 325.132477029 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:181000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1040.081260425 sec cumulProcessSequenceTime: 325.232617244 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:182000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1044.090217072 sec cumulProcessSequenceTime: 325.355905775 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:183000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1048.242202726 sec cumulProcessSequenceTime: 325.472546519 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:184000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1051.970100282 sec cumulProcessSequenceTime: 325.57362373 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:185000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1055.752314243 sec cumulProcessSequenceTime: 325.677129513 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:186000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1059.374029084 sec cumulProcessSequenceTime: 325.776487696 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:187000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1063.00705483 sec cumulProcessSequenceTime: 325.876465809 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:188000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1066.648968858 sec cumulProcessSequenceTime: 325.976343217 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:189000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1070.304221882 sec cumulProcessSequenceTime: 326.076831146 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:190000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1073.955893877 sec cumulProcessSequenceTime: 326.176602162 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:191000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1077.497245343 sec cumulProcessSequenceTime: 326.273235209 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:192000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1081.151405853 sec cumulProcessSequenceTime: 326.371198719 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:193000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1084.92583447 sec cumulProcessSequenceTime: 326.472093276 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:194000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1088.687276049 sec cumulProcessSequenceTime: 326.573194229 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:195000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1092.679096172 sec cumulProcessSequenceTime: 326.683226093 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:196000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1097.285937527 sec cumulProcessSequenceTime: 326.810195618 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:197000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1100.940518105 sec cumulProcessSequenceTime: 326.909473946 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:198000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1104.660495056 sec cumulProcessSequenceTime: 327.0107454 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:199000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1108.331071634 sec cumulProcessSequenceTime: 327.110369801 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:200000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1111.899142397 sec cumulProcessSequenceTime: 327.207498241 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:201000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1115.551435451 sec cumulProcessSequenceTime: 327.306510959 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:202000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1119.278479555 sec cumulProcessSequenceTime: 327.406270283 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:203000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1122.922834525 sec cumulProcessSequenceTime: 327.504665465 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:204000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1126.603323244 sec cumulProcessSequenceTime: 327.604127966 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:205000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1130.270801552 sec cumulProcessSequenceTime: 327.703108606 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:206000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1133.954553081 sec cumulProcessSequenceTime: 327.801770872 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:207000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1137.603694132 sec cumulProcessSequenceTime: 327.900333009 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:208000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1141.236390221 sec cumulProcessSequenceTime: 327.998669558 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:209000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1144.93218486 sec cumulProcessSequenceTime: 328.097970507 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:210000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1148.66327803 sec cumulProcessSequenceTime: 328.197139304 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:211000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1152.349704337 sec cumulProcessSequenceTime: 328.295520852 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:212000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1156.101840475 sec cumulProcessSequenceTime: 328.395781418 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:213000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1159.760124334 sec cumulProcessSequenceTime: 328.494671001 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:214000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1163.440199695 sec cumulProcessSequenceTime: 328.593743324 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:215000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1167.082982671 sec cumulProcessSequenceTime: 328.692244423 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:216000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1171.017392824 sec cumulProcessSequenceTime: 328.79936551 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:217000000 goodBarcodedReads:102230422 goodMatchedToTOPM:94333418 cumulReadSequenceTime: 1174.669968432 sec cumulProcessSequenceTime: 328.899065278 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: readSequenceTime: 1177.431455852 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: processSequenceTime: 328.973601495 sec ProductionSNPCallerPlugin: performFunction: readRawSequencesAndRecordDepth: /local/workdir/rp444/./fastq/fastq4/C0T4NACXX_6_fastq.gz: 1688.344605594 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Calling genotypes... [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for CARICASS_1:250090856 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for CH92108:250090858 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for EXCEL:250090854 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I000345:250090783 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I010265:250090781 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I010760:250090773 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011371:250090769 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011551:250090780 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011734:250090778 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011797:250090770 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I020129:250090842 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I020510:250090844 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I030057:250090841 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I030060:250090848 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I030224:250090849 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I030242:250090853 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I030265:250090846 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I050186:250090840 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I050286:250090839 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I051274:250090837 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I051652:250090833 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070498:250090832 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070576:250090831 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070835:250090834 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070910:250090835 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I30572:250090764 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I40764:250090836 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I90853:250090838 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I9102324:250090766 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I920326:250090768 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I920417:250090824 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I930007:250090827 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I940006:250090826 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I940330:250090830 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I940561:250090825 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I950925:250090823 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I960129:250090814 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I960249:250090818 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I960325:250090790 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I960532:250090793 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I960590:250090800 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I961039:250090801 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I961087:250090813 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I961556:250090808 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I961569:250090799 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I961613:250090822 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I970103:250090820 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I970162:250090811 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I970219:250090796 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I970290:250090804 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I970353:250090805 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I974045:250090797 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I980378:250090788 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I980406:250090810 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I980505:250090767 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I982101:250090795 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I982132:250090792 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I990313:250090786 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I990411:250090802 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I990503:250090794 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I991702:250090772 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I993151:250090777 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I996016:250090791 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I996076:250090776 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I997032:250090787 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for M000004:250090775 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for M000044:250090784 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for M000063:250090779 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for M000112:250090774 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for M980057:250090789 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM961669:250090847 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM961839:250090851 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM964019:250090855 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM965055:250090843 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM968676:250090857 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM970227:250090807 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM971405:250090821 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM971899:250090806 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM971909:250090798 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM972961:250090850 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM980471:250090845 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM990214:250090815 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM990276:250090819 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM990477:250090809 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for NASE_10:250090859 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for TMEB419:250090765 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z000012:250090782 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z000104:250090785 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z000156:250090771 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z950415:250090829 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z950826:250090828 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z960058:250090817 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z970474:250090812 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z980135:250090816 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z980139:250090803 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for blank:250090852 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished calling genotypes for 96 taxa ProductionSNPCallerPlugin: performFunction: callGenotypes: /local/workdir/rp444/./fastq/fastq4/C0T4NACXX_6_fastq.gz: 81.871662834 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of reads in lane=217748428 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads=102230422 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads matched to the TOPM=94333418 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished reading 2 of 7 sequence files: /local/workdir/rp444/./fastq/fastq4/C0T4NACXX_6_fastq.gz [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Looking for known SNPs in sequence reads from file: [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - /local/workdir/rp444/./fastq/fastq4/C14VRACXX_1_fastq.gz Enzyme: ApeKI CTCC I102217:C14VRACXX:1:250099017 TTCTC I102815:C14VRACXX:1:250099018 GCTTA I102658:C14VRACXX:1:250099019 AACGCCT I102910:C14VRACXX:1:250099020 AGGC I102123:C14VRACXX:1:250099021 TCGTT I102691:C14VRACXX:1:250099022 TGGCTA I102741:C14VRACXX:1:250099023 TGCTGGA I102736:C14VRACXX:1:250099024 TGCA I102436:C14VRACXX:1:250099025 AGCCC I102428:C14VRACXX:1:250099026 CTTCCA I102133:C14VRACXX:1:250099027 AATATGC I102431:C14VRACXX:1:250099028 GATC I102723:C14VRACXX:1:250099029 ACCTAA I102545:C14VRACXX:1:250099030 ACGTGTT I102675:C14VRACXX:1:250099031 AACCGAGA I102731:C14VRACXX:1:250099032 ACTA I102034:C14VRACXX:1:250099033 GTATT I102896:C14VRACXX:1:250099034 GAGATA I102708:C14VRACXX:1:250099035 ACGACTAC I102202:C14VRACXX:1:250099036 TCAC I102199:C14VRACXX:1:250099037 ATATGT I102122:C14VRACXX:1:250099038 ATTAATT I102289:C14VRACXX:1:250099039 ACAGGGAA I102767:C14VRACXX:1:250099040 CAGA I070632:C14VRACXX:1:250099041 CTGTA I102364:C14VRACXX:1:250099042 ATGCCT I102677:C14VRACXX:1:250099043 GGTGT I102654:C14VRACXX:1:250099044 AGGAT I102608:C14VRACXX:1:250099045 ATCGTA I102659:C14VRACXX:1:250099046 ATTGGAT I102710:C14VRACXX:1:250099047 ACGTGGTA I102618:C14VRACXX:1:250099048 AACT I102616:C14VRACXX:1:250099049 ACCGT I102357:C14VRACXX:1:250099050 TATTTTT I102480:C14VRACXX:1:250099051 TAGCATGC I102224:C14VRACXX:1:250099052 ATTGA I101893:C14VRACXX:1:250099053 CATCGT I102403:C14VRACXX:1:250099054 CATAAGT I102250:C14VRACXX:1:250099055 CCATGGGT I102219:C14VRACXX:1:250099056 GCGT I101976:C14VRACXX:1:250099057 GTAA I102640:C14VRACXX:1:250099058 CTTGCTT I102489:C14VRACXX:1:250099059 AGTGGA I102278:C14VRACXX:1:250099060 CATCT I101917:C14VRACXX:1:250099061 CGCGGT I102546:C14VRACXX:1:250099062 CGCTGAT I101898:C14VRACXX:1:250099063 CGCGGAGA I102397:C14VRACXX:1:250099064 TGCGA I100719:C14VRACXX:1:250099065 GGTTGT I102448:C14VRACXX:1:250099066 ATGAAAC I102277:C14VRACXX:1:250099067 TAGGCCAT I101921:C14VRACXX:1:250099068 CCTAC I102233:C14VRACXX:1:250099069 CTATTA I102493:C14VRACXX:1:250099070 CGGTAGA I102178:C14VRACXX:1:250099071 CGTGTGGT I102125:C14VRACXX:1:250099072 CGAT I102404:C14VRACXX:1:250099073 CCAGCT I102535:C14VRACXX:1:250099074 AAAAGTT I102097:C14VRACXX:1:250099075 TGCAAGGA I102427:C14VRACXX:1:250099076 GAGGA I102898:C14VRACXX:1:250099077 GCCAGT I102410:C14VRACXX:1:250099078 CTACGGA I102686:C14VRACXX:1:250099079 GCTGTGGA I102676:C14VRACXX:1:250099080 CGCTT I102273:C14VRACXX:1:250099081 TTCAGA I102390:C14VRACXX:1:250099082 GAATTCA I102227:C14VRACXX:1:250099083 TGGTACGT I102820:C14VRACXX:1:250099084 GGAAC I102716:C14VRACXX:1:250099085 GGAAGA I102638:C14VRACXX:1:250099086 GCGGAAT I101272:C14VRACXX:1:250099087 GGATTGGT I101927:C14VRACXX:1:250099088 TCACC I102718:C14VRACXX:1:250099089 TAGGAA I102612:C14VRACXX:1:250099090 GAACTTC I102094:C14VRACXX:1:250099091 TCTCAGTC I102091:C14VRACXX:1:250099092 GTCAA I102399:C14VRACXX:1:250099093 GTACTT I102666:C14VRACXX:1:250099094 TAGCGGA I102353:C14VRACXX:1:250099095 GTGAGGGT I102721:C14VRACXX:1:250099096 CTAGC I102400:C14VRACXX:1:250099097 GCTCTA I102600:C14VRACXX:1:250099098 GGACCTA I102210:C14VRACXX:1:250099099 CCGGATAT I102222:C14VRACXX:1:250099100 TAATA I102294:C14VRACXX:1:250099101 GTTGAA I102574:C14VRACXX:1:250099102 TCGAAGA I070683:C14VRACXX:1:250099103 TATCGGGA I101164:C14VRACXX:1:250099104 ACAAA I070520:C14VRACXX:1:250099105 CCACAA I070753:C14VRACXX:1:250099106 GTCGATT I070670:C14VRACXX:1:250099107 CGCCTTAT I070557:C14VRACXX:1:250099108 TACAT I100650:C14VRACXX:1:250099109 TAACGA I070749:C14VRACXX:1:250099110 TCTGTGA I070736:C14VRACXX:1:250099111 TTCCTGGA BLANK:C14VRACXX:1:250099112 Total barcodes found in lane:96 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Working on GBS raw sequence file: /local/workdir/rp444/./fastq/fastq4/C14VRACXX_1_fastq.gz This file is assumed to be in fastq format Total barcodes found in key file for this lane:96 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:0 goodBarcodedReads:0 goodMatchedToTOPM:0 cumulReadSequenceTime: 0.0 sec cumulProcessSequenceTime: 0.0 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:1000000 goodBarcodedReads:933106 goodMatchedToTOPM:891467 cumulReadSequenceTime: 6.569015713 sec cumulProcessSequenceTime: 3.078596213 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:2000000 goodBarcodedReads:1867885 goodMatchedToTOPM:1784562 cumulReadSequenceTime: 12.999319303 sec cumulProcessSequenceTime: 6.120107129 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:3000000 goodBarcodedReads:2801569 goodMatchedToTOPM:2675399 cumulReadSequenceTime: 19.309574499 sec cumulProcessSequenceTime: 9.113088895 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:4000000 goodBarcodedReads:3741600 goodMatchedToTOPM:3574104 cumulReadSequenceTime: 25.963667115 sec cumulProcessSequenceTime: 12.310244211 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:5000000 goodBarcodedReads:4686130 goodMatchedToTOPM:4475969 cumulReadSequenceTime: 32.586621977 sec cumulProcessSequenceTime: 15.204617434 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:6000000 goodBarcodedReads:5631843 goodMatchedToTOPM:5381524 cumulReadSequenceTime: 39.085343914 sec cumulProcessSequenceTime: 18.165394943 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:7000000 goodBarcodedReads:6582657 goodMatchedToTOPM:6287417 cumulReadSequenceTime: 45.640022854 sec cumulProcessSequenceTime: 20.926956169 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:8000000 goodBarcodedReads:7533932 goodMatchedToTOPM:7191294 cumulReadSequenceTime: 52.275828839 sec cumulProcessSequenceTime: 23.44995293 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:9000000 goodBarcodedReads:8487160 goodMatchedToTOPM:8097640 cumulReadSequenceTime: 58.788635219 sec cumulProcessSequenceTime: 26.311640768 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:10000000 goodBarcodedReads:9436950 goodMatchedToTOPM:8998928 cumulReadSequenceTime: 65.47183615 sec cumulProcessSequenceTime: 29.184828107 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:11000000 goodBarcodedReads:10391195 goodMatchedToTOPM:9905646 cumulReadSequenceTime: 72.082152535 sec cumulProcessSequenceTime: 32.217165807 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:12000000 goodBarcodedReads:11345004 goodMatchedToTOPM:10809953 cumulReadSequenceTime: 79.23034582 sec cumulProcessSequenceTime: 35.365506614 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:13000000 goodBarcodedReads:12298534 goodMatchedToTOPM:11717481 cumulReadSequenceTime: 86.76583093 sec cumulProcessSequenceTime: 38.908615469 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:14000000 goodBarcodedReads:13247676 goodMatchedToTOPM:12618095 cumulReadSequenceTime: 94.078033976 sec cumulProcessSequenceTime: 42.454960257 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:15000000 goodBarcodedReads:14199186 goodMatchedToTOPM:13521025 cumulReadSequenceTime: 100.782893985 sec cumulProcessSequenceTime: 45.559777776 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:16000000 goodBarcodedReads:15151425 goodMatchedToTOPM:14425706 cumulReadSequenceTime: 107.320291629 sec cumulProcessSequenceTime: 48.673701977 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:17000000 goodBarcodedReads:16101564 goodMatchedToTOPM:15325719 cumulReadSequenceTime: 114.85388838 sec cumulProcessSequenceTime: 51.885002671 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:18000000 goodBarcodedReads:17045130 goodMatchedToTOPM:16215002 cumulReadSequenceTime: 122.116116314 sec cumulProcessSequenceTime: 54.969760785 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:19000000 goodBarcodedReads:17992605 goodMatchedToTOPM:17112288 cumulReadSequenceTime: 129.364128054 sec cumulProcessSequenceTime: 58.11154718 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:20000000 goodBarcodedReads:18940329 goodMatchedToTOPM:18007543 cumulReadSequenceTime: 138.07424358 sec cumulProcessSequenceTime: 61.276611702 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:21000000 goodBarcodedReads:19887691 goodMatchedToTOPM:18900845 cumulReadSequenceTime: 145.30632979 sec cumulProcessSequenceTime: 64.26771123 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:22000000 goodBarcodedReads:20834587 goodMatchedToTOPM:19792377 cumulReadSequenceTime: 152.645956922 sec cumulProcessSequenceTime: 67.32162226 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:23000000 goodBarcodedReads:21773782 goodMatchedToTOPM:20672220 cumulReadSequenceTime: 160.419375932 sec cumulProcessSequenceTime: 70.478452071 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:24000000 goodBarcodedReads:22716620 goodMatchedToTOPM:21554474 cumulReadSequenceTime: 168.74717006 sec cumulProcessSequenceTime: 73.649407232 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:25000000 goodBarcodedReads:23659142 goodMatchedToTOPM:22434085 cumulReadSequenceTime: 176.326355683 sec cumulProcessSequenceTime: 76.607740774 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:26000000 goodBarcodedReads:24597370 goodMatchedToTOPM:23291803 cumulReadSequenceTime: 183.565983155 sec cumulProcessSequenceTime: 79.63054493 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:27000000 goodBarcodedReads:25539779 goodMatchedToTOPM:24167181 cumulReadSequenceTime: 191.851194983 sec cumulProcessSequenceTime: 83.006738131 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:28000000 goodBarcodedReads:26475987 goodMatchedToTOPM:25026001 cumulReadSequenceTime: 199.051399277 sec cumulProcessSequenceTime: 85.89052776 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:29000000 goodBarcodedReads:27406282 goodMatchedToTOPM:25787904 cumulReadSequenceTime: 207.463852196 sec cumulProcessSequenceTime: 88.893070139 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:30000000 goodBarcodedReads:28259818 goodMatchedToTOPM:26458278 cumulReadSequenceTime: 214.307686505 sec cumulProcessSequenceTime: 91.256646698 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:31000000 goodBarcodedReads:29111860 goodMatchedToTOPM:27078906 cumulReadSequenceTime: 222.094442455 sec cumulProcessSequenceTime: 93.542219996 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:32000000 goodBarcodedReads:30000458 goodMatchedToTOPM:27783148 cumulReadSequenceTime: 229.439936071 sec cumulProcessSequenceTime: 96.05840598 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:33000000 goodBarcodedReads:30948318 goodMatchedToTOPM:28683316 cumulReadSequenceTime: 237.175887575 sec cumulProcessSequenceTime: 99.341199972 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:34000000 goodBarcodedReads:31905261 goodMatchedToTOPM:29600128 cumulReadSequenceTime: 244.476406212 sec cumulProcessSequenceTime: 102.353050384 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:35000000 goodBarcodedReads:32861500 goodMatchedToTOPM:30516947 cumulReadSequenceTime: 251.722330547 sec cumulProcessSequenceTime: 105.333094447 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:36000000 goodBarcodedReads:33815400 goodMatchedToTOPM:31431346 cumulReadSequenceTime: 258.866660614 sec cumulProcessSequenceTime: 108.164948267 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:37000000 goodBarcodedReads:34773229 goodMatchedToTOPM:32352299 cumulReadSequenceTime: 266.045827233 sec cumulProcessSequenceTime: 111.33768584 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:38000000 goodBarcodedReads:35730463 goodMatchedToTOPM:33273099 cumulReadSequenceTime: 273.160539557 sec cumulProcessSequenceTime: 114.505510926 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:39000000 goodBarcodedReads:36687071 goodMatchedToTOPM:34194976 cumulReadSequenceTime: 280.349545444 sec cumulProcessSequenceTime: 117.45738707 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:40000000 goodBarcodedReads:37643539 goodMatchedToTOPM:35109319 cumulReadSequenceTime: 287.784994588 sec cumulProcessSequenceTime: 120.484288277 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:41000000 goodBarcodedReads:38599143 goodMatchedToTOPM:36023284 cumulReadSequenceTime: 295.107035814 sec cumulProcessSequenceTime: 123.507060476 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:42000000 goodBarcodedReads:39555087 goodMatchedToTOPM:36938009 cumulReadSequenceTime: 302.49547857 sec cumulProcessSequenceTime: 126.494513508 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:43000000 goodBarcodedReads:40507505 goodMatchedToTOPM:37846024 cumulReadSequenceTime: 309.694185701 sec cumulProcessSequenceTime: 129.355738391 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:44000000 goodBarcodedReads:41463603 goodMatchedToTOPM:38758807 cumulReadSequenceTime: 316.879180349 sec cumulProcessSequenceTime: 132.223459462 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:45000000 goodBarcodedReads:42417765 goodMatchedToTOPM:39666867 cumulReadSequenceTime: 324.162587641 sec cumulProcessSequenceTime: 135.106028446 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:46000000 goodBarcodedReads:43371262 goodMatchedToTOPM:40573451 cumulReadSequenceTime: 331.442914731 sec cumulProcessSequenceTime: 137.977008002 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:47000000 goodBarcodedReads:44320850 goodMatchedToTOPM:41475109 cumulReadSequenceTime: 338.472227439 sec cumulProcessSequenceTime: 140.743292113 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:48000000 goodBarcodedReads:45272516 goodMatchedToTOPM:42378920 cumulReadSequenceTime: 345.59771365 sec cumulProcessSequenceTime: 143.598604313 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:49000000 goodBarcodedReads:46223640 goodMatchedToTOPM:43278785 cumulReadSequenceTime: 352.76541333 sec cumulProcessSequenceTime: 146.435761512 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:50000000 goodBarcodedReads:47174665 goodMatchedToTOPM:44179491 cumulReadSequenceTime: 360.030197363 sec cumulProcessSequenceTime: 149.334308751 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:51000000 goodBarcodedReads:48119986 goodMatchedToTOPM:45070935 cumulReadSequenceTime: 367.245235945 sec cumulProcessSequenceTime: 152.145957569 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:52000000 goodBarcodedReads:49070655 goodMatchedToTOPM:45969933 cumulReadSequenceTime: 374.519287041 sec cumulProcessSequenceTime: 155.067333019 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:53000000 goodBarcodedReads:50020230 goodMatchedToTOPM:46866543 cumulReadSequenceTime: 381.704972451 sec cumulProcessSequenceTime: 157.957852339 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:54000000 goodBarcodedReads:50969480 goodMatchedToTOPM:47761397 cumulReadSequenceTime: 389.085553172 sec cumulProcessSequenceTime: 160.79823475 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:55000000 goodBarcodedReads:51913774 goodMatchedToTOPM:48647623 cumulReadSequenceTime: 397.148107378 sec cumulProcessSequenceTime: 163.988168485 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:56000000 goodBarcodedReads:52860315 goodMatchedToTOPM:49533385 cumulReadSequenceTime: 404.699648818 sec cumulProcessSequenceTime: 167.061951136 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:57000000 