Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/79/6aefe94bc2ec209645e1d75e403e5f/tih_rna_sample_00136_B23WHTKLT4_1_1.fastp.fastq.gz
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/79/6aefe94bc2ec209645e1d75e403e5f/tih_rna_sample_00136_B23WHTKLT4_1_2.fastp.fastq.gz
Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a8/0d9f6795574e7b31cdb296a7530afc/.command.sh
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a8/0d9f6795574e7b31cdb296a7530afc/.command.run
Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f1/f12ace110a8749b23de023d400ac05/tih_rna_sample_00136_B23WHTKLT4_1.fusionreport.tsv
==> STAGING COMPLETE (6 inputs)
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_pair_to_mini_genome_join.pl --fusions tih_rna_sample_00136_B23WHTKLT4_1.fusionreport.tsv --gtf /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir/ref_annot.gtf --genome_fa /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir/ref_genome.fa --out_prefix /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1 --shrink_introns --max_intron_length 1000
Done.
Execution Time = 0.13 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_pair_to_mini_genome_join.pl --fusions tih_rna_sample_00136_B23WHTKLT4_1.fusionreport.tsv --gtf /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir/ref_annot.gtf --genome_fa /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir/ref_genome.fa --out_prefix /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1 --shrink_introns --max_intron_length 1000
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/fusion_contigs.ok
Running: cp /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fa
Execution Time = 0.00 minutes. CMD: cp /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fa
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/cp_contigs_file_workdir
Running: cp /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.gtf
Execution Time = 0.00 minutes. CMD: cp /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.gtf
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/cp_gtf_file_workdir.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/fasta_and_gtf_to_cytoband.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf > /tmp/nxf.LHmdQCES1p/cytoBand.txt
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/fasta_and_gtf_to_cytoband.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf > /tmp/nxf.LHmdQCES1p/cytoBand.txt
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/cytoband.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/gtf_gene_to_bed.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.bed
-parsing GTF file: /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/gtf_gene_to_bed.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.bed
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/merged_contig_gtf_to_bed.ok
Running: sort -k1,1 -k2,2n /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.bed > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.bed.sorted.bed
Execution Time = 0.00 minutes. CMD: sort -k1,1 -k2,2n /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.bed > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.bed.sorted.bed
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/tih_rna_sample_00136_B23WHTKLT4_1.bed.bedsort.ok
Running: bgzip -f /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.bed.sorted.bed
Execution Time = 0.00 minutes. CMD: bgzip -f /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.bed.sorted.bed
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/tih_rna_sample_00136_B23WHTKLT4_1.bed.bgzip.ok
Running: tabix -p bed /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.bed.sorted.bed.gz
Execution Time = 0.00 minutes. CMD: tabix -p bed /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.bed.sorted.bed.gz
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/tih_rna_sample_00136_B23WHTKLT4_1.bed.tabix.ok
Running: samtools faidx /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa
Execution Time = 0.00 minutes. CMD: samtools faidx /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/merged_contig_fai.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/run_FI_STAR.pl --genome /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir/ref_genome.fa --patch /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fa --max_mate_dist 100000 -G /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.gtf --CPU 8 --out_prefix tih_rna_sample_00136_B23WHTKLT4_1.star --out_dir /tmp/nxf.LHmdQCES1p/fi_workdir --reads "/tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1_1.fastp.fastq.gz /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1_2.fastp.fastq.gz"
* Running CMD: /usr/local/bin/STAR --runThreadN 8 --genomeDir /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir/ref_genome.fa.star.idx --outSAMtype BAM SortedByCoordinate --twopassMode None --alignSJDBoverhangMin 10 --genomeSuffixLengthMax 10000 --limitBAMsortRAM 47271261705 --alignInsertionFlush Right --alignMatesGapMax 100000 --alignIntronMax 100000 --outSAMattributes All --readFilesIn /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1_1.fastp.fastq.gz /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1_2.fastp.fastq.gz --genomeFastaFiles /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fa --outSAMfilter KeepAllAddedReferences --sjdbGTFfile /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.gtf --alignSJstitchMismatchNmax 5 -1 5 5 --scoreGapNoncan -6 --readFilesCommand 'gunzip -c'
Jun 08 09:55:16 ..... started STAR run
Jun 08 09:55:16 ..... loading genome
Jun 08 09:57:04 ... generating Suffix Array index
Jun 08 10:00:58 ... completed Suffix Array index
Jun 08 10:00:58 ..... processing annotations GTF
Jun 08 10:00:58 ..... inserting junctions into the genome indices
Jun 08 10:02:00 ..... started mapping
Jun 08 11:10:40 ..... finished mapping
Jun 08 11:10:41 ..... started sorting BAM
Jun 08 11:10:43 ..... finished successfully
* Running CMD: mv Aligned.sortedByCoord.out.bam tih_rna_sample_00136_B23WHTKLT4_1.star.sortedByCoord.out.bam
* Running CMD: samtools index tih_rna_sample_00136_B23WHTKLT4_1.star.sortedByCoord.out.bam
Execution Time = 75.50 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/run_FI_STAR.pl --genome /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir/ref_genome.fa --patch /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fa --max_mate_dist 100000 -G /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.gtf --CPU 8 --out_prefix tih_rna_sample_00136_B23WHTKLT4_1.star --out_dir /tmp/nxf.LHmdQCES1p/fi_workdir --reads "/tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1_1.fastp.fastq.gz /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1_2.fastp.fastq.gz"
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/run_STAR.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/bam_mark_duplicates.py -i /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.sortedByCoord.out.bam -o /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam --remove_dups
11:10:58 : INFO : Done.
Execution Time = 0.20 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/bam_mark_duplicates.py -i /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.sortedByCoord.out.bam -o /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam --remove_dups
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/mark_dup_reads.ok
Running: samtools index /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam
Execution Time = 0.02 minutes. CMD: samtools index /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/mark_dups_reads.index.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/get_fusion_JUNCTION_reads_from_fusion_contig_bam.pl --gtf_file /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.gtf --MIN_ALIGN_PER_ID 96 --bam /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam --genome_lib_dir ctat_genome_lib_build_dir > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junc_reads.sam
-parsing GTF file: /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.gtf
-parsing /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam
[10000]
[20000]
[30000]
[40000]
[50000]
[60000]
[70000]
[80000]
[90000]
[100000]
[110000]
[120000]
[130000]
[140000]
[150000]
[160000]
[170000]
[180000]
[190000]
[200000]
[210000]
[220000]
[230000]
[240000]
[250000]
[260000]
[270000]
[280000]
[290000]
[300000]
[310000]
[320000]
[330000]
[340000]
[350000]
[360000]
[370000]
[380000]
[390000]
[400000]
[410000]
[420000]
[430000]
[440000]
[450000]
[460000]
[470000]
[480000]
[490000]
[500000]
[510000]
[520000]
[530000]
[540000]
[550000]
[560000]
[570000]
[580000]
[590000]
[600000]
[610000]
[620000]
[630000]
[640000]
[650000]
[660000]
[670000]
[680000]
[690000]
[700000]
[710000]
[720000]
[730000]
[740000]
[750000]
[760000]
[770000]
[780000]
[790000]
[800000]
[810000]
[820000]
[830000]
[840000]
[850000]
[860000]
[870000]
[880000]
[890000]
[900000]
[910000]
[920000]
[930000]
[940000]
[950000]
[960000]
[970000]
[980000]
[990000]
[1000000]
[1010000]
[1020000]
[1030000]
[1040000]
[1050000]
[1060000]
[1070000]
[1080000]
[1090000]
[1100000]
[1110000]
[1120000]
[1130000]
[1140000]
[1150000]
[1160000]
[1170000]
[1180000]
[1190000]
[1200000]
[1210000]
[1220000]
[1230000]
[1240000]
[1250000]
[1260000]
[1270000]
[1280000]
[1290000]
[1300000]
[1310000]
[1320000]
[1330000]
[1340000]
[1350000]
[1360000]
[1370000]
[1380000]
[1390000]
[1400000]
[1410000]
[1420000]
[1430000]
[1440000]
[1450000]
[1460000]
[1470000]
[1480000]
[1490000]
[1500000]
[1510000]
[1520000]
[1530000]
[1540000]
[1550000]
[1560000]
[1570000]
[1580000]
[1590000]
[1600000]
[1610000]
[1620000]
[1630000]
[1640000]
[1650000]
[1660000]
[1670000]
[1680000]
[1690000]
[1700000]
[1710000]
[1720000]
[1730000]
[1740000]
[1750000]
[1760000]
[1770000]
[1780000]
[1790000]
[1800000]
[1810000]
[1820000]
[1830000]
[1840000]
[1850000]
[1860000]
[1870000]
[1880000]
[1890000]
[1900000]
[1910000]
[1920000]
[1930000]
[1940000]
[1950000]
[1960000]
[1970000]
[1980000]
[1990000]
[2000000]
[2010000]
[2020000]
[2030000]
[2040000]
[2050000]
[2060000]
[2070000]
[2080000]
[2090000]
[2100000]
[2110000]
[2120000]
[2130000]
[2140000]
[2150000]
[2160000]
[2170000]
[2180000]
[2190000]
[2200000]
[2210000]
[2220000]
[2230000]
[2240000]
[2250000]
[2260000]
[2270000]
[2280000]
[2290000]
[2300000]
[2310000]
[2320000]
[2330000] -done parsing /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam. Extracting junction info.
junction read elimination tally: $VAR1 = {
'num_hits: 3 != num_counted_on_fusion_contigs 2 ' => 120,
' ** passed ** ' => 9673,
'num_hits: 3 != num_counted_on_fusion_contigs 1 ' => 97,
'seq-similar region overlap' => 71,
'num_hits: 4 != num_counted_on_fusion_contigs 2 ' => 394,
'num_hits: 6 != num_counted_on_fusion_contigs 4 ' => 12,
'excessive soft clipping' => 14528,
'small anchor length' => 2,
'num genes matched < 2' => 18,
'num_hits: 4 != num_counted_on_fusion_contigs 3 ' => 18,
'per_id < 96' => 9963,
'num_hits: 2 != num_counted_on_fusion_contigs 1 ' => 413
};
-writing fusion junction support info.
Execution Time = 1.34 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/get_fusion_JUNCTION_reads_from_fusion_contig_bam.pl --gtf_file /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.gtf --MIN_ALIGN_PER_ID 96 --bam /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam --genome_lib_dir ctat_genome_lib_build_dir > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junc_reads.sam
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/get_fusion_JUNCTION_reads_from_bam.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/get_fusion_SPANNING_reads_from_bam.from_chim_summary.pl --gtf_file /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.gtf --MIN_ALIGN_PER_ID 96 --bam /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam --junction_info /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junction_info --genome_lib_dir ctat_genome_lib_build_dir > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_span_reads.sam
-outputting the spanning read info: /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_spanning_info.
- counting read alignments among fusion contigs.
