STAR version=2.7.10a STAR compilation time,server,dir=2022-01-14T18:50:00-05:00 :/home/dobin/data/STAR/STARcode/STAR.master/source STAR git: On branch master ; commit ae26add7ea1724f3281ec8abedb71bcff6a4ae73 ; diff files: CHANGES.md README.md RELEASEnotes.md doc/STARmanual.pdf extras/doc-latex/STARmanual.tex extras/doc-latex/convertParDefToLatexTable.awk extras/doc-latex/parametersDefault.tex extras/docker/Dockerfile source/VERSION ##### Command Line: STAR --genomeDir ref_genome.fa.star.idx --readFilesIn input1/rna_s1221_S42_1.fastp.fastq.gz input2/rna_s1221_S42_2.fastp.fastq.gz --runThreadN 24 --outFileNamePrefix rna_s1221_S42. --sjdbGTFfile ref_annot.gtf --outSAMattrRGline ID:rna_s1221_S42 SM:rna_s1221_S42 --twopassMode None --chimSegmentMin 12 --chimJunctionOverhangMin 5 --chimMultimapNmax 50 --chimScoreJunctionNonGTAG -4 --chimScoreSeparation 1 --alignIntronMax 140000 --outReadsUnmapped None --readFilesCommand zcat --outSAMtype BAM SortedByCoordinate --outSAMstrandField intronMotif --outSAMunmapped Within --chimOutJunctionFormat 1 --alignSJDBoverhangMin 10 --alignMatesGapMax 100000 --alignSJstitchMismatchNmax 5 -1 5 5 --chimMultimapScoreRange 3 --chimNonchimScoreDropMin 10 --peOverlapNbasesMin 12 --peOverlapMMp 0.1 --alignInsertionFlush Right --alignSplicedMateMapLmin 30 --alignSplicedMateMapLminOverLmate 0.5 --quantMode GeneCounts --runRNGseed 1 --chimOutType Junctions WithinBAM --limitBAMsortRAM 38654705664 ##### Initial USER parameters from Command Line: outFileNamePrefix rna_s1221_S42. ###### All USER parameters from Command Line: genomeDir ref_genome.fa.star.idx ~RE-DEFINED readFilesIn input1/rna_s1221_S42_1.fastp.fastq.gz input2/rna_s1221_S42_2.fastp.fastq.gz ~RE-DEFINED runThreadN 24 ~RE-DEFINED outFileNamePrefix rna_s1221_S42. ~RE-DEFINED sjdbGTFfile ref_annot.gtf ~RE-DEFINED outSAMattrRGline ID:rna_s1221_S42 SM:rna_s1221_S42 ~RE-DEFINED twopassMode None ~RE-DEFINED chimSegmentMin 12 ~RE-DEFINED chimJunctionOverhangMin 5 ~RE-DEFINED chimMultimapNmax 50 ~RE-DEFINED chimScoreJunctionNonGTAG -4 ~RE-DEFINED chimScoreSeparation 1 ~RE-DEFINED alignIntronMax 140000 ~RE-DEFINED outReadsUnmapped None ~RE-DEFINED readFilesCommand zcat ~RE-DEFINED outSAMtype BAM SortedByCoordinate ~RE-DEFINED outSAMstrandField intronMotif ~RE-DEFINED outSAMunmapped Within ~RE-DEFINED chimOutJunctionFormat 1 ~RE-DEFINED alignSJDBoverhangMin 10 ~RE-DEFINED alignMatesGapMax 100000 ~RE-DEFINED alignSJstitchMismatchNmax 5 -1 5 5 ~RE-DEFINED chimMultimapScoreRange 3 ~RE-DEFINED chimNonchimScoreDropMin 10 ~RE-DEFINED peOverlapNbasesMin 12 ~RE-DEFINED peOverlapMMp 0.1 ~RE-DEFINED alignInsertionFlush Right ~RE-DEFINED alignSplicedMateMapLmin 30 ~RE-DEFINED alignSplicedMateMapLminOverLmate0.5 ~RE-DEFINED quantMode GeneCounts ~RE-DEFINED runRNGseed 1 ~RE-DEFINED chimOutType Junctions WithinBAM ~RE-DEFINED limitBAMsortRAM 38654705664 ~RE-DEFINED ##### Finished reading parameters from all sources ##### Final user re-defined parameters-----------------: runThreadN 24 runRNGseed 1 genomeDir ref_genome.fa.star.idx readFilesIn input1/rna_s1221_S42_1.fastp.fastq.gz input2/rna_s1221_S42_2.fastp.fastq.gz readFilesCommand zcat limitBAMsortRAM 38654705664 outFileNamePrefix