goodBarcodedReads:53805138 goodMatchedToTOPM:50419448 cumulReadSequenceTime: 411.93241523 sec cumulProcessSequenceTime: 169.98759362 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:58000000 goodBarcodedReads:54749841 goodMatchedToTOPM:51297101 cumulReadSequenceTime: 419.299912289 sec cumulProcessSequenceTime: 172.881468599 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:59000000 goodBarcodedReads:55693806 goodMatchedToTOPM:52173136 cumulReadSequenceTime: 426.717393018 sec cumulProcessSequenceTime: 175.804859969 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:60000000 goodBarcodedReads:56633945 goodMatchedToTOPM:53034743 cumulReadSequenceTime: 434.003926384 sec cumulProcessSequenceTime: 178.590944446 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:61000000 goodBarcodedReads:57573971 goodMatchedToTOPM:53821098 cumulReadSequenceTime: 441.288296436 sec cumulProcessSequenceTime: 181.250615159 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:62000000 goodBarcodedReads:58510963 goodMatchedToTOPM:54587548 cumulReadSequenceTime: 448.559999676 sec cumulProcessSequenceTime: 183.899966186 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:63000000 goodBarcodedReads:59352546 goodMatchedToTOPM:55278432 cumulReadSequenceTime: 455.429436359 sec cumulProcessSequenceTime: 186.337882039 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:64000000 goodBarcodedReads:60134200 goodMatchedToTOPM:55743732 cumulReadSequenceTime: 461.791862914 sec cumulProcessSequenceTime: 187.995906516 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:65000000 goodBarcodedReads:61019247 goodMatchedToTOPM:56320977 cumulReadSequenceTime: 468.582057088 sec cumulProcessSequenceTime: 190.027664448 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:66000000 goodBarcodedReads:61976301 goodMatchedToTOPM:57244036 cumulReadSequenceTime: 475.863705543 sec cumulProcessSequenceTime: 193.204195131 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:67000000 goodBarcodedReads:62933182 goodMatchedToTOPM:58166219 cumulReadSequenceTime: 485.778457529 sec cumulProcessSequenceTime: 196.454434597 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:68000000 goodBarcodedReads:63890816 goodMatchedToTOPM:59089176 cumulReadSequenceTime: 492.905241712 sec cumulProcessSequenceTime: 199.625639087 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:69000000 goodBarcodedReads:64845277 goodMatchedToTOPM:60006679 cumulReadSequenceTime: 500.02081194 sec cumulProcessSequenceTime: 202.794869361 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:70000000 goodBarcodedReads:65802898 goodMatchedToTOPM:60930524 cumulReadSequenceTime: 507.201096413 sec cumulProcessSequenceTime: 205.958237014 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:71000000 goodBarcodedReads:66760887 goodMatchedToTOPM:61855870 cumulReadSequenceTime: 514.337767378 sec cumulProcessSequenceTime: 209.137251308 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:72000000 goodBarcodedReads:67716313 goodMatchedToTOPM:62775265 cumulReadSequenceTime: 521.613420915 sec cumulProcessSequenceTime: 212.33006781 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:73000000 goodBarcodedReads:68673804 goodMatchedToTOPM:63694856 cumulReadSequenceTime: 528.843916144 sec cumulProcessSequenceTime: 215.319759794 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:74000000 goodBarcodedReads:69630920 goodMatchedToTOPM:64614023 cumulReadSequenceTime: 537.202814706 sec cumulProcessSequenceTime: 218.846589581 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:75000000 goodBarcodedReads:70584066 goodMatchedToTOPM:65528544 cumulReadSequenceTime: 544.908709076 sec cumulProcessSequenceTime: 222.204970024 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:76000000 goodBarcodedReads:71541642 goodMatchedToTOPM:66447346 cumulReadSequenceTime: 552.15883483 sec cumulProcessSequenceTime: 225.476578121 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:77000000 goodBarcodedReads:72497995 goodMatchedToTOPM:67363188 cumulReadSequenceTime: 560.351593883 sec cumulProcessSequenceTime: 229.24986219 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:78000000 goodBarcodedReads:73453589 goodMatchedToTOPM:68276879 cumulReadSequenceTime: 567.50597137 sec cumulProcessSequenceTime: 232.412990078 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:79000000 goodBarcodedReads:74405369 goodMatchedToTOPM:69184569 cumulReadSequenceTime: 574.54948633 sec cumulProcessSequenceTime: 235.530226044 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:80000000 goodBarcodedReads:75360449 goodMatchedToTOPM:70094014 cumulReadSequenceTime: 581.620962135 sec cumulProcessSequenceTime: 238.671380498 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:81000000 goodBarcodedReads:76314209 goodMatchedToTOPM:71001347 cumulReadSequenceTime: 588.721711051 sec cumulProcessSequenceTime: 241.822837628 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:82000000 goodBarcodedReads:77267434 goodMatchedToTOPM:71904032 cumulReadSequenceTime: 595.820900397 sec cumulProcessSequenceTime: 244.916235945 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:83000000 goodBarcodedReads:78214326 goodMatchedToTOPM:72798475 cumulReadSequenceTime: 602.850702368 sec cumulProcessSequenceTime: 247.998548791 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:84000000 goodBarcodedReads:79166468 goodMatchedToTOPM:73698672 cumulReadSequenceTime: 609.89487039 sec cumulProcessSequenceTime: 251.112437951 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:85000000 goodBarcodedReads:80115548 goodMatchedToTOPM:74592218 cumulReadSequenceTime: 616.995375746 sec cumulProcessSequenceTime: 254.170095908 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:86000000 goodBarcodedReads:81062282 goodMatchedToTOPM:75483446 cumulReadSequenceTime: 624.146927229 sec cumulProcessSequenceTime: 257.097239984 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:87000000 goodBarcodedReads:82007697 goodMatchedToTOPM:76370350 cumulReadSequenceTime: 631.362854844 sec cumulProcessSequenceTime: 260.13938093 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:88000000 goodBarcodedReads:82947140 goodMatchedToTOPM:77249537 cumulReadSequenceTime: 638.585180645 sec cumulProcessSequenceTime: 263.051450161 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:89000000 goodBarcodedReads:83887363 goodMatchedToTOPM:78126920 cumulReadSequenceTime: 645.781476623 sec cumulProcessSequenceTime: 265.87281587 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:90000000 goodBarcodedReads:84826175 goodMatchedToTOPM:78993874 cumulReadSequenceTime: 653.709388045 sec cumulProcessSequenceTime: 268.648764241 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:91000000 goodBarcodedReads:85763546 goodMatchedToTOPM:79861920 cumulReadSequenceTime: 660.972666252 sec cumulProcessSequenceTime: 271.60941134 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:92000000 goodBarcodedReads:86696705 goodMatchedToTOPM:80717925 cumulReadSequenceTime: 668.583456836 sec cumulProcessSequenceTime: 274.799416471 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:93000000 goodBarcodedReads:87631653 goodMatchedToTOPM:81552308 cumulReadSequenceTime: 675.736703805 sec cumulProcessSequenceTime: 277.660863818 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:94000000 goodBarcodedReads:88563227 goodMatchedToTOPM:82349549 cumulReadSequenceTime: 682.716345286 sec cumulProcessSequenceTime: 280.365070406 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:95000000 goodBarcodedReads:89467058 goodMatchedToTOPM:83074384 cumulReadSequenceTime: 689.636553548 sec cumulProcessSequenceTime: 282.880039913 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:96000000 goodBarcodedReads:90393069 goodMatchedToTOPM:83882636 cumulReadSequenceTime: 696.886343735 sec cumulProcessSequenceTime: 285.716487821 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:97000000 goodBarcodedReads:91326137 goodMatchedToTOPM:84650407 cumulReadSequenceTime: 703.991855153 sec cumulProcessSequenceTime: 288.376109815 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:98000000 goodBarcodedReads:91965913 goodMatchedToTOPM:85233798 cumulReadSequenceTime: 710.114387188 sec cumulProcessSequenceTime: 290.434765073 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:99000000 goodBarcodedReads:92907778 goodMatchedToTOPM:86121669 cumulReadSequenceTime: 717.146869136 sec cumulProcessSequenceTime: 293.463551548 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:100000000 goodBarcodedReads:93850399 goodMatchedToTOPM:87013139 cumulReadSequenceTime: 724.17521354 sec cumulProcessSequenceTime: 296.456676654 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:101000000 goodBarcodedReads:94688587 goodMatchedToTOPM:87801444 cumulReadSequenceTime: 731.047396863 sec cumulProcessSequenceTime: 299.14012929 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:102000000 goodBarcodedReads:95631938 goodMatchedToTOPM:88692043 cumulReadSequenceTime: 738.118680007 sec cumulProcessSequenceTime: 301.853039284 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:103000000 goodBarcodedReads:96572967 goodMatchedToTOPM:89580114 cumulReadSequenceTime: 745.144159323 sec cumulProcessSequenceTime: 304.511726574 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:104000000 goodBarcodedReads:97517766 goodMatchedToTOPM:90472207 cumulReadSequenceTime: 752.285788171 sec cumulProcessSequenceTime: 307.271759827 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:105000000 goodBarcodedReads:98464830 goodMatchedToTOPM:91292399 cumulReadSequenceTime: 759.319250068 sec cumulProcessSequenceTime: 309.717247027 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:106000000 goodBarcodedReads:99408830 goodMatchedToTOPM:92150648 cumulReadSequenceTime: 766.327608845 sec cumulProcessSequenceTime: 312.263396194 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:107000000 goodBarcodedReads:100359760 goodMatchedToTOPM:92978799 cumulReadSequenceTime: 773.501884609 sec cumulProcessSequenceTime: 314.768944562 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:108000000 goodBarcodedReads:101309791 goodMatchedToTOPM:93877041 cumulReadSequenceTime: 780.578464487 sec cumulProcessSequenceTime: 317.503859723 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:109000000 goodBarcodedReads:102260534 goodMatchedToTOPM:94772696 cumulReadSequenceTime: 787.600598314 sec cumulProcessSequenceTime: 320.19921412 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:110000000 goodBarcodedReads:103206835 goodMatchedToTOPM:95663783 cumulReadSequenceTime: 794.623904044 sec cumulProcessSequenceTime: 322.862206928 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:111000000 goodBarcodedReads:104117936 goodMatchedToTOPM:96484497 cumulReadSequenceTime: 801.599241986 sec cumulProcessSequenceTime: 325.373475044 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:112000000 goodBarcodedReads:105069348 goodMatchedToTOPM:97377177 cumulReadSequenceTime: 808.770249245 sec cumulProcessSequenceTime: 328.087590819 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:113000000 goodBarcodedReads:106021371 goodMatchedToTOPM:98274281 cumulReadSequenceTime: 815.947519053 sec cumulProcessSequenceTime: 330.831699216 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:114000000 goodBarcodedReads:106965219 goodMatchedToTOPM:99156758 cumulReadSequenceTime: 823.107654763 sec cumulProcessSequenceTime: 333.308153258 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:115000000 goodBarcodedReads:107915065 goodMatchedToTOPM:100049350 cumulReadSequenceTime: 830.265817175 sec cumulProcessSequenceTime: 335.809124653 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:116000000 goodBarcodedReads:108864202 goodMatchedToTOPM:100941792 cumulReadSequenceTime: 837.498276549 sec cumulProcessSequenceTime: 338.337013145 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:117000000 goodBarcodedReads:109813097 goodMatchedToTOPM:101831745 cumulReadSequenceTime: 844.598068922 sec cumulProcessSequenceTime: 340.809071693 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:118000000 goodBarcodedReads:110761889 goodMatchedToTOPM:102719847 cumulReadSequenceTime: 852.571990958 sec cumulProcessSequenceTime: 343.536386613 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:119000000 goodBarcodedReads:111696218 goodMatchedToTOPM:103589151 cumulReadSequenceTime: 859.636658431 sec cumulProcessSequenceTime: 345.94075085 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:120000000 goodBarcodedReads:112640259 goodMatchedToTOPM:104459878 cumulReadSequenceTime: 866.699268534 sec cumulProcessSequenceTime: 348.361020708 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:121000000 goodBarcodedReads:113562390 goodMatchedToTOPM:105313220 cumulReadSequenceTime: 873.776544685 sec cumulProcessSequenceTime: 350.762191358 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:122000000 goodBarcodedReads:114504930 goodMatchedToTOPM:106172232 cumulReadSequenceTime: 880.975347816 sec cumulProcessSequenceTime: 353.432181386 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:123000000 goodBarcodedReads:115447761 goodMatchedToTOPM:107036158 cumulReadSequenceTime: 888.178930747 sec cumulProcessSequenceTime: 356.333674435 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:124000000 goodBarcodedReads:116374235 goodMatchedToTOPM:107860891 cumulReadSequenceTime: 895.458114404 sec cumulProcessSequenceTime: 359.14400995 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:125000000 goodBarcodedReads:117287258 goodMatchedToTOPM:108682301 cumulReadSequenceTime: 902.66785999 sec cumulProcessSequenceTime: 361.777254037 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:126000000 goodBarcodedReads:118034338 goodMatchedToTOPM:109333736 cumulReadSequenceTime: 909.237575722 sec cumulProcessSequenceTime: 364.177036117 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:127000000 goodBarcodedReads:118644327 goodMatchedToTOPM:109805610 cumulReadSequenceTime: 915.296583613 sec cumulProcessSequenceTime: 365.682037262 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:128000000 goodBarcodedReads:119446290 goodMatchedToTOPM:110271845 cumulReadSequenceTime: 921.668747842 sec cumulProcessSequenceTime: 367.022359499 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:129000000 goodBarcodedReads:120253178 goodMatchedToTOPM:110922214 cumulReadSequenceTime: 928.414715661 sec cumulProcessSequenceTime: 368.907022784 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:130000000 goodBarcodedReads:121181682 goodMatchedToTOPM:111774699 cumulReadSequenceTime: 935.561659988 sec cumulProcessSequenceTime: 371.303771737 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:131000000 goodBarcodedReads:121962304 goodMatchedToTOPM:112516816 cumulReadSequenceTime: 942.12572477 sec cumulProcessSequenceTime: 373.395503179 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:132000000 goodBarcodedReads:122916210 goodMatchedToTOPM:113426045 cumulReadSequenceTime: 949.346966685 sec cumulProcessSequenceTime: 376.125300522 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:133000000 goodBarcodedReads:123874662 goodMatchedToTOPM:114343966 cumulReadSequenceTime: 956.57694147 sec cumulProcessSequenceTime: 378.923057266 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:134000000 goodBarcodedReads:124826352 goodMatchedToTOPM:115255371 cumulReadSequenceTime: 963.74749212 sec cumulProcessSequenceTime: 381.954556561 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:135000000 goodBarcodedReads:125785757 goodMatchedToTOPM:116179014 cumulReadSequenceTime: 970.942625746 sec cumulProcessSequenceTime: 385.181771116 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:136000000 goodBarcodedReads:126741116 goodMatchedToTOPM:117089211 cumulReadSequenceTime: 978.19777864 sec cumulProcessSequenceTime: 388.354293182 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:137000000 goodBarcodedReads:127697973 goodMatchedToTOPM:117999133 cumulReadSequenceTime: 985.4156656 sec cumulProcessSequenceTime: 391.490957707 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:138000000 goodBarcodedReads:128654886 goodMatchedToTOPM:118839018 cumulReadSequenceTime: 992.97974372 sec cumulProcessSequenceTime: 394.547560033 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:139000000 goodBarcodedReads:129607498 goodMatchedToTOPM:119743380 cumulReadSequenceTime: 1000.649328421 sec cumulProcessSequenceTime: 397.832768537 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:140000000 goodBarcodedReads:130564026 goodMatchedToTOPM:120624122 cumulReadSequenceTime: 1008.514021967 sec cumulProcessSequenceTime: 401.052851382 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:141000000 goodBarcodedReads:131520024 goodMatchedToTOPM:121531361 cumulReadSequenceTime: 1015.885602772 sec cumulProcessSequenceTime: 403.995830749 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:142000000 goodBarcodedReads:132475600 goodMatchedToTOPM:122435740 cumulReadSequenceTime: 1023.153541218 sec cumulProcessSequenceTime: 406.860678012 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:143000000 goodBarcodedReads:133426901 goodMatchedToTOPM:123330282 cumulReadSequenceTime: 1030.383932902 sec cumulProcessSequenceTime: 409.715049852 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:144000000 goodBarcodedReads:134361320 goodMatchedToTOPM:124211848 cumulReadSequenceTime: 1037.534145685 sec cumulProcessSequenceTime: 412.466685543 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:145000000 goodBarcodedReads:135313225 goodMatchedToTOPM:125106035 cumulReadSequenceTime: 1044.609155469 sec cumulProcessSequenceTime: 415.2155311 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:146000000 goodBarcodedReads:136245445 goodMatchedToTOPM:125983548 cumulReadSequenceTime: 1051.890543436 sec cumulProcessSequenceTime: 418.053095252 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:147000000 goodBarcodedReads:137189701 goodMatchedToTOPM:126865327 cumulReadSequenceTime: 1059.093882381 sec cumulProcessSequenceTime: 420.860337292 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:148000000 goodBarcodedReads:138126112 goodMatchedToTOPM:127747234 cumulReadSequenceTime: 1066.274588314 sec cumulProcessSequenceTime: 423.862944397 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:149000000 goodBarcodedReads:139077355 goodMatchedToTOPM:128637228 cumulReadSequenceTime: 1073.488725558 sec cumulProcessSequenceTime: 426.737878449 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:150000000 goodBarcodedReads:140027793 goodMatchedToTOPM:129522650 cumulReadSequenceTime: 1080.766726209 sec cumulProcessSequenceTime: 429.610712729 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:151000000 goodBarcodedReads:140977468 goodMatchedToTOPM:130411679 cumulReadSequenceTime: 1088.040256167 sec cumulProcessSequenceTime: 432.609001307 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:152000000 goodBarcodedReads:141910271 goodMatchedToTOPM:131281119 cumulReadSequenceTime: 1095.247653646 sec cumulProcessSequenceTime: 435.355885431 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:153000000 goodBarcodedReads:142832581 goodMatchedToTOPM:132134702 cumulReadSequenceTime: 1102.421034059 sec cumulProcessSequenceTime: 438.050190514 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:154000000 goodBarcodedReads:143779257 goodMatchedToTOPM:133012592 cumulReadSequenceTime: 1109.756131813 sec cumulProcessSequenceTime: 440.956455044 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:155000000 goodBarcodedReads:144725680 goodMatchedToTOPM:133878158 cumulReadSequenceTime: 1117.063451065 sec cumulProcessSequenceTime: 443.774920231 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:156000000 goodBarcodedReads:145670564 goodMatchedToTOPM:134742497 cumulReadSequenceTime: 1124.271484804 sec cumulProcessSequenceTime: 446.526539523 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:157000000 goodBarcodedReads:146596249 goodMatchedToTOPM:135576579 cumulReadSequenceTime: 1131.461817326 sec cumulProcessSequenceTime: 449.242256985 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:158000000 goodBarcodedReads:147509223 goodMatchedToTOPM:136347993 cumulReadSequenceTime: 1138.618854867 sec cumulProcessSequenceTime: 451.772185481 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:159000000 goodBarcodedReads:148160821 goodMatchedToTOPM:136897677 cumulReadSequenceTime: 1145.118987504 sec cumulProcessSequenceTime: 453.669408861 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:160000000 goodBarcodedReads:148629491 goodMatchedToTOPM:137184931 cumulReadSequenceTime: 1150.630198685 sec cumulProcessSequenceTime: 454.702593582 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:161000000 goodBarcodedReads:149302191 goodMatchedToTOPM:137375303 cumulReadSequenceTime: 1156.341025146 sec cumulProcessSequenceTime: 455.376167853 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:162000000 goodBarcodedReads:150049686 goodMatchedToTOPM:137892141 cumulReadSequenceTime: 1162.663627281 sec cumulProcessSequenceTime: 457.078480505 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:163000000 goodBarcodedReads:151007018 goodMatchedToTOPM:138810082 cumulReadSequenceTime: 1169.921408621 sec cumulProcessSequenceTime: 460.015872487 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:164000000 goodBarcodedReads:151964318 goodMatchedToTOPM:139727120 cumulReadSequenceTime: 1177.54994702 sec cumulProcessSequenceTime: 463.074637169 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:165000000 goodBarcodedReads:152919377 goodMatchedToTOPM:140640718 cumulReadSequenceTime: 1184.661416979 sec cumulProcessSequenceTime: 465.93218544 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:166000000 goodBarcodedReads:153877805 goodMatchedToTOPM:141560173 cumulReadSequenceTime: 1191.839738569 sec cumulProcessSequenceTime: 468.860199446 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:167000000 goodBarcodedReads:154835792 goodMatchedToTOPM:142473972 cumulReadSequenceTime: 1199.112699888 sec cumulProcessSequenceTime: 471.766752934 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:168000000 goodBarcodedReads:155790014 goodMatchedToTOPM:143386972 cumulReadSequenceTime: 1206.383683533 sec cumulProcessSequenceTime: 474.699438498 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:169000000 goodBarcodedReads:156747547 goodMatchedToTOPM:144300039 cumulReadSequenceTime: 1213.554532861 sec cumulProcessSequenceTime: 477.533051514 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:170000000 goodBarcodedReads:157703111 goodMatchedToTOPM:145209117 cumulReadSequenceTime: 1220.742994408 sec cumulProcessSequenceTime: 480.424920558 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:171000000 goodBarcodedReads:158659007 goodMatchedToTOPM:146120046 cumulReadSequenceTime: 1227.940325473 sec cumulProcessSequenceTime: 483.270536909 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:172000000 goodBarcodedReads:159611088 goodMatchedToTOPM:147023155 cumulReadSequenceTime: 1235.063233589 sec cumulProcessSequenceTime: 486.076761729 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:173000000 goodBarcodedReads:160566779 goodMatchedToTOPM:147930500 cumulReadSequenceTime: 1242.169281355 sec cumulProcessSequenceTime: 488.8703756 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:174000000 goodBarcodedReads:161521199 goodMatchedToTOPM:148834543 cumulReadSequenceTime: 1249.570391126 sec cumulProcessSequenceTime: 491.812905453 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:175000000 goodBarcodedReads:162474512 goodMatchedToTOPM:149734889 cumulReadSequenceTime: 1256.770495931 sec cumulProcessSequenceTime: 494.640783542 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:176000000 goodBarcodedReads:163405413 goodMatchedToTOPM:150610847 cumulReadSequenceTime: 1263.854164062 sec cumulProcessSequenceTime: 497.423294982 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:177000000 goodBarcodedReads:164355218 goodMatchedToTOPM:151494893 cumulReadSequenceTime: 1271.064233954 sec cumulProcessSequenceTime: 500.239251519 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:178000000 goodBarcodedReads:165303018 goodMatchedToTOPM:152384023 cumulReadSequenceTime: 1278.309015075 sec cumulProcessSequenceTime: 502.903241586 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:179000000 goodBarcodedReads:166232919 goodMatchedToTOPM:153248735 cumulReadSequenceTime: 1285.547573101 sec cumulProcessSequenceTime: 505.805674284 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:180000000 goodBarcodedReads:167169425 goodMatchedToTOPM:154114834 cumulReadSequenceTime: 1292.74686011 sec cumulProcessSequenceTime: 508.746453434 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:181000000 goodBarcodedReads:168108733 goodMatchedToTOPM:154973558 cumulReadSequenceTime: 1299.865636273 sec cumulProcessSequenceTime: 511.66554881 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:182000000 goodBarcodedReads:169032126 goodMatchedToTOPM:155826894 cumulReadSequenceTime: 1307.015564314 sec cumulProcessSequenceTime: 514.596580566 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:183000000 goodBarcodedReads:169967909 goodMatchedToTOPM:156679857 cumulReadSequenceTime: 1314.164556275 sec cumulProcessSequenceTime: 517.52832376 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:184000000 goodBarcodedReads:170824650 goodMatchedToTOPM:157464735 cumulReadSequenceTime: 1321.511167633 sec cumulProcessSequenceTime: 520.392664431 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:185000000 goodBarcodedReads:171752191 goodMatchedToTOPM:158314926 cumulReadSequenceTime: 1328.906621799 sec cumulProcessSequenceTime: 523.450232233 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:186000000 goodBarcodedReads:172682834 goodMatchedToTOPM:159163814 cumulReadSequenceTime: 1336.444549897 sec cumulProcessSequenceTime: 526.386243514 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:187000000 goodBarcodedReads:173588268 goodMatchedToTOPM:159980302 cumulReadSequenceTime: 1343.747807187 sec cumulProcessSequenceTime: 529.07652658 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:188000000 goodBarcodedReads:174516742 goodMatchedToTOPM:160816072 cumulReadSequenceTime: 1350.968602941 sec cumulProcessSequenceTime: 531.832718439 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:189000000 goodBarcodedReads:175440899 goodMatchedToTOPM:161640921 cumulReadSequenceTime: 1358.131037053 sec cumulProcessSequenceTime: 534.517656348 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:190000000 goodBarcodedReads:176350977 goodMatchedToTOPM:162446128 cumulReadSequenceTime: 1367.646628341 sec cumulProcessSequenceTime: 537.101049192 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:191000000 goodBarcodedReads:177201888 goodMatchedToTOPM:163185795 cumulReadSequenceTime: 1374.536040068 sec cumulProcessSequenceTime: 539.660886356 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:192000000 goodBarcodedReads:177961080 goodMatchedToTOPM:163805361 cumulReadSequenceTime: 1381.15647579 sec cumulProcessSequenceTime: 541.901326057 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:193000000 goodBarcodedReads:178665205 goodMatchedToTOPM:164360083 cumulReadSequenceTime: 1387.547609042 sec cumulProcessSequenceTime: 543.788963314 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: readSequenceTime: 1388.641356739 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: processSequenceTime: 544.140842101 sec ProductionSNPCallerPlugin: performFunction: readRawSequencesAndRecordDepth: /local/workdir/rp444/./fastq/fastq4/C14VRACXX_1_fastq.gz: 2111.566629078 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Calling genotypes... [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for BLANK:250099112 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070520:250099105 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070557:250099108 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070632:250099041 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070670:250099107 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070683:250099103 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070736:250099111 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070749:250099110 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070753:250099106 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100650:250099109 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100719:250099065 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101164:250099104 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101272:250099087 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101893:250099053 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101898:250099063 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101917:250099061 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101921:250099068 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101927:250099088 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101976:250099057 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102034:250099033 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102091:250099092 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102094:250099091 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102097:250099075 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102122:250099038 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102123:250099021 