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000] -fusion SPANNING read extraction for scaff: AC092807.3--DDAH1
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000]
[63000]
[64000]
[65000]
[66000]
[67000]
[68000]
[69000]
[70000]
[71000]
[72000]
[73000]
[74000]
[75000]
[76000]
[77000]
[78000]
[79000]
[80000]
[81000]
[82000]
[83000]
[84000]
[85000]
[86000]
[87000]
[88000]
[89000]
[90000]
[91000]
[92000]
[93000]
[94000]
[95000]
[96000]
[97000]
[98000]
[99000]
[100000]
[101000]
[102000]
[103000]
[104000]
[105000]
[106000]
[107000]
[108000]
[109000]
[110000]
[111000]
[112000]
[113000]
[114000]
[115000]
[116000]
[117000]
[118000]
[119000]
[120000]
[121000]
[122000]
[123000]
[124000]
[125000]
[126000]
[127000]
[128000]
[129000]
[130000]
[131000]
[132000]
[133000]
[134000]
[135000]
[136000]
[137000]
[138000]
[139000]
[140000]
[141000]
[142000]
[143000]
[144000]
[145000]
[146000]
[147000]
[148000]
[149000]
[150000]
[151000]
[152000]
[153000]
[154000]
[155000]
[156000]
[157000]
[158000]
[159000] -fusion SPANNING read extraction for scaff: ACIN1--SLC7A8
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000] -fusion SPANNING read extraction for scaff: ARHGEF10L--ACTL8
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000]
[63000]
[64000]
[65000]
[66000]
[67000]
[68000]
[69000]
[70000]
[71000]
[72000]
[73000]
[74000]
[75000]
[76000]
[77000]
[78000]
[79000]
[80000]
[81000]
[82000]
[83000]
[84000]
[85000]
[86000]
[87000]
[88000]
[89000]
[90000]
[91000]
[92000]
[93000]
[94000]
[95000]
[96000]
[97000]
[98000]
[99000]
[100000]
[101000]
[102000]
[103000]
[104000]
[105000]
[106000]
[107000]
[108000]
[109000]
[110000]
[111000]
[112000]
[113000]
[114000]
[115000]
[116000]
[117000]
[118000]
[119000]
[120000]
[121000]
[122000]
[123000]
[124000]
[125000]
[126000]
[127000]
[128000]
[129000]
[130000]
[131000]
[132000]
[133000]
[134000]
[135000]
[136000]
[137000]
[138000]
[139000]
[140000]
[141000]
[142000]
[143000]
[144000]
[145000]
[146000]
[147000]
[148000]
[149000]
[150000]
[151000]
[152000]
[153000]
[154000]
[155000]
[156000]
[157000]
[158000]
[159000]
[160000]
[161000]
[162000]
[163000]
[164000]
[165000]
[166000]
[167000]
[168000]
[169000]
[170000]
[171000]
[172000]
[173000]
[174000]
[175000]
[176000]
[177000]
[178000]
[179000] -fusion SPANNING read extraction for scaff: BAZ2B--CRTC1
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000]
[63000]
[64000]
[65000]
[66000]
[67000]
[68000]
[69000]
[70000]
[71000]
[72000]
[73000]
[74000]
[75000]
[76000]
[77000]
[78000]
[79000]
[80000]
[81000]
[82000]
[83000]
[84000]
[85000]
[86000]
[87000]
[88000]
[89000]
[90000]
[91000]
[92000]
[93000]
[94000]
[95000]
[96000]
[97000]
[98000]
[99000]
[100000]
[101000]
[102000]
[103000]
[104000]
[105000]
[106000]
[107000]
[108000]
[109000]
[110000]
[111000]
[112000]
[113000]
[114000]
[115000]
[116000]
[117000]
[118000]
[119000]
[120000]
[121000]
[122000]
[123000]
[124000]
[125000]
[126000]
[127000]
[128000]
[129000]
[130000]
[131000]
[132000]
[133000]
[134000]
[135000]
[136000]
[137000]
[138000]
[139000]
[140000]
[141000]
[142000]
[143000]
[144000]
[145000]
[146000]
[147000]
[148000]
[149000]
[150000]
[151000]
[152000]
[153000]
[154000]
[155000]
[156000]
[157000]
[158000]
[159000]
[160000]
[161000]
[162000]
[163000]
[164000]
[165000]
[166000]
[167000]
[168000]
[169000]
[170000]
[171000]
[172000]
[173000]
[174000]
[175000]
[176000]
[177000]
[178000]
[179000]
[180000]
[181000]
[182000]
[183000]
[184000]
[185000]
[186000]
[187000]
[188000]
[189000]
[190000]
[191000]
[192000]
[193000]
[194000]
[195000]
[196000]
[197000]
[198000]
[199000]
[200000]
[201000]
[202000]
[203000]
[204000]
[205000]
[206000]
[207000]
[208000]
[209000]
[210000]
[211000]
[212000]
[213000]
[214000]
[215000]
[216000]
[217000]
[218000]
[219000]
[220000]
[221000]
[222000]
[223000]
[224000]
[225000]
[226000]
[227000]
[228000]
[229000]
[230000]
[231000]
[232000]
[233000]
[234000]
[235000]
[236000]
[237000]
[238000]
[239000]
[240000]
[241000]
[242000]
[243000]
[244000]
[245000]
[246000]
[247000]
[248000]
[249000]
[250000]
[251000]
[252000]
[253000]
[254000]
[255000]
[256000]
[257000]
[258000]
[259000]
[260000]
[261000]
[262000]
[263000]
[264000]
[265000]
[266000]
[267000]
[268000]
[269000]
[270000]
[271000]
[272000]
[273000]
[274000]
[275000]
[276000]
[277000]
[278000]
[279000]
[280000]
[281000]
[282000]
[283000]
[284000]
[285000]
[286000]
[287000]
[288000]
[289000]
[290000]
[291000]
[292000]
[293000]
[294000]
[295000]
[296000]
[297000]
[298000]
[299000]
[300000]
[301000]
[302000]
[303000]
[304000]
[305000]
[306000]
[307000]
[308000]
[309000]
[310000]
[311000]
[312000]
[313000]
[314000]
[315000]
[316000]
[317000]
[318000]
[319000]
[320000]
[321000] -fusion SPANNING read extraction for scaff: BPNT2--KMT2C
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000]
[63000]
[64000]
[65000]
[66000]
[67000]
[68000]
[69000]
[70000]
[71000]
[72000]
[73000]
[74000]
[75000]
[76000]
[77000]
[78000]
[79000]
[80000]
[81000]
[82000]
[83000]
[84000]
[85000]
[86000]
[87000]
[88000]
[89000]
[90000]
[91000] -fusion SPANNING read extraction for scaff: CYB5RL--SSBP3
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000] -fusion SPANNING read extraction for scaff: FGFR2--SORBS1
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000]
[63000]
[64000]
[65000]
[66000]
[67000]
[68000] -fusion SPANNING read extraction for scaff: IARS1--NOL8
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000]
[63000]
[64000]
[65000]
[66000]
[67000]
[68000]
[69000]
[70000]
[71000]
[72000]
[73000]
[74000]
[75000]
[76000]
[77000]
[78000]
[79000]
[80000]
[81000]
[82000]
[83000]
[84000]
[85000]
[86000]
[87000]
[88000]
[89000]
[90000]
[91000]
[92000]
[93000]
[94000]
[95000]
[96000]
[97000]
[98000]
[99000]
[100000]
[101000]
[102000]
[103000]
[104000]
[105000]
[106000]
[107000]
[108000]
[109000]
[110000]
[111000]
[112000]
[113000]
[114000]
[115000]
[116000]
[117000]
[118000]
[119000]
[120000]
[121000]
[122000]
[123000]
[124000]
[125000]
[126000]
[127000]
[128000]
[129000]
[130000]
[131000]
[132000]
[133000]
[134000]
[135000]
[136000]
[137000]
[138000]
[139000]
[140000]
[141000]
[142000]
[143000]
[144000]
[145000]
[146000]
[147000]
[148000]
[149000]
[150000] -fusion SPANNING read extraction for scaff: MDN1--BACH2
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000] -fusion SPANNING read extraction for scaff: MFSD6--PMS1
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000]
[63000]
[64000]
[65000]
[66000]
[67000]
[68000]
[69000]
[70000]
[71000]
[72000]
[73000]
[74000]
[75000]
[76000]
[77000]
[78000]
[79000]
[80000]
[81000]
[82000]
[83000]
[84000]
[85000]
[86000]
[87000]
[88000]
[89000]
[90000]
[91000]
[92000]
[93000]
[94000]
[95000]
[96000]
[97000]
[98000]
[99000]
[100000]
[101000]
[102000]
[103000]
[104000]
[105000]
[106000]
[107000]
[108000]
[109000]
[110000]
[111000]
[112000]
[113000]
[114000]
[115000]
[116000]
[117000]
[118000]
[119000]
[120000]
[121000]
[122000]
[123000]
[124000] -fusion SPANNING read extraction for scaff: NCOA6--TRPC4AP
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000] -fusion SPANNING read extraction for scaff: NMNAT3--AC046134.2
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000] -fusion SPANNING read extraction for scaff: NMNAT3--AC016933.1
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000]
[63000]
[64000]
[65000]
[66000]
[67000]
[68000]
[69000]
[70000]
[71000]
[72000]
[73000]
[74000]
[75000]
[76000]
[77000]
[78000]
[79000]
[80000]
[81000]
[82000]
[83000]
[84000]
[85000]
[86000]
[87000]
[88000]
[89000] -fusion SPANNING read extraction for scaff: NPHP3--ACAD11
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000] -fusion SPANNING read extraction for scaff: OSBPL11--EGFEM1P
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000] -fusion SPANNING read extraction for scaff: PAWR--PPFIA2
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGB6
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGC5
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGA8
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGC4
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGB7
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGA10
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGA11
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGC3
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGA9
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000] -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGA12
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000] -fusion SPANNING read extraction for scaff: PMS2P8--CCDC146
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000]
[63000]
[64000]
[65000]
[66000]
[67000]
[68000]
[69000]
[70000]
[71000]
[72000]
[73000]
[74000]
[75000]
[76000]
[77000]
[78000]
[79000]
[80000]
[81000]
[82000]
[83000]
[84000]
[85000]
[86000]
[87000]
[88000]
[89000]
[90000]
[91000]
[92000]
[93000]
[94000]
[95000]
[96000]
[97000]
[98000]
[99000]
[100000]
[101000]
[102000]
[103000]
[104000]
[105000]
[106000]
[107000]
[108000]
[109000]
[110000]
[111000]
[112000]
[113000]
[114000]
[115000]
[116000]
[117000]
[118000]
[119000]
[120000]
[121000]
[122000]
[123000]
[124000]
[125000]
[126000]
[127000]
[128000]
[129000]
[130000]
[131000]
[132000]
[133000]
[134000]
[135000]
[136000]
[137000]
[138000]
[139000]
[140000]
[141000]
[142000]
[143000]
[144000]
[145000]
[146000]
[147000]
[148000]
[149000]
[150000]
[151000]
[152000]
[153000]
[154000]
[155000]
[156000]
[157000]
[158000]
[159000] -fusion SPANNING read extraction for scaff: PSMA7--LAMA5
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000]
[63000]
[64000]
[65000]
[66000]
[67000]
[68000]
[69000]
[70000]
[71000]
[72000]
[73000]
[74000]
[75000]
[76000]
[77000]
[78000]
[79000]
[80000]
[81000]
[82000]
[83000]
[84000]
[85000]
[86000]
[87000]
[88000]
[89000]
[90000]
[91000]
[92000]
[93000]
[94000]
[95000]
[96000]
[97000]
[98000]
[99000]
[100000]
[101000]
[102000]
[103000]
[104000]
[105000]
[106000]
[107000]
[108000]
[109000]
[110000]
[111000]
[112000]
[113000]
[114000]
[115000]
[116000]
[117000]
[118000]
[119000]
[120000]
[121000]
[122000]
[123000]
[124000]
[125000]
[126000]
[127000]
[128000]
[129000]
[130000]
[131000]
[132000]