rna_s1221_S42. outReadsUnmapped None outSAMtype BAM SortedByCoordinate outSAMstrandField intronMotif outSAMunmapped Within outSAMattrRGline ID:rna_s1221_S42 SM:rna_s1221_S42 alignIntronMax 140000 alignMatesGapMax 100000 alignSJDBoverhangMin 10 alignSJstitchMismatchNmax 5 -1 5 5 alignSplicedMateMapLmin 30 alignSplicedMateMapLminOverLmate 0.5 alignInsertionFlush Right peOverlapNbasesMin 12 peOverlapMMp 0.1 chimSegmentMin 12 chimScoreSeparation 1 chimScoreJunctionNonGTAG -4 chimJunctionOverhangMin 5 chimOutType Junctions WithinBAM chimMultimapNmax 50 chimMultimapScoreRange 3 chimNonchimScoreDropMin 10 chimOutJunctionFormat 1 sjdbGTFfile ref_annot.gtf quantMode GeneCounts twopassMode None ------------------------------- ##### Final effective command line: STAR --runThreadN 24 --runRNGseed 1 --genomeDir ref_genome.fa.star.idx --readFilesIn input1/rna_s1221_S42_1.fastp.fastq.gz input2/rna_s1221_S42_2.fastp.fastq.gz --readFilesCommand zcat --limitBAMsortRAM 38654705664 --outFileNamePrefix rna_s1221_S42. --outReadsUnmapped None --outSAMtype BAM SortedByCoordinate --outSAMstrandField intronMotif --outSAMunmapped Within --outSAMattrRGline ID:rna_s1221_S42 SM:rna_s1221_S42 --alignIntronMax 140000 --alignMatesGapMax 100000 --alignSJDBoverhangMin 10 --alignSJstitchMismatchNmax 5 -1 5 5 --alignSplicedMateMapLmin 30 --alignSplicedMateMapLminOverLmate 0.5 --alignInsertionFlush Right --peOverlapNbasesMin 12 --peOverlapMMp 0.1 --chimSegmentMin 12 --chimScoreSeparation 1 --chimScoreJunctionNonGTAG -4 --chimJunctionOverhangMin 5 --chimOutType Junctions WithinBAM --chimMultimapNmax 50 --chimMultimapScoreRange 3 --chimNonchimScoreDropMin 10 --chimOutJunctionFormat 1 --sjdbGTFfile ref_annot.gtf --quantMode GeneCounts --twopassMode None ---------------------------------------- Number of fastq files for each mate = 1 Input read files for mate 1 : -rw-r--r-- 1 1000 root 600026773 Jun 3 12:56 input1/rna_s1221_S42_1.fastp.fastq.gz readsCommandsFile: exec > "rna_s1221_S42._STARtmp/tmp.fifo.read1" echo FILE 0 zcat "input1/rna_s1221_S42_1.fastp.fastq.gz" Input read files for mate 2 : -rw-r--r-- 1 1000 root 604638133 Jun 3 12:56 input2/rna_s1221_S42_2.fastp.fastq.gz readsCommandsFile: exec > "rna_s1221_S42._STARtmp/tmp.fifo.read2" echo FILE 0 zcat "input2/rna_s1221_S42_2.fastp.fastq.gz" WARNING --outSAMattrRG defines a read group, therefore STAR will output RG attribute WARNING --outSAMstrandField=intronMotif, therefore STAR will output XS attribute ParametersSolo: --soloCellFilterType CellRanger2.2 filtering parameters: 3000 0.99 10 Finished loading and checking parameters Reading genome generation parameters: ### STAR --runMode genomeGenerate --runThreadN 4 --genomeDir /seq/RNASEQ/__ctat_genome_lib_building/Mar2021/GRCh38_gencode_v37_CTAT_lib_Mar012021/ctat_genome_lib_build_dir/ref_genome.fa.star.idx --genomeFastaFiles /seq/RNASEQ/__ctat_genome_lib_building/Mar2021/GRCh38_gencode_v37_CTAT_lib_Mar012021/GRCh38.primary_assembly.genome.fa.pseudo_masked.fa --genomeChrBinNbits 16 --limitGenomeGenerateRAM 40419136213 --sjdbGTFfile /seq/RNASEQ/__ctat_genome_lib_building/Mar2021/GRCh38_gencode_v37_CTAT_lib_Mar012021/gencode.v37.annotation.gtf.revised.custom.gtf --sjdbOverhang 150 ### GstrandBit=32 