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102125:250099072 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102133:250099027 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102178:250099071 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102199:250099037 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102202:250099036 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102210:250099099 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102217:250099017 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102219:250099056 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102222:250099100 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102224:250099052 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102227:250099083 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102233:250099069 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102250:250099055 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102273:250099081 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102277:250099067 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102278:250099060 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102289:250099039 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102294:250099101 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102353:250099095 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102357:250099050 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102364:250099042 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102390:250099082 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102397:250099064 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102399:250099093 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102400:250099097 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102403:250099054 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102404:250099073 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102410:250099078 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102427:250099076 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102428:250099026 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102431:250099028 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102436:250099025 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102448:250099066 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102480:250099051 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102489:250099059 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102493:250099070 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102535:250099074 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102545:250099030 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102546:250099062 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102574:250099102 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102600:250099098 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102608:250099045 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102612:250099090 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102616:250099049 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102618:250099048 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102638:250099086 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102640:250099058 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102654:250099044 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102658:250099019 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102659:250099046 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102666:250099094 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102675:250099031 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102676:250099080 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102677:250099043 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102686:250099079 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102691:250099022 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102708:250099035 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102710:250099047 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102716:250099085 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102718:250099089 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102721:250099096 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102723:250099029 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102731:250099032 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102736:250099024 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102741:250099023 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102767:250099040 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102815:250099018 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102820:250099084 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102896:250099034 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102898:250099077 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I102910:250099020 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished calling genotypes for 96 taxa ProductionSNPCallerPlugin: performFunction: callGenotypes: /local/workdir/rp444/./fastq/fastq4/C14VRACXX_1_fastq.gz: 89.360442111 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of reads in lane=193173503 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads=178784918 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads matched to the TOPM=164457698 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished reading 3 of 7 sequence files: /local/workdir/rp444/./fastq/fastq4/C14VRACXX_1_fastq.gz [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Looking for known SNPs in sequence reads from file: [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - /local/workdir/rp444/./fastq/fastq4/C14VRACXX_2_fastq.gz Enzyme: ApeKI CTCC I070703:C14VRACXX:2:250099144 TTCTC I071026:C14VRACXX:2:250099145 GCTTA I101878:C14VRACXX:2:250099146 AACGCCT I070536:C14VRACXX:2:250099147 AGGC I070738:C14VRACXX:2:250099148 TCGTT I100898:C14VRACXX:2:250099149 TGGCTA I088674:C14VRACXX:2:250099150 TGCTGGA I088736:C14VRACXX:2:250099151 TGCA I088747:C14VRACXX:2:250099152 AGCCC I088686:C14VRACXX:2:250099153 CTTCCA I088744:C14VRACXX:2:250099154 AATATGC I088741:C14VRACXX:2:250099155 GATC I088799:C14VRACXX:2:250099156 ACCTAA I088705:C14VRACXX:2:250099157 ACGTGTT I088682:C14VRACXX:2:250099158 AACCGAGA I088684:C14VRACXX:2:250099159 ACTA I088691:C14VRACXX:2:250099160 GTATT I088716:C14VRACXX:2:250099161 GAGATA I088693:C14VRACXX:2:250099162 ACGACTAC I088673:C14VRACXX:2:250099163 TCAC I101094:C14VRACXX:2:250099164 ATATGT I101046:C14VRACXX:2:250099165 ATTAATT IG03:C14VRACXX:2:250099166 ACAGGGAA TMEB693:C14VRACXX:2:250099167 CAGA I090508:C14VRACXX:2:250099168 CTGTA I090546:C14VRACXX:2:250099169 ATGCCT I090581:C14VRACXX:2:250099170 GGTGT I090509:C14VRACXX:2:250099171 AGGAT I090521:C14VRACXX:2:250099172 ATCGTA I090486:C14VRACXX:2:250099173 ATTGGAT I090510:C14VRACXX:2:250099174 ACGTGGTA I090574:C14VRACXX:2:250099175 AACT I090522:C14VRACXX:2:250099176 ACCGT I100330:C14VRACXX:2:250099177 TATTTTT I090578:C14VRACXX:2:250099178 TAGCATGC I090564:C14VRACXX:2:250099179 ATTGA I090537:C14VRACXX:2:250099180 CATCGT I090536:C14VRACXX:2:250099181 CATAAGT I090576:C14VRACXX:2:250099182 CCATGGGT I090520:C14VRACXX:2:250099183 GCGT I090616CM:C14VRACXX:2:250099184 GTAA I090498:C14VRACXX:2:250099185 CTTGCTT I090609CM:C14VRACXX:2:250099186 AGTGGA I090516:C14VRACXX:2:250099187 CATCT I090454:C14VRACXX:2:250099188 CGCGGT I101371:C14VRACXX:2:250099189 CGCTGAT I090482CM:C14VRACXX:2:250099190 CGCGGAGA I090523:C14VRACXX:2:250099191 TGCGA I090504:C14VRACXX:2:250099192 GGTTGT I090488:C14VRACXX:2:250099193 ATGAAAC I101296:C14VRACXX:2:250099194 TAGGCCAT I090485CM:C14VRACXX:2:250099195 CCTAC I090590:C14VRACXX:2:250099196 CTATTA I090597:C14VRACXX:2:250099197 CGGTAGA I101832:C14VRACXX:2:250099198 CGTGTGGT MP080814:C14VRACXX:2:250099199 CGAT MP081175:C14VRACXX:2:250099200 CCAGCT MP080524:C14VRACXX:2:250099201 AAAAGTT MP080742:C14VRACXX:2:250099202 TGCAAGGA MP080862:C14VRACXX:2:250099203 GAGGA MP080284:C14VRACXX:2:250099204 GCCAGT MP080743:C14VRACXX:2:250099205 CTACGGA MP080498:C14VRACXX:2:250099206 GCTGTGGA MP080243:C14VRACXX:2:250099207 CGCTT MP080340:C14VRACXX:2:250099208 TTCAGA MP080492:C14VRACXX:2:250099209 GAATTCA MP080540:C14VRACXX:2:250099210 TGGTACGT MP081019:C14VRACXX:2:250099211 GGAAC I101080:C14VRACXX:2:250099212 GGAAGA MP080234:C14VRACXX:2:250099213 GCGGAAT MP080325:C14VRACXX:2:250099214 GGATTGGT I980581:C14VRACXX:2:250099215 TCACC MP081831:C14VRACXX:2:250099216 TAGGAA MP081188:C14VRACXX:2:250099217 GAACTTC MP080575:C14VRACXX:2:250099218 TCTCAGTC MP080410:C14VRACXX:2:250099219 GTCAA MP080321:C14VRACXX:2:250099220 GTACTT MP080319:C14VRACXX:2:250099221 TAGCGGA MP080427:C14VRACXX:2:250099222 GTGAGGGT BLANK:C14VRACXX:2:250099223 CTAGC I062630:C14VRACXX:2:250099224 GCTCTA I070094:C14VRACXX:2:250099225 GGACCTA I010040:C14VRACXX:2:250099226 CCGGATAT I010098:C14VRACXX:2:250099227 TAATA I070004:C14VRACXX:2:250099228 GTTGAA I061635:C14VRACXX:2:250099229 TCGAAGA I100963:C14VRACXX:2:250099230 TATCGGGA I011086:C14VRACXX:2:250099231 ACAAA I010085:C14VRACXX:2:250099232 CCACAA I071313:C14VRACXX:2:250099233 GTCGATT I070299:C14VRACXX:2:250099234 CGCCTTAT I011097:C14VRACXX:2:250099235 TACAT I070539:C14VRACXX:2:250099236 TAACGA I071295:C14VRACXX:2:250099237 TCTGTGA I063046:C14VRACXX:2:250099238 TTCCTGGA I071378:C14VRACXX:2:250099239 Total barcodes found in lane:96 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Working on GBS raw sequence file: /local/workdir/rp444/./fastq/fastq4/C14VRACXX_2_fastq.gz This file is assumed to be in fastq format Total barcodes found in key file for this lane:96 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:0 goodBarcodedReads:0 goodMatchedToTOPM:0 cumulReadSequenceTime: 0.0 sec cumulProcessSequenceTime: 0.0 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:1000000 goodBarcodedReads:932125 goodMatchedToTOPM:896084 cumulReadSequenceTime: 6.504747629 sec cumulProcessSequenceTime: 2.982385577 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:2000000 goodBarcodedReads:1863551 goodMatchedToTOPM:1791207 cumulReadSequenceTime: 12.933144906 sec cumulProcessSequenceTime: 5.917205914 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:3000000 goodBarcodedReads:2794600 goodMatchedToTOPM:2684547 cumulReadSequenceTime: 19.109403653 sec cumulProcessSequenceTime: 8.501090744 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:4000000 goodBarcodedReads:3727961 goodMatchedToTOPM:3584001 cumulReadSequenceTime: 25.920842949 sec cumulProcessSequenceTime: 11.512566664 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:5000000 goodBarcodedReads:4666629 goodMatchedToTOPM:4485595 cumulReadSequenceTime: 32.453892154 sec cumulProcessSequenceTime: 14.158575924 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:6000000 goodBarcodedReads:5606334 goodMatchedToTOPM:5385376 cumulReadSequenceTime: 38.932414869 sec cumulProcessSequenceTime: 16.507366076 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:7000000 goodBarcodedReads:6553694 goodMatchedToTOPM:6294927 cumulReadSequenceTime: 46.035391154 sec cumulProcessSequenceTime: 19.092254656 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:8000000 goodBarcodedReads:7504186 goodMatchedToTOPM:7206000 cumulReadSequenceTime: 52.61922461 sec cumulProcessSequenceTime: 21.506132533 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:9000000 goodBarcodedReads:8452162 goodMatchedToTOPM:8111749 cumulReadSequenceTime: 59.164575415 sec cumulProcessSequenceTime: 23.920123809 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:10000000 goodBarcodedReads:9404072 goodMatchedToTOPM:9023010 cumulReadSequenceTime: 65.722389015 sec cumulProcessSequenceTime: 26.761407821 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:11000000 goodBarcodedReads:10356939 goodMatchedToTOPM:9933503 cumulReadSequenceTime: 72.281952225 sec cumulProcessSequenceTime: 29.739370432 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:12000000 goodBarcodedReads:11305955 goodMatchedToTOPM:10840182 cumulReadSequenceTime: 78.744671471 sec cumulProcessSequenceTime: 32.648561843 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:13000000 goodBarcodedReads:12258324 goodMatchedToTOPM:11752429 cumulReadSequenceTime: 85.222186497 sec cumulProcessSequenceTime: 35.4422435 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:14000000 goodBarcodedReads:13209277 goodMatchedToTOPM:12660114 cumulReadSequenceTime: 91.594888865 sec cumulProcessSequenceTime: 38.130467156 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:15000000 goodBarcodedReads:14160820 goodMatchedToTOPM:13570245 cumulReadSequenceTime: 98.131381768 sec cumulProcessSequenceTime: 40.857386221 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:16000000 goodBarcodedReads:15107631 goodMatchedToTOPM:14473727 cumulReadSequenceTime: 104.574748475 sec cumulProcessSequenceTime: 43.527158984 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:17000000 goodBarcodedReads:16058285 goodMatchedToTOPM:15381083 cumulReadSequenceTime: 111.490083363 sec cumulProcessSequenceTime: 46.182096654 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:18000000 goodBarcodedReads:17007483 goodMatchedToTOPM:16283729 cumulReadSequenceTime: 118.412033696 sec cumulProcessSequenceTime: 48.840249477 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:19000000 goodBarcodedReads:17956397 goodMatchedToTOPM:17185879 cumulReadSequenceTime: 125.565969109 sec cumulProcessSequenceTime: 51.577972829 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:20000000 goodBarcodedReads:18900493 goodMatchedToTOPM:18080517 cumulReadSequenceTime: 132.640522734 sec cumulProcessSequenceTime: 54.271462628 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:21000000 goodBarcodedReads:19847224 goodMatchedToTOPM:18974209 cumulReadSequenceTime: 139.696851263 sec cumulProcessSequenceTime: 56.935696267 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:22000000 goodBarcodedReads:20794614 goodMatchedToTOPM:19866545 cumulReadSequenceTime: 146.933357745 sec cumulProcessSequenceTime: 59.68028295 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:23000000 goodBarcodedReads:21741587 goodMatchedToTOPM:20753761 cumulReadSequenceTime: 154.059261212 sec cumulProcessSequenceTime: 62.370724355 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:24000000 goodBarcodedReads:22688146 goodMatchedToTOPM:21646190 cumulReadSequenceTime: 161.18132937 sec cumulProcessSequenceTime: 65.063983224 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:25000000 goodBarcodedReads:23626539 goodMatchedToTOPM:22527700 cumulReadSequenceTime: 168.114729346 sec cumulProcessSequenceTime: 67.666177246 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:26000000 goodBarcodedReads:24566854 goodMatchedToTOPM:23380083 cumulReadSequenceTime: 175.188678595 sec cumulProcessSequenceTime: 70.216579299 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:27000000 goodBarcodedReads:25500184 goodMatchedToTOPM:24160146 cumulReadSequenceTime: 182.564954978 sec cumulProcessSequenceTime: 72.720645932 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:28000000 goodBarcodedReads:26435907 goodMatchedToTOPM:24988625 cumulReadSequenceTime: 189.641047633 sec cumulProcessSequenceTime: 75.260442669 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:29000000 goodBarcodedReads:27361493 goodMatchedToTOPM:25838801 cumulReadSequenceTime: 196.79026973 sec cumulProcessSequenceTime: 77.939019456 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:30000000 goodBarcodedReads:28317553 goodMatchedToTOPM:26763744 cumulReadSequenceTime: 203.968617891 sec cumulProcessSequenceTime: 80.74559649 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:31000000 goodBarcodedReads:29273837 goodMatchedToTOPM:27688852 cumulReadSequenceTime: 211.156949154 sec cumulProcessSequenceTime: 83.575182671 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:32000000 goodBarcodedReads:30228310 goodMatchedToTOPM:28611947 cumulReadSequenceTime: 218.276606705 sec cumulProcessSequenceTime: 86.588763798 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:33000000 goodBarcodedReads:31186435 goodMatchedToTOPM:29543488 cumulReadSequenceTime: 225.476420743 sec cumulProcessSequenceTime: 89.576979181 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:34000000 goodBarcodedReads:32143205 goodMatchedToTOPM:30468336 cumulReadSequenceTime: 232.661881603 sec cumulProcessSequenceTime: 92.478179673 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:35000000 goodBarcodedReads:33097360 goodMatchedToTOPM:31387264 cumulReadSequenceTime: 239.827160749 sec cumulProcessSequenceTime: 95.395047147 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:36000000 goodBarcodedReads:34054402 goodMatchedToTOPM:32311137 cumulReadSequenceTime: 247.030028571 sec cumulProcessSequenceTime: 98.341034387 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:37000000 goodBarcodedReads:35010343 goodMatchedToTOPM:33234000 cumulReadSequenceTime: 254.250297324 sec cumulProcessSequenceTime: 101.093190084 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:38000000 goodBarcodedReads:35963013 goodMatchedToTOPM:34149075 cumulReadSequenceTime: 261.448417806 sec cumulProcessSequenceTime: 103.926883093 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:39000000 goodBarcodedReads:36919503 goodMatchedToTOPM:35070504 cumulReadSequenceTime: 268.667526966 sec cumulProcessSequenceTime: 106.795334238 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:40000000 goodBarcodedReads:37875843 goodMatchedToTOPM:35990311 cumulReadSequenceTime: 275.875485696 sec cumulProcessSequenceTime: 109.675222673 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:41000000 goodBarcodedReads:38828124 goodMatchedToTOPM:36904139 cumulReadSequenceTime: 283.104288177 sec cumulProcessSequenceTime: 112.72566668 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:42000000 goodBarcodedReads:39783554 goodMatchedToTOPM:37822534 cumulReadSequenceTime: 290.30352172 sec cumulProcessSequenceTime: 115.758095623 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:43000000 goodBarcodedReads:40738660 goodMatchedToTOPM:38739372 cumulReadSequenceTime: 297.505632867 sec cumulProcessSequenceTime: 118.842931271 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:44000000 goodBarcodedReads:41692937 goodMatchedToTOPM:39653341 cumulReadSequenceTime: 304.764178901 sec cumulProcessSequenceTime: 121.881376515 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:45000000 goodBarcodedReads:42643185 goodMatchedToTOPM:40560902 cumulReadSequenceTime: 311.973108801 sec cumulProcessSequenceTime: 124.90095057 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:46000000 goodBarcodedReads:43597084 goodMatchedToTOPM:41473342 cumulReadSequenceTime: 319.191406471 sec cumulProcessSequenceTime: 127.723568206 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:47000000 goodBarcodedReads:44550108 goodMatchedToTOPM:42380906 cumulReadSequenceTime: 326.483161221 sec cumulProcessSequenceTime: 130.598932869 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:48000000 goodBarcodedReads:45502725 goodMatchedToTOPM:43289534 cumulReadSequenceTime: 333.704294699 sec cumulProcessSequenceTime: 133.423410401 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:49000000 goodBarcodedReads:46451478 goodMatchedToTOPM:44191612 cumulReadSequenceTime: 341.10478271 sec cumulProcessSequenceTime: 136.360205439 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:50000000 goodBarcodedReads:47402494 goodMatchedToTOPM:45092920 cumulReadSequenceTime: 348.331310391 sec cumulProcessSequenceTime: 139.269900081 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:51000000 goodBarcodedReads:48353010 goodMatchedToTOPM:45992005 cumulReadSequenceTime: 355.576891358 sec cumulProcessSequenceTime: 142.269000685 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:52000000 goodBarcodedReads:49303863 goodMatchedToTOPM:46886361 cumulReadSequenceTime: 362.830751989 sec cumulProcessSequenceTime: 145.27026405 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:53000000 goodBarcodedReads:50249786 goodMatchedToTOPM:47775828 cumulReadSequenceTime: 370.106660845 sec cumulProcessSequenceTime: 148.145023223 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:54000000 goodBarcodedReads:51199006 goodMatchedToTOPM:48672960 cumulReadSequenceTime: 377.330376843 sec cumulProcessSequenceTime: 150.999797116 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:55000000 goodBarcodedReads:52147221 goodMatchedToTOPM:49477668 cumulReadSequenceTime: 384.755355357 sec cumulProcessSequenceTime: 153.726088488 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:56000000 goodBarcodedReads:53091807 goodMatchedToTOPM:50143395 cumulReadSequenceTime: 391.851823438 sec cumulProcessSequenceTime: 155.908593455 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:57000000 goodBarcodedReads:53983322 goodMatchedToTOPM:50773311 cumulReadSequenceTime: 398.771533961 sec cumulProcessSequenceTime: 158.067696505 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:58000000 goodBarcodedReads:54839929 goodMatchedToTOPM:51456738 cumulReadSequenceTime: 405.588099896 sec cumulProcessSequenceTime: 160.34787373 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:59000000 goodBarcodedReads:55797173 goodMatchedToTOPM:52384491 cumulReadSequenceTime: 412.850170616 sec cumulProcessSequenceTime: 163.350702289 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:60000000 goodBarcodedReads:56753615 goodMatchedToTOPM:53311918 cumulReadSequenceTime: 419.998864845 sec cumulProcessSequenceTime: 166.377981308 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:61000000 goodBarcodedReads:57707953 goodMatchedToTOPM:54235904 cumulReadSequenceTime: 427.269503076 sec cumulProcessSequenceTime: 168.933955181 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:62000000 goodBarcodedReads:58665949 goodMatchedToTOPM:55166709 cumulReadSequenceTime: 434.478218608 sec cumulProcessSequenceTime: 172.04976109 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:63000000 goodBarcodedReads:59623106 goodMatchedToTOPM:56092951 cumulReadSequenceTime: 441.673593432 sec cumulProcessSequenceTime: 175.028330442 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:64000000 goodBarcodedReads:60577257 goodMatchedToTOPM:57014612 cumulReadSequenceTime: 448.878916229 sec cumulProcessSequenceTime: 178.126821884 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:65000000 goodBarcodedReads:61534097 goodMatchedToTOPM:57939821 cumulReadSequenceTime: 456.088959776 sec cumulProcessSequenceTime: 181.192153243 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:66000000 goodBarcodedReads:62490471 goodMatchedToTOPM:58862533 cumulReadSequenceTime: 463.298322931 sec cumulProcessSequenceTime: 184.145259091 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:67000000 goodBarcodedReads:63443746 goodMatchedToTOPM:59781438 cumulReadSequenceTime: 470.580065669 sec cumulProcessSequenceTime: 187.225333481 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:68000000 goodBarcodedReads:64400798 goodMatchedToTOPM:60704023 cumulReadSequenceTime: 477.721757025 sec cumulProcessSequenceTime: 190.136664932 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:69000000 goodBarcodedReads:65357608 goodMatchedToTOPM:61624645 cumulReadSequenceTime: 484.804309179 sec cumulProcessSequenceTime: 193.128389573 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:70000000 goodBarcodedReads:66310885 goodMatchedToTOPM:62540287 cumulReadSequenceTime: 492.050412866 sec cumulProcessSequenceTime: 196.19555742 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:71000000 goodBarcodedReads:67266270 goodMatchedToTOPM:63458860 cumulReadSequenceTime: 499.22994366 sec cumulProcessSequenceTime: 199.229764225 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:72000000 goodBarcodedReads:68220332 goodMatchedToTOPM:64373853 cumulReadSequenceTime: 506.411407402 sec cumulProcessSequenceTime: 202.2779672 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:73000000 goodBarcodedReads:69173485 goodMatchedToTOPM:65284291 cumulReadSequenceTime: 513.639070912 sec cumulProcessSequenceTime: 205.307880261 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:74000000 goodBarcodedReads:70122316 goodMatchedToTOPM:66188499 cumulReadSequenceTime: 520.831528555 sec cumulProcessSequenceTime: 208.315915176 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:75000000 goodBarcodedReads:71073055 goodMatchedToTOPM:67093987 cumulReadSequenceTime: 527.947652194 sec cumulProcessSequenceTime: 211.289244879 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:76000000 goodBarcodedReads:72022333 goodMatchedToTOPM:67995773 cumulReadSequenceTime: 535.132266938 sec cumulProcessSequenceTime: 214.321218538 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:77000000 goodBarcodedReads:72969730 goodMatchedToTOPM:68895212 cumulReadSequenceTime: 542.608564691 sec cumulProcessSequenceTime: 217.449043182 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:78000000 goodBarcodedReads:73911155 goodMatchedToTOPM:69784715 cumulReadSequenceTime: 553.031957881 sec cumulProcessSequenceTime: 220.558101234 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:79000000 goodBarcodedReads:74854727 goodMatchedToTOPM:70676032 cumulReadSequenceTime: 560.229073821 sec cumulProcessSequenceTime: 223.430696816 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:80000000 goodBarcodedReads:75796929 goodMatchedToTOPM:71562209 cumulReadSequenceTime: 569.100456724 sec cumulProcessSequenceTime: 226.310203405 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:81000000 goodBarcodedReads:76739171 goodMatchedToTOPM:72446399 cumulReadSequenceTime: 576.320755091 sec cumulProcessSequenceTime: 229.083826853 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:82000000 goodBarcodedReads:77675136 goodMatchedToTOPM:73323671 cumulReadSequenceTime: 583.482039612 sec cumulProcessSequenceTime: 231.819707728 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:83000000 goodBarcodedReads:78613795 goodMatchedToTOPM:74188581 cumulReadSequenceTime: 591.890554669 sec cumulProcessSequenceTime: 234.675129087 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:84000000 goodBarcodedReads:79549234 goodMatchedToTOPM:74988732 cumulReadSequenceTime: 599.124683068 sec cumulProcessSequenceTime: 237.190185208 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:85000000 goodBarcodedReads:80472118 goodMatchedToTOPM:75816333 cumulReadSequenceTime: 606.245206394 sec cumulProcessSequenceTime: 239.729031798 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:86000000 goodBarcodedReads:81399947 goodMatchedToTOPM:76665669 cumulReadSequenceTime: 614.607277315 sec cumulProcessSequenceTime: 242.392189276 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:87000000 goodBarcodedReads:82275579 goodMatchedToTOPM:77482100 cumulReadSequenceTime: 621.572433768 sec cumulProcessSequenceTime: 244.915394924 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:88000000 goodBarcodedReads:83198959 goodMatchedToTOPM:78360103 cumulReadSequenceTime: 629.487170527 sec cumulProcessSequenceTime: 247.925343664 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:89000000 goodBarcodedReads:84116761 goodMatchedToTOPM:79225047 cumulReadSequenceTime: 636.472104754 sec cumulProcessSequenceTime: 250.482917775 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:90000000 goodBarcodedReads:85060705 goodMatchedToTOPM:80122894 cumulReadSequenceTime: 643.513940089 sec cumulProcessSequenceTime: 253.105167773 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:91000000 goodBarcodedReads:86001156 goodMatchedToTOPM:81015881 cumulReadSequenceTime: 651.053968441 sec cumulProcessSequenceTime: 255.944218085 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:92000000 goodBarcodedReads:86945615 goodMatchedToTOPM:81912598 cumulReadSequenceTime: 658.192258316 sec cumulProcessSequenceTime: 258.693371036 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:93000000 goodBarcodedReads:87703334 goodMatchedToTOPM:82627039 cumulReadSequenceTime: 665.354207089 sec cumulProcessSequenceTime: 261.350875617 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:94000000 goodBarcodedReads:88643466 goodMatchedToTOPM:83484465 cumulReadSequenceTime: 672.577623382 sec cumulProcessSequenceTime: 264.19667342 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:95000000 goodBarcodedReads:89590539 goodMatchedToTOPM:84385396 cumulReadSequenceTime: 680.060810134 sec cumulProcessSequenceTime: 267.121692922 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:96000000 goodBarcodedReads:90537473 goodMatchedToTOPM:85286510 cumulReadSequenceTime: 687.254779593 sec cumulProcessSequenceTime: 269.919069945 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:97000000 goodBarcodedReads:91486608 goodMatchedToTOPM:86184249 cumulReadSequenceTime: 694.461830832 sec cumulProcessSequenceTime: 272.804479243 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:98000000 goodBarcodedReads:92432905 goodMatchedToTOPM:87078745 cumulReadSequenceTime: 701.817141402 sec cumulProcessSequenceTime: 275.791951333 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:99000000 goodBarcodedReads:93382678 goodMatchedToTOPM:87938182 cumulReadSequenceTime: 709.961382173 sec cumulProcessSequenceTime: 278.808518983 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:100000000 goodBarcodedReads:94333361 goodMatchedToTOPM:88795950 cumulReadSequenceTime: 718.626989999 sec cumulProcessSequenceTime: 281.688683631 