[133000]
[134000]
[135000]
[136000]
[137000]
[138000]
[139000]
[140000]
[141000]
[142000]
[143000]
[144000]
[145000]
[146000]
[147000]
[148000]
[149000]
[150000]
[151000]
[152000]
[153000]
[154000]
[155000]
[156000]
[157000]
[158000]
[159000]
[160000]
[161000]
[162000]
[163000]
[164000]
[165000]
[166000]
[167000]
[168000]
[169000]
[170000]
[171000]
[172000]
[173000]
[174000]
[175000]
[176000]
[177000]
[178000]
[179000]
[180000]
[181000]
[182000]
[183000]
[184000]
[185000]
[186000]
[187000]
[188000]
[189000]
[190000]
[191000]
[192000]
[193000]
[194000]
[195000]
[196000]
[197000]
[198000]
[199000]
[200000]
[201000]
[202000]
[203000]
[204000]
[205000]
[206000]
[207000]
[208000]
[209000]
[210000]
[211000]
[212000]
[213000]
[214000]
[215000]
[216000]
[217000]
[218000]
[219000]
[220000]
[221000]
[222000]
[223000]
[224000]
[225000]
[226000]
[227000]
[228000]
[229000]
[230000]
[231000]
[232000]
[233000]
[234000]
[235000]
[236000]
[237000]
[238000]
[239000]
[240000]
[241000]
[242000]
[243000]
[244000]
[245000]
[246000]
[247000]
[248000]
[249000]
[250000]
[251000]
[252000]
[253000]
[254000]
[255000]
[256000]
[257000]
[258000]
[259000]
[260000]
[261000] -fusion SPANNING read extraction for scaff: RERE--MTOR
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000]
[63000]
[64000]
[65000]
[66000]
[67000]
[68000]
[69000]
[70000]
[71000]
[72000]
[73000] -fusion SPANNING read extraction for scaff: SLC2A11--SMARCB1
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000] -fusion SPANNING read extraction for scaff: SLC37A1--ABCG1
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000]
[42000]
[43000]
[44000]
[45000]
[46000]
[47000]
[48000]
[49000]
[50000]
[51000]
[52000]
[53000]
[54000]
[55000]
[56000]
[57000]
[58000]
[59000]
[60000]
[61000]
[62000] -fusion SPANNING read extraction for scaff: SORBS1--FGFR2
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000] -fusion SPANNING read extraction for scaff: TLK2--AC240565.1
[1000]
[2000]
[3000]
[4000]
[5000] -fusion SPANNING read extraction for scaff: TLK2P1--AC110079.1
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000]
[40000]
[41000] -fusion SPANNING read extraction for scaff: TRAPPC10--AGPAT3
[1000]
[2000]
[3000]
[4000]
[5000]
[6000]
[7000]
[8000]
[9000]
[10000]
[11000]
[12000]
[13000]
[14000]
[15000]
[16000]
[17000]
[18000]
[19000]
[20000]
[21000]
[22000]
[23000]
[24000]
[25000]
[26000]
[27000]
[28000]
[29000]
[30000]
[31000]
[32000]
[33000]
[34000]
[35000]
[36000]
[37000]
[38000]
[39000] -fusion SPANNING read extraction for scaff: TVP23C--CDRT4
-filtered reads reasons: $VAR1 = {
'lacks exon overlap' => 68910,
'seq similar region alignment' => 13725
};
Execution Time = 3.84 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/get_fusion_SPANNING_reads_from_bam.from_chim_summary.pl --gtf_file /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.gtf --MIN_ALIGN_PER_ID 96 --bam /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam --junction_info /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junction_info --genome_lib_dir ctat_genome_lib_build_dir > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_span_reads.sam
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/get_fusion_SPANNING_reads_from_bam.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/coalesce_junction_and_spanning_info.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junction_info /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_spanning_info 1 > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/coalesce_junction_and_spanning_info.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junction_info /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_spanning_info 1 > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/coalesce_junc_n_span.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_EM_runner.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj
EM: Starting log likelihood: -6666.431189
EM: Round [1] log likelihood: -6665.796984
EM: Round [2] log likelihood: -6665.777879
EM: Round [3] log likelihood: -6665.759541
EM: Round [4] log likelihood: -6665.741341
EM: Round [5] log likelihood: -6665.723266
EM: Round [6] log likelihood: -6665.705310
EM: Round [7] log likelihood: -6665.687465
EM: Round [8] log likelihood: -6665.669728
EM: Round [9] log likelihood: -6665.652092
EM: Round [10] log likelihood: -6665.634554
EM: Round [11] log likelihood: -6665.617110
EM: Round [12] log likelihood: -6665.599756
EM: Round [13] log likelihood: -6665.582490
EM: Round [14] log likelihood: -6665.565309
EM: Round [15] log likelihood: -6665.548211
EM: Round [16] log likelihood: -6665.531194
EM: Round [17] log likelihood: -6665.514257
EM: Round [18] log likelihood: -6665.497398
EM: Round [19] log likelihood: -6665.480617
EM: Round [20] log likelihood: -6665.463912
EM: Round [21] log likelihood: -6665.447284
EM: Round [22] log likelihood: -6665.430732
EM: Round [23] log likelihood: -6665.414257
EM: Round [24] log likelihood: -6665.397858
EM: Round [25] log likelihood: -6665.381536
EM: Round [26] log likelihood: -6665.365291
EM: Round [27] log likelihood: -6665.349124
EM: Round [28] log likelihood: -6665.333036
EM: Round [29] log likelihood: -6665.317028
EM: Round [30] log likelihood: -6665.301100
EM: Round [31] log likelihood: -6665.285254
EM: Round [32] log likelihood: -6665.269491
EM: Round [33] log likelihood: -6665.253811
EM: Round [34] log likelihood: -6665.238217
EM: Round [35] log likelihood: -6665.222710
EM: Round [36] log likelihood: -6665.207289
EM: Round [37] log likelihood: -6665.191958
EM: Round [38] log likelihood: -6665.176717
EM: Round [39] log likelihood: -6665.161568
EM: Round [40] log likelihood: -6665.146512
EM: Round [41] log likelihood: -6665.131549
EM: Round [42] log likelihood: -6665.116683
EM: Round [43] log likelihood: -6665.101912
EM: Round [44] log likelihood: -6665.087240
EM: Round [45] log likelihood: -6665.072667
EM: Round [46] log likelihood: -6665.058194
EM: Round [47] log likelihood: -6665.043822
EM: Round [48] log likelihood: -6665.029553
EM: Round [49] log likelihood: -6665.015388
EM: Round [50] log likelihood: -6665.001327
EM: Round [51] log likelihood: -6664.987371
EM: Round [52] log likelihood: -6664.973522
EM: Round [53] log likelihood: -6664.959779
EM: Round [54] log likelihood: -6664.946145
EM: Round [55] log likelihood: -6664.932619
EM: Round [56] log likelihood: -6664.919203
EM: Round [57] log likelihood: -6664.905896
EM: Round [58] log likelihood: -6664.892700
EM: Round [59] log likelihood: -6664.879615
EM: Round [60] log likelihood: -6664.866641
EM: Round [61] log likelihood: -6664.853779
EM: Round [62] log likelihood: -6664.841029
EM: Round [63] log likelihood: -6664.828392
EM: Round [64] log likelihood: -6664.815867
EM: Round [65] log likelihood: -6664.803455
EM: Round [66] log likelihood: -6664.791155
EM: Round [67] log likelihood: -6664.778969
EM: Round [68] log likelihood: -6664.766896
EM: Round [69] log likelihood: -6664.754935
EM: Round [70] log likelihood: -6664.743087
EM: Round [71] log likelihood: -6664.731352
EM: Round [72] log likelihood: -6664.719730
EM: Round [73] log likelihood: -6664.708219
EM: Round [74] log likelihood: -6664.696821
EM: Round [75] log likelihood: -6664.685534
EM: Round [76] log likelihood: -6664.674358
EM: Round [77] log likelihood: -6664.663293
EM: Round [78] log likelihood: -6664.652339
EM: Round [79] log likelihood: -6664.641495
EM: Round [80] log likelihood: -6664.630760
EM: Round [81] log likelihood: -6664.620134
EM: Round [82] log likelihood: -6664.609616
EM: Round [83] log likelihood: -6664.599206
EM: Round [84] log likelihood: -6664.588903
EM: Round [85] log likelihood: -6664.578706
EM: Round [86] log likelihood: -6664.568615
EM: Round [87] log likelihood: -6664.558629
EM: Round [88] log likelihood: -6664.548747
EM: Round [89] log likelihood: -6664.538969
EM: Round [90] log likelihood: -6664.529293
EM: Round [91] log likelihood: -6664.519720
EM: Round [92] log likelihood: -6664.510247
EM: Round [93] log likelihood: -6664.500875
EM: Round [94] log likelihood: -6664.491602
EM: Round [95] log likelihood: -6664.482427
EM: Round [96] log likelihood: -6664.473350
EM: Round [97] log likelihood: -6664.464370
EM: Round [98] log likelihood: -6664.455486
EM: Round [99] log likelihood: -6664.446697
EM: Round [100] log likelihood: -6664.438001
EM: Round [101] log likelihood: -6664.429399
EM: Round [102] log likelihood: -6664.420888
EM: Round [103] log likelihood: -6664.412469
EM: Round [104] log likelihood: -6664.404140
EM: Round [105] log likelihood: -6664.395901
EM: Round [106] log likelihood: -6664.387749
EM: Round [107] log likelihood: -6664.379685
EM: Round [108] log likelihood: -6664.371708
EM: Round [109] log likelihood: -6664.363815
EM: Round [110] log likelihood: -6664.356007
EM: Round [111] log likelihood: -6664.348283
EM: Round [112] log likelihood: -6664.340641
EM: Round [113] log likelihood: -6664.333080
EM: Round [114] log likelihood: -6664.325600
EM: Round [115] log likelihood: -6664.318200
EM: Round [116] log likelihood: -6664.310878
EM: Round [117] log likelihood: -6664.303634
EM: Round [118] log likelihood: -6664.296466
EM: Round [119] log likelihood: -6664.289375
EM: Round [120] log likelihood: -6664.282358
EM: Round [121] log likelihood: -6664.275415
EM: Round [122] log likelihood: -6664.268544
EM: Round [123] log likelihood: -6664.261746
EM: Round [124] log likelihood: -6664.255019
EM: Round [125] log likelihood: -6664.248362
EM: Round [126] log likelihood: -6664.241774
EM: Round [127] log likelihood: -6664.235255
EM: Round [128] log likelihood: -6664.228803
EM: Round [129] log likelihood: -6664.222418
EM: Round [130] log likelihood: -6664.216098
EM: Round [131] log likelihood: -6664.209843
EM: Round [132] log likelihood: -6664.203652
EM: Round [133] log likelihood: -6664.197524
EM: Round [134] log likelihood: -6664.191459
EM: Round [135] log likelihood: -6664.185454
EM: Round [136] log likelihood: -6664.179511
EM: Round [137] log likelihood: -6664.173627
EM: Round [138] log likelihood: -6664.167801
EM: Round [139] log likelihood: -6664.162034
EM: Round [140] log likelihood: -6664.156325
EM: Round [141] log likelihood: -6664.150672