versionGenome 2.7.4a ~RE-DEFINED genomeType Full ~RE-DEFINED genomeFastaFiles /seq/RNASEQ/__ctat_genome_lib_building/Mar2021/GRCh38_gencode_v37_CTAT_lib_Mar012021/GRCh38.primary_assembly.genome.fa.pseudo_masked.fa ~RE-DEFINED genomeSAindexNbases 14 ~RE-DEFINED genomeChrBinNbits 16 ~RE-DEFINED genomeSAsparseD 1 ~RE-DEFINED genomeTransformType None ~RE-DEFINED genomeTransformVCF - ~RE-DEFINED sjdbOverhang 150 ~RE-DEFINED sjdbFileChrStartEnd - ~RE-DEFINED sjdbGTFfile /seq/RNASEQ/__ctat_genome_lib_building/Mar2021/GRCh38_gencode_v37_CTAT_lib_Mar012021/gencode.v37.annotation.gtf.revised.custom.gtf ~RE-DEFINED sjdbGTFchrPrefix - ~RE-DEFINED sjdbGTFfeatureExon exon ~RE-DEFINED sjdbGTFtagExonParentTranscripttranscript_id ~RE-DEFINED sjdbGTFtagExonParentGene gene_id ~RE-DEFINED sjdbInsertSave Basic ~RE-DEFINED genomeFileSizes 3225043118 25262353185 ~RE-DEFINED Genome version is compatible with current STAR Number of real (reference) chromosomes= 194 1 chr1 248956422 0 2 chr2 242193529 248971264 3 chr3 198295559 491192320 4 chr4 190214555 689504256 5 chr5 181538259 879755264 6 chr6 170805979 1061355520 7 chr7 159345973 1232207872 8 chr8 145138636 1391591424 9 chr9 138394717 1536753664 10 chr10 133797422 1675165696 11 chr11 135086622 1808990208 12 chr12 133275309 1944125440 13 chr13 114364328 2077425664 14 chr14 107043718 2191851520 15 chr15 101991189 2298937344 16 chr16 90338345 2400976896 17 chr17 83257441 2491351040 18 chr18 80373285 2574647296 19 chr19 58617616 2655059968 20 chr20 64444167 2713714688 21 chr21 46709983 2778202112 22 chr22 50818468 2824929280 23 chrX 156040895 2875785216 24 chrY 57227415 3031826432 25 chrM 16569 3089104896 26 GL000008.2 209709 3089170432 27 GL000009.2 201709 3089432576 28 GL000194.1 191469 3089694720 29 GL000195.1 182896 3089891328 30 GL000205.2 185591 3090087936 31 GL000208.1 92689 3090284544 32 GL000213.1 164239 3090415616 33 GL000214.1 137718 3090612224 34 GL000216.2 176608 3090808832 35 GL000218.1 161147 3091005440 36 GL000219.1 179198 3091202048 37 GL000220.1 161802 3091398656 38 GL000221.1 155397 3091595264 39 GL000224.1 179693 3091791872 40 GL000225.1 211173 3091988480 41 GL000226.1 15008 3092250624 42 KI270302.1 2274 3092316160 43 KI270303.1 1942 3092381696 44 KI270304.1 2165 3092447232 45 KI270305.1 1472 3092512768 46 KI270310.1 1201 3092578304 47 KI270311.1 12399 3092643840 48 KI270312.1 998 3092709376 49 KI270315.1 2276 3092774912 50 KI270316.1 1444 3092840448 51 KI270317.1 37690 3092905984 52 KI270320.1 4416 3092971520 53 KI270322.1 21476 3093037056 54 KI270329.1 1040 3093102592 55 KI270330.1 1652 3093168128 56 KI270333.1 2699 3093233664 57 KI270334.1 1368 3093299200 58 KI270335.1 1048 3093364736 59 KI270336.1 1026 3093430272 60 KI270337.1 1121 3093495808 61 KI270338.1 1428 3093561344 62 KI270340.1 1428 3093626880 63 KI270362.1 3530 3093692416 64 KI270363.1 1803 3093757952 65 KI270364.1 2855 3093823488 66 KI270366.1 8320 3093889024 67 KI270371.1 2805 3093954560 68 KI270372.1 1650 3094020096 69 KI270373.1 1451 3094085632 70 KI270374.1 2656 3094151168 71 KI270375.1 2378 3094216704 72 KI270376.1 1136 3094282240 73 KI270378.1 1048 3094347776 74 KI270379.1 1045 3094413312 75 KI270381.1 1930 3094478848 76 KI270382.1 4215 