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:101000000 goodBarcodedReads:95267559 goodMatchedToTOPM:89683785 cumulReadSequenceTime: 725.828577667 sec cumulProcessSequenceTime: 284.446297692 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:102000000 goodBarcodedReads:96205163 goodMatchedToTOPM:90570207 cumulReadSequenceTime: 733.570527465 sec cumulProcessSequenceTime: 287.369461237 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:103000000 goodBarcodedReads:97155860 goodMatchedToTOPM:91472735 cumulReadSequenceTime: 740.869260301 sec cumulProcessSequenceTime: 290.222141221 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:104000000 goodBarcodedReads:98105297 goodMatchedToTOPM:92371424 cumulReadSequenceTime: 748.111965571 sec cumulProcessSequenceTime: 293.020299242 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:105000000 goodBarcodedReads:99028510 goodMatchedToTOPM:93244959 cumulReadSequenceTime: 755.318620329 sec cumulProcessSequenceTime: 295.763101006 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:106000000 goodBarcodedReads:99969274 goodMatchedToTOPM:94132232 cumulReadSequenceTime: 762.669801044 sec cumulProcessSequenceTime: 298.517164242 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:107000000 goodBarcodedReads:100902938 goodMatchedToTOPM:95009842 cumulReadSequenceTime: 770.197696604 sec cumulProcessSequenceTime: 301.33696886 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:108000000 goodBarcodedReads:101822305 goodMatchedToTOPM:95862569 cumulReadSequenceTime: 777.894298258 sec cumulProcessSequenceTime: 304.180746565 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:109000000 goodBarcodedReads:102767169 goodMatchedToTOPM:96743216 cumulReadSequenceTime: 785.57410385 sec cumulProcessSequenceTime: 307.02097474 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:110000000 goodBarcodedReads:103703398 goodMatchedToTOPM:97615406 cumulReadSequenceTime: 793.356529838 sec cumulProcessSequenceTime: 309.985602486 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:111000000 goodBarcodedReads:104585448 goodMatchedToTOPM:98439704 cumulReadSequenceTime: 800.926447741 sec cumulProcessSequenceTime: 312.724336231 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:112000000 goodBarcodedReads:105452842 goodMatchedToTOPM:99190336 cumulReadSequenceTime: 808.469518359 sec cumulProcessSequenceTime: 315.248455173 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:113000000 goodBarcodedReads:106251993 goodMatchedToTOPM:99855436 cumulReadSequenceTime: 815.509211901 sec cumulProcessSequenceTime: 317.421226559 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:114000000 goodBarcodedReads:106972884 goodMatchedToTOPM:100496416 cumulReadSequenceTime: 822.288999744 sec cumulProcessSequenceTime: 319.515797018 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:115000000 goodBarcodedReads:107489618 goodMatchedToTOPM:100931999 cumulReadSequenceTime: 828.135101477 sec cumulProcessSequenceTime: 321.012990461 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:116000000 goodBarcodedReads:108444841 goodMatchedToTOPM:101716264 cumulReadSequenceTime: 835.431519923 sec cumulProcessSequenceTime: 323.505128856 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:117000000 goodBarcodedReads:109362296 goodMatchedToTOPM:102452742 cumulReadSequenceTime: 842.636409648 sec cumulProcessSequenceTime: 325.812125416 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:118000000 goodBarcodedReads:110316504 goodMatchedToTOPM:103236733 cumulReadSequenceTime: 849.90386139 sec cumulProcessSequenceTime: 328.416990002 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:119000000 goodBarcodedReads:111230980 goodMatchedToTOPM:103965558 cumulReadSequenceTime: 856.916399454 sec cumulProcessSequenceTime: 330.572886987 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:120000000 goodBarcodedReads:112186122 goodMatchedToTOPM:104749923 cumulReadSequenceTime: 864.051826456 sec cumulProcessSequenceTime: 332.892642479 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:121000000 goodBarcodedReads:113138476 goodMatchedToTOPM:105528228 cumulReadSequenceTime: 871.118967508 sec cumulProcessSequenceTime: 335.158012506 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:122000000 goodBarcodedReads:114075040 goodMatchedToTOPM:106297545 cumulReadSequenceTime: 878.234744587 sec cumulProcessSequenceTime: 337.429773872 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:123000000 goodBarcodedReads:114965963 goodMatchedToTOPM:107028339 cumulReadSequenceTime: 885.183067679 sec cumulProcessSequenceTime: 339.566351681 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:124000000 goodBarcodedReads:115919437 goodMatchedToTOPM:107802719 cumulReadSequenceTime: 892.376762739 sec cumulProcessSequenceTime: 341.867507685 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:125000000 goodBarcodedReads:116875949 goodMatchedToTOPM:108587957 cumulReadSequenceTime: 899.425805604 sec cumulProcessSequenceTime: 344.132613982 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:126000000 goodBarcodedReads:117832441 goodMatchedToTOPM:109373280 cumulReadSequenceTime: 907.165517801 sec cumulProcessSequenceTime: 346.873578381 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:127000000 goodBarcodedReads:118784183 goodMatchedToTOPM:110147641 cumulReadSequenceTime: 914.42822768 sec cumulProcessSequenceTime: 349.439672736 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:128000000 goodBarcodedReads:119737788 goodMatchedToTOPM:110928285 cumulReadSequenceTime: 921.957963467 sec cumulProcessSequenceTime: 351.858956395 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:129000000 goodBarcodedReads:120691214 goodMatchedToTOPM:111609065 cumulReadSequenceTime: 929.268361216 sec cumulProcessSequenceTime: 353.947363007 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:130000000 goodBarcodedReads:121644563 goodMatchedToTOPM:112387286 cumulReadSequenceTime: 936.558801664 sec cumulProcessSequenceTime: 356.380364537 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:131000000 goodBarcodedReads:122594679 goodMatchedToTOPM:113160564 cumulReadSequenceTime: 943.758038078 sec cumulProcessSequenceTime: 358.7663306 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:132000000 goodBarcodedReads:123548253 goodMatchedToTOPM:113943473 cumulReadSequenceTime: 950.927758793 sec cumulProcessSequenceTime: 361.160118509 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:133000000 goodBarcodedReads:124500891 goodMatchedToTOPM:114720977 cumulReadSequenceTime: 958.231615214 sec cumulProcessSequenceTime: 363.552736612 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:134000000 goodBarcodedReads:125439671 goodMatchedToTOPM:115487056 cumulReadSequenceTime: 965.373346761 sec cumulProcessSequenceTime: 365.889773111 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:135000000 goodBarcodedReads:126381051 goodMatchedToTOPM:116252953 cumulReadSequenceTime: 972.495404377 sec cumulProcessSequenceTime: 368.232385082 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:136000000 goodBarcodedReads:127332419 goodMatchedToTOPM:117011602 cumulReadSequenceTime: 979.649013128 sec cumulProcessSequenceTime: 370.542300774 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:137000000 goodBarcodedReads:128282079 goodMatchedToTOPM:117778685 cumulReadSequenceTime: 986.980862562 sec cumulProcessSequenceTime: 372.937679508 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:138000000 goodBarcodedReads:129232879 goodMatchedToTOPM:118539063 cumulReadSequenceTime: 994.346507848 sec cumulProcessSequenceTime: 375.369458887 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:139000000 goodBarcodedReads:130144050 goodMatchedToTOPM:119268443 cumulReadSequenceTime: 1002.300161212 sec cumulProcessSequenceTime: 377.601483184 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:140000000 goodBarcodedReads:130144050 goodMatchedToTOPM:119268443 cumulReadSequenceTime: 1006.106785021 sec cumulProcessSequenceTime: 377.701272028 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:141000000 goodBarcodedReads:130144050 goodMatchedToTOPM:119268443 cumulReadSequenceTime: 1009.848302936 sec cumulProcessSequenceTime: 377.80094578 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:142000000 goodBarcodedReads:130144050 goodMatchedToTOPM:119268443 cumulReadSequenceTime: 1013.434588813 sec cumulProcessSequenceTime: 377.899212405 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:143000000 goodBarcodedReads:130144050 goodMatchedToTOPM:119268443 cumulReadSequenceTime: 1016.95649818 sec cumulProcessSequenceTime: 377.997503712 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:144000000 goodBarcodedReads:130283299 goodMatchedToTOPM:119403193 cumulReadSequenceTime: 1021.391032172 sec cumulProcessSequenceTime: 378.442572122 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:145000000 goodBarcodedReads:131239631 goodMatchedToTOPM:120326339 cumulReadSequenceTime: 1028.332719585 sec cumulProcessSequenceTime: 380.829221655 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:146000000 goodBarcodedReads:132196717 goodMatchedToTOPM:121251420 cumulReadSequenceTime: 1035.444974906 sec cumulProcessSequenceTime: 383.262558631 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:147000000 goodBarcodedReads:133151185 goodMatchedToTOPM:122170749 cumulReadSequenceTime: 1042.569930827 sec cumulProcessSequenceTime: 385.715789791 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:148000000 goodBarcodedReads:134108324 goodMatchedToTOPM:123096950 cumulReadSequenceTime: 1050.128743648 sec cumulProcessSequenceTime: 388.557831189 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:149000000 goodBarcodedReads:135065355 goodMatchedToTOPM:124018465 cumulReadSequenceTime: 1057.252842105 sec cumulProcessSequenceTime: 391.32952515 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:150000000 goodBarcodedReads:136018982 goodMatchedToTOPM:124934738 cumulReadSequenceTime: 1064.443676326 sec cumulProcessSequenceTime: 394.061822503 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:151000000 goodBarcodedReads:136975896 goodMatchedToTOPM:125855012 cumulReadSequenceTime: 1071.532548753 sec cumulProcessSequenceTime: 396.808896546 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:152000000 goodBarcodedReads:137931937 goodMatchedToTOPM:126772114 cumulReadSequenceTime: 1079.731461817 sec cumulProcessSequenceTime: 399.978100455 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:153000000 goodBarcodedReads:138884499 goodMatchedToTOPM:127683252 cumulReadSequenceTime: 1087.026728663 sec cumulProcessSequenceTime: 402.927005401 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:154000000 goodBarcodedReads:139839880 goodMatchedToTOPM:128593460 cumulReadSequenceTime: 1094.834350777 sec cumulProcessSequenceTime: 406.128949365 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:155000000 goodBarcodedReads:140794061 goodMatchedToTOPM:129504124 cumulReadSequenceTime: 1102.053470443 sec cumulProcessSequenceTime: 408.907004221 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:156000000 goodBarcodedReads:141731203 goodMatchedToTOPM:130396036 cumulReadSequenceTime: 1109.261982356 sec cumulProcessSequenceTime: 411.796477778 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:157000000 goodBarcodedReads:142673362 goodMatchedToTOPM:131290269 cumulReadSequenceTime: 1116.385556882 sec cumulProcessSequenceTime: 414.748916862 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:158000000 goodBarcodedReads:143621893 goodMatchedToTOPM:132185146 cumulReadSequenceTime: 1123.644496499 sec cumulProcessSequenceTime: 417.735386941 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:159000000 goodBarcodedReads:144563398 goodMatchedToTOPM:133067548 cumulReadSequenceTime: 1130.657060725 sec cumulProcessSequenceTime: 420.649024892 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:160000000 goodBarcodedReads:145496975 goodMatchedToTOPM:133938779 cumulReadSequenceTime: 1137.568622272 sec cumulProcessSequenceTime: 423.551560851 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:161000000 goodBarcodedReads:146437259 goodMatchedToTOPM:134816521 cumulReadSequenceTime: 1144.630864548 sec cumulProcessSequenceTime: 426.489044816 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:162000000 goodBarcodedReads:147339918 goodMatchedToTOPM:135659951 cumulReadSequenceTime: 1152.206443011 sec cumulProcessSequenceTime: 429.540638732 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:163000000 goodBarcodedReads:148277359 goodMatchedToTOPM:136531567 cumulReadSequenceTime: 1159.34181436 sec cumulProcessSequenceTime: 432.384070949 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:164000000 goodBarcodedReads:149199643 goodMatchedToTOPM:137354370 cumulReadSequenceTime: 1166.461621089 sec cumulProcessSequenceTime: 435.033704155 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:165000000 goodBarcodedReads:150135304 goodMatchedToTOPM:138218749 cumulReadSequenceTime: 1173.766521532 sec cumulProcessSequenceTime: 437.816812358 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:166000000 goodBarcodedReads:151045588 goodMatchedToTOPM:139057517 cumulReadSequenceTime: 1180.76412748 sec cumulProcessSequenceTime: 440.401491786 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:167000000 goodBarcodedReads:151978516 goodMatchedToTOPM:139899640 cumulReadSequenceTime: 1187.858840041 sec cumulProcessSequenceTime: 443.068208786 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:168000000 goodBarcodedReads:152879610 goodMatchedToTOPM:140715121 cumulReadSequenceTime: 1194.891929454 sec cumulProcessSequenceTime: 445.624406814 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:169000000 goodBarcodedReads:153792533 goodMatchedToTOPM:141549241 cumulReadSequenceTime: 1202.04934839 sec cumulProcessSequenceTime: 448.304802263 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:170000000 goodBarcodedReads:154664912 goodMatchedToTOPM:142300420 cumulReadSequenceTime: 1209.076754643 sec cumulProcessSequenceTime: 450.883431442 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:171000000 goodBarcodedReads:155421414 goodMatchedToTOPM:142970741 cumulReadSequenceTime: 1215.722385677 sec cumulProcessSequenceTime: 453.150772687 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:172000000 goodBarcodedReads:155958931 goodMatchedToTOPM:143432711 cumulReadSequenceTime: 1221.67616706 sec cumulProcessSequenceTime: 454.740013882 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: readSequenceTime: 1222.962554317 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: processSequenceTime: 455.046191912 sec ProductionSNPCallerPlugin: performFunction: readRawSequencesAndRecordDepth: /local/workdir/rp444/./fastq/fastq4/C14VRACXX_2_fastq.gz: 1836.292908066 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Calling genotypes... [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for BLANK:250099223 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I010040:250099226 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I010085:250099232 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I010098:250099227 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011086:250099231 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011097:250099235 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I061635:250099229 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I062630:250099224 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I063046:250099238 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070004:250099228 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070094:250099225 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070299:250099234 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070536:250099147 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070539:250099236 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070703:250099144 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070738:250099148 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I071026:250099145 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I071295:250099237 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I071313:250099233 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I071378:250099239 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088673:250099163 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088674:250099150 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088682:250099158 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088684:250099159 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088686:250099153 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088691:250099160 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088693:250099162 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088705:250099157 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088716:250099161 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088736:250099151 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088741:250099155 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088744:250099154 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088747:250099152 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I088799:250099156 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090454:250099188 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090482CM:250099190 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090485CM:250099195 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090486:250099173 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090488:250099193 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090498:250099185 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090504:250099192 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090508:250099168 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090509:250099171 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090510:250099174 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090516:250099187 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090520:250099183 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090521:250099172 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090522:250099176 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090523:250099191 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090536:250099181 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090537:250099180 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090546:250099169 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090564:250099179 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090574:250099175 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090576:250099182 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090578:250099178 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090581:250099170 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090590:250099196 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090597:250099197 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090609CM:250099186 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I090616CM:250099184 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100330:250099177 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100898:250099149 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100963:250099230 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101046:250099165 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101080:250099212 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101094:250099164 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101296:250099194 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101371:250099189 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101832:250099198 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101878:250099146 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I980581:250099215 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for IG03:250099166 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080234:250099213 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080243:250099207 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080284:250099204 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080319:250099221 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080321:250099220 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080325:250099214 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080340:250099208 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080410:250099219 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080427:250099222 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080492:250099209 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080498:250099206 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080524:250099201 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080540:250099210 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080575:250099218 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080742:250099202 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080743:250099205 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080814:250099199 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP080862:250099203 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP081019:250099211 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP081175:250099200 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP081188:250099217 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MP081831:250099216 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for TMEB693:250099167 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished calling genotypes for 96 taxa ProductionSNPCallerPlugin: performFunction: callGenotypes: /local/workdir/rp444/./fastq/fastq4/C14VRACXX_2_fastq.gz: 86.870722397 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of reads in lane=172206847 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads=156101572 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads matched to the TOPM=143546221 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished reading 4 of 7 sequence files: /local/workdir/rp444/./fastq/fastq4/C14VRACXX_2_fastq.gz [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Looking for known SNPs in sequence reads from file: [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - /local/workdir/rp444/./fastq/fastq4/C14VRACXX_3_fastq.gz Enzyme: ApeKI CTCC I011807:C14VRACXX:3:250099271 TTCTC I070337:C14VRACXX:3:250099272 GCTTA I070374:C14VRACXX:3:250099273 AACGCCT I010034:C14VRACXX:3:250099274 AGGC I070045:C14VRACXX:3:250099275 TCGTT I070134:C14VRACXX:3:250099276 TGGCTA I100685:C14VRACXX:3:250099277 TGCTGGA I101739:C14VRACXX:3:250099278 TGCA I070126:C14VRACXX:3:250099279 AGCCC I020452:C14VRACXX:3:250099280 CTTCCA I010046:C14VRACXX:3:250099281 AATATGC I020431:C14VRACXX:3:250099282 GATC I070048:C14VRACXX:3:250099283 ACCTAA I070258:C14VRACXX:3:250099284 ACGTGTT I071393:C14VRACXX:3:250099285 AACCGAGA I070593:C14VRACXX:3:250099286 ACTA I011206:C14VRACXX:3:250099287 GTATT I083849:C14VRACXX:3:250099288 GAGATA I083580:C14VRACXX:3:250099289 ACGACTAC I083043:C14VRACXX:3:250099290 TCAC I083535:C14VRACXX:3:250099291 ATATGT I082425:C14VRACXX:3:250099292 ATTAATT I083196:C14VRACXX:3:250099293 ACAGGGAA I082432:C14VRACXX:3:250099294 CAGA I083568:C14VRACXX:3:250099295 CTGTA I083774:C14VRACXX:3:250099296 ATGCCT I083718:C14VRACXX:3:250099297 GGTGT I082708:C14VRACXX:3:250099298 AGGAT I011368:C14VRACXX:3:250099299 ATCGTA I083579:C14VRACXX:3:250099300 ATTGGAT I082189:C14VRACXX:3:250099301 ACGTGGTA I082418:C14VRACXX:3:250099302 AACT I083389:C14VRACXX:3:250099303 ACCGT I083724:C14VRACXX:3:250099304 TATTTTT I083739:C14VRACXX:3:250099305 TAGCATGC I082159:C14VRACXX:3:250099306 ATTGA I083565:C14VRACXX:3:250099307 CATCGT I082993:C14VRACXX:3:250099308 CATAAGT I083594:C14VRACXX:3:250099309 CCATGGGT I082032:C14VRACXX:3:250099310 GCGT I082636:C14VRACXX:3:250099311 GTAA I082393:C14VRACXX:3:250099312 CTTGCTT I050998:C14VRACXX:3:250099313 AGTGGA I083426:C14VRACXX:3:250099314 CATCT I100176:C14VRACXX:3:250099315 CGCGGT I101044:C14VRACXX:3:250099316 CGCTGAT I101034:C14VRACXX:3:250099317 CGCGGAGA I100123:C14VRACXX:3:250099318 TGCGA I101115:C14VRACXX:3:250099319 GGTTGT I100871:C14VRACXX:3:250099320 ATGAAAC I101588:C14VRACXX:3:250099321 TAGGCCAT I100947:C14VRACXX:3:250099322 CCTAC I101457:C14VRACXX:3:250099323 CTATTA I100880:C14VRACXX:3:250099324 CGGTAGA I101182:C14VRACXX:3:250099325 CGTGTGGT I101054:C14VRACXX:3:250099326 CGAT I100224:C14VRACXX:3:250099327 CCAGCT I100634:C14VRACXX:3:250099328 AAAAGTT I101064:C14VRACXX:3:250099329 TGCAAGGA I100102:C14VRACXX:3:250099330 GAGGA I100810:C14VRACXX:3:250099331 GCCAGT I101014:C14VRACXX:3:250099332 CTACGGA I101040:C14VRACXX:3:250099333 GCTGTGGA I101618:C14VRACXX:3:250099334 CGCTT I101239:C14VRACXX:3:250099335 TTCAGA I100152:C14VRACXX:3:250099336 GAATTCA I101438:C14VRACXX:3:250099337 TGGTACGT I101043:C14VRACXX:3:250099338 GGAAC I100633:C14VRACXX:3:250099339 GGAAGA I100839:C14VRACXX:3:250099340 GCGGAAT I100042:C14VRACXX:3:250099341 GGATTGGT I101251:C14VRACXX:3:250099342 TCACC I100320:C14VRACXX:3:250099343 TAGGAA I100608:C14VRACXX:3:250099344 GAACTTC I100056:C14VRACXX:3:250099345 TCTCAGTC I100897:C14VRACXX:3:250099346 GTCAA I101559:C14VRACXX:3:250099347 GTACTT I101803:C14VRACXX:3:250099348 TAGCGGA I101129:C14VRACXX:3:250099349 GTGAGGGT I100791:C14VRACXX:3:250099350 CTAGC I100822:C14VRACXX:3:250099351 GCTCTA I100978:C14VRACXX:3:250099352 GGACCTA I100198:C14VRACXX:3:250099353 CCGGATAT I101695:C14VRACXX:3:250099354 TAATA I101195:C14VRACXX:3:250099355 GTTGAA I101368:C14VRACXX:3:250099356 TCGAAGA I101249:C14VRACXX:3:250099357 TATCGGGA BLANK:C14VRACXX:3:250099358 ACAAA I101079:C14VRACXX:3:250099359 CCACAA I100761:C14VRACXX:3:250099360 GTCGATT I101199:C14VRACXX:3:250099361 CGCCTTAT I100354:C14VRACXX:3:250099362 TACAT I101615:C14VRACXX:3:250099363 TAACGA I100001:C14VRACXX:3:250099364 TCTGTGA I101161:C14VRACXX:3:250099365 TTCCTGGA I101075:C14VRACXX:3:250099366 Total barcodes found in lane:96 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Working on GBS raw sequence file: /local/workdir/rp444/./fastq/fastq4/C14VRACXX_3_fastq.gz This file is assumed to be in fastq format Total barcodes found in key file for this lane:96 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:0 goodBarcodedReads:0 goodMatchedToTOPM:0 cumulReadSequenceTime: 0.0 sec cumulProcessSequenceTime: 0.0 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:1000000 goodBarcodedReads:932829 goodMatchedToTOPM:890947 cumulReadSequenceTime: 6.94206061 sec cumulProcessSequenceTime: 2.727847953 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:2000000 goodBarcodedReads:1867200 goodMatchedToTOPM:1782757 cumulReadSequenceTime: 13.498032427 sec cumulProcessSequenceTime: 5.531452401 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:3000000 goodBarcodedReads:2800519 goodMatchedToTOPM:2672017 cumulReadSequenceTime: 20.166249674 sec cumulProcessSequenceTime: 8.35629157 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:4000000 goodBarcodedReads:3738554 goodMatchedToTOPM:3566884 cumulReadSequenceTime: 26.612586105 sec cumulProcessSequenceTime: 11.099086916 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:5000000 goodBarcodedReads:4676494 goodMatchedToTOPM:4462152 cumulReadSequenceTime: 33.042927482 sec cumulProcessSequenceTime: 13.846954467 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:6000000 goodBarcodedReads:5616068 goodMatchedToTOPM:5354727 cumulReadSequenceTime: 39.869951909 sec cumulProcessSequenceTime: 16.556004323 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:7000000 goodBarcodedReads:6561984 goodMatchedToTOPM:6259738 cumulReadSequenceTime: 46.713877632 sec cumulProcessSequenceTime: 19.465275132 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:8000000 goodBarcodedReads:7511489 goodMatchedToTOPM:7161524 cumulReadSequenceTime: 53.358332349 sec cumulProcessSequenceTime: 22.289027097 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:9000000 goodBarcodedReads:8459085 goodMatchedToTOPM:8060515 cumulReadSequenceTime: 60.263552635 sec cumulProcessSequenceTime: 25.159609997 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:10000000 goodBarcodedReads:9412371 goodMatchedToTOPM:8966160 cumulReadSequenceTime: 66.764838435 sec cumulProcessSequenceTime: 27.902475717 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:11000000 goodBarcodedReads:10365508 goodMatchedToTOPM:9870036 cumulReadSequenceTime: 73.238932572 sec cumulProcessSequenceTime: 30.629456871 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:12000000 goodBarcodedReads:11317702 goodMatchedToTOPM:10772616 cumulReadSequenceTime: 79.838701712 sec cumulProcessSequenceTime: 33.414513397 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:13000000 goodBarcodedReads:12265352 goodMatchedToTOPM:11670735 cumulReadSequenceTime: 86.336779296 sec cumulProcessSequenceTime: 36.163723328 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:14000000 goodBarcodedReads:13216945 goodMatchedToTOPM:12574046 cumulReadSequenceTime: 92.883025812 sec cumulProcessSequenceTime: 38.916785147 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:15000000 goodBarcodedReads:14167769 goodMatchedToTOPM:13472214 cumulReadSequenceTime: 99.459128981 sec cumulProcessSequenceTime: 41.764694295 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:16000000 goodBarcodedReads:15117579 goodMatchedToTOPM:14371860 cumulReadSequenceTime: 106.0412898 sec