EM: Round [142] log likelihood: -6664.145074
EM: Round [143] log likelihood: -6664.139532
EM: Round [144] log likelihood: -6664.134044
EM: Round [145] log likelihood: -6664.128609
EM: Round [146] log likelihood: -6664.123227
EM: Round [147] log likelihood: -6664.117897
EM: Round [148] log likelihood: -6664.112619
EM: Round [149] log likelihood: -6664.107391
EM: Round [150] log likelihood: -6664.102212
EM: Round [151] log likelihood: -6664.097083
EM: Round [152] log likelihood: -6664.092003
EM: Round [153] log likelihood: -6664.086970
EM: Round [154] log likelihood: -6664.081985
EM: Round [155] log likelihood: -6664.077046
EM: Round [156] log likelihood: -6664.072153
EM: Round [157] log likelihood: -6664.067305
EM: Round [158] log likelihood: -6664.062501
EM: Round [159] log likelihood: -6664.057742
EM: Round [160] log likelihood: -6664.053026
EM: Round [161] log likelihood: -6664.048353
EM: Round [162] log likelihood: -6664.043722
EM: Round [163] log likelihood: -6664.039132
EM: Round [164] log likelihood: -6664.034584
EM: Round [165] log likelihood: -6664.030075
EM: Round [166] log likelihood: -6664.025607
EM: Round [167] log likelihood: -6664.021179
EM: Round [168] log likelihood: -6664.016788
EM: Round [169] log likelihood: -6664.012437
EM: Round [170] log likelihood: -6664.008123
EM: Round [171] log likelihood: -6664.003846
EM: Round [172] log likelihood: -6663.999606
EM: Round [173] log likelihood: -6663.995402
EM: Round [174] log likelihood: -6663.991234
EM: Round [175] log likelihood: -6663.987101
EM: Round [176] log likelihood: -6663.983003
EM: Round [177] log likelihood: -6663.978939
EM: Round [178] log likelihood: -6663.974909
EM: Round [179] log likelihood: -6663.970912
EM: Round [180] log likelihood: -6663.966949
EM: Round [181] log likelihood: -6663.963017
EM: Round [182] log likelihood: -6663.959118
EM: Round [183] log likelihood: -6663.955251
EM: Round [184] log likelihood: -6663.951414
EM: Round [185] log likelihood: -6663.947609
EM: Round [186] log likelihood: -6663.943834
EM: Round [187] log likelihood: -6663.940088
EM: Round [188] log likelihood: -6663.936373
EM: Round [189] log likelihood: -6663.932686
EM: Round [190] log likelihood: -6663.929029
EM: Round [191] log likelihood: -6663.925400
EM: Round [192] log likelihood: -6663.921799
EM: Round [193] log likelihood: -6663.918226
EM: Round [194] log likelihood: -6663.914680
EM: Round [195] log likelihood: -6663.911161
EM: Round [196] log likelihood: -6663.907669
EM: Round [197] log likelihood: -6663.904203
EM: Round [198] log likelihood: -6663.900763
EM: Round [199] log likelihood: -6663.897349
EM: Round [200] log likelihood: -6663.893961
EM: Round [201] log likelihood: -6663.890597
EM: Round [202] log likelihood: -6663.887258
EM: Round [203] log likelihood: -6663.883944
EM: Round [204] log likelihood: -6663.880653
EM: Round [205] log likelihood: -6663.877387
EM: Round [206] log likelihood: -6663.874144
EM: Round [207] log likelihood: -6663.870924
EM: Round [208] log likelihood: -6663.867727
EM: Round [209] log likelihood: -6663.864553
EM: Round [210] log likelihood: -6663.861402
EM: Round [211] log likelihood: -6663.858272
EM: Round [212] log likelihood: -6663.855164
EM: Round [213] log likelihood: -6663.852079
EM: Round [214] log likelihood: -6663.849014
EM: Round [215] log likelihood: -6663.845971
EM: Round [216] log likelihood: -6663.842948
EM: Round [217] log likelihood: -6663.839946
EM: Round [218] log likelihood: -6663.836965
EM: Round [219] log likelihood: -6663.834003
EM: Round [220] log likelihood: -6663.831062
EM: Round [221] log likelihood: -6663.828140
EM: Round [222] log likelihood: -6663.825238
EM: Round [223] log likelihood: -6663.822355
EM: Round [224] log likelihood: -6663.819491
EM: Round [225] log likelihood: -6663.816646
EM: Round [226] log likelihood: -6663.813820
EM: Round [227] log likelihood: -6663.811012
EM: Round [228] log likelihood: -6663.808222
EM: Round [229] log likelihood: -6663.805450
EM: Round [230] log likelihood: -6663.802697
EM: Round [231] log likelihood: -6663.799960
EM: Round [232] log likelihood: -6663.797241
EM: Round [233] log likelihood: -6663.794540
EM: Round [234] log likelihood: -6663.791855
EM: Round [235] log likelihood: -6663.789188
EM: Round [236] log likelihood: -6663.786537
EM: Round [237] log likelihood: -6663.783903
EM: Round [238] log likelihood: -6663.781285
EM: Round [239] log likelihood: -6663.778683
EM: Round [240] log likelihood: -6663.776097
EM: Round [241] log likelihood: -6663.773527
EM: Round [242] log likelihood: -6663.770973
EM: Round [243] log likelihood: -6663.768434
EM: Round [244] log likelihood: -6663.765911
EM: Round [245] log likelihood: -6663.763403
EM: Round [246] log likelihood: -6663.760910
EM: Round [247] log likelihood: -6663.758432
EM: Round [248] log likelihood: -6663.755968
EM: Round [249] log likelihood: -6663.753520
EM: Round [250] log likelihood: -6663.751086
EM: Round [251] log likelihood: -6663.748666
EM: Round [252] log likelihood: -6663.746260
EM: Round [253] log likelihood: -6663.743869
EM: Round [254] log likelihood: -6663.741491
EM: Round [255] log likelihood: -6663.739127
EM: Round [256] log likelihood: -6663.736777
EM: Round [257] log likelihood: -6663.734440
EM: Round [258] log likelihood: -6663.732117
EM: Round [259] log likelihood: -6663.729807
EM: Round [260] log likelihood: -6663.727511
EM: Round [261] log likelihood: -6663.725227
EM: Round [262] log likelihood: -6663.722956
EM: Round [263] log likelihood: -6663.720698
EM: Round [264] log likelihood: -6663.718453
EM: Round [265] log likelihood: -6663.716220
EM: Round [266] log likelihood: -6663.714000
EM: Round [267] log likelihood: -6663.711792
EM: Round [268] log likelihood: -6663.709596
EM: Round [269] log likelihood: -6663.707413
EM: Round [270] log likelihood: -6663.705241
EM: Round [271] log likelihood: -6663.703082
EM: Round [272] log likelihood: -6663.700934
EM: Round [273] log likelihood: -6663.698798
EM: Round [274] log likelihood: -6663.696674
EM: Round [275] log likelihood: -6663.694561
EM: Round [276] log likelihood: -6663.692459
EM: Round [277] log likelihood: -6663.690369
EM: Round [278] log likelihood: -6663.688290
EM: Round [279] log likelihood: -6663.686222
EM: Round [280] log likelihood: -6663.684165
EM: Round [281] log likelihood: -6663.682119
EM: Round [282] log likelihood: -6663.680084
EM: Round [283] log likelihood: -6663.678060
EM: Round [284] log likelihood: -6663.676046
EM: Round [285] log likelihood: -6663.674043
EM: Round [286] log likelihood: -6663.672051
EM: Round [287] log likelihood: -6663.670069
EM: Round [288] log likelihood: -6663.668097
EM: Round [289] log likelihood: -6663.666135
EM: Round [290] log likelihood: -6663.664184
EM: Round [291] log likelihood: -6663.662243
EM: Round [292] log likelihood: -6663.660311
EM: Round [293] log likelihood: -6663.658390
EM: Round [294] log likelihood: -6663.656478
EM: Round [295] log likelihood: -6663.654576
EM: Round [296] log likelihood: -6663.652684
EM: Round [297] log likelihood: -6663.650802
EM: Round [298] log likelihood: -6663.648929
EM: Round [299] log likelihood: -6663.647066
EM: Round [300] log likelihood: -6663.645211
EM: Round [301] log likelihood: -6663.643367
EM: Round [302] log likelihood: -6663.641531
EM: Round [303] log likelihood: -6663.639705
EM: Round [304] log likelihood: -6663.637888
EM: Round [305] log likelihood: -6663.636080
EM: Round [306] log likelihood: -6663.634280
EM: Round [307] log likelihood: -6663.632490
EM: Round [308] log likelihood: -6663.630709
EM: Round [309] log likelihood: -6663.628936
EM: Round [310] log likelihood: -6663.627172
EM: Round [311] log likelihood: -6663.625417
EM: Round [312] log likelihood: -6663.623671
EM: Round [313] log likelihood: -6663.621932
EM: Round [314] log likelihood: -6663.620203
EM: Round [315] log likelihood: -6663.618482
EM: Round [316] log likelihood: -6663.616769
EM: Round [317] log likelihood: -6663.615064
EM: Round [318] log likelihood: -6663.613368
EM: Round [319] log likelihood: -6663.611680
EM: Round [320] log likelihood: -6663.610000
EM: Round [321] log likelihood: -6663.608328
EM: Round [322] log likelihood: -6663.606664
EM: Round [323] log likelihood: -6663.605008
EM: Round [324] log likelihood: -6663.603360
EM: Round [325] log likelihood: -6663.601719
EM: Round [326] log likelihood: -6663.600087
EM: Round [327] log likelihood: -6663.598462
EM: Round [328] log likelihood: -6663.596845
EM: Round [329] log likelihood: -6663.595236
EM: Round [330] log likelihood: -6663.593634
EM: Round [331] log likelihood: -6663.592039
EM: Round [332] log likelihood: -6663.590452
EM: Round [333] log likelihood: -6663.588873
EM: Round [334] log likelihood: -6663.587301
EM: Round [335] log likelihood: -6663.585736
EM: Round [336] log likelihood: -6663.584179
EM: Round [337] log likelihood: -6663.582629
EM: Round [338] log likelihood: -6663.581086
EM: Round [339] log likelihood: -6663.579550
EM: Round [340] log likelihood: -6663.578021
EM: Round [341] log likelihood: -6663.576499
EM: Round [342] log likelihood: -6663.574984
EM: Round [343] log likelihood: -6663.573477
EM: Round [344] log likelihood: -6663.571976
EM: Round [345] log likelihood: -6663.570482
EM: Round [346] log likelihood: -6663.568995
EM: Round [347] log likelihood: -6663.567514
EM: Round [348] log likelihood: -6663.566040
EM: Round [349] log likelihood: -6663.564573
EM: Round [350] log likelihood: -6663.563113
EM: Round [351] log likelihood: -6663.561659
EM: Round [352] log likelihood: -6663.560212
EM: Round [353] log likelihood: -6663.558772
EM: Round [354] log likelihood: -6663.557338
EM: Round [355] log likelihood: -6663.555910
EM: Round [356] log likelihood: -6663.554489
EM: Round [357] log likelihood: -6663.553074
EM: Round [358] log likelihood: -6663.551665
EM: Round [359] log likelihood: -6663.550263
EM: Round [360] log likelihood: -6663.548867
EM: Round [361] log likelihood: -6663.547477
EM: Round [362] log likelihood: -6663.546094
EM: Round [363] log likelihood: -6663.544716
EM: Round [364] log likelihood: -6663.543345
EM: Round [365] log likelihood: -6663.541979
EM: Round [366] log likelihood: -6663.540620