3094544384 77 KI270383.1 1750 3094609920 78 KI270384.1 1658 3094675456 79 KI270385.1 990 3094740992 80 KI270386.1 1788 3094806528 81 KI270387.1 1537 3094872064 82 KI270388.1 1216 3094937600 83 KI270389.1 1298 3095003136 84 KI270390.1 2387 3095068672 85 KI270391.1 1484 3095134208 86 KI270392.1 971 3095199744 87 KI270393.1 1308 3095265280 88 KI270394.1 970 3095330816 89 KI270395.1 1143 3095396352 90 KI270396.1 1880 3095461888 91 KI270411.1 2646 3095527424 92 KI270412.1 1179 3095592960 93 KI270414.1 2489 3095658496 94 KI270417.1 2043 3095724032 95 KI270418.1 2145 3095789568 96 KI270419.1 1029 3095855104 97 KI270420.1 2321 3095920640 98 KI270422.1 1445 3095986176 99 KI270423.1 981 3096051712 100 KI270424.1 2140 3096117248 101 KI270425.1 1884 3096182784 102 KI270429.1 1361 3096248320 103 KI270435.1 92983 3096313856 104 KI270438.1 112505 3096444928 105 KI270442.1 392061 3096576000 106 KI270448.1 7992 3096969216 107 KI270465.1 1774 3097034752 108 KI270466.1 1233 3097100288 109 KI270467.1 3920 3097165824 110 KI270468.1 4055 3097231360 111 KI270507.1 5353 3097296896 112 KI270508.1 1951 3097362432 113 KI270509.1 2318 3097427968 114 KI270510.1 2415 3097493504 115 KI270511.1 8127 3097559040 116 KI270512.1 22689 3097624576 117 KI270515.1 6361 3097690112 118 KI270516.1 1300 3097755648 119 KI270517.1 3253 3097821184 120 KI270518.1 2186 3097886720 121 KI270519.1 138126 3097952256 122 KI270521.1 7642 3098148864 123 KI270522.1 5674 3098214400 124 KI270528.1 2983 3098279936 125 KI270529.1 1899 3098345472 126 KI270530.1 2168 3098411008 127 KI270538.1 91309 3098476544 128 KI270539.1 993 3098607616 129 KI270544.1 1202 3098673152 130 KI270548.1 1599 3098738688 131 KI270579.1 31033 3098804224 132 KI270580.1 1553 3098869760 133 KI270581.1 7046 3098935296 134 KI270582.1 6504 3099000832 135 KI270583.1 1400 3099066368 136 KI270584.1 4513 3099131904 137 KI270587.1 2969 3099197440 138 KI270588.1 6158 3099262976 139 KI270589.1 44474 3099328512 140 KI270590.1 4685 3099394048 141 KI270591.1 5796 3099459584 142 KI270593.1 3041 3099525120 143 KI270706.1 175055 3099590656 144 KI270707.1 32032 3099787264 145 KI270708.1 127682 3099852800 146 KI270709.1 66860 3099983872 147 KI270710.1 40176 3100114944 148 KI270711.1 42210 3100180480 149 KI270712.1 176043 3100246016 150 KI270713.1 40745 3100442624 151 KI270714.1 41717 3100508160 152 KI270715.1 161471 3100573696 153 KI270716.1 153799 3100770304 154 KI270717.1 40062 3100966912 155 KI270718.1 38054 3101032448 156 KI270719.1 176845 3101097984 157 KI270720.1 39050 3101294592 158 KI270721.1 100316 3101360128 159 KI270722.1 194050 3101491200 160 KI270723.1 38115 3101687808 161 KI270724.1 39555 3101753344 162 KI270725.1 172810 3101818880 163 KI270726.1 43739 3102015488 164 KI270727.1 448248 3102081024 165 KI270728.1 1872759 3102539776 166 KI270729.1 280839 3104440320 167 KI270730.1 112551 3104768000 168 KI270731.1 150754 3104899072 169 KI270732.1 41543 3105095680 170 KI270733.1 179772 3105161216 171 KI270734.1 165050 3105357824 172 KI270735.1 42811 3105554432 173 KI270736.1 181920 3105619968 174 KI270737.1 103838 3105816576 175 KI270738.1 99375 3105947648 176 KI270739.1 73985 3106078720 177 KI270740.1 37240 3106209792 178 KI270741.1 157432 3106275328 