cumulProcessSequenceTime: 44.601971438 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:17000000 goodBarcodedReads:16062398 goodMatchedToTOPM:15265075 cumulReadSequenceTime: 113.167190374 sec cumulProcessSequenceTime: 47.409141471 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:18000000 goodBarcodedReads:17011280 goodMatchedToTOPM:16161226 cumulReadSequenceTime: 120.518563869 sec cumulProcessSequenceTime: 50.168994868 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:19000000 goodBarcodedReads:17959893 goodMatchedToTOPM:17057555 cumulReadSequenceTime: 127.770641484 sec cumulProcessSequenceTime: 53.23856501 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:20000000 goodBarcodedReads:18908139 goodMatchedToTOPM:17951643 cumulReadSequenceTime: 135.334376686 sec cumulProcessSequenceTime: 56.258056875 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:21000000 goodBarcodedReads:19856054 goodMatchedToTOPM:18845586 cumulReadSequenceTime: 142.540059886 sec cumulProcessSequenceTime: 59.114106421 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:22000000 goodBarcodedReads:20798705 goodMatchedToTOPM:19731052 cumulReadSequenceTime: 149.707579056 sec cumulProcessSequenceTime: 61.913559911 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:23000000 goodBarcodedReads:21744045 goodMatchedToTOPM:20616509 cumulReadSequenceTime: 157.254483586 sec cumulProcessSequenceTime: 64.75608674 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:24000000 goodBarcodedReads:22687971 goodMatchedToTOPM:21499187 cumulReadSequenceTime: 164.439058212 sec cumulProcessSequenceTime: 67.590483515 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:25000000 goodBarcodedReads:23631417 goodMatchedToTOPM:22378786 cumulReadSequenceTime: 171.560136158 sec cumulProcessSequenceTime: 70.343669488 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:26000000 goodBarcodedReads:24572050 goodMatchedToTOPM:23254587 cumulReadSequenceTime: 179.215562282 sec cumulProcessSequenceTime: 73.122211121 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:27000000 goodBarcodedReads:25508683 goodMatchedToTOPM:24122160 cumulReadSequenceTime: 186.509886699 sec cumulProcessSequenceTime: 76.001006432 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:28000000 goodBarcodedReads:26447193 goodMatchedToTOPM:24868628 cumulReadSequenceTime: 193.921239935 sec cumulProcessSequenceTime: 78.634194274 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:29000000 goodBarcodedReads:27373918 goodMatchedToTOPM:25524233 cumulReadSequenceTime: 200.899970967 sec cumulProcessSequenceTime: 80.918796955 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:30000000 goodBarcodedReads:28298581 goodMatchedToTOPM:26264687 cumulReadSequenceTime: 207.96528708 sec cumulProcessSequenceTime: 83.457669722 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:31000000 goodBarcodedReads:29224092 goodMatchedToTOPM:27024230 cumulReadSequenceTime: 215.133442032 sec cumulProcessSequenceTime: 86.15521677 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:32000000 goodBarcodedReads:30156970 goodMatchedToTOPM:27878233 cumulReadSequenceTime: 222.309368899 sec cumulProcessSequenceTime: 89.080673407 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:33000000 goodBarcodedReads:31114198 goodMatchedToTOPM:28801812 cumulReadSequenceTime: 230.353158863 sec cumulProcessSequenceTime: 92.604051311 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:34000000 goodBarcodedReads:32071590 goodMatchedToTOPM:29725143 cumulReadSequenceTime: 237.603450224 sec cumulProcessSequenceTime: 95.606041024 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:35000000 goodBarcodedReads:33026655 goodMatchedToTOPM:30643291 cumulReadSequenceTime: 245.179741325 sec cumulProcessSequenceTime: 98.658424856 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:36000000 goodBarcodedReads:33984678 goodMatchedToTOPM:31565628 cumulReadSequenceTime: 252.241063471 sec cumulProcessSequenceTime: 101.600116536 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:37000000 goodBarcodedReads:34942054 goodMatchedToTOPM:32485892 cumulReadSequenceTime: 259.345178278 sec cumulProcessSequenceTime: 104.493238473 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:38000000 goodBarcodedReads:35895094 goodMatchedToTOPM:33400006 cumulReadSequenceTime: 266.438219126 sec cumulProcessSequenceTime: 107.353087545 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:39000000 goodBarcodedReads:36854046 goodMatchedToTOPM:34325066 cumulReadSequenceTime: 273.430487596 sec cumulProcessSequenceTime: 110.212094642 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:40000000 goodBarcodedReads:37810849 goodMatchedToTOPM:35241014 cumulReadSequenceTime: 280.615994687 sec cumulProcessSequenceTime: 113.142506199 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:41000000 goodBarcodedReads:38764379 goodMatchedToTOPM:36152183 cumulReadSequenceTime: 287.713504683 sec cumulProcessSequenceTime: 116.076848768 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:42000000 goodBarcodedReads:39721327 goodMatchedToTOPM:37066831 cumulReadSequenceTime: 294.868930964 sec cumulProcessSequenceTime: 118.964601631 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:43000000 goodBarcodedReads:40677735 goodMatchedToTOPM:37979251 cumulReadSequenceTime: 301.94692335 sec cumulProcessSequenceTime: 121.84723938 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:44000000 goodBarcodedReads:41633635 goodMatchedToTOPM:38889554 cumulReadSequenceTime: 308.986934174 sec cumulProcessSequenceTime: 124.721213743 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:45000000 goodBarcodedReads:42585485 goodMatchedToTOPM:39795828 cumulReadSequenceTime: 316.110278887 sec cumulProcessSequenceTime: 127.598091964 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:46000000 goodBarcodedReads:43540913 goodMatchedToTOPM:40705740 cumulReadSequenceTime: 323.345073661 sec cumulProcessSequenceTime: 130.490678695 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:47000000 goodBarcodedReads:44495187 goodMatchedToTOPM:41613107 cumulReadSequenceTime: 330.521186504 sec cumulProcessSequenceTime: 133.318017431 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:48000000 goodBarcodedReads:45449371 goodMatchedToTOPM:42520935 cumulReadSequenceTime: 337.713946177 sec cumulProcessSequenceTime: 136.180464568 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:49000000 goodBarcodedReads:46399806 goodMatchedToTOPM:43422216 cumulReadSequenceTime: 344.836716496 sec cumulProcessSequenceTime: 138.959169288 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:50000000 goodBarcodedReads:47352290 goodMatchedToTOPM:44325148 cumulReadSequenceTime: 352.083761379 sec cumulProcessSequenceTime: 141.802895239 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:51000000 goodBarcodedReads:48304675 goodMatchedToTOPM:45226960 cumulReadSequenceTime: 359.429596377 sec cumulProcessSequenceTime: 144.723988962 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:52000000 goodBarcodedReads:49255835 goodMatchedToTOPM:46127136 cumulReadSequenceTime: 366.861155861 sec cumulProcessSequenceTime: 147.628425794 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:53000000 goodBarcodedReads:50203775 goodMatchedToTOPM:47021703 cumulReadSequenceTime: 374.011448898 sec cumulProcessSequenceTime: 150.445543861 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:54000000 goodBarcodedReads:51154372 goodMatchedToTOPM:47919112 cumulReadSequenceTime: 381.236285501 sec cumulProcessSequenceTime: 153.328794343 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:55000000 goodBarcodedReads:52104061 goodMatchedToTOPM:48812264 cumulReadSequenceTime: 389.07592078 sec cumulProcessSequenceTime: 156.322208841 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:56000000 goodBarcodedReads:53051912 goodMatchedToTOPM:49696196 cumulReadSequenceTime: 396.087199173 sec cumulProcessSequenceTime: 159.331205766 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:57000000 goodBarcodedReads:53999652 goodMatchedToTOPM:50577694 cumulReadSequenceTime: 403.348132419 sec cumulProcessSequenceTime: 162.384661679 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:58000000 goodBarcodedReads:54941954 goodMatchedToTOPM:51455995 cumulReadSequenceTime: 410.524184648 sec cumulProcessSequenceTime: 165.448770357 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:59000000 goodBarcodedReads:55885201 goodMatchedToTOPM:52188587 cumulReadSequenceTime: 417.575491723 sec cumulProcessSequenceTime: 168.032985805 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:60000000 goodBarcodedReads:56827634 goodMatchedToTOPM:52883958 cumulReadSequenceTime: 424.570792234 sec cumulProcessSequenceTime: 170.441398468 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:61000000 goodBarcodedReads:57739436 goodMatchedToTOPM:53608345 cumulReadSequenceTime: 431.634272471 sec cumulProcessSequenceTime: 172.979730038 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:62000000 goodBarcodedReads:58670675 goodMatchedToTOPM:54298789 cumulReadSequenceTime: 438.640388874 sec cumulProcessSequenceTime: 175.376725309 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:63000000 goodBarcodedReads:59604323 goodMatchedToTOPM:54780154 cumulReadSequenceTime: 445.601807144 sec cumulProcessSequenceTime: 177.03378946 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:64000000 goodBarcodedReads:60562249 goodMatchedToTOPM:55704234 cumulReadSequenceTime: 453.06097938 sec cumulProcessSequenceTime: 180.210411979 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:65000000 goodBarcodedReads:61519917 goodMatchedToTOPM:56628389 cumulReadSequenceTime: 460.2060791 sec cumulProcessSequenceTime: 183.210354803 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:66000000 goodBarcodedReads:62475220 goodMatchedToTOPM:57548522 cumulReadSequenceTime: 467.803482916 sec cumulProcessSequenceTime: 186.341871221 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:67000000 goodBarcodedReads:63433509 goodMatchedToTOPM:58471738 cumulReadSequenceTime: 475.418707647 sec cumulProcessSequenceTime: 189.457488508 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:68000000 goodBarcodedReads:64390772 goodMatchedToTOPM:59394322 cumulReadSequenceTime: 482.893513882 sec cumulProcessSequenceTime: 192.503789944 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:69000000 goodBarcodedReads:65345819 goodMatchedToTOPM:60312155 cumulReadSequenceTime: 492.570559044 sec cumulProcessSequenceTime: 196.911290258 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:70000000 goodBarcodedReads:66304593 goodMatchedToTOPM:61235565 cumulReadSequenceTime: 500.103368244 sec cumulProcessSequenceTime: 200.010463136 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:71000000 goodBarcodedReads:67261995 goodMatchedToTOPM:62154444 cumulReadSequenceTime: 507.291621495 sec cumulProcessSequenceTime: 202.941549745 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:72000000 goodBarcodedReads:68219428 goodMatchedToTOPM:63073620 cumulReadSequenceTime: 514.526730123 sec cumulProcessSequenceTime: 205.894764077 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:73000000 goodBarcodedReads:69173571 goodMatchedToTOPM:63986897 cumulReadSequenceTime: 521.607246979 sec cumulProcessSequenceTime: 208.780358801 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:74000000 goodBarcodedReads:70130843 goodMatchedToTOPM:64903446 cumulReadSequenceTime: 528.729990355 sec cumulProcessSequenceTime: 211.645127435 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:75000000 goodBarcodedReads:71087630 goodMatchedToTOPM:65818426 cumulReadSequenceTime: 535.895297978 sec cumulProcessSequenceTime: 214.560142585 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:76000000 goodBarcodedReads:72044342 goodMatchedToTOPM:66732765 cumulReadSequenceTime: 543.086721239 sec cumulProcessSequenceTime: 217.482354094 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:77000000 goodBarcodedReads:72996194 goodMatchedToTOPM:67639511 cumulReadSequenceTime: 550.297921361 sec cumulProcessSequenceTime: 220.39483794 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:78000000 goodBarcodedReads:73951389 goodMatchedToTOPM:68546804 cumulReadSequenceTime: 557.613606916 sec cumulProcessSequenceTime: 223.330596997 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:79000000 goodBarcodedReads:74904193 goodMatchedToTOPM:69449618 cumulReadSequenceTime: 564.914859181 sec cumulProcessSequenceTime: 226.367176778 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:80000000 goodBarcodedReads:75856927 goodMatchedToTOPM:70352393 cumulReadSequenceTime: 572.076245707 sec cumulProcessSequenceTime: 229.490388395 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:81000000 goodBarcodedReads:76803411 goodMatchedToTOPM:71245883 cumulReadSequenceTime: 579.119460766 sec cumulProcessSequenceTime: 232.592577933 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:82000000 goodBarcodedReads:77753355 goodMatchedToTOPM:72140967 cumulReadSequenceTime: 586.161924844 sec cumulProcessSequenceTime: 235.675079011 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:83000000 goodBarcodedReads:78699663 goodMatchedToTOPM:73031415 cumulReadSequenceTime: 593.231951251 sec cumulProcessSequenceTime: 238.700469845 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:84000000 goodBarcodedReads:79645158 goodMatchedToTOPM:73918292 cumulReadSequenceTime: 600.187834188 sec cumulProcessSequenceTime: 241.662824422 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:85000000 goodBarcodedReads:80586357 goodMatchedToTOPM:74801545 cumulReadSequenceTime: 607.194125825 sec cumulProcessSequenceTime: 244.681377728 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:86000000 goodBarcodedReads:81526744 goodMatchedToTOPM:75678346 cumulReadSequenceTime: 614.257847983 sec cumulProcessSequenceTime: 247.690978504 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:87000000 goodBarcodedReads:82463936 goodMatchedToTOPM:76547335 cumulReadSequenceTime: 621.31413804 sec cumulProcessSequenceTime: 250.431397884 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:88000000 goodBarcodedReads:83401433 goodMatchedToTOPM:77414853 cumulReadSequenceTime: 628.448832332 sec cumulProcessSequenceTime: 253.263979758 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:89000000 goodBarcodedReads:84335609 goodMatchedToTOPM:78283652 cumulReadSequenceTime: 635.528445164 sec cumulProcessSequenceTime: 256.075666285 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:90000000 goodBarcodedReads:85270242 goodMatchedToTOPM:79088993 cumulReadSequenceTime: 642.567270425 sec cumulProcessSequenceTime: 258.67042734 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:91000000 goodBarcodedReads:86204029 goodMatchedToTOPM:79806915 cumulReadSequenceTime: 649.609008071 sec cumulProcessSequenceTime: 261.002181507 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:92000000 goodBarcodedReads:87133655 goodMatchedToTOPM:80525818 cumulReadSequenceTime: 656.520870896 sec cumulProcessSequenceTime: 263.312789315 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:93000000 goodBarcodedReads:88058316 goodMatchedToTOPM:81190121 cumulReadSequenceTime: 663.447800697 sec cumulProcessSequenceTime: 265.456594288 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:94000000 goodBarcodedReads:88892152 goodMatchedToTOPM:81948263 cumulReadSequenceTime: 670.080880151 sec cumulProcessSequenceTime: 267.848776437 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:95000000 goodBarcodedReads:89833375 goodMatchedToTOPM:82835705 cumulReadSequenceTime: 677.159252288 sec cumulProcessSequenceTime: 270.671866813 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:96000000 goodBarcodedReads:90772729 goodMatchedToTOPM:83699079 cumulReadSequenceTime: 684.304651282 sec cumulProcessSequenceTime: 273.535107057 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:97000000 goodBarcodedReads:91716277 goodMatchedToTOPM:84444963 cumulReadSequenceTime: 691.48067398 sec cumulProcessSequenceTime: 275.862834709 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:98000000 goodBarcodedReads:92660587 goodMatchedToTOPM:85282503 cumulReadSequenceTime: 698.713667852 sec cumulProcessSequenceTime: 278.601539568 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:99000000 goodBarcodedReads:93547451 goodMatchedToTOPM:86118441 cumulReadSequenceTime: 705.616209886 sec cumulProcessSequenceTime: 281.27190232 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:100000000 goodBarcodedReads:94365069 goodMatchedToTOPM:86838734 cumulReadSequenceTime: 712.281907676 sec cumulProcessSequenceTime: 283.54043182 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:101000000 goodBarcodedReads:95306965 goodMatchedToTOPM:87494748 cumulReadSequenceTime: 719.551806542 sec cumulProcessSequenceTime: 285.656995054 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:102000000 goodBarcodedReads:96250631 goodMatchedToTOPM:88312922 cumulReadSequenceTime: 726.959863452 sec cumulProcessSequenceTime: 288.353963215 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:103000000 goodBarcodedReads:97189926 goodMatchedToTOPM:89179157 cumulReadSequenceTime: 734.145769656 sec cumulProcessSequenceTime: 291.176154915 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:104000000 goodBarcodedReads:98137483 goodMatchedToTOPM:90004426 cumulReadSequenceTime: 741.333962698 sec cumulProcessSequenceTime: 293.822350197 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:105000000 goodBarcodedReads:98782552 goodMatchedToTOPM:90599729 cumulReadSequenceTime: 747.556378326 sec cumulProcessSequenceTime: 295.756344985 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:106000000 goodBarcodedReads:99500843 goodMatchedToTOPM:91238254 cumulReadSequenceTime: 754.111208761 sec cumulProcessSequenceTime: 297.86315075 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:107000000 goodBarcodedReads:100317334 goodMatchedToTOPM:92004271 cumulReadSequenceTime: 761.091151684 sec cumulProcessSequenceTime: 300.431287163 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:108000000 goodBarcodedReads:101268542 goodMatchedToTOPM:92898605 cumulReadSequenceTime: 768.269272854 sec cumulProcessSequenceTime: 303.255737804 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:109000000 goodBarcodedReads:102204693 goodMatchedToTOPM:93779801 cumulReadSequenceTime: 775.591908999 sec cumulProcessSequenceTime: 306.100976924 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:110000000 goodBarcodedReads:103156560 goodMatchedToTOPM:94676488 cumulReadSequenceTime: 783.118722755 sec cumulProcessSequenceTime: 309.046545111 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:111000000 goodBarcodedReads:104104556 goodMatchedToTOPM:95568794 cumulReadSequenceTime: 790.255189544 sec cumulProcessSequenceTime: 311.855019817 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:112000000 goodBarcodedReads:105055826 goodMatchedToTOPM:96464181 cumulReadSequenceTime: 797.519571378 sec cumulProcessSequenceTime: 314.702924101 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:113000000 goodBarcodedReads:106006627 goodMatchedToTOPM:97357037 cumulReadSequenceTime: 804.898415452 sec cumulProcessSequenceTime: 317.60765681 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:114000000 goodBarcodedReads:106935360 goodMatchedToTOPM:98230842 cumulReadSequenceTime: 812.150844905 sec cumulProcessSequenceTime: 320.377112041 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:115000000 goodBarcodedReads:107880633 goodMatchedToTOPM:99115636 cumulReadSequenceTime: 819.269809683 sec cumulProcessSequenceTime: 323.140418651 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:116000000 goodBarcodedReads:108829950 goodMatchedToTOPM:100004227 cumulReadSequenceTime: 826.618913764 sec cumulProcessSequenceTime: 326.058873548 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:117000000 goodBarcodedReads:109776103 goodMatchedToTOPM:100883695 cumulReadSequenceTime: 833.790004173 sec cumulProcessSequenceTime: 328.824495677 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:118000000 goodBarcodedReads:110722996 goodMatchedToTOPM:101715881 cumulReadSequenceTime: 840.982806948 sec cumulProcessSequenceTime: 331.525285328 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:119000000 goodBarcodedReads:111669240 goodMatchedToTOPM:102526991 cumulReadSequenceTime: 851.767564764 sec cumulProcessSequenceTime: 335.984997683 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:120000000 goodBarcodedReads:112584099 goodMatchedToTOPM:103374212 cumulReadSequenceTime: 858.867715651 sec cumulProcessSequenceTime: 338.675542394 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:121000000 goodBarcodedReads:113526395 goodMatchedToTOPM:104207650 cumulReadSequenceTime: 866.148442314 sec cumulProcessSequenceTime: 341.345476712 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:122000000 goodBarcodedReads:114463105 goodMatchedToTOPM:105016475 cumulReadSequenceTime: 873.376305692 sec cumulProcessSequenceTime: 344.023299395 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:123000000 goodBarcodedReads:115394405 goodMatchedToTOPM:105805179 cumulReadSequenceTime: 880.510585389 sec cumulProcessSequenceTime: 346.757360344 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:124000000 goodBarcodedReads:116325252 goodMatchedToTOPM:106580824 cumulReadSequenceTime: 887.854803511 sec cumulProcessSequenceTime: 349.392104553 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:125000000 goodBarcodedReads:117186165 goodMatchedToTOPM:107267343 cumulReadSequenceTime: 896.487857213 sec cumulProcessSequenceTime: 352.490288043 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:126000000 goodBarcodedReads:117916042 goodMatchedToTOPM:107964971 cumulReadSequenceTime: 904.302235501 sec cumulProcessSequenceTime: 355.468898493 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:127000000 goodBarcodedReads:118873435 goodMatchedToTOPM:108885467 cumulReadSequenceTime: 911.698784191 sec cumulProcessSequenceTime: 358.855478112 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:128000000 goodBarcodedReads:119828172 goodMatchedToTOPM:109699341 cumulReadSequenceTime: 919.150937866 sec cumulProcessSequenceTime: 361.866349414 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:129000000 goodBarcodedReads:120785662 goodMatchedToTOPM:110527623 cumulReadSequenceTime: 926.323399958 sec cumulProcessSequenceTime: 364.7951082 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:130000000 goodBarcodedReads:121743582 goodMatchedToTOPM:111397274 cumulReadSequenceTime: 933.511127455 sec cumulProcessSequenceTime: 367.794999963 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:131000000 goodBarcodedReads:122646311 goodMatchedToTOPM:112259269 cumulReadSequenceTime: 941.538286855 sec cumulProcessSequenceTime: 371.043699211 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:132000000 goodBarcodedReads:123568629 goodMatchedToTOPM:113017328 cumulReadSequenceTime: 948.826266061 sec cumulProcessSequenceTime: 373.57628203 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:133000000 goodBarcodedReads:124525403 goodMatchedToTOPM:113758978 cumulReadSequenceTime: 956.342009945 sec cumulProcessSequenceTime: 376.021372094 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:134000000 goodBarcodedReads:125482543 goodMatchedToTOPM:114653552 cumulReadSequenceTime: 963.546384682 sec cumulProcessSequenceTime: 378.890205575 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:135000000 goodBarcodedReads:126435332 goodMatchedToTOPM:115543313 cumulReadSequenceTime: 970.912751448 sec cumulProcessSequenceTime: 381.698444222 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:136000000 goodBarcodedReads:127349489 goodMatchedToTOPM:116381951 cumulReadSequenceTime: 978.116764741 sec cumulProcessSequenceTime: 384.531927835 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:137000000 goodBarcodedReads:128050827 goodMatchedToTOPM:117025608 cumulReadSequenceTime: 985.000125666 sec cumulProcessSequenceTime: 386.829968891 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:138000000 goodBarcodedReads:128951940 goodMatchedToTOPM:117878567 cumulReadSequenceTime: 992.181710868 sec cumulProcessSequenceTime: 389.68852756 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:139000000 goodBarcodedReads:129906153 goodMatchedToTOPM:118780931 cumulReadSequenceTime: 1000.020631421 sec cumulProcessSequenceTime: 392.983533808 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:140000000 goodBarcodedReads:130855941 goodMatchedToTOPM:119673809 cumulReadSequenceTime: 1007.831830338 sec cumulProcessSequenceTime: 396.136978728 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:141000000 goodBarcodedReads:131811063 goodMatchedToTOPM:120578539 cumulReadSequenceTime: 1015.139455516 sec cumulProcessSequenceTime: 399.024705559 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:142000000 goodBarcodedReads:132762261 goodMatchedToTOPM:121474951 cumulReadSequenceTime: 1022.47035098 sec cumulProcessSequenceTime: 401.935078719 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:143000000 goodBarcodedReads:133716799 goodMatchedToTOPM:122377404 cumulReadSequenceTime: 1029.579672512 sec cumulProcessSequenceTime: 404.855345765 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:144000000 goodBarcodedReads:134670572 goodMatchedToTOPM:123276278 cumulReadSequenceTime: 1036.831634019 sec cumulProcessSequenceTime: 407.928218059 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:145000000 goodBarcodedReads:135623273 goodMatchedToTOPM:124171469 cumulReadSequenceTime: 1044.089045925 sec cumulProcessSequenceTime: 411.020347514 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:146000000 goodBarcodedReads:136576338 goodMatchedToTOPM:125068714 cumulReadSequenceTime: 1051.110018189 sec cumulProcessSequenceTime: 414.007235151 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:147000000 goodBarcodedReads:137524192 goodMatchedToTOPM:125957730 cumulReadSequenceTime: 1058.138016734 sec cumulProcessSequenceTime: 416.966484632 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:148000000 goodBarcodedReads:138460114 goodMatchedToTOPM:126833079 cumulReadSequenceTime: 1065.201646934 sec cumulProcessSequenceTime: 419.90942648 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:149000000 goodBarcodedReads:139409447 goodMatchedToTOPM:127716908 cumulReadSequenceTime: 1072.47418824 sec cumulProcessSequenceTime: 422.931583261 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:150000000 goodBarcodedReads:140358586 goodMatchedToTOPM:128525548 cumulReadSequenceTime: 1079.877633765 sec cumulProcessSequenceTime: 425.733452221 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:151000000 goodBarcodedReads:141303075 goodMatchedToTOPM:129398644 cumulReadSequenceTime: 1087.203613206 sec cumulProcessSequenceTime: 428.810955825 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:152000000 goodBarcodedReads:142249497 goodMatchedToTOPM:130209237 cumulReadSequenceTime: 1094.512964142 sec cumulProcessSequenceTime: 431.61796317 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:153000000 goodBarcodedReads:143191509 goodMatchedToTOPM:130965150 cumulReadSequenceTime: 1101.734153462 sec cumulProcessSequenceTime: 434.167710982 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:154000000 goodBarcodedReads:144126435 goodMatchedToTOPM:131665005 cumulReadSequenceTime: 1108.843388044 sec cumulProcessSequenceTime: 436.626145677 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:155000000 goodBarcodedReads:145059871 goodMatchedToTOPM:132292986 cumulReadSequenceTime: 1115.780406002 sec cumulProcessSequenceTime: 438.839971628 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:156000000 goodBarcodedReads:145983543 goodMatchedToTOPM:132615205 cumulReadSequenceTime: 1122.47023591 sec cumulProcessSequenceTime: 439.986678921 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:157000000 goodBarcodedReads:146928679 goodMatchedToTOPM:133524465 cumulReadSequenceTime: 1129.499387247 sec cumulProcessSequenceTime: 443.089088977 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:158000000 goodBarcodedReads:147885882 goodMatchedToTOPM:134444834 cumulReadSequenceTime: 1136.565626407 sec cumulProcessSequenceTime: 446.229716295 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:159000000 goodBarcodedReads:148840052 goodMatchedToTOPM:135360765 cumulReadSequenceTime: 1144.113202903 sec cumulProcessSequenceTime: 449.535789669 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:160000000 goodBarcodedReads:149797912 goodMatchedToTOPM:136280403 cumulReadSequenceTime: 1151.27327612 sec cumulProcessSequenceTime: 452.57857749 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:161000000 goodBarcodedReads:150755832 goodMatchedToTOPM:137200678 cumulReadSequenceTime: 1158.38962682 sec cumulProcessSequenceTime: 455.47880545 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:162000000 goodBarcodedReads:151714070 goodMatchedToTOPM:138119169 cumulReadSequenceTime: 1166.132267023 sec cumulProcessSequenceTime: 458.621389678 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:163000000 goodBarcodedReads:152668961 goodMatchedToTOPM:139031830 cumulReadSequenceTime: 1173.245121398 sec cumulProcessSequenceTime: 461.682306963 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:164000000 goodBarcodedReads:153625684 goodMatchedToTOPM:139945678 cumulReadSequenceTime: 1180.453968998 sec cumulProcessSequenceTime: 464.72628427 