EM: Round [367] log likelihood: -6663.539267
EM: Round [368] log likelihood: -6663.537919
EM: Round [369] log likelihood: -6663.536578
EM: Round [370] log likelihood: -6663.535243
EM: Round [371] log likelihood: -6663.533913
EM: Round [372] log likelihood: -6663.532589
EM: Round [373] log likelihood: -6663.531271
EM: Round [374] log likelihood: -6663.529959
EM: Round [375] log likelihood: -6663.528652
EM: Round [376] log likelihood: -6663.527351
EM: Round [377] log likelihood: -6663.526056
EM: Round [378] log likelihood: -6663.524766
EM: Round [379] log likelihood: -6663.523482
EM: Round [380] log likelihood: -6663.522204
EM: Round [381] log likelihood: -6663.520931
EM: Round [382] log likelihood: -6663.519663
EM: Round [383] log likelihood: -6663.518401
EM: Round [384] log likelihood: -6663.517145
EM: Round [385] log likelihood: -6663.515893
EM: Round [386] log likelihood: -6663.514648
EM: Round [387] log likelihood: -6663.513407
EM: Round [388] log likelihood: -6663.512172
EM: Round [389] log likelihood: -6663.510942
EM: Round [390] log likelihood: -6663.509717
EM: Round [391] log likelihood: -6663.508498
EM: Round [392] log likelihood: -6663.507284
EM: Round [393] log likelihood: -6663.506075
EM: Round [394] log likelihood: -6663.504871
EM: Round [395] log likelihood: -6663.503672
EM: Round [396] log likelihood: -6663.502478
EM: Round [397] log likelihood: -6663.501289
EM: Round [398] log likelihood: -6663.500105
EM: Round [399] log likelihood: -6663.498927
EM: Round [400] log likelihood: -6663.497753
EM: Round [401] log likelihood: -6663.496584
EM: Round [402] log likelihood: -6663.495420
EM: Round [403] log likelihood: -6663.494261
EM: Round [404] log likelihood: -6663.493107
EM: Round [405] log likelihood: -6663.491958
EM: Round [406] log likelihood: -6663.490813
EM: Round [407] log likelihood: -6663.489673
EM: Round [408] log likelihood: -6663.488538
EM: Round [409] log likelihood: -6663.487408
EM: Round [410] log likelihood: -6663.486282
EM: Round [411] log likelihood: -6663.485161
EM: Round [412] log likelihood: -6663.484045
EM: Round [413] log likelihood: -6663.482933
EM: Round [414] log likelihood: -6663.481826
EM: Round [415] log likelihood: -6663.480724
EM: Round [416] log likelihood: -6663.479626
EM: Round [417] log likelihood: -6663.478533
EM: Round [418] log likelihood: -6663.477444
EM: Round [419] log likelihood: -6663.476359
EM: Round [420] log likelihood: -6663.475279
EM: Round [421] log likelihood: -6663.474204
EM: Round [422] log likelihood: -6663.473133
EM: Round [423] log likelihood: -6663.472066
EM: Round [424] log likelihood: -6663.471004
EM: Round [425] log likelihood: -6663.469946
EM: Round [426] log likelihood: -6663.468892
EM: Round [427] log likelihood: -6663.467842
EM: Round [428] log likelihood: -6663.466797
EM: Round [429] log likelihood: -6663.465756
EM: Round [430] log likelihood: -6663.464720
EM: Round [431] log likelihood: -6663.463687
EM: Round [432] log likelihood: -6663.462659
EM: Round [433] log likelihood: -6663.461635
EM: Round [434] log likelihood: -6663.460615
EM: Round [435] log likelihood: -6663.459599
EM: Round [436] log likelihood: -6663.458588
EM: Round [437] log likelihood: -6663.457580
EM: Round [438] log likelihood: -6663.456576
EM: Round [439] log likelihood: -6663.455577
EM: Round [440] log likelihood: -6663.454581
EM: Round [441] log likelihood: -6663.453590
EM: Round [442] log likelihood: -6663.452602
EM: Round [443] log likelihood: -6663.451619
EM: Round [444] log likelihood: -6663.450639
EM: Round [445] log likelihood: -6663.449663
EM: Round [446] log likelihood: -6663.448692
EM: Round [447] log likelihood: -6663.447724
EM: Round [448] log likelihood: -6663.446760
EM: Round [449] log likelihood: -6663.445799
EM: Round [450] log likelihood: -6663.444843
EM: Round [451] log likelihood: -6663.443890
EM: Round [452] log likelihood: -6663.442941
EM: Round [453] log likelihood: -6663.441996
EM: Round [454] log likelihood: -6663.441055
EM: Round [455] log likelihood: -6663.440118
EM: Round [456] log likelihood: -6663.439184
EM: Round [457] log likelihood: -6663.438254
EM: Round [458] log likelihood: -6663.437327
EM: Round [459] log likelihood: -6663.436404
EM: Round [460] log likelihood: -6663.435485
EM: Round [461] log likelihood: -6663.434569
EM: Round [462] log likelihood: -6663.433657
EM: Round [463] log likelihood: -6663.432749
EM: Round [464] log likelihood: -6663.431844
EM: Round [465] log likelihood: -6663.430943
EM: Round [466] log likelihood: -6663.430045
EM: Round [467] log likelihood: -6663.429151
EM: Round [468] log likelihood: -6663.428260
EM: Round [469] log likelihood: -6663.427373
EM: Round [470] log likelihood: -6663.426489
EM: Round [471] log likelihood: -6663.425609
EM: Round [472] log likelihood: -6663.424732
EM: Round [473] log likelihood: -6663.423859
EM: Round [474] log likelihood: -6663.422988
EM: Round [475] log likelihood: -6663.422122
EM: Round [476] log likelihood: -6663.421258
EM: Round [477] log likelihood: -6663.420398
EM: Round [478] log likelihood: -6663.419542
EM: Round [479] log likelihood: -6663.418689
EM: Round [480] log likelihood: -6663.417839
EM: Round [481] log likelihood: -6663.416992
EM: Round [482] log likelihood: -6663.416148
EM: Round [483] log likelihood: -6663.415308
EM: Round [484] log likelihood: -6663.414471
EM: Round [485] log likelihood: -6663.413637
EM: Round [486] log likelihood: -6663.412807
EM: Round [487] log likelihood: -6663.411980
EM: Round [488] log likelihood: -6663.411156
EM: Round [489] log likelihood: -6663.410335
EM: Round [490] log likelihood: -6663.409517
EM: Round [491] log likelihood: -6663.408702
EM: Round [492] log likelihood: -6663.407891
EM: Round [493] log likelihood: -6663.407082
EM: Round [494] log likelihood: -6663.406277
EM: Round [495] log likelihood: -6663.405474
EM: Round [496] log likelihood: -6663.404675
EM: Round [497] log likelihood: -6663.403879
EM: Round [498] log likelihood: -6663.403086
EM: Round [499] log likelihood: -6663.402296
EM: Round [500] log likelihood: -6663.401509
EM: Round [501] log likelihood: -6663.400725
EM: Round [502] log likelihood: -6663.399944
EM: Round [503] log likelihood: -6663.399165
EM: Round [504] log likelihood: -6663.398390
EM: Round [505] log likelihood: -6663.397618
EM: Round [506] log likelihood: -6663.396849
EM: Round [507] log likelihood: -6663.396082
EM: Round [508] log likelihood: -6663.395319
EM: Round [509] log likelihood: -6663.394558
EM: Round [510] log likelihood: -6663.393800
EM: Round [511] log likelihood: -6663.393046
EM: Round [512] log likelihood: -6663.392294
EM: Round [513] log likelihood: -6663.391544
EM: Round [514] log likelihood: -6663.390798
EM: Round [515] log likelihood: -6663.390054
EM: Round [516] log likelihood: -6663.389314
EM: Round [517] log likelihood: -6663.388576
EM: Round [518] log likelihood: -6663.387840
EM: Round [519] log likelihood: -6663.387108
EM: Round [520] log likelihood: -6663.386378
EM: Round [521] log likelihood: -6663.385651
EM: Round [522] log likelihood: -6663.384927
EM: Round [523] log likelihood: -6663.384206
EM: Round [524] log likelihood: -6663.383487
EM: Round [525] log likelihood: -6663.382771
EM: Round [526] log likelihood: -6663.382057
EM: Round [527] log likelihood: -6663.381346
EM: Round [528] log likelihood: -6663.380638
EM: Round [529] log likelihood: -6663.379933
EM: Round [530] log likelihood: -6663.379230
EM: Round [531] log likelihood: -6663.378529
EM: Round [532] log likelihood: -6663.377832
EM: Round [533] log likelihood: -6663.377137
EM: Round [534] log likelihood: -6663.376444
EM: Round [535] log likelihood: -6663.375754
EM: Round [536] log likelihood: -6663.375067
EM: Round [537] log likelihood: -6663.374382
EM: Round [538] log likelihood: -6663.373700
EM: Round [539] log likelihood: -6663.373020
EM: Round [540] log likelihood: -6663.372343
EM: Round [541] log likelihood: -6663.371668
EM: Round [542] log likelihood: -6663.370996
EM: Round [543] log likelihood: -6663.370326
EM: Round [544] log likelihood: -6663.369658
EM: Round [545] log likelihood: -6663.368994
EM: Round [546] log likelihood: -6663.368331
EM: Round [547] log likelihood: -6663.367671
EM: Round [548] log likelihood: -6663.367014
EM: Round [549] log likelihood: -6663.366359
EM: Round [550] log likelihood: -6663.365706
EM: Round [551] log likelihood: -6663.365056
EM: Round [552] log likelihood: -6663.364408
EM: Round [553] log likelihood: -6663.363762
EM: Round [554] log likelihood: -6663.363119
EM: Round [555] log likelihood: -6663.362478
EM: Round [556] log likelihood: -6663.361840
EM: Round [557] log likelihood: -6663.361203
EM: Round [558] log likelihood: -6663.360570
EM: Round [559] log likelihood: -6663.359938
EM: Round [560] log likelihood: -6663.359309
EM: Round [561] log likelihood: -6663.358682
EM: Round [562] log likelihood: -6663.358057
EM: Round [563] log likelihood: -6663.357435
EM: Round [564] log likelihood: -6663.356815
EM: Round [565] log likelihood: -6663.356197
EM: Round [566] log likelihood: -6663.355581
EM: Round [567] log likelihood: -6663.354968
EM: Round [568] log likelihood: -6663.354357
EM: Round [569] log likelihood: -6663.353748
EM: Round [570] log likelihood: -6663.353141
EM: Round [571] log likelihood: -6663.352537
EM: Round [572] log likelihood: -6663.351935
EM: Round [573] log likelihood: -6663.351334
EM: Round [574] log likelihood: -6663.350736
EM: Round [575] log likelihood: -6663.350141
EM: Round [576] log likelihood: -6663.349547
EM: Round [577] log likelihood: -6663.348956
EM: Round [578] log likelihood: -6663.348366
EM: Round [579] log likelihood: -6663.347779
EM: Round [580] log likelihood: -6663.347194
EM: Round [581] log likelihood: -6663.346611
EM: Round [582] log likelihood: -6663.346030
EM: Round [583] log likelihood: -6663.345451
EM: Round [584] log likelihood: -6663.344874
EM: Round [585] log likelihood: -6663.344300
EM: Round [586] log likelihood: -6663.343727
EM: Round [587] log likelihood: -6663.343157
EM: Round [588] log likelihood: -6663.342588
EM: Round [589] log likelihood: -6663.342022
EM: Round [590] log likelihood: -6663.341457
EM: Round [591] log likelihood: -6663.340895