179 KI270742.1 186739 3106471936 180 KI270743.1 210658 3106668544 181 KI270744.1 168472 3106930688 182 KI270745.1 41891 3107127296 183 KI270746.1 66486 3107192832 184 KI270747.1 198735 3107323904 185 KI270748.1 93321 3107586048 186 KI270749.1 158759 3107717120 187 KI270750.1 148850 3107913728 188 KI270751.1 150742 3108110336 189 KI270752.1 27745 3108306944 190 KI270753.1 62944 3108372480 191 KI270754.1 40191 3108438016 192 KI270755.1 36723 3108503552 193 KI270756.1 79590 3108569088 194 KI270757.1 71251 3108700160 --sjdbOverhang = 150 taken from the generated genome Started loading the genome: Wed Jun 3 12:58:02 2026 Genome: size given as a parameter = 3225043118 SA: size given as a parameter = 25262353185 SAindex: size given as a parameter = 1 Read from SAindex: pGe.gSAindexNbases=14 nSAi=357913940 nGenome=3225043118; nSAbyte=25262353185 GstrandBit=32 SA number of indices=6124206832 Shared memory is not used for genomes. Allocated a private copy of the genome. Genome file size: 3225043118 bytes; state: good=1 eof=0 fail=0 bad=0 Loading Genome ... done! state: good=1 eof=0 fail=0 bad=0; loaded 3225043118 bytes SA file size: 25262353185 bytes; state: good=1 eof=0 fail=0 bad=0 Loading SA ... done! state: good=1 eof=0 fail=0 bad=0; loaded 25262353185 bytes Loading SAindex ... done: 1565873619 bytes Finished loading the genome: Wed Jun 3 12:58:16 2026 Processing splice junctions database sjdbN=386086, pGe.sjdbOverhang=150 To accommodate alignIntronMax=140000 redefined winBinNbits=16 To accommodate alignIntronMax=140000 and alignMatesGapMax=100000, redefined winFlankNbins=3 and winAnchorDistNbins=6 Jun 03 12:58:16 Loaded database junctions from the generated genome ref_genome.fa.star.idx//sjdbList.out.tab: 386086 total junctions Jun 03 12:58:16 ..... processing annotations GTF Processing pGe.sjdbGTFfile=ref_annot.gtf, found: 232170 transcripts 1442754 exons (non-collapsed) 386143 collapsed junctions Total junctions: 772229 Jun 03 12:58:24 ..... finished GTF processing Jun 03 12:58:25 Finished preparing junctions Jun 03 12:58:25 ..... inserting junctions into the genome indices Jun 03 12:58:26 Finished SA search: number of new junctions=0, old junctions=386086 Jun 03 12:58:26 Finished sorting SA indicesL nInd=0 Genome size with junctions=3225043118 3108831232 116211886 GstrandBit1=32 GstrandBit=32 Jun 03 12:59:32 Finished inserting junction indices Jun 03 12:59:36 Finished SAi Jun 03 12:59:36 ..... finished inserting junctions into genome WARNING --chimOutType=WithinBAM, therefore STAR will output NM attribute Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread0 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread1 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread2 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread3 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread4 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread5 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread6 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread7 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread8 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread9 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread10 