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:165000000 goodBarcodedReads:154582206 goodMatchedToTOPM:140858530 cumulReadSequenceTime: 1187.698014513 sec cumulProcessSequenceTime: 467.578921387 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:166000000 goodBarcodedReads:155534505 goodMatchedToTOPM:141763140 cumulReadSequenceTime: 1195.056922773 sec cumulProcessSequenceTime: 470.755452219 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:167000000 goodBarcodedReads:156490653 goodMatchedToTOPM:142670720 cumulReadSequenceTime: 1202.403985671 sec cumulProcessSequenceTime: 473.981245892 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:168000000 goodBarcodedReads:157445563 goodMatchedToTOPM:143575685 cumulReadSequenceTime: 1209.842293475 sec cumulProcessSequenceTime: 477.082635664 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:169000000 goodBarcodedReads:158399554 goodMatchedToTOPM:144476174 cumulReadSequenceTime: 1217.549709003 sec cumulProcessSequenceTime: 480.46635702 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:170000000 goodBarcodedReads:159348255 goodMatchedToTOPM:145369518 cumulReadSequenceTime: 1224.586805465 sec cumulProcessSequenceTime: 483.502187389 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:171000000 goodBarcodedReads:160280324 goodMatchedToTOPM:146245833 cumulReadSequenceTime: 1231.592388149 sec cumulProcessSequenceTime: 486.481143771 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:172000000 goodBarcodedReads:161227134 goodMatchedToTOPM:147125425 cumulReadSequenceTime: 1238.778595966 sec cumulProcessSequenceTime: 489.517325791 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:173000000 goodBarcodedReads:162149855 goodMatchedToTOPM:147983411 cumulReadSequenceTime: 1245.758761439 sec cumulProcessSequenceTime: 492.503525687 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:174000000 goodBarcodedReads:163090178 goodMatchedToTOPM:148835858 cumulReadSequenceTime: 1253.331792385 sec cumulProcessSequenceTime: 495.648392821 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:175000000 goodBarcodedReads:164011646 goodMatchedToTOPM:149686626 cumulReadSequenceTime: 1260.439512831 sec cumulProcessSequenceTime: 498.554834212 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:176000000 goodBarcodedReads:164949458 goodMatchedToTOPM:150552157 cumulReadSequenceTime: 1267.446324592 sec cumulProcessSequenceTime: 501.48496726 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:177000000 goodBarcodedReads:165874640 goodMatchedToTOPM:151393461 cumulReadSequenceTime: 1274.368464929 sec cumulProcessSequenceTime: 504.345760691 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:178000000 goodBarcodedReads:166790843 goodMatchedToTOPM:152236493 cumulReadSequenceTime: 1281.505468265 sec cumulProcessSequenceTime: 507.304462533 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:179000000 goodBarcodedReads:167689725 goodMatchedToTOPM:153058771 cumulReadSequenceTime: 1288.853992566 sec cumulProcessSequenceTime: 510.054813376 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:180000000 goodBarcodedReads:168607435 goodMatchedToTOPM:153894117 cumulReadSequenceTime: 1295.820733566 sec cumulProcessSequenceTime: 512.353923985 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:181000000 goodBarcodedReads:169536552 goodMatchedToTOPM:154735504 cumulReadSequenceTime: 1302.778265482 sec cumulProcessSequenceTime: 514.650189109 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:182000000 goodBarcodedReads:170458548 goodMatchedToTOPM:155567791 cumulReadSequenceTime: 1309.831954853 sec cumulProcessSequenceTime: 516.933415404 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:183000000 goodBarcodedReads:171384947 goodMatchedToTOPM:156398092 cumulReadSequenceTime: 1316.812169669 sec cumulProcessSequenceTime: 519.217169326 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:184000000 goodBarcodedReads:172298700 goodMatchedToTOPM:157174931 cumulReadSequenceTime: 1323.844465489 sec cumulProcessSequenceTime: 521.381163377 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:185000000 goodBarcodedReads:173203371 goodMatchedToTOPM:157942056 cumulReadSequenceTime: 1330.930644713 sec cumulProcessSequenceTime: 523.524580877 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:186000000 goodBarcodedReads:174118685 goodMatchedToTOPM:158718033 cumulReadSequenceTime: 1337.974295759 sec cumulProcessSequenceTime: 525.690930903 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: readSequenceTime: 1343.773031668 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: processSequenceTime: 527.128992225 sec ProductionSNPCallerPlugin: performFunction: readRawSequencesAndRecordDepth: /local/workdir/rp444/./fastq/fastq4/C14VRACXX_3_fastq.gz: 2047.601959599 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Calling genotypes... [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for BLANK:250099358 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I010034:250099274 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I010046:250099281 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011206:250099287 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011368:250099299 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011807:250099271 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I020431:250099282 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I020452:250099280 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I050998:250099313 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070045:250099275 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070048:250099283 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070126:250099279 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070134:250099276 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070258:250099284 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070337:250099272 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070374:250099273 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070593:250099286 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I071393:250099285 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I082032:250099310 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I082159:250099306 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I082189:250099301 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I082393:250099312 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I082418:250099302 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I082425:250099292 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I082432:250099294 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I082636:250099311 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I082708:250099298 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I082993:250099308 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083043:250099290 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083196:250099293 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083389:250099303 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083426:250099314 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083535:250099291 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083565:250099307 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083568:250099295 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083579:250099300 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083580:250099289 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083594:250099309 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083718:250099297 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083724:250099304 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083739:250099305 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083774:250099296 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I083849:250099288 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100001:250099364 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100042:250099341 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100056:250099345 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100102:250099330 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100123:250099318 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100152:250099336 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100176:250099315 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100198:250099353 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100224:250099327 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100320:250099343 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100354:250099362 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100608:250099344 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100633:250099339 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100634:250099328 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100685:250099277 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100761:250099360 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100791:250099350 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100810:250099331 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100822:250099351 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100839:250099340 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100871:250099320 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100880:250099324 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100897:250099346 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100947:250099322 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I100978:250099352 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101014:250099332 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101034:250099317 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101040:250099333 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101043:250099338 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101044:250099316 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101054:250099326 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101064:250099329 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101075:250099366 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101079:250099359 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101115:250099319 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101129:250099349 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101161:250099365 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101182:250099325 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101195:250099355 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101199:250099361 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101239:250099335 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101249:250099357 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101251:250099342 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101368:250099356 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101438:250099337 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101457:250099323 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101559:250099347 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101588:250099321 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101615:250099363 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101618:250099334 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101695:250099354 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101739:250099278 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I101803:250099348 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished calling genotypes for 96 taxa ProductionSNPCallerPlugin: performFunction: callGenotypes: /local/workdir/rp444/./fastq/fastq4/C14VRACXX_3_fastq.gz: 90.37577322 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of reads in lane=186860712 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads=174899373 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads matched to the TOPM=159236585 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished reading 5 of 7 sequence files: /local/workdir/rp444/./fastq/fastq4/C14VRACXX_3_fastq.gz [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Looking for known SNPs in sequence reads from file: [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - /local/workdir/rp444/./fastq/fastq4/D0KLPACXX_5_fastq.gz Enzyme: ApeKI TGCA 961089a-1:D0KLPACXX:5:250067851 GCTGTGGA 30572-2:D0KLPACXX:5:250067906 GAATTCA TME117-2:D0KLPACXX:5:250067909 TAGGAA 961089A-2:D0KLPACXX:5:250067916 Total barcodes found in lane:4 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Working on GBS raw sequence file: /local/workdir/rp444/./fastq/fastq4/D0KLPACXX_5_fastq.gz This file is assumed to be in fastq format Total barcodes found in key file for this lane:4 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:0 goodBarcodedReads:0 goodMatchedToTOPM:0 cumulReadSequenceTime: 0.0 sec cumulProcessSequenceTime: 0.0 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:1000000 goodBarcodedReads:71232 goodMatchedToTOPM:69666 cumulReadSequenceTime: 4.764925253 sec cumulProcessSequenceTime: 0.446636679 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:2000000 goodBarcodedReads:141822 goodMatchedToTOPM:138680 cumulReadSequenceTime: 8.2966188 sec cumulProcessSequenceTime: 0.797102343 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:3000000 goodBarcodedReads:212613 goodMatchedToTOPM:207847 cumulReadSequenceTime: 11.880350527 sec cumulProcessSequenceTime: 1.140434545 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:4000000 goodBarcodedReads:283411 goodMatchedToTOPM:276975 cumulReadSequenceTime: 15.505740752 sec cumulProcessSequenceTime: 1.438293908 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:5000000 goodBarcodedReads:353903 goodMatchedToTOPM:345795 cumulReadSequenceTime: 19.66358785 sec cumulProcessSequenceTime: 1.739651511 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:6000000 goodBarcodedReads:424405 goodMatchedToTOPM:414694 cumulReadSequenceTime: 24.074706968 sec cumulProcessSequenceTime: 2.032050254 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:7000000 goodBarcodedReads:495221 goodMatchedToTOPM:483889 cumulReadSequenceTime: 28.044678898 sec cumulProcessSequenceTime: 2.316687499 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:8000000 goodBarcodedReads:565674 goodMatchedToTOPM:552646 cumulReadSequenceTime: 31.891872029 sec cumulProcessSequenceTime: 2.594692035 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:9000000 goodBarcodedReads:635575 goodMatchedToTOPM:620865 cumulReadSequenceTime: 36.273100874 sec cumulProcessSequenceTime: 2.873187217 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:10000000 goodBarcodedReads:706170 goodMatchedToTOPM:689779 cumulReadSequenceTime: 40.596059382 sec cumulProcessSequenceTime: 3.159533615 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:11000000 goodBarcodedReads:776712 goodMatchedToTOPM:758521 cumulReadSequenceTime: 44.657013911 sec cumulProcessSequenceTime: 3.446442622 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:12000000 goodBarcodedReads:846513 goodMatchedToTOPM:826505 cumulReadSequenceTime: 48.636484725 sec cumulProcessSequenceTime: 3.726453826 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:13000000 goodBarcodedReads:916750 goodMatchedToTOPM:894911 cumulReadSequenceTime: 52.543063338 sec cumulProcessSequenceTime: 3.998918063 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:14000000 goodBarcodedReads:986899 goodMatchedToTOPM:963217 cumulReadSequenceTime: 56.39529624 sec cumulProcessSequenceTime: 4.268554588 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:15000000 goodBarcodedReads:1057172 goodMatchedToTOPM:1031484 cumulReadSequenceTime: 60.49009281 sec cumulProcessSequenceTime: 4.544513907 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:16000000 goodBarcodedReads:1127755 goodMatchedToTOPM:1099906 cumulReadSequenceTime: 65.488054604 sec cumulProcessSequenceTime: 4.856110371 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:17000000 goodBarcodedReads:1197642 goodMatchedToTOPM:1167805 cumulReadSequenceTime: 69.52494403 sec cumulProcessSequenceTime: 5.149761488 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:18000000 goodBarcodedReads:1267889 goodMatchedToTOPM:1236023 cumulReadSequenceTime: 73.83153031 sec cumulProcessSequenceTime: 5.44652063 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:19000000 goodBarcodedReads:1337687 goodMatchedToTOPM:1303823 cumulReadSequenceTime: 78.332096476 sec cumulProcessSequenceTime: 5.760501862 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:20000000 goodBarcodedReads:1408184 goodMatchedToTOPM:1372019 cumulReadSequenceTime: 82.480563828 sec cumulProcessSequenceTime: 6.046767839 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:21000000 goodBarcodedReads:1478069 goodMatchedToTOPM:1439562 cumulReadSequenceTime: 86.59243906 sec cumulProcessSequenceTime: 6.330103028 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:22000000 goodBarcodedReads:1548767 goodMatchedToTOPM:1507862 cumulReadSequenceTime: 90.562803667 sec cumulProcessSequenceTime: 6.606611406 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:23000000 goodBarcodedReads:1618218 goodMatchedToTOPM:1575119 cumulReadSequenceTime: 94.579965967 sec cumulProcessSequenceTime: 6.880179827 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:24000000 goodBarcodedReads:1688642 goodMatchedToTOPM:1643055 cumulReadSequenceTime: 98.67627934 sec cumulProcessSequenceTime: 7.162268328 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:25000000 goodBarcodedReads:1758533 goodMatchedToTOPM:1711257 cumulReadSequenceTime: 102.903657627 sec cumulProcessSequenceTime: 7.460554316 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:26000000 goodBarcodedReads:1829105 goodMatchedToTOPM:1780300 cumulReadSequenceTime: 107.205087889 sec cumulProcessSequenceTime: 7.783726034 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:27000000 goodBarcodedReads:1899494 goodMatchedToTOPM:1849147 cumulReadSequenceTime: 111.459867659 sec cumulProcessSequenceTime: 8.133115209 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:28000000 goodBarcodedReads:1970289 goodMatchedToTOPM:1918379 cumulReadSequenceTime: 115.465901439 sec cumulProcessSequenceTime: 8.486052017 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:29000000 goodBarcodedReads:2040568 goodMatchedToTOPM:1987055 cumulReadSequenceTime: 119.471177884 sec cumulProcessSequenceTime: 8.834808239 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:30000000 goodBarcodedReads:2111613 goodMatchedToTOPM:2056434 cumulReadSequenceTime: 124.055550368 sec cumulProcessSequenceTime: 9.23732868 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:31000000 goodBarcodedReads:2182202 goodMatchedToTOPM:2125452 cumulReadSequenceTime: 128.454538883 sec cumulProcessSequenceTime: 9.619135185 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:32000000 goodBarcodedReads:2252192 goodMatchedToTOPM:2193829 cumulReadSequenceTime: 132.444443144 sec cumulProcessSequenceTime: 9.967028601 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:33000000 goodBarcodedReads:2323053 goodMatchedToTOPM:2262935 cumulReadSequenceTime: 136.52003752 sec cumulProcessSequenceTime: 10.315507072 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:34000000 goodBarcodedReads:2393742 goodMatchedToTOPM:2331961 cumulReadSequenceTime: 140.661467921 sec cumulProcessSequenceTime: 10.675802249 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:35000000 goodBarcodedReads:2463903 goodMatchedToTOPM:2400414 cumulReadSequenceTime: 144.6866709 sec cumulProcessSequenceTime: 11.017936393 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:36000000 goodBarcodedReads:2533416 goodMatchedToTOPM:2468001 cumulReadSequenceTime: 149.099063684 sec cumulProcessSequenceTime: 11.40286712 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:37000000 goodBarcodedReads:2604294 goodMatchedToTOPM:2537131 cumulReadSequenceTime: 153.085838474 sec cumulProcessSequenceTime: 11.741427418 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:38000000 goodBarcodedReads:2674584 goodMatchedToTOPM:2605653 cumulReadSequenceTime: 157.059034179 sec cumulProcessSequenceTime: 12.078931241 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:39000000 goodBarcodedReads:2744550 goodMatchedToTOPM:2673834 cumulReadSequenceTime: 161.013916915 sec cumulProcessSequenceTime: 12.410602421 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:40000000 goodBarcodedReads:2815418 goodMatchedToTOPM:2742883 cumulReadSequenceTime: 165.046528748 sec cumulProcessSequenceTime: 12.753083627 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:41000000 goodBarcodedReads:2885463 goodMatchedToTOPM:2811204 cumulReadSequenceTime: 169.015929755 sec cumulProcessSequenceTime: 13.095247458 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:42000000 goodBarcodedReads:2956297 goodMatchedToTOPM:2880056 cumulReadSequenceTime: 173.100683361 sec cumulProcessSequenceTime: 13.438946021 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:43000000 goodBarcodedReads:3026421 goodMatchedToTOPM:2948162 cumulReadSequenceTime: 177.133395554 sec cumulProcessSequenceTime: 13.776676103 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:44000000 goodBarcodedReads:3097101 goodMatchedToTOPM:3016787 cumulReadSequenceTime: 181.151922135 sec cumulProcessSequenceTime: 14.11317159 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:45000000 goodBarcodedReads:3166926 goodMatchedToTOPM:3084515 cumulReadSequenceTime: 185.15097316 sec cumulProcessSequenceTime: 14.448243518 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:46000000 goodBarcodedReads:3236710 goodMatchedToTOPM:3152067 cumulReadSequenceTime: 189.16241676 sec cumulProcessSequenceTime: 14.778728594 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:47000000 goodBarcodedReads:3307249 goodMatchedToTOPM:3220274 cumulReadSequenceTime: 193.230233 sec cumulProcessSequenceTime: 15.114611772 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:48000000 goodBarcodedReads:3377896 goodMatchedToTOPM:3288312 cumulReadSequenceTime: 197.412001535 sec cumulProcessSequenceTime: 15.461931462 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:49000000 goodBarcodedReads:3448074 goodMatchedToTOPM:3356898 cumulReadSequenceTime: 201.388246578 sec cumulProcessSequenceTime: 15.808910783 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:50000000 goodBarcodedReads:3518046 goodMatchedToTOPM:3425328 cumulReadSequenceTime: 205.350232602 sec cumulProcessSequenceTime: 16.142725995 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:51000000 goodBarcodedReads:3588712 goodMatchedToTOPM:3494446 cumulReadSequenceTime: 209.276785511 sec cumulProcessSequenceTime: 16.476909862 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:52000000 goodBarcodedReads:3659110 goodMatchedToTOPM:3563277 cumulReadSequenceTime: 213.218076641 sec cumulProcessSequenceTime: 16.804481364 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:53000000 goodBarcodedReads:3729455 goodMatchedToTOPM:3632023 cumulReadSequenceTime: 217.178592012 sec cumulProcessSequenceTime: 17.138611219 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:54000000 goodBarcodedReads:3799373 goodMatchedToTOPM:3700394 cumulReadSequenceTime: 221.14871686 sec cumulProcessSequenceTime: 17.459909131 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:55000000 goodBarcodedReads:3869368 goodMatchedToTOPM:3768823 cumulReadSequenceTime: 225.13446512 sec cumulProcessSequenceTime: 17.781497654 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:56000000 goodBarcodedReads:3940831 goodMatchedToTOPM:3838591 cumulReadSequenceTime: 229.140143303 sec cumulProcessSequenceTime: 18.1106934 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:57000000 goodBarcodedReads:4010874 goodMatchedToTOPM:3907029 cumulReadSequenceTime: 233.12262985 sec cumulProcessSequenceTime: 18.407876832 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:58000000 goodBarcodedReads:4081421 goodMatchedToTOPM:3975856 cumulReadSequenceTime: 237.122324384 sec cumulProcessSequenceTime: 18.730031848 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:59000000 goodBarcodedReads:4151968 goodMatchedToTOPM:4044410 cumulReadSequenceTime: 241.215578962 sec cumulProcessSequenceTime: 19.072314133 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:60000000 goodBarcodedReads:4221993 goodMatchedToTOPM:4112673 cumulReadSequenceTime: 245.311808915 sec cumulProcessSequenceTime: 19.42091758 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:61000000 goodBarcodedReads:4292076 goodMatchedToTOPM:4181097 cumulReadSequenceTime: 249.37533161 sec cumulProcessSequenceTime: 19.743908405 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:62000000 goodBarcodedReads:4362472 goodMatchedToTOPM:4249729 cumulReadSequenceTime: 253.397932181 sec cumulProcessSequenceTime: 20.079802164 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:63000000 goodBarcodedReads:4432476 goodMatchedToTOPM:4317889 cumulReadSequenceTime: 257.457466319 sec cumulProcessSequenceTime: 20.417280389 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:64000000 goodBarcodedReads:4502323 goodMatchedToTOPM:4385811 cumulReadSequenceTime: 261.436172273 sec cumulProcessSequenceTime: 20.753247023 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:65000000 goodBarcodedReads:4572956 goodMatchedToTOPM:4454645 cumulReadSequenceTime: 265.461186176 sec cumulProcessSequenceTime: 21.073769282 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:66000000 goodBarcodedReads:4642777 goodMatchedToTOPM:4522471 cumulReadSequenceTime: 269.49004524 sec cumulProcessSequenceTime: 21.39974856 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:67000000 goodBarcodedReads:4713274 goodMatchedToTOPM:4590798 cumulReadSequenceTime: 273.556581896 sec cumulProcessSequenceTime: 21.731832821 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:68000000 goodBarcodedReads:4783163 goodMatchedToTOPM:4658688 cumulReadSequenceTime: 277.767265739 sec cumulProcessSequenceTime: 22.072662789 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:69000000 goodBarcodedReads:4853556 goodMatchedToTOPM:4726962 cumulReadSequenceTime: 281.801116534 sec cumulProcessSequenceTime: 22.385530659 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:70000000 goodBarcodedReads:4922982 goodMatchedToTOPM:4794145 cumulReadSequenceTime: 285.816879488 sec cumulProcessSequenceTime: 22.700747377 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:71000000 goodBarcodedReads:4993426 goodMatchedToTOPM:4862243 cumulReadSequenceTime: 289.893113771 sec cumulProcessSequenceTime: 23.020867998 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:72000000 goodBarcodedReads:5062810 goodMatchedToTOPM:4929602 cumulReadSequenceTime: 293.858893811 sec cumulProcessSequenceTime: 23.336987871 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:73000000 goodBarcodedReads:5133212 goodMatchedToTOPM:4998434 cumulReadSequenceTime: 297.796190983 sec cumulProcessSequenceTime: 23.656386091 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:74000000 goodBarcodedReads:5203728 goodMatchedToTOPM:5067314 cumulReadSequenceTime: 301.728637632 sec cumulProcessSequenceTime: 23.973780006 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:75000000 goodBarcodedReads:5274330 goodMatchedToTOPM:5136162 cumulReadSequenceTime: 305.668026128 sec cumulProcessSequenceTime: 24.289951163 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:76000000 goodBarcodedReads:5344627 goodMatchedToTOPM:5204824 cumulReadSequenceTime: 309.570653228 sec cumulProcessSequenceTime: 24.604747657 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:77000000 goodBarcodedReads:5415424 goodMatchedToTOPM:5273920 cumulReadSequenceTime: 313.49643349 sec cumulProcessSequenceTime: 24.929609541 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:78000000 goodBarcodedReads:5485522 goodMatchedToTOPM:5341841 cumulReadSequenceTime: 317.514794431 sec cumulProcessSequenceTime: 25.250575244 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:79000000 goodBarcodedReads:5555809 goodMatchedToTOPM:5410397 cumulReadSequenceTime: 321.442005771 sec cumulProcessSequenceTime: 25.569744656 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:80000000 goodBarcodedReads:5625960 goodMatchedToTOPM:5478963 cumulReadSequenceTime: 325.301613356 sec cumulProcessSequenceTime: 25.875956644 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:81000000 goodBarcodedReads:5697237 goodMatchedToTOPM:5548464 cumulReadSequenceTime: 329.28362702 sec cumulProcessSequenceTime: 26.209334086 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:82000000 goodBarcodedReads:5764606 goodMatchedToTOPM:5613641 cumulReadSequenceTime: 333.225020777 sec cumulProcessSequenceTime: 26.511467682 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:83000000 goodBarcodedReads:5834723 goodMatchedToTOPM:5682070 cumulReadSequenceTime: 337.175112275 sec cumulProcessSequenceTime: 26.82447657 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:84000000 goodBarcodedReads:5905673 goodMatchedToTOPM:5749940 cumulReadSequenceTime: 341.128191202 sec cumulProcessSequenceTime: 27.132378765 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:85000000 goodBarcodedReads:5976170 goodMatchedToTOPM:5818033 cumulReadSequenceTime: 345.086871023 sec cumulProcessSequenceTime: 27.441709105 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:86000000 goodBarcodedReads:6041215 