EM: Round [592] log likelihood: -6663.340334
EM: Round [593] log likelihood: -6663.339776
EM: Round [594] log likelihood: -6663.339220
EM: Round [595] log likelihood: -6663.338665
EM: Round [596] log likelihood: -6663.338113
EM: Round [597] log likelihood: -6663.337562
EM: Round [598] log likelihood: -6663.337014
EM: Round [599] log likelihood: -6663.336467
EM: Round [600] log likelihood: -6663.335923
EM: Round [601] log likelihood: -6663.335380
EM: Round [602] log likelihood: -6663.334839
EM: Round [603] log likelihood: -6663.334301
EM: Round [604] log likelihood: -6663.333764
EM: Round [605] log likelihood: -6663.333229
EM: Round [606] log likelihood: -6663.332696
EM: Round [607] log likelihood: -6663.332165
EM: Round [608] log likelihood: -6663.331635
EM: Round [609] log likelihood: -6663.331108
EM: Round [610] log likelihood: -6663.330582
EM: Round [611] log likelihood: -6663.330059
EM: Round [612] log likelihood: -6663.329537
EM: Round [613] log likelihood: -6663.329017
EM: Round [614] log likelihood: -6663.328499
EM: Round [615] log likelihood: -6663.327983
EM: Round [616] log likelihood: -6663.327468
EM: Round [617] log likelihood: -6663.326955
EM: Round [618] log likelihood: -6663.326445
EM: Round [619] log likelihood: -6663.325936
EM: Round [620] log likelihood: -6663.325428
EM: Round [621] log likelihood: -6663.324923
EM: Round [622] log likelihood: -6663.324419
EM: Round [623] log likelihood: -6663.323917
EM: Round [624] log likelihood: -6663.323417
EM: Round [625] log likelihood: -6663.322919
EM: Round [626] log likelihood: -6663.322422
EM: Round [627] log likelihood: -6663.321927
EM: Round [628] log likelihood: -6663.321434
EM: Round [629] log likelihood: -6663.320943
EM: Round [630] log likelihood: -6663.320453
EM: Round [631] log likelihood: -6663.319965
EM: Round [632] log likelihood: -6663.319479
EM: Round [633] log likelihood: -6663.318994
EM: Round [634] log likelihood: -6663.318512
EM: Round [635] log likelihood: -6663.318030
EM: Round [636] log likelihood: -6663.317551
EM: Round [637] log likelihood: -6663.317073
EM: Round [638] log likelihood: -6663.316597
EM: Round [639] log likelihood: -6663.316123
EM: Round [640] log likelihood: -6663.315650
EM: Round [641] log likelihood: -6663.315179
EM: Round [642] log likelihood: -6663.314709
EM: Round [643] log likelihood: -6663.314241
EM: Round [644] log likelihood: -6663.313775
EM: Round [645] log likelihood: -6663.313310
EM: Round [646] log likelihood: -6663.312847
EM: Round [647] log likelihood: -6663.312386
EM: Round [648] log likelihood: -6663.311926
EM: Round [649] log likelihood: -6663.311468
EM: Round [650] log likelihood: -6663.311012
EM: Round [651] log likelihood: -6663.310557
EM: Round [652] log likelihood: -6663.310103
EM: Round [653] log likelihood: -6663.309651
EM: Round [654] log likelihood: -6663.309201
EM: Round [655] log likelihood: -6663.308752
EM: Round [656] log likelihood: -6663.308305
EM: Round [657] log likelihood: -6663.307860
EM: Round [658] log likelihood: -6663.307416
EM: Round [659] log likelihood: -6663.306973
EM: Round [660] log likelihood: -6663.306532
EM: Round [661] log likelihood: -6663.306093
EM: Round [662] log likelihood: -6663.305655
EM: Round [663] log likelihood: -6663.305218
EM: Round [664] log likelihood: -6663.304783
EM: Round [665] log likelihood: -6663.304350
EM: Round [666] log likelihood: -6663.303918
EM: Round [667] log likelihood: -6663.303488
EM: Round [668] log likelihood: -6663.303059
EM: Round [669] log likelihood: -6663.302631
EM: Round [670] log likelihood: -6663.302205
EM: Round [671] log likelihood: -6663.301781
EM: Round [672] log likelihood: -6663.301358
EM: Round [673] log likelihood: -6663.300936
EM: Round [674] log likelihood: -6663.300516
EM: Round [675] log likelihood: -6663.300097
EM: Round [676] log likelihood: -6663.299680
EM: Round [677] log likelihood: -6663.299264
EM: Round [678] log likelihood: -6663.298850
EM: Round [679] log likelihood: -6663.298437
EM: Round [680] log likelihood: -6663.298025
EM: Round [681] log likelihood: -6663.297615
EM: Round [682] log likelihood: -6663.297206
EM: Round [683] log likelihood: -6663.296799
EM: Round [684] log likelihood: -6663.296393
EM: Round [685] log likelihood: -6663.295988
EM: Round [686] log likelihood: -6663.295585
EM: Round [687] log likelihood: -6663.295183
EM: Round [688] log likelihood: -6663.294783
EM: Round [689] log likelihood: -6663.294384
EM: Round [690] log likelihood: -6663.293986
EM: Round [691] log likelihood: -6663.293590
EM: Round [692] log likelihood: -6663.293195
EM: Round [693] log likelihood: -6663.292801
EM: Round [694] log likelihood: -6663.292409
EM: Round [695] log likelihood: -6663.292018
EM: Round [696] log likelihood: -6663.291628
EM: Round [697] log likelihood: -6663.291240
EM: Round [698] log likelihood: -6663.290853
EM: Round [699] log likelihood: -6663.290467
EM: Round [700] log likelihood: -6663.290083
EM: Round [701] log likelihood: -6663.289700
EM: Round [702] log likelihood: -6663.289318
EM: Round [703] log likelihood: -6663.288938
EM: Round [704] log likelihood: -6663.288559
EM: Round [705] log likelihood: -6663.288181
EM: Round [706] log likelihood: -6663.287804
EM: Round [707] log likelihood: -6663.287429
EM: Round [708] log likelihood: -6663.287055
EM: Round [709] log likelihood: -6663.286682
EM: Round [710] log likelihood: -6663.286311
EM: Round [711] log likelihood: -6663.285941
EM: Round [712] log likelihood: -6663.285572
EM: Round [713] log likelihood: -6663.285204
EM: Round [714] log likelihood: -6663.284837
EM: Round [715] log likelihood: -6663.284472
EM: Round [716] log likelihood: -6663.284108
EM: Round [717] log likelihood: -6663.283746
EM: Round [718] log likelihood: -6663.283384
EM: Round [719] log likelihood: -6663.283024
EM: Round [720] log likelihood: -6663.282665
EM: Round [721] log likelihood: -6663.282307
EM: Round [722] log likelihood: -6663.281950
EM: Round [723] log likelihood: -6663.281595
EM: Round [724] log likelihood: -6663.281240
EM: Round [725] log likelihood: -6663.280887
EM: Round [726] log likelihood: -6663.280535
EM: Round [727] log likelihood: -6663.280185
EM: Round [728] log likelihood: -6663.279835
EM: Round [729] log likelihood: -6663.279487
EM: Round [730] log likelihood: -6663.279140
EM: Round [731] log likelihood: -6663.278794
EM: Round [732] log likelihood: -6663.278449
EM: Round [733] log likelihood: -6663.278105
EM: Round [734] log likelihood: -6663.277763
EM: Round [735] log likelihood: -6663.277421
EM: Round [736] log likelihood: -6663.277081
EM: Round [737] log likelihood: -6663.276742
EM: Round [738] log likelihood: -6663.276404
EM: Round [739] log likelihood: -6663.276067
EM: Round [740] log likelihood: -6663.275732
EM: Round [741] log likelihood: -6663.275397
EM: Round [742] log likelihood: -6663.275064
EM: Round [743] log likelihood: -6663.274731
EM: Round [744] log likelihood: -6663.274400
EM: Round [745] log likelihood: -6663.274070
EM: Round [746] log likelihood: -6663.273741
EM: Round [747] log likelihood: -6663.273413
EM: Round [748] log likelihood: -6663.273087
EM: Round [749] log likelihood: -6663.272761
EM: Round [750] log likelihood: -6663.272436
EM: Round [751] log likelihood: -6663.272113
EM: Round [752] log likelihood: -6663.271790
EM: Round [753] log likelihood: -6663.271469
EM: Round [754] log likelihood: -6663.271149
EM: Round [755] log likelihood: -6663.270830
EM: Round [756] log likelihood: -6663.270512
EM: Round [757] log likelihood: -6663.270194
EM: Round [758] log likelihood: -6663.269878
EM: Round [759] log likelihood: -6663.269563
EM: Round [760] log likelihood: -6663.269250
EM: Round [761] log likelihood: -6663.268937
EM: Round [762] log likelihood: -6663.268625
EM: Round [763] log likelihood: -6663.268314
EM: Round [764] log likelihood: -6663.268004
EM: Round [765] log likelihood: -6663.267696
EM: Round [766] log likelihood: -6663.267388
EM: Round [767] log likelihood: -6663.267081
EM: Round [768] log likelihood: -6663.266776
EM: Round [769] log likelihood: -6663.266471
EM: Round [770] log likelihood: -6663.266167
EM: Round [771] log likelihood: -6663.265865
EM: Round [772] log likelihood: -6663.265563
EM: Round [773] log likelihood: -6663.265263
EM: Round [774] log likelihood: -6663.264963
EM: Round [775] log likelihood: -6663.264664
EM: Round [776] log likelihood: -6663.264367
EM: Round [777] log likelihood: -6663.264070
EM: Round [778] log likelihood: -6663.263775
EM: Round [779] log likelihood: -6663.263480
EM: Round [780] log likelihood: -6663.263186
EM: Round [781] log likelihood: -6663.262893
EM: Round [782] log likelihood: -6663.262602
EM: Round [783] log likelihood: -6663.262311
EM: Round [784] log likelihood: -6663.262021
EM: Round [785] log likelihood: -6663.261732
EM: Round [786] log likelihood: -6663.261444
EM: Round [787] log likelihood: -6663.261157
EM: Round [788] log likelihood: -6663.260871
EM: Round [789] log likelihood: -6663.260586
EM: Round [790] log likelihood: -6663.260302
EM: Round [791] log likelihood: -6663.260019
EM: Round [792] log likelihood: -6663.259737
EM: Round [793] log likelihood: -6663.259456
EM: Round [794] log likelihood: -6663.259175
EM: Round [795] log likelihood: -6663.258896
EM: Round [796] log likelihood: -6663.258617
EM: Round [797] log likelihood: -6663.258340
EM: Round [798] log likelihood: -6663.258063
EM: Round [799] log likelihood: -6663.257787
EM: Round [800] log likelihood: -6663.257512
EM: Round [801] log likelihood: -6663.257238
EM: Round [802] log likelihood: -6663.256965
EM: Round [803] log likelihood: -6663.256693
EM: Round [804] log likelihood: -6663.256422
EM: Round [805] log likelihood: -6663.256151
EM: Round [806] log likelihood: -6663.255882
EM: Round [807] log likelihood: -6663.255613
EM: Round [808] log likelihood: -6663.255346
EM: Round [809] log likelihood: -6663.255079
EM: Round [810] log likelihood: -6663.254813
EM: Round [811] log likelihood: -6663.254548
EM: Round [812] log likelihood: -6663.254283
EM: Round [813] log likelihood: -6663.254020
EM: Round [814] log likelihood: -6663.253758
EM: Round [815] log likelihood: -6663.253496
EM: Round [816] log likelihood: -6663.253235
EM: Round [817] log likelihood: -6663.252975