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread11 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread12 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread13 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread14 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread15 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread16 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread17 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread18 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread19 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread20 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread21 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread22 ... ok Opening the file: rna_s1221_S42._STARtmp//Chimeric.out.junction.thread23 ... ok Created thread # 1 Created thread # 2 Starting to map file # 0 mate 1: input1/rna_s1221_S42_1.fastp.fastq.gz mate 2: input2/rna_s1221_S42_2.fastp.fastq.gz Created thread # 3 Created thread # 4 Created thread # 5 Created thread # 6 Created thread # 7 Created thread # 8 Created thread # 9 Created thread # 10 Created thread # 11 Created thread # 12 Created thread # 13 Created thread # 14 Created thread # 15 Created thread # 16 Created thread # 17 Created thread # 18 Created thread # 19 Created thread # 20 Created thread # 21 Created thread # 22 Created thread # 23 BAM sorting: 146377 mapped reads BAM sorting bins genomic start loci: 1 0 31919043 2 0 96679359 3 0 154173082 4 0 212385310 5 1 32916420 6 1 113443759 7 1 227472401 8 2 46991418 9 2 138163809 10 3 56448422 11 4 38949834 12 4 150407167 13 5 26056096 14 5 31535320 15 5 73517842 16 6 4762309 17 6 74174377 18 6 152180068 19 7 127738267 20 8 110136860 21 9 6113500 22 9 104125535 23 10 58551061 24 10 93700165 25 11 20551425 26 11 68552962 27 11 124911927 28 13 31141868 29 14 32616290 30 14 84470692 31 15 21419502 32 15 58580631 33 16 5433676 34 16 38850368 35 16 68037364 36 17 46091690 37 18 7991699 38 18 39383506 39 18 58388204 40 19 63979358 41 20 8258909 42 20 8439248 43 20 43803548 44 21 39522127 45 22 53564625 46 24 2712 47 36 158107 48 169 131245 Thread #5 end of input stream, nextChar=-1 Completed: thread #17 Completed: thread #11 Completed: thread #13 Completed: thread #10 Completed: thread #7 Completed: thread #22 Completed: thread #12 Completed: thread #15 Completed: thread #23 Completed: thread #20 Completed: thread #9 Completed: thread #0 Completed: thread #18 Completed: thread #16 Completed: thread #14 Completed: thread #21 Completed: thread #19 Completed: thread #5 Completed: thread #1 Joined thread # 1 Completed: thread #4 Completed: thread #6 Completed: thread #8 Completed: thread #3 Completed: thread #2 Joined thread # 2 Joined thread # 3 Joined thread # 4 Joined thread # 5 Joined thread # 6 Joined thread # 7 Joined thread # 8 Joined thread # 9 Joined thread # 10 Joined thread # 11 Joined thread # 12 Joined thread # 13 Joined thread # 14 Joined thread # 15 Joined thread # 16 Joined thread # 17 Joined thread # 18 Joined thread # 19 Joined thread # 20 Joined thread # 21 Joined thread # 22 Joined thread # 23 Jun 03 13:00:50 ..... started sorting BAM Max memory needed for sorting = 187535661 ALL DONE!