goodMatchedToTOPM:5879960 cumulReadSequenceTime: 349.086808654 sec cumulProcessSequenceTime: 27.735329026 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:87000000 goodBarcodedReads:6106906 goodMatchedToTOPM:5942254 cumulReadSequenceTime: 353.140983581 sec cumulProcessSequenceTime: 28.029447882 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:88000000 goodBarcodedReads:6175701 goodMatchedToTOPM:6007291 cumulReadSequenceTime: 357.194182894 sec cumulProcessSequenceTime: 28.348491798 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:89000000 goodBarcodedReads:6244778 goodMatchedToTOPM:6070525 cumulReadSequenceTime: 361.277287657 sec cumulProcessSequenceTime: 28.660423903 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:90000000 goodBarcodedReads:6314695 goodMatchedToTOPM:6138153 cumulReadSequenceTime: 365.314421075 sec cumulProcessSequenceTime: 28.998292328 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:91000000 goodBarcodedReads:6384791 goodMatchedToTOPM:6204518 cumulReadSequenceTime: 369.365776386 sec cumulProcessSequenceTime: 29.316440408 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:92000000 goodBarcodedReads:6451813 goodMatchedToTOPM:6267847 cumulReadSequenceTime: 373.414853744 sec cumulProcessSequenceTime: 29.622076736 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:93000000 goodBarcodedReads:6520088 goodMatchedToTOPM:6331675 cumulReadSequenceTime: 377.473709521 sec cumulProcessSequenceTime: 29.927242046 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:94000000 goodBarcodedReads:6589660 goodMatchedToTOPM:6398818 cumulReadSequenceTime: 381.51757541 sec cumulProcessSequenceTime: 30.249133001 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:95000000 goodBarcodedReads:6658292 goodMatchedToTOPM:6463481 cumulReadSequenceTime: 385.619618467 sec cumulProcessSequenceTime: 30.563152179 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:96000000 goodBarcodedReads:6728714 goodMatchedToTOPM:6532193 cumulReadSequenceTime: 389.615805481 sec cumulProcessSequenceTime: 30.873320193 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:97000000 goodBarcodedReads:6799436 goodMatchedToTOPM:6601271 cumulReadSequenceTime: 393.592188538 sec cumulProcessSequenceTime: 31.210960867 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:98000000 goodBarcodedReads:6870108 goodMatchedToTOPM:6662522 cumulReadSequenceTime: 397.571946257 sec cumulProcessSequenceTime: 31.498412273 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:99000000 goodBarcodedReads:6940573 goodMatchedToTOPM:6727947 cumulReadSequenceTime: 401.737551119 sec cumulProcessSequenceTime: 31.799597972 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:100000000 goodBarcodedReads:7011054 goodMatchedToTOPM:6796839 cumulReadSequenceTime: 405.689748903 sec cumulProcessSequenceTime: 32.108440734 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:101000000 goodBarcodedReads:7082347 goodMatchedToTOPM:6866413 cumulReadSequenceTime: 409.676015252 sec cumulProcessSequenceTime: 32.434098756 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:102000000 goodBarcodedReads:7151285 goodMatchedToTOPM:6925794 cumulReadSequenceTime: 413.656539395 sec cumulProcessSequenceTime: 32.722315809 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:103000000 goodBarcodedReads:7221366 goodMatchedToTOPM:6994131 cumulReadSequenceTime: 417.618960669 sec cumulProcessSequenceTime: 33.031238057 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:104000000 goodBarcodedReads:7286853 goodMatchedToTOPM:7051571 cumulReadSequenceTime: 421.62784343 sec cumulProcessSequenceTime: 33.322010746 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:105000000 goodBarcodedReads:7357866 goodMatchedToTOPM:7116547 cumulReadSequenceTime: 425.797143256 sec cumulProcessSequenceTime: 33.653947327 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:106000000 goodBarcodedReads:7428740 goodMatchedToTOPM:7183800 cumulReadSequenceTime: 429.803331482 sec cumulProcessSequenceTime: 33.995889647 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:107000000 goodBarcodedReads:7499164 goodMatchedToTOPM:7252485 cumulReadSequenceTime: 433.791015945 sec cumulProcessSequenceTime: 34.328607036 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:108000000 goodBarcodedReads:7570035 goodMatchedToTOPM:7320627 cumulReadSequenceTime: 437.779093075 sec cumulProcessSequenceTime: 34.669665381 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:109000000 goodBarcodedReads:7640308 goodMatchedToTOPM:7389086 cumulReadSequenceTime: 441.797285915 sec cumulProcessSequenceTime: 34.989940341 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:110000000 goodBarcodedReads:7710517 goodMatchedToTOPM:7457431 cumulReadSequenceTime: 445.796488846 sec cumulProcessSequenceTime: 35.300556206 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:111000000 goodBarcodedReads:7781832 goodMatchedToTOPM:7524287 cumulReadSequenceTime: 449.97658533 sec cumulProcessSequenceTime: 35.618947712 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:112000000 goodBarcodedReads:7847774 goodMatchedToTOPM:7585332 cumulReadSequenceTime: 453.936801932 sec cumulProcessSequenceTime: 35.907961694 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:113000000 goodBarcodedReads:7916018 goodMatchedToTOPM:7650755 cumulReadSequenceTime: 457.922730869 sec cumulProcessSequenceTime: 36.20812219 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:114000000 goodBarcodedReads:7986977 goodMatchedToTOPM:7718938 cumulReadSequenceTime: 461.935979563 sec cumulProcessSequenceTime: 36.518360103 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:115000000 goodBarcodedReads:8055934 goodMatchedToTOPM:7785063 cumulReadSequenceTime: 465.962050835 sec cumulProcessSequenceTime: 36.831647084 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:116000000 goodBarcodedReads:8126740 goodMatchedToTOPM:7853777 cumulReadSequenceTime: 469.974267956 sec cumulProcessSequenceTime: 37.16088863 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:117000000 goodBarcodedReads:8196364 goodMatchedToTOPM:7921197 cumulReadSequenceTime: 473.967191632 sec cumulProcessSequenceTime: 37.471256585 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:118000000 goodBarcodedReads:8266042 goodMatchedToTOPM:7986897 cumulReadSequenceTime: 478.82127669 sec cumulProcessSequenceTime: 37.775919147 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:119000000 goodBarcodedReads:8335886 goodMatchedToTOPM:8053716 cumulReadSequenceTime: 482.842067365 sec cumulProcessSequenceTime: 38.09276244 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:120000000 goodBarcodedReads:8406607 goodMatchedToTOPM:8122915 cumulReadSequenceTime: 486.702279966 sec cumulProcessSequenceTime: 38.404966997 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:121000000 goodBarcodedReads:8477192 goodMatchedToTOPM:8191979 cumulReadSequenceTime: 490.625874387 sec cumulProcessSequenceTime: 38.719856144 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:122000000 goodBarcodedReads:8548666 goodMatchedToTOPM:8253762 cumulReadSequenceTime: 494.603711217 sec cumulProcessSequenceTime: 39.047758912 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:123000000 goodBarcodedReads:8619357 goodMatchedToTOPM:8322858 cumulReadSequenceTime: 499.175535291 sec cumulProcessSequenceTime: 39.406402256 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:124000000 goodBarcodedReads:8689644 goodMatchedToTOPM:8391499 cumulReadSequenceTime: 503.107826238 sec cumulProcessSequenceTime: 39.750053546 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:125000000 goodBarcodedReads:8760188 goodMatchedToTOPM:8454760 cumulReadSequenceTime: 507.131850301 sec cumulProcessSequenceTime: 40.071100005 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:126000000 goodBarcodedReads:8827797 goodMatchedToTOPM:8519943 cumulReadSequenceTime: 511.005919826 sec cumulProcessSequenceTime: 40.36167856 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:127000000 goodBarcodedReads:8884736 goodMatchedToTOPM:8565717 cumulReadSequenceTime: 514.909416335 sec cumulProcessSequenceTime: 40.592891494 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:128000000 goodBarcodedReads:8955093 goodMatchedToTOPM:8630072 cumulReadSequenceTime: 518.798456298 sec cumulProcessSequenceTime: 40.878647437 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:129000000 goodBarcodedReads:9025382 goodMatchedToTOPM:8693761 cumulReadSequenceTime: 522.902720713 sec cumulProcessSequenceTime: 41.17667188 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:130000000 goodBarcodedReads:9094591 goodMatchedToTOPM:8760808 cumulReadSequenceTime: 526.800652017 sec cumulProcessSequenceTime: 41.477479623 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:131000000 goodBarcodedReads:9165369 goodMatchedToTOPM:8829021 cumulReadSequenceTime: 530.690059822 sec cumulProcessSequenceTime: 41.777746331 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:132000000 goodBarcodedReads:9235464 goodMatchedToTOPM:8897312 cumulReadSequenceTime: 534.543485315 sec cumulProcessSequenceTime: 42.07661958 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:133000000 goodBarcodedReads:9303820 goodMatchedToTOPM:8963804 cumulReadSequenceTime: 538.473684654 sec cumulProcessSequenceTime: 42.372367605 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:134000000 goodBarcodedReads:9368414 goodMatchedToTOPM:9023184 cumulReadSequenceTime: 542.768725609 sec cumulProcessSequenceTime: 42.653695832 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:135000000 goodBarcodedReads:9438375 goodMatchedToTOPM:9082032 cumulReadSequenceTime: 546.850492211 sec cumulProcessSequenceTime: 42.930073765 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:136000000 goodBarcodedReads:9509413 goodMatchedToTOPM:9151162 cumulReadSequenceTime: 550.775083466 sec cumulProcessSequenceTime: 43.230464962 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:137000000 goodBarcodedReads:9577803 goodMatchedToTOPM:9217576 cumulReadSequenceTime: 554.662146203 sec cumulProcessSequenceTime: 43.521349027 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:138000000 goodBarcodedReads:9645154 goodMatchedToTOPM:9282964 cumulReadSequenceTime: 558.78108876 sec cumulProcessSequenceTime: 43.832782659 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:139000000 goodBarcodedReads:9715731 goodMatchedToTOPM:9351471 cumulReadSequenceTime: 562.784852135 sec cumulProcessSequenceTime: 44.139933194 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:140000000 goodBarcodedReads:9783447 goodMatchedToTOPM:9416503 cumulReadSequenceTime: 566.824559419 sec cumulProcessSequenceTime: 44.439868342 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:141000000 goodBarcodedReads:9854047 goodMatchedToTOPM:9484873 cumulReadSequenceTime: 570.877682907 sec cumulProcessSequenceTime: 44.746568926 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: readSequenceTime: 574.803376119 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: processSequenceTime: 45.033724397 sec ProductionSNPCallerPlugin: performFunction: readRawSequencesAndRecordDepth: /local/workdir/rp444/./fastq/fastq4/D0KLPACXX_5_fastq.gz: 727.031936493 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Calling genotypes... [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 30572-2:250067906 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 961089A-2:250067916 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for 961089a-1:250067851 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for TME117-2:250067909 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished calling genotypes for 4 taxa ProductionSNPCallerPlugin: performFunction: callGenotypes: /local/workdir/rp444/./fastq/fastq4/D0KLPACXX_5_fastq.gz: 4.567950055 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of reads in lane=141989084 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads=9920573 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads matched to the TOPM=9548996 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished reading 6 of 7 sequence files: /local/workdir/rp444/./fastq/fastq4/D0KLPACXX_5_fastq.gz [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Looking for known SNPs in sequence reads from file: [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - /local/workdir/rp444/./fastq/fastq4/D17NUACXX_1_fastq.gz Enzyme: ApeKI CTCC I30572:D17NUACXX:1:250090764 TTCTC TMEB419:D17NUACXX:1:250090765 GCTTA I9102324:D17NUACXX:1:250090766 AACGCCT I980505:D17NUACXX:1:250090767 AGGC I920326:D17NUACXX:1:250090768 TCGTT I011371:D17NUACXX:1:250090769 TGGCTA I011797:D17NUACXX:1:250090770 TGCTGGA Z000156:D17NUACXX:1:250090771 TGCA I991702:D17NUACXX:1:250090772 AGCCC I010760:D17NUACXX:1:250090773 CTTCCA M000112:D17NUACXX:1:250090774 AATATGC M000004:D17NUACXX:1:250090775 GATC I996076:D17NUACXX:1:250090776 ACCTAA I993151:D17NUACXX:1:250090777 ACGTGTT I011734:D17NUACXX:1:250090778 AACCGAGA M000063:D17NUACXX:1:250090779 ACTA I011551:D17NUACXX:1:250090780 GTATT I010265:D17NUACXX:1:250090781 GAGATA Z000012:D17NUACXX:1:250090782 ACGACTAC I000345:D17NUACXX:1:250090783 TCAC M000044:D17NUACXX:1:250090784 ATATGT Z000104:D17NUACXX:1:250090785 ATTAATT I990313:D17NUACXX:1:250090786 ACAGGGAA I997032:D17NUACXX:1:250090787 CAGA I980378:D17NUACXX:1:250090788 CTGTA M980057:D17NUACXX:1:250090789 ATGCCT I960325:D17NUACXX:1:250090790 GGTGT I996016:D17NUACXX:1:250090791 AGGAT I982132:D17NUACXX:1:250090792 ATCGTA I960532:D17NUACXX:1:250090793 ATTGGAT I990503:D17NUACXX:1:250090794 ACGTGGTA I982101:D17NUACXX:1:250090795 AACT I970219:D17NUACXX:1:250090796 ACCGT I974045:D17NUACXX:1:250090797 TATTTTT MM971909:D17NUACXX:1:250090798 TAGCATGC I961569:D17NUACXX:1:250090799 ATTGA I960590:D17NUACXX:1:250090800 CATCGT I961039:D17NUACXX:1:250090801 CATAAGT I990411:D17NUACXX:1:250090802 CCATGGGT Z980139:D17NUACXX:1:250090803 GCGT I970290:D17NUACXX:1:250090804 GTAA I970353:D17NUACXX:1:250090805 CTTGCTT MM971899:D17NUACXX:1:250090806 AGTGGA MM970227:D17NUACXX:1:250090807 CATCT I961556:D17NUACXX:1:250090808 CGCGGT MM990477:D17NUACXX:1:250090809 CGCTGAT I980406:D17NUACXX:1:250090810 CGCGGAGA I970162:D17NUACXX:1:250090811 TGCGA Z970474:D17NUACXX:1:250090812 GGTTGT I961087:D17NUACXX:1:250090813 ATGAAAC I960129:D17NUACXX:1:250090814 TAGGCCAT MM990214:D17NUACXX:1:250090815 CCTAC Z980135:D17NUACXX:1:250090816 CTATTA Z960058:D17NUACXX:1:250090817 CGGTAGA I960249:D17NUACXX:1:250090818 CGTGTGGT MM990276:D17NUACXX:1:250090819 CGAT I970103:D17NUACXX:1:250090820 CCAGCT MM971405:D17NUACXX:1:250090821 AAAAGTT I961613:D17NUACXX:1:250090822 TGCAAGGA I950925:D17NUACXX:1:250090823 GAGGA I920417:D17NUACXX:1:250090824 GCCAGT I940561:D17NUACXX:1:250090825 CTACGGA I940006:D17NUACXX:1:250090826 GCTGTGGA I930007:D17NUACXX:1:250090827 CGCTT Z950826:D17NUACXX:1:250090828 TTCAGA Z950415:D17NUACXX:1:250090829 GAATTCA I940330:D17NUACXX:1:250090830 TGGTACGT I070576:D17NUACXX:1:250090831 GGAAC I070498:D17NUACXX:1:250090832 GGAAGA I051652:D17NUACXX:1:250090833 GCGGAAT I070835:D17NUACXX:1:250090834 GGATTGGT I070910:D17NUACXX:1:250090835 TCACC I40764:D17NUACXX:1:250090836 TAGGAA I051274:D17NUACXX:1:250090837 GAACTTC I90853:D17NUACXX:1:250090838 TCTCAGTC I050286:D17NUACXX:1:250090839 GTCAA I050186:D17NUACXX:1:250090840 GTACTT I030057:D17NUACXX:1:250090841 TAGCGGA I020129:D17NUACXX:1:250090842 GTGAGGGT MM965055:D17NUACXX:1:250090843 CTAGC I020510:D17NUACXX:1:250090844 GCTCTA MM980471:D17NUACXX:1:250090845 GGACCTA I030265:D17NUACXX:1:250090846 CCGGATAT MM961669:D17NUACXX:1:250090847 TAATA I030060:D17NUACXX:1:250090848 GTTGAA I030224:D17NUACXX:1:250090849 TCGAAGA MM972961:D17NUACXX:1:250090850 TATCGGGA MM961839:D17NUACXX:1:250090851 ACAAA blank:D17NUACXX:1:250090852 CCACAA I030242:D17NUACXX:1:250090853 GTCGATT EXCEL:D17NUACXX:1:250090854 CGCCTTAT MM964019:D17NUACXX:1:250090855 TACAT CARICASS_1:D17NUACXX:1:250090856 TAACGA MM968676:D17NUACXX:1:250090857 TCTGTGA CH92108:D17NUACXX:1:250090858 TTCCTGGA NASE_10:D17NUACXX:1:250090859 Total barcodes found in lane:96 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Working on GBS raw sequence file: /local/workdir/rp444/./fastq/fastq4/D17NUACXX_1_fastq.gz This file is assumed to be in fastq format Total barcodes found in key file for this lane:96 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:0 goodBarcodedReads:0 goodMatchedToTOPM:0 cumulReadSequenceTime: 0.0 sec cumulProcessSequenceTime: 0.0 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:1000000 goodBarcodedReads:915294 goodMatchedToTOPM:874663 cumulReadSequenceTime: 6.308835581 sec cumulProcessSequenceTime: 2.976335192 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:2000000 goodBarcodedReads:1832215 goodMatchedToTOPM:1749245 cumulReadSequenceTime: 12.394585175 sec cumulProcessSequenceTime: 5.885236481 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:3000000 goodBarcodedReads:2751087 goodMatchedToTOPM:2623731 cumulReadSequenceTime: 18.786965215 sec cumulProcessSequenceTime: 8.939007726 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:4000000 goodBarcodedReads:3680355 goodMatchedToTOPM:3510559 cumulReadSequenceTime: 25.194154471 sec cumulProcessSequenceTime: 12.052012459 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:5000000 goodBarcodedReads:4617914 goodMatchedToTOPM:4400708 cumulReadSequenceTime: 31.434155388 sec cumulProcessSequenceTime: 15.029411506 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:6000000 goodBarcodedReads:5553487 goodMatchedToTOPM:5287826 cumulReadSequenceTime: 37.751861087 sec cumulProcessSequenceTime: 18.085993693 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:7000000 goodBarcodedReads:6496117 goodMatchedToTOPM:6184786 cumulReadSequenceTime: 44.095144591 sec cumulProcessSequenceTime: 21.12377231 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:8000000 goodBarcodedReads:7440762 goodMatchedToTOPM:7085029 cumulReadSequenceTime: 50.550482048 sec cumulProcessSequenceTime: 24.237062795 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:9000000 goodBarcodedReads:8384834 goodMatchedToTOPM:7982190 cumulReadSequenceTime: 56.905803624 sec cumulProcessSequenceTime: 27.303433896 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:10000000 goodBarcodedReads:9333545 goodMatchedToTOPM:8886513 cumulReadSequenceTime: 63.368348936 sec cumulProcessSequenceTime: 30.426119057 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:11000000 goodBarcodedReads:10283219 goodMatchedToTOPM:9792886 cumulReadSequenceTime: 70.353000806 sec cumulProcessSequenceTime: 33.737015423 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:12000000 goodBarcodedReads:11227268 goodMatchedToTOPM:10691299 cumulReadSequenceTime: 76.764979768 sec cumulProcessSequenceTime: 36.902289382 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:13000000 goodBarcodedReads:12176554 goodMatchedToTOPM:11596078 cumulReadSequenceTime: 83.398588837 sec cumulProcessSequenceTime: 40.09591465 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:14000000 goodBarcodedReads:13125347 goodMatchedToTOPM:12499263 cumulReadSequenceTime: 90.333966499 sec cumulProcessSequenceTime: 43.129140863 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:15000000 goodBarcodedReads:14073565 goodMatchedToTOPM:13400325 cumulReadSequenceTime: 96.823809433 sec cumulProcessSequenceTime: 45.948337801 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:16000000 goodBarcodedReads:15016303 goodMatchedToTOPM:14292398 cumulReadSequenceTime: 103.12536933 sec cumulProcessSequenceTime: 48.719833824 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:17000000 goodBarcodedReads:15963866 goodMatchedToTOPM:15187271 cumulReadSequenceTime: 110.230749832 sec cumulProcessSequenceTime: 51.582171766 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:18000000 goodBarcodedReads:16910672 goodMatchedToTOPM:16076914 cumulReadSequenceTime: 117.277772667 sec cumulProcessSequenceTime: 54.385943337 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:19000000 goodBarcodedReads:17857527 goodMatchedToTOPM:16966490 cumulReadSequenceTime: 124.473523524 sec cumulProcessSequenceTime: 57.259564151 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:20000000 goodBarcodedReads:18798813 goodMatchedToTOPM:17847460 cumulReadSequenceTime: 131.538555178 sec cumulProcessSequenceTime: 60.437602663 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:21000000 goodBarcodedReads:19744546 goodMatchedToTOPM:18736016 cumulReadSequenceTime: 139.216307422 sec cumulProcessSequenceTime: 64.236505027 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:22000000 goodBarcodedReads:20688413 goodMatchedToTOPM:19619860 cumulReadSequenceTime: 146.390203762 sec cumulProcessSequenceTime: 67.692162662 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:23000000 goodBarcodedReads:21631404 goodMatchedToTOPM:20500026 cumulReadSequenceTime: 154.024587067 sec cumulProcessSequenceTime: 71.374713683 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:24000000 goodBarcodedReads:22575129 goodMatchedToTOPM:21379998 cumulReadSequenceTime: 161.18987345 sec cumulProcessSequenceTime: 74.695002827 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:25000000 goodBarcodedReads:23511847 goodMatchedToTOPM:22251768 cumulReadSequenceTime: 168.302097032 sec cumulProcessSequenceTime: 78.079706373 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:26000000 goodBarcodedReads:24445369 goodMatchedToTOPM:23097532 cumulReadSequenceTime: 175.495827879 sec cumulProcessSequenceTime: 81.318890148 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:27000000 goodBarcodedReads:25343706 goodMatchedToTOPM:23888580 cumulReadSequenceTime: 182.593346369 sec cumulProcessSequenceTime: 84.290698083 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:28000000 goodBarcodedReads:26244840 goodMatchedToTOPM:24673006 cumulReadSequenceTime: 189.63946745 sec cumulProcessSequenceTime: 87.233954925 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:29000000 goodBarcodedReads:27173604 goodMatchedToTOPM:25489891 cumulReadSequenceTime: 196.811216188 sec cumulProcessSequenceTime: 90.323371996 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:30000000 goodBarcodedReads:28113760 goodMatchedToTOPM:26384230 cumulReadSequenceTime: 203.828215222 sec cumulProcessSequenceTime: 93.803562716 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:31000000 goodBarcodedReads:29065799 goodMatchedToTOPM:27301243 cumulReadSequenceTime: 211.039751681 sec cumulProcessSequenceTime: 97.375168529 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:32000000 goodBarcodedReads:30015661 goodMatchedToTOPM:28214029 cumulReadSequenceTime: 218.195655786 sec cumulProcessSequenceTime: 100.774492302 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:33000000 goodBarcodedReads:30967872 goodMatchedToTOPM:29130472 cumulReadSequenceTime: 225.34538297 sec cumulProcessSequenceTime: 104.262456692 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:34000000 goodBarcodedReads:31920025 goodMatchedToTOPM:30045046 cumulReadSequenceTime: 232.478661584 sec cumulProcessSequenceTime: 107.815778787 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:35000000 goodBarcodedReads:32869403 goodMatchedToTOPM:30951277 cumulReadSequenceTime: 239.615335294 sec cumulProcessSequenceTime: 111.263913094 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:36000000 goodBarcodedReads:33822162 goodMatchedToTOPM:31866381 cumulReadSequenceTime: 246.888155358 sec cumulProcessSequenceTime: 114.743914774 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:37000000 goodBarcodedReads:34774898 goodMatchedToTOPM:32781215 cumulReadSequenceTime: 253.999750763 sec cumulProcessSequenceTime: 118.073658234 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:38000000 goodBarcodedReads:35723377 goodMatchedToTOPM:33690396 cumulReadSequenceTime: 261.322745544 sec cumulProcessSequenceTime: 121.468973712 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:39000000 goodBarcodedReads:36675827 goodMatchedToTOPM:34604507 cumulReadSequenceTime: 268.485914175 sec cumulProcessSequenceTime: 125.003568421 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:40000000 goodBarcodedReads:37628261 goodMatchedToTOPM:35518008 cumulReadSequenceTime: 275.663561946 sec cumulProcessSequenceTime: 128.357919802 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:41000000 goodBarcodedReads:38580589 goodMatchedToTOPM:36429437 cumulReadSequenceTime: 282.823872049 sec cumulProcessSequenceTime: 131.973521355 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:42000000 goodBarcodedReads:39528625 goodMatchedToTOPM:37330894 cumulReadSequenceTime: 290.033557936 sec cumulProcessSequenceTime: 135.595354929 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:43000000 goodBarcodedReads:40480325 goodMatchedToTOPM:38239372 cumulReadSequenceTime: 297.182412912 sec cumulProcessSequenceTime: 139.213322636 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:44000000 goodBarcodedReads:41432166 goodMatchedToTOPM:39147311 cumulReadSequenceTime: 304.449961151 sec cumulProcessSequenceTime: 142.69771839 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:45000000 goodBarcodedReads:42379733 goodMatchedToTOPM:40048086 cumulReadSequenceTime: 311.672920277 sec cumulProcessSequenceTime: 146.089138047 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:46000000 goodBarcodedReads:43329894 goodMatchedToTOPM:40949940 cumulReadSequenceTime: 318.744888623 sec cumulProcessSequenceTime: 149.57628932 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:47000000 goodBarcodedReads:44280262 goodMatchedToTOPM:41843629 cumulReadSequenceTime: 325.828767561 sec cumulProcessSequenceTime: 153.027463903 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:48000000 goodBarcodedReads:45230436 goodMatchedToTOPM:42737245 cumulReadSequenceTime: 332.88315302 sec cumulProcessSequenceTime: 156.504740776 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:49000000 goodBarcodedReads:46174788 goodMatchedToTOPM:43618443 cumulReadSequenceTime: 339.980285712 sec cumulProcessSequenceTime: 159.953707424 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:50000000 goodBarcodedReads:47121475 goodMatchedToTOPM:44502506 cumulReadSequenceTime: 347.103463107 sec cumulProcessSequenceTime: 163.429890007 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:51000000 goodBarcodedReads:48068585 goodMatchedToTOPM:45386930 cumulReadSequenceTime: 354.212360664 sec cumulProcessSequenceTime: 166.910635981 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:52000000 goodBarcodedReads:49014275 goodMatchedToTOPM:46275407 cumulReadSequenceTime: 361.58023709 sec cumulProcessSequenceTime: 170.504861265 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:53000000 goodBarcodedReads:49955497 goodMatchedToTOPM:47154967 cumulReadSequenceTime: 368.910222549 sec cumulProcessSequenceTime: 173.805307493 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:54000000 goodBarcodedReads:50902168 goodMatchedToTOPM:48039746 cumulReadSequenceTime: 376.156409525 sec cumulProcessSequenceTime: 177.186476018 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:55000000 goodBarcodedReads:51845319 goodMatchedToTOPM:48885069 cumulReadSequenceTime: 383.737209371 sec cumulProcessSequenceTime: 180.207810248 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:56000000 goodBarcodedReads:52785986 goodMatchedToTOPM:49715768 cumulReadSequenceTime: 390.940107961 sec cumulProcessSequenceTime: 183.486151308 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:57000000 goodBarcodedReads:53721928 goodMatchedToTOPM:50457866 cumulReadSequenceTime: 398.112207989 sec cumulProcessSequenceTime: 186.362591875 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:58000000 goodBarcodedReads:54656769 goodMatchedToTOPM:51303030 cumulReadSequenceTime: 405.286869125 sec cumulProcessSequenceTime: 189.579968926 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:59000000 goodBarcodedReads:55608935 goodMatchedToTOPM:52222763 cumulReadSequenceTime: 412.532747296 sec cumulProcessSequenceTime: 193.096563018 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:60000000 goodBarcodedReads:56560499 goodMatchedToTOPM:53140597 cumulReadSequenceTime: 419.736433225 sec cumulProcessSequenceTime: 196.630678695 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:61000000 goodBarcodedReads:57509241 goodMatchedToTOPM:54054648 cumulReadSequenceTime: 426.929802736 sec cumulProcessSequenceTime: 200.159837286 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:62000000 goodBarcodedReads:58461143 goodMatchedToTOPM:54972779 cumulReadSequenceTime: 434.066567662 sec cumulProcessSequenceTime: 203.581103143 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:63000000 goodBarcodedReads:59413336 goodMatchedToTOPM:55888650 cumulReadSequenceTime: 441.324598023 sec cumulProcessSequenceTime: 207.032478799 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:64000000 goodBarcodedReads:60362358 goodMatchedToTOPM:56799822 cumulReadSequenceTime: 448.42490255 sec cumulProcessSequenceTime: 210.403405272 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:65000000 goodBarcodedReads:61314198 goodMatchedToTOPM:57716825 cumulReadSequenceTime: 455.55470667 sec cumulProcessSequenceTime: 213.909039675 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:66000000 goodBarcodedReads:62266162 goodMatchedToTOPM:58633772 cumulReadSequenceTime: 462.71358165 sec cumulProcessSequenceTime: 217.32069863 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:67000000 goodBarcodedReads:63214105 goodMatchedToTOPM:59543471 cumulReadSequenceTime: 469.781244757 sec