EM: Round [818] log likelihood: -6663.252716
EM: Round [819] log likelihood: -6663.252458
EM: Round [820] log likelihood: -6663.252201
EM: Round [821] log likelihood: -6663.251944
EM: Round [822] log likelihood: -6663.251689
EM: Round [823] log likelihood: -6663.251434
EM: Round [824] log likelihood: -6663.251180
EM: Round [825] log likelihood: -6663.250927
EM: Round [826] log likelihood: -6663.250674
EM: Round [827] log likelihood: -6663.250423
EM: Round [828] log likelihood: -6663.250172
EM: Round [829] log likelihood: -6663.249922
EM: Round [830] log likelihood: -6663.249673
EM: Round [831] log likelihood: -6663.249425
EM: Round [832] log likelihood: -6663.249177
EM: Round [833] log likelihood: -6663.248931
EM: Round [834] log likelihood: -6663.248685
EM: Round [835] log likelihood: -6663.248440
EM: Round [836] log likelihood: -6663.248196
EM: Round [837] log likelihood: -6663.247952
EM: Round [838] log likelihood: -6663.247710
EM: Round [839] log likelihood: -6663.247468
EM: Round [840] log likelihood: -6663.247227
EM: Round [841] log likelihood: -6663.246986
EM: Round [842] log likelihood: -6663.246747
EM: Round [843] log likelihood: -6663.246508
EM: Round [844] log likelihood: -6663.246270
EM: Round [845] log likelihood: -6663.246033
EM: Round [846] log likelihood: -6663.245797
EM: Round [847] log likelihood: -6663.245561
EM: Round [848] log likelihood: -6663.245326
EM: Round [849] log likelihood: -6663.245092
EM: Round [850] log likelihood: -6663.244859
EM: Round [851] log likelihood: -6663.244627
EM: Round [852] log likelihood: -6663.244395
EM: Round [853] log likelihood: -6663.244164
EM: Round [854] log likelihood: -6663.243933
EM: Round [855] log likelihood: -6663.243704
EM: Round [856] log likelihood: -6663.243475
EM: Round [857] log likelihood: -6663.243247
EM: Round [858] log likelihood: -6663.243020
EM: Round [859] log likelihood: -6663.242793
EM: Round [860] log likelihood: -6663.242567
EM: Round [861] log likelihood: -6663.242342
EM: Round [862] log likelihood: -6663.242118
EM: Round [863] log likelihood: -6663.241894
EM: Round [864] log likelihood: -6663.241671
EM: Round [865] log likelihood: -6663.241449
EM: Round [866] log likelihood: -6663.241228
EM: Round [867] log likelihood: -6663.241007
EM: Round [868] log likelihood: -6663.240787
EM: Round [869] log likelihood: -6663.240568
EM: Round [870] log likelihood: -6663.240349
EM: Round [871] log likelihood: -6663.240131
EM: Round [872] log likelihood: -6663.239914
EM: Round [873] log likelihood: -6663.239697
EM: Round [874] log likelihood: -6663.239481
EM: Round [875] log likelihood: -6663.239266
EM: Round [876] log likelihood: -6663.239052
EM: Round [877] log likelihood: -6663.238838
EM: Round [878] log likelihood: -6663.238625
EM: Round [879] log likelihood: -6663.238413
EM: Round [880] log likelihood: -6663.238201
EM: Round [881] log likelihood: -6663.237990
EM: Round [882] log likelihood: -6663.237780
EM: Round [883] log likelihood: -6663.237570
EM: Round [884] log likelihood: -6663.237362
EM: Round [885] log likelihood: -6663.237153
EM: Round [886] log likelihood: -6663.236946
EM: Round [887] log likelihood: -6663.236739
EM: Round [888] log likelihood: -6663.236533
EM: Round [889] log likelihood: -6663.236327
EM: Round [890] log likelihood: -6663.236122
EM: Round [891] log likelihood: -6663.235918
EM: Round [892] log likelihood: -6663.235714
EM: Round [893] log likelihood: -6663.235511
EM: Round [894] log likelihood: -6663.235309
EM: Round [895] log likelihood: -6663.235107
EM: Round [896] log likelihood: -6663.234906
EM: Round [897] log likelihood: -6663.234706
EM: Round [898] log likelihood: -6663.234506
EM: Round [899] log likelihood: -6663.234307
EM: Round [900] log likelihood: -6663.234109
EM: Round [901] log likelihood: -6663.233911
EM: Round [902] log likelihood: -6663.233714
EM: Round [903] log likelihood: -6663.233518
EM: Round [904] log likelihood: -6663.233322
EM: Round [905] log likelihood: -6663.233126
EM: Round [906] log likelihood: -6663.232932
EM: Round [907] log likelihood: -6663.232738
EM: Round [908] log likelihood: -6663.232545
EM: Round [909] log likelihood: -6663.232352
EM: Round [910] log likelihood: -6663.232160
EM: Round [911] log likelihood: -6663.231968
EM: Round [912] log likelihood: -6663.231777
EM: Round [913] log likelihood: -6663.231587
EM: Round [914] log likelihood: -6663.231397
EM: Round [915] log likelihood: -6663.231208
EM: Round [916] log likelihood: -6663.231020
EM: Round [917] log likelihood: -6663.230832
EM: Round [918] log likelihood: -6663.230645
EM: Round [919] log likelihood: -6663.230458
EM: Round [920] log likelihood: -6663.230272
EM: Round [921] log likelihood: -6663.230087
EM: Round [922] log likelihood: -6663.229902
EM: Round [923] log likelihood: -6663.229718
EM: Round [924] log likelihood: -6663.229534
EM: Round [925] log likelihood: -6663.229351
EM: Round [926] log likelihood: -6663.229168
EM: Round [927] log likelihood: -6663.228986
EM: Round [928] log likelihood: -6663.228805
EM: Round [929] log likelihood: -6663.228624
EM: Round [930] log likelihood: -6663.228444
EM: Round [931] log likelihood: -6663.228265
EM: Round [932] log likelihood: -6663.228086
EM: Round [933] log likelihood: -6663.227907
EM: Round [934] log likelihood: -6663.227729
EM: Round [935] log likelihood: -6663.227552
EM: Round [936] log likelihood: -6663.227375
EM: Round [937] log likelihood: -6663.227199
EM: Round [938] log likelihood: -6663.227024
EM: Round [939] log likelihood: -6663.226849
EM: Round [940] log likelihood: -6663.226674
EM: Round [941] log likelihood: -6663.226500
EM: Round [942] log likelihood: -6663.226327
EM: Round [943] log likelihood: -6663.226154
EM: Round [944] log likelihood: -6663.225982
EM: Round [945] log likelihood: -6663.225810
EM: Round [946] log likelihood: -6663.225639
EM: Round [947] log likelihood: -6663.225468
EM: Round [948] log likelihood: -6663.225298
EM: Round [949] log likelihood: -6663.225129
EM: Round [950] log likelihood: -6663.224960
EM: Round [951] log likelihood: -6663.224791
EM: Round [952] log likelihood: -6663.224623
EM: Round [953] log likelihood: -6663.224456
EM: Round [954] log likelihood: -6663.224289
EM: Round [955] log likelihood: -6663.224123
EM: Round [956] log likelihood: -6663.223957
EM: Round [957] log likelihood: -6663.223792
EM: Round [958] log likelihood: -6663.223627
EM: Round [959] log likelihood: -6663.223463
EM: Round [960] log likelihood: -6663.223299
EM: Round [961] log likelihood: -6663.223136
EM: Round [962] log likelihood: -6663.222973
EM: Round [963] log likelihood: -6663.222811
EM: Round [964] log likelihood: -6663.222649
EM: Round [965] log likelihood: -6663.222488
EM: Round [966] log likelihood: -6663.222328
EM: Round [967] log likelihood: -6663.222168
EM: Round [968] log likelihood: -6663.222008
EM: Round [969] log likelihood: -6663.221849
EM: Round [970] log likelihood: -6663.221691
EM: Round [971] log likelihood: -6663.221532
EM: Round [972] log likelihood: -6663.221375
EM: Round [973] log likelihood: -6663.221218
EM: Round [974] log likelihood: -6663.221061
EM: Round [975] log likelihood: -6663.220905
EM: Round [976] log likelihood: -6663.220750
EM: Round [977] log likelihood: -6663.220595
EM: Round [978] log likelihood: -6663.220440
EM: Round [979] log likelihood: -6663.220286
EM: Round [980] log likelihood: -6663.220132
EM: Round [981] log likelihood: -6663.219979
EM: Round [982] log likelihood: -6663.219827
EM: Round [983] log likelihood: -6663.219675
EM: Round [984] log likelihood: -6663.219523
EM: Round [985] log likelihood: -6663.219372
EM: Round [986] log likelihood: -6663.219221
EM: Round [987] log likelihood: -6663.219071
EM: Round [988] log likelihood: -6663.218921
EM: Round [989] log likelihood: -6663.218772
EM: Round [990] log likelihood: -6663.218623
EM: Round [991] log likelihood: -6663.218475
EM: Round [992] log likelihood: -6663.218327
EM: Round [993] log likelihood: -6663.218180
EM: Round [994] log likelihood: -6663.218033
EM: Round [995] log likelihood: -6663.217886
EM: Round [996] log likelihood: -6663.217740
EM: Round [997] log likelihood: -6663.217595
EM: Round [998] log likelihood: -6663.217450
EM: Round [999] log likelihood: -6663.217305
EM: Round [1000] log likelihood: -6663.217161
EM: Round [1001] log likelihood: -6663.217017
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_EM_runner.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/init_EM_adj_counts.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/filter_fusions_by_frag_thresholds.pl --min_junction_reads 0 --min_sum_frags 1 --min_novel_junction_support 3 --min_spanning_frags_only 5 --fusion_preds /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj --require_LDAS 1 > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/filter_fusions_by_frag_thresholds.pl --min_junction_reads 0 --min_sum_frags 1 --min_novel_junction_support 3 --min_spanning_frags_only 5 --fusion_preds /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj --require_LDAS 1 > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/filter_by_frag_threshs.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/column_extractions.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary LeftGene,RightGene,JunctionReads > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_junction_read_accs
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/column_extractions.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary LeftGene,RightGene,JunctionReads > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_junction_read_accs
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/prep_igv_extract_junc_reads.ok
Running: bash -c "set -eof pipefail; /usr/local/src/STAR-Fusion/FusionInspector/util/retrieve_fusion_junction_reads_by_accession.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_junction_read_accs /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junc_reads.sam | samtools view -@ 8 -bT /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa - | samtools sort -@ 8 - -o /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam"
[bam_sort_core] merging from 0 files and 8 in-memory blocks...