cumulProcessSequenceTime: 221.004713451 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:68000000 goodBarcodedReads:64166023 goodMatchedToTOPM:60458575 cumulReadSequenceTime: 477.061422492 sec cumulProcessSequenceTime: 224.683760184 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:69000000 goodBarcodedReads:65118547 goodMatchedToTOPM:61372904 cumulReadSequenceTime: 484.175938315 sec cumulProcessSequenceTime: 228.275985404 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:70000000 goodBarcodedReads:66066084 goodMatchedToTOPM:62277898 cumulReadSequenceTime: 491.332679632 sec cumulProcessSequenceTime: 231.714605433 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:71000000 goodBarcodedReads:67017986 goodMatchedToTOPM:63188328 cumulReadSequenceTime: 498.516462636 sec cumulProcessSequenceTime: 235.208461763 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:72000000 goodBarcodedReads:67968997 goodMatchedToTOPM:64095601 cumulReadSequenceTime: 505.627048279 sec cumulProcessSequenceTime: 238.529077849 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:73000000 goodBarcodedReads:68919068 goodMatchedToTOPM:64999603 cumulReadSequenceTime: 512.988048943 sec cumulProcessSequenceTime: 242.039321326 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:74000000 goodBarcodedReads:69862299 goodMatchedToTOPM:65891379 cumulReadSequenceTime: 520.126847246 sec cumulProcessSequenceTime: 245.353596948 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:75000000 goodBarcodedReads:70809832 goodMatchedToTOPM:66785987 cumulReadSequenceTime: 527.422622359 sec cumulProcessSequenceTime: 248.821930132 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:76000000 goodBarcodedReads:71755459 goodMatchedToTOPM:67678140 cumulReadSequenceTime: 535.388874572 sec cumulProcessSequenceTime: 252.669655927 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:77000000 goodBarcodedReads:72694504 goodMatchedToTOPM:68557898 cumulReadSequenceTime: 542.433019702 sec cumulProcessSequenceTime: 256.113495127 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:78000000 goodBarcodedReads:73632479 goodMatchedToTOPM:69434069 cumulReadSequenceTime: 549.616942541 sec cumulProcessSequenceTime: 259.537151727 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:79000000 goodBarcodedReads:74566876 goodMatchedToTOPM:70303533 cumulReadSequenceTime: 556.812764538 sec cumulProcessSequenceTime: 263.017621934 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:80000000 goodBarcodedReads:75499719 goodMatchedToTOPM:71176673 cumulReadSequenceTime: 563.952726247 sec cumulProcessSequenceTime: 266.545188037 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:81000000 goodBarcodedReads:76425009 goodMatchedToTOPM:72039994 cumulReadSequenceTime: 571.067394416 sec cumulProcessSequenceTime: 269.681538164 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:82000000 goodBarcodedReads:77355114 goodMatchedToTOPM:72910056 cumulReadSequenceTime: 578.206843308 sec cumulProcessSequenceTime: 272.924841218 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:83000000 goodBarcodedReads:78283540 goodMatchedToTOPM:73769283 cumulReadSequenceTime: 585.938218957 sec cumulProcessSequenceTime: 276.335306302 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:84000000 goodBarcodedReads:79209261 goodMatchedToTOPM:74602216 cumulReadSequenceTime: 593.132844445 sec cumulProcessSequenceTime: 279.467363378 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:85000000 goodBarcodedReads:80132156 goodMatchedToTOPM:75410534 cumulReadSequenceTime: 600.453879011 sec cumulProcessSequenceTime: 282.498198832 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:86000000 goodBarcodedReads:81059872 goodMatchedToTOPM:76281240 cumulReadSequenceTime: 607.509852992 sec cumulProcessSequenceTime: 285.732465492 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:87000000 goodBarcodedReads:82002023 goodMatchedToTOPM:77180855 cumulReadSequenceTime: 614.58518952 sec cumulProcessSequenceTime: 289.009002541 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:88000000 goodBarcodedReads:82943482 goodMatchedToTOPM:78075770 cumulReadSequenceTime: 621.694925674 sec cumulProcessSequenceTime: 292.344688233 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:89000000 goodBarcodedReads:83892258 goodMatchedToTOPM:78974031 cumulReadSequenceTime: 628.759159152 sec cumulProcessSequenceTime: 295.639007476 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:90000000 goodBarcodedReads:84840146 goodMatchedToTOPM:79879631 cumulReadSequenceTime: 635.946825282 sec cumulProcessSequenceTime: 299.029439419 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:91000000 goodBarcodedReads:85785106 goodMatchedToTOPM:80780514 cumulReadSequenceTime: 643.015806523 sec cumulProcessSequenceTime: 302.34855442 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:92000000 goodBarcodedReads:86729272 goodMatchedToTOPM:81681021 cumulReadSequenceTime: 650.028509531 sec cumulProcessSequenceTime: 305.662707456 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:93000000 goodBarcodedReads:87679138 goodMatchedToTOPM:82589245 cumulReadSequenceTime: 657.081575585 sec cumulProcessSequenceTime: 308.978590243 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:94000000 goodBarcodedReads:88624102 goodMatchedToTOPM:83490673 cumulReadSequenceTime: 664.288008862 sec cumulProcessSequenceTime: 312.369240196 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:95000000 goodBarcodedReads:89573109 goodMatchedToTOPM:84396971 cumulReadSequenceTime: 671.417275345 sec cumulProcessSequenceTime: 315.772196874 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:96000000 goodBarcodedReads:90522493 goodMatchedToTOPM:85300772 cumulReadSequenceTime: 678.480383643 sec cumulProcessSequenceTime: 319.022678293 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:97000000 goodBarcodedReads:91471969 goodMatchedToTOPM:86202795 cumulReadSequenceTime: 685.462421739 sec cumulProcessSequenceTime: 322.277565592 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:98000000 goodBarcodedReads:92416583 goodMatchedToTOPM:87100579 cumulReadSequenceTime: 692.46361229 sec cumulProcessSequenceTime: 325.488689009 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:99000000 goodBarcodedReads:93365401 goodMatchedToTOPM:88003154 cumulReadSequenceTime: 699.84834294 sec cumulProcessSequenceTime: 328.894460019 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:100000000 goodBarcodedReads:94314348 goodMatchedToTOPM:88903906 cumulReadSequenceTime: 706.952416701 sec cumulProcessSequenceTime: 332.195076453 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:101000000 goodBarcodedReads:95262221 goodMatchedToTOPM:89804063 cumulReadSequenceTime: 714.054797437 sec cumulProcessSequenceTime: 335.50576556 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:102000000 goodBarcodedReads:96204656 goodMatchedToTOPM:90680743 cumulReadSequenceTime: 721.175776345 sec cumulProcessSequenceTime: 338.759819481 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:103000000 goodBarcodedReads:97150823 goodMatchedToTOPM:91572045 cumulReadSequenceTime: 728.216134834 sec cumulProcessSequenceTime: 341.985022016 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:104000000 goodBarcodedReads:98098184 goodMatchedToTOPM:92451335 cumulReadSequenceTime: 735.29569243 sec cumulProcessSequenceTime: 345.200639012 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:105000000 goodBarcodedReads:99045596 goodMatchedToTOPM:93339540 cumulReadSequenceTime: 742.570073403 sec cumulProcessSequenceTime: 348.506421411 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:106000000 goodBarcodedReads:99986471 goodMatchedToTOPM:94216004 cumulReadSequenceTime: 750.000020058 sec cumulProcessSequenceTime: 351.981563029 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:107000000 goodBarcodedReads:100932272 goodMatchedToTOPM:95104303 cumulReadSequenceTime: 757.228205653 sec cumulProcessSequenceTime: 355.407076699 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:108000000 goodBarcodedReads:101877207 goodMatchedToTOPM:95984779 cumulReadSequenceTime: 764.41622546 sec cumulProcessSequenceTime: 358.60988684 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:109000000 goodBarcodedReads:102818094 goodMatchedToTOPM:96847105 cumulReadSequenceTime: 771.62639189 sec cumulProcessSequenceTime: 361.82640109 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:110000000 goodBarcodedReads:103756615 goodMatchedToTOPM:97710348 cumulReadSequenceTime: 778.726723154 sec cumulProcessSequenceTime: 365.076455262 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:111000000 goodBarcodedReads:104700253 goodMatchedToTOPM:98582086 cumulReadSequenceTime: 785.834495615 sec cumulProcessSequenceTime: 368.545900441 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:112000000 goodBarcodedReads:105636581 goodMatchedToTOPM:99424751 cumulReadSequenceTime: 792.85519707 sec cumulProcessSequenceTime: 371.820215655 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:113000000 goodBarcodedReads:106536468 goodMatchedToTOPM:100242549 cumulReadSequenceTime: 799.848018022 sec cumulProcessSequenceTime: 374.985403517 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:114000000 goodBarcodedReads:107470257 goodMatchedToTOPM:101026203 cumulReadSequenceTime: 807.017181058 sec cumulProcessSequenceTime: 378.174790767 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:115000000 goodBarcodedReads:108395503 goodMatchedToTOPM:101863018 cumulReadSequenceTime: 814.157741082 sec cumulProcessSequenceTime: 381.288359151 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:116000000 goodBarcodedReads:109347076 goodMatchedToTOPM:102780321 cumulReadSequenceTime: 821.197622191 sec cumulProcessSequenceTime: 384.870777517 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:117000000 goodBarcodedReads:110298763 goodMatchedToTOPM:103686754 cumulReadSequenceTime: 828.454790226 sec cumulProcessSequenceTime: 388.542245556 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:118000000 goodBarcodedReads:111247588 goodMatchedToTOPM:104563515 cumulReadSequenceTime: 835.610287444 sec cumulProcessSequenceTime: 392.069580326 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:119000000 goodBarcodedReads:112199778 goodMatchedToTOPM:105443814 cumulReadSequenceTime: 842.727412719 sec cumulProcessSequenceTime: 395.168144162 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:120000000 goodBarcodedReads:113151975 goodMatchedToTOPM:106322480 cumulReadSequenceTime: 849.77153646 sec cumulProcessSequenceTime: 397.978033552 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:121000000 goodBarcodedReads:113985082 goodMatchedToTOPM:107060222 cumulReadSequenceTime: 856.548875602 sec cumulProcessSequenceTime: 400.397837917 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:122000000 goodBarcodedReads:114937557 goodMatchedToTOPM:107974004 cumulReadSequenceTime: 863.711350183 sec cumulProcessSequenceTime: 403.359268189 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:123000000 goodBarcodedReads:115890041 goodMatchedToTOPM:108879562 cumulReadSequenceTime: 870.966060035 sec cumulProcessSequenceTime: 406.337117014 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:124000000 goodBarcodedReads:116838646 goodMatchedToTOPM:109787658 cumulReadSequenceTime: 877.979537286 sec cumulProcessSequenceTime: 409.233669762 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:125000000 goodBarcodedReads:117790955 goodMatchedToTOPM:110700106 cumulReadSequenceTime: 884.981895076 sec cumulProcessSequenceTime: 412.146392734 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:126000000 goodBarcodedReads:118743021 goodMatchedToTOPM:111610503 cumulReadSequenceTime: 892.11028374 sec cumulProcessSequenceTime: 415.08529 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:127000000 goodBarcodedReads:119691464 goodMatchedToTOPM:112515320 cumulReadSequenceTime: 899.072304584 sec cumulProcessSequenceTime: 417.940382808 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:128000000 goodBarcodedReads:120643463 goodMatchedToTOPM:113425325 cumulReadSequenceTime: 906.118131756 sec cumulProcessSequenceTime: 420.98999467 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:129000000 goodBarcodedReads:121595639 goodMatchedToTOPM:114332174 cumulReadSequenceTime: 913.084779545 sec cumulProcessSequenceTime: 423.861605975 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:130000000 goodBarcodedReads:122547037 goodMatchedToTOPM:115238572 cumulReadSequenceTime: 920.155615589 sec cumulProcessSequenceTime: 426.744590097 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:131000000 goodBarcodedReads:123494037 goodMatchedToTOPM:116135282 cumulReadSequenceTime: 927.216713102 sec cumulProcessSequenceTime: 429.586894264 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:132000000 goodBarcodedReads:124442976 goodMatchedToTOPM:117008549 cumulReadSequenceTime: 934.36412504 sec cumulProcessSequenceTime: 432.399195807 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:133000000 goodBarcodedReads:125392166 goodMatchedToTOPM:117898698 cumulReadSequenceTime: 941.523318552 sec cumulProcessSequenceTime: 435.300372389 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:134000000 goodBarcodedReads:126342484 goodMatchedToTOPM:118791540 cumulReadSequenceTime: 948.73064292 sec cumulProcessSequenceTime: 438.18539899 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:135000000 goodBarcodedReads:127287470 goodMatchedToTOPM:119682149 cumulReadSequenceTime: 955.863944415 sec cumulProcessSequenceTime: 441.046835055 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:136000000 goodBarcodedReads:128235493 goodMatchedToTOPM:120563074 cumulReadSequenceTime: 963.013979173 sec cumulProcessSequenceTime: 443.861038114 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:137000000 goodBarcodedReads:129182047 goodMatchedToTOPM:121445432 cumulReadSequenceTime: 970.080219777 sec cumulProcessSequenceTime: 446.667461292 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:138000000 goodBarcodedReads:130125629 goodMatchedToTOPM:122323656 cumulReadSequenceTime: 977.188649169 sec cumulProcessSequenceTime: 449.485989731 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:139000000 goodBarcodedReads:131066509 goodMatchedToTOPM:123203988 cumulReadSequenceTime: 984.97690677 sec cumulProcessSequenceTime: 452.44545773 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:140000000 goodBarcodedReads:132011875 goodMatchedToTOPM:124078296 cumulReadSequenceTime: 992.517957583 sec cumulProcessSequenceTime: 455.38203518 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:141000000 goodBarcodedReads:132954181 goodMatchedToTOPM:124934411 cumulReadSequenceTime: 1000.036563827 sec cumulProcessSequenceTime: 458.608985988 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:142000000 goodBarcodedReads:133894985 goodMatchedToTOPM:125703726 cumulReadSequenceTime: 1007.391015722 sec cumulProcessSequenceTime: 461.599115321 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:143000000 goodBarcodedReads:134444574 goodMatchedToTOPM:126092493 cumulReadSequenceTime: 1015.974846168 sec cumulProcessSequenceTime: 463.208549518 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:144000000 goodBarcodedReads:135364622 goodMatchedToTOPM:126964780 cumulReadSequenceTime: 1023.067432132 sec cumulProcessSequenceTime: 466.615070349 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:145000000 goodBarcodedReads:136316841 goodMatchedToTOPM:127858787 cumulReadSequenceTime: 1030.314987983 sec cumulProcessSequenceTime: 469.938258906 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:146000000 goodBarcodedReads:137265073 goodMatchedToTOPM:128767874 cumulReadSequenceTime: 1037.434712392 sec cumulProcessSequenceTime: 473.372433024 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:147000000 goodBarcodedReads:138216859 goodMatchedToTOPM:129685475 cumulReadSequenceTime: 1044.678631577 sec cumulProcessSequenceTime: 476.652477563 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:148000000 goodBarcodedReads:139168193 goodMatchedToTOPM:130581766 cumulReadSequenceTime: 1052.07389045 sec cumulProcessSequenceTime: 480.014202137 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:149000000 goodBarcodedReads:140112760 goodMatchedToTOPM:131484535 cumulReadSequenceTime: 1060.01099127 sec cumulProcessSequenceTime: 483.598694383 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:150000000 goodBarcodedReads:141013485 goodMatchedToTOPM:132324231 cumulReadSequenceTime: 1067.216502391 sec cumulProcessSequenceTime: 486.795866328 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:151000000 goodBarcodedReads:141965222 goodMatchedToTOPM:133228244 cumulReadSequenceTime: 1077.386174578 sec cumulProcessSequenceTime: 489.834608839 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:152000000 goodBarcodedReads:142912952 goodMatchedToTOPM:134135084 cumulReadSequenceTime: 1084.369956058 sec cumulProcessSequenceTime: 492.730782546 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:153000000 goodBarcodedReads:143864440 goodMatchedToTOPM:135046834 cumulReadSequenceTime: 1091.583834087 sec cumulProcessSequenceTime: 495.74908525 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:154000000 goodBarcodedReads:144815239 goodMatchedToTOPM:135955705 cumulReadSequenceTime: 1099.900149707 sec cumulProcessSequenceTime: 499.423642256 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:155000000 goodBarcodedReads:145765206 goodMatchedToTOPM:136859696 cumulReadSequenceTime: 1106.828269179 sec cumulProcessSequenceTime: 502.256023571 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:156000000 goodBarcodedReads:146686308 goodMatchedToTOPM:137732340 cumulReadSequenceTime: 1113.749196194 sec cumulProcessSequenceTime: 505.017749794 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:157000000 goodBarcodedReads:147634033 goodMatchedToTOPM:138624871 cumulReadSequenceTime: 1120.852764735 sec cumulProcessSequenceTime: 507.898403083 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:158000000 goodBarcodedReads:148578674 goodMatchedToTOPM:139503060 cumulReadSequenceTime: 1127.941411572 sec cumulProcessSequenceTime: 510.715464636 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:159000000 goodBarcodedReads:149516019 goodMatchedToTOPM:140377007 cumulReadSequenceTime: 1134.978799109 sec cumulProcessSequenceTime: 513.501578439 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:160000000 goodBarcodedReads:150456470 goodMatchedToTOPM:141256107 cumulReadSequenceTime: 1141.97015475 sec cumulProcessSequenceTime: 516.300037668 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:161000000 goodBarcodedReads:151396976 goodMatchedToTOPM:142130146 cumulReadSequenceTime: 1148.964861384 sec cumulProcessSequenceTime: 519.048860217 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:162000000 goodBarcodedReads:152296945 goodMatchedToTOPM:142963877 cumulReadSequenceTime: 1155.958049354 sec cumulProcessSequenceTime: 521.727166433 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:163000000 goodBarcodedReads:153232778 goodMatchedToTOPM:143816941 cumulReadSequenceTime: 1162.94807014 sec cumulProcessSequenceTime: 524.464601535 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:164000000 goodBarcodedReads:154171882 goodMatchedToTOPM:144672824 cumulReadSequenceTime: 1169.959858313 sec cumulProcessSequenceTime: 527.216881373 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:165000000 goodBarcodedReads:155111193 goodMatchedToTOPM:145520088 cumulReadSequenceTime: 1177.040506233 sec cumulProcessSequenceTime: 529.971596359 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:166000000 goodBarcodedReads:156031231 goodMatchedToTOPM:146363622 cumulReadSequenceTime: 1184.097313515 sec cumulProcessSequenceTime: 532.672376399 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:167000000 goodBarcodedReads:156962323 goodMatchedToTOPM:147210271 cumulReadSequenceTime: 1191.175052516 sec cumulProcessSequenceTime: 535.408070541 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:168000000 goodBarcodedReads:157896653 goodMatchedToTOPM:148070082 cumulReadSequenceTime: 1198.817617777 sec cumulProcessSequenceTime: 538.404473321 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:169000000 goodBarcodedReads:158826916 goodMatchedToTOPM:148913936 cumulReadSequenceTime: 1206.242079897 sec cumulProcessSequenceTime: 541.108960354 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:170000000 goodBarcodedReads:159754304 goodMatchedToTOPM:149750038 cumulReadSequenceTime: 1213.170121958 sec cumulProcessSequenceTime: 543.707608636 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - totalReads:171000000 goodBarcodedReads:160659448 goodMatchedToTOPM:150524048 cumulReadSequenceTime: 1220.316769803 sec cumulProcessSequenceTime: 546.718042095 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: readSequenceTime: 1225.151298644 sec ProductionSNPCallerPlugin: readRawSequencesAndRecordDepth: processSequenceTime: 548.679835732 sec ProductionSNPCallerPlugin: performFunction: readRawSequencesAndRecordDepth: /local/workdir/rp444/./fastq/fastq4/D17NUACXX_1_fastq.gz: 1928.782327005 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Calling genotypes... [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for CARICASS_1:250090856 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for CH92108:250090858 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for EXCEL:250090854 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I000345:250090783 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I010265:250090781 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I010760:250090773 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011371:250090769 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011551:250090780 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011734:250090778 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I011797:250090770 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I020129:250090842 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I020510:250090844 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I030057:250090841 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I030060:250090848 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I030224:250090849 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I030242:250090853 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I030265:250090846 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I050186:250090840 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I050286:250090839 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I051274:250090837 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I051652:250090833 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070498:250090832 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070576:250090831 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070835:250090834 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I070910:250090835 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I30572:250090764 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I40764:250090836 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I90853:250090838 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I9102324:250090766 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I920326:250090768 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I920417:250090824 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I930007:250090827 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I940006:250090826 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I940330:250090830 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I940561:250090825 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I950925:250090823 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I960129:250090814 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I960249:250090818 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I960325:250090790 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I960532:250090793 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I960590:250090800 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I961039:250090801 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I961087:250090813 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I961556:250090808 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I961569:250090799 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I961613:250090822 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I970103:250090820 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I970162:250090811 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I970219:250090796 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I970290:250090804 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I970353:250090805 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I974045:250090797 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I980378:250090788 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I980406:250090810 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I980505:250090767 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I982101:250090795 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I982132:250090792 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I990313:250090786 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I990411:250090802 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I990503:250090794 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I991702:250090772 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I993151:250090777 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I996016:250090791 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I996076:250090776 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for I997032:250090787 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for M000004:250090775 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for M000044:250090784 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for M000063:250090779 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for M000112:250090774 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for M980057:250090789 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM961669:250090847 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM961839:250090851 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM964019:250090855 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM965055:250090843 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM968676:250090857 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM970227:250090807 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM971405:250090821 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM971899:250090806 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM971909:250090798 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM972961:250090850 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM980471:250090845 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM990214:250090815 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM990276:250090819 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for MM990477:250090809 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for NASE_10:250090859 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for TMEB419:250090765 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z000012:250090782 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z000104:250090785 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z000156:250090771 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z950415:250090829 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z950826:250090828 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z960058:250090817 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z970474:250090812 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z980135:250090816 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for Z980139:250090803 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - finished calling genotypes for blank:250090852 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished calling genotypes for 96 taxa ProductionSNPCallerPlugin: performFunction: callGenotypes: /local/workdir/rp444/./fastq/fastq4/D17NUACXX_1_fastq.gz: 124.958540155 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of reads in lane=171704079 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads=161220319 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Total number of good, barcoded reads matched to the TOPM=151016669 [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Finished reading 7 of 7 sequence files: /local/workdir/rp444/./fastq/fastq4/D17NUACXX_1_fastq.gz Number of taxa in HDF5 file:484 ProductionSNPCallerPlugin: performFunction: genos.build(): 29.229714401 sec [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - Writing ReadsPerSample log file... [Thread-0] INFO net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin - ...done [Thread-0] INFO net.maizegenetics.pipeline.TasselPipeline - net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin: progress: 100% [Thread-0] INFO net.maizegenetics.plugindef.AbstractPlugin - net.maizegenetics.analysis.gbs.ProductionSNPCallerPlugin Citation: Bradbury PJ, Zhang Z, Kroon DE, Casstevens TM, Ramdoss Y, Buckler ES. (2007) TASSEL: Software for association mapping of complex traits in diverse samples. Bioinformatics 23:2633-2635.