Execution Time = 0.00 minutes. CMD: bash -c "set -eof pipefail; /usr/local/src/STAR-Fusion/FusionInspector/util/retrieve_fusion_junction_reads_by_accession.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_junction_read_accs /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junc_reads.sam | samtools view -@ 8 -bT /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa - | samtools sort -@ 8 - -o /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam"
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/prep_igv_junc_reads_bam.ok
Running: samtools index /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam
Execution Time = 0.00 minutes. CMD: samtools index /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/samtools_idx_junc_reads_bam.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/SAM_pair_to_bed.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bed
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/SAM_pair_to_bed.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bed
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bam_to_bed.ok
Running: sort -k1,1 -k2,2n /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bed > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bed.sorted.bed
Execution Time = 0.00 minutes. CMD: sort -k1,1 -k2,2n /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bed > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bed.sorted.bed
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bedsort.ok
Running: bgzip -f /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bed.sorted.bed
Execution Time = 0.00 minutes. CMD: bgzip -f /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bed.sorted.bed
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bgzip.ok
Running: tabix -p bed /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bed.sorted.bed.gz
Execution Time = 0.00 minutes. CMD: tabix -p bed /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.bed.sorted.bed.gz
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/tih_rna_sample_00136_B23WHTKLT4_1.junction_reads.bam.tabix.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/column_extractions.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary LeftGene,RightGene,SpanningFrags > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_spanning_read_accs
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/column_extractions.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary LeftGene,RightGene,SpanningFrags > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_spanning_read_accs
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/span_reads_acc.ok
Running: samtools view -H /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam -b -o /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam
Execution Time = 0.00 minutes. CMD: samtools view -H /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam -b -o /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/init_spanning_reads_bam.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/retrieve_fusion_spanning_reads_by_accession.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_spanning_read_accs /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_span_reads.sam | samtools view -@ 8 -bT /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa - | samtools sort -@ 8 - -o /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam || :
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/retrieve_fusion_spanning_reads_by_accession.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_spanning_read_accs /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_span_reads.sam | samtools view -@ 8 -bT /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa - | samtools sort -@ 8 - -o /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam || :
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/prep_spanning_reads.ok
Running: samtools index /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam
Execution Time = 0.00 minutes. CMD: samtools index /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/samtools_index_span_reads_bam.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/SAM_pair_to_bed.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bed
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/SAM_pair_to_bed.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bed
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bam_to_bed.ok
Running: sort -k1,1 -k2,2n /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bed > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bed.sorted.bed
Execution Time = 0.00 minutes. CMD: sort -k1,1 -k2,2n /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bed > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bed.sorted.bed
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bedsort.ok
Running: bgzip -f /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bed.sorted.bed
Execution Time = 0.00 minutes. CMD: bgzip -f /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bed.sorted.bed
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bgzip.ok
Running: tabix -p bed /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bed.sorted.bed.gz
Execution Time = 0.00 minutes. CMD: tabix -p bed /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.bed.sorted.bed.gz
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/tih_rna_sample_00136_B23WHTKLT4_1.spanning_reads.bam.tabix.ok
Running: cp /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam
Execution Time = 0.00 minutes. CMD: cp /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.star.cSorted.dupsMarked.bam /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/cp_consol_bam.ok
Running: samtools index /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam
Execution Time = 0.02 minutes. CMD: samtools index /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/index_consol_bam.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/SAM_to_frag_coords.pl --sam /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam --max_insert_size 10000000
-extracting read coordinates from /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam into /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam.read_coords
CMD: touch /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam.read_coords.ok
CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k2,2 -k4,4n /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam.read_coords > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam.read_coords.sort_by_readname
CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k3,3n /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam.frag_coords > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam.frag_coords.coord_sorted
Execution Time = 0.59 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/SAM_to_frag_coords.pl --sam /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam --max_insert_size 10000000
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/prep_igv_sam_frag_coordss.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_summary_to_igv_JuncSpan_fmt.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam.frag_coords > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.FusionJuncSpan
Execution Time = 0.01 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_summary_to_igv_JuncSpan_fmt.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.consolidated.bam.frag_coords > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.FusionJuncSpan
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/prep_igv_juncspan_fmt.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/get_pfam_domain_info.pl --finspector_gtf /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf --genome_lib_dir ctat_genome_lib_build_dir > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.Pfam.gff3
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/get_pfam_domain_info.pl --finspector_gtf /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf --genome_lib_dir ctat_genome_lib_build_dir > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.Pfam.gff3
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/prep_igv_pfam_gff3.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/transcript_gff3_to_bed.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.Pfam.gff3 > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.Pfam.bed
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/transcript_gff3_to_bed.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.Pfam.gff3 > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.Pfam.bed
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/prep_igv_pfam_bed.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/get_seq_similar_region_FI_coordinates.pl --finspector_gtf /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf --genome_lib_dir ctat_genome_lib_build_dir > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.seqsimilar.gff3
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/get_seq_similar_region_FI_coordinates.pl --finspector_gtf /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf --genome_lib_dir ctat_genome_lib_build_dir > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.seqsimilar.gff3
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/prep_igv_seqsim_gff3.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/transcript_gff3_to_bed.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.seqsimilar.gff3 > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.seqsimilar.bed
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/transcript_gff3_to_bed.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.seqsimilar.gff3 > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.igv.seqsimilar.bed
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/prep_igv_seqsim_bed.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/append_breakpoint_junction_info_via_FI_contigs.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/append_breakpoint_junction_info_via_FI_contigs.pl /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa > /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/add_splice_info.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/../FusionFilter/blast_and_promiscuity_filter.pl --fusion_preds /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo --out_prefix /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1 --genome_lib_dir ctat_genome_lib_build_dir --max_promiscuity 10 --min_pct_dom_promiscuity 50
CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo --genome_lib_dir ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionFilter/util/promiscuity_filter.pl --fusion_preds /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter --genome_lib_dir ctat_genome_lib_build_dir --max_promiscuity 10 --min_pct_dom_promiscuity 50
CMD: cp /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter.post_promisc_filter /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/../FusionFilter/blast_and_promiscuity_filter.pl --fusion_preds /tmp/nxf.LHmdQCES1p/fi_workdir/tih_rna_sample_00136_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo --out_prefix /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1 --genome_lib_dir ctat_genome_lib_build_dir --max_promiscuity 10 --min_pct_dom_promiscuity 50
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/blast_filter.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/../FusionFilter/util/filter_by_annotation_rules.pl --fusions /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter --genome_lib_dir /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir
-done, see /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/../FusionFilter/util/filter_by_annotation_rules.pl --fusions /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter --genome_lib_dir /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/annot_filter.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_EM_runner.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj
EM: Starting log likelihood: -5241.240408
EM: Round [1] log likelihood: -5241.193040
EM: Round [2] log likelihood: -5241.192603
EM: Round [3] log likelihood: -5241.192596
EM: Stopping iterations at round 3 due to insufficient improvement in likelihood.
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_EM_runner.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/EM_adj_counts.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/incorporate_FFPM_into_final_report.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1_1.fastp.fastq.gz /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM
-total frags in /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1_1.fastp.fastq.gz: 262294379
Execution Time = 5.31 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/incorporate_FFPM_into_final_report.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1_1.fastp.fastq.gz /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/add_FFPM.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/misc/find_microhomologies_by_kmer_matches.pl --fasta /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa --gtf /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf > /tmp/nxf.LHmdQCES1p/fi_workdir/microH.dat
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/misc/find_microhomologies_by_kmer_matches.pl --fasta /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fa --gtf /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gtf > /tmp/nxf.LHmdQCES1p/fi_workdir/microH.dat
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/microH.dat.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/misc/append_microH_distance.py /tmp/nxf.LHmdQCES1p/fi_workdir/microH.dat /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM.wMicroH
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/misc/append_microH_distance.py /tmp/nxf.LHmdQCES1p/fi_workdir/microH.dat /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM.wMicroH
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/append_microH_info.ok
Running: cp /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM.wMicroH /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.tsv
Execution Time = 0.00 minutes. CMD: cp /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM.wMicroH /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.tsv
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/cp_final.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/column_exclusions.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.tsv JunctionReads,SpanningFrags,CounterFusionLeftReads,CounterFusionRightReads > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/column_exclusions.pl /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.tsv JunctionReads,SpanningFrags,CounterFusionLeftReads,CounterFusionRightReads > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/final.abridged.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/create_fusion_inspector_igvjs.py --fusion_inspector_directory /tmp/nxf.LHmdQCES1p --json_outfile /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fusion_inspector_web.json --file_prefix tih_rna_sample_00136_B23WHTKLT4_1
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/create_fusion_inspector_igvjs.py --fusion_inspector_directory /tmp/nxf.LHmdQCES1p --json_outfile /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fusion_inspector_web.json --file_prefix tih_rna_sample_00136_B23WHTKLT4_1
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/create_fi_igvjs.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/fusion-reports/create_fusion_report.py --html_template /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_report_html_template/igvjs_fusion.html --fusions_json /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fusion_inspector_web.json --input_file_prefix tih_rna_sample_00136_B23WHTKLT4_1 --html_output /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fusion_inspector_web.html
Warning - not locating file: /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.gmap_trinity_GG.fusions.gff3.bed
Execution Time = 0.02 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/fusion-reports/create_fusion_report.py --html_template /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_report_html_template/igvjs_fusion.html --fusions_json /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fusion_inspector_web.json --input_file_prefix tih_rna_sample_00136_B23WHTKLT4_1 --html_output /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.fusion_inspector_web.html
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/fusion_reports_html.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/FusionAnnotator/FusionAnnotator --annotate /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv --genome_lib_dir /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv.annotated
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionAnnotator/FusionAnnotator --annotate /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv --genome_lib_dir /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv.annotated
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/fusion_annotator.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/FusionAnnotator/util/fusion_to_coding_region_effect.pl --fusions /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv.annotated --genome_lib_dir /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv.annotated.coding_effect
WARNING, no entry stored in dbm for [ENSG00000280136.2]
WARNING, no entry stored in dbm for [ENSG00000226049.3]
WARNING, no entry stored in dbm for [ENSG00000260404.3]
WARNING, no entry stored in dbm for [ENSG00000273897.1]
WARNING, no entry stored in dbm for [ENSG00000273897.1]
WARNING, no entry stored in dbm for [ENSG00000273897.1]
WARNING, no entry stored in dbm for [ENSG00000273897.1]
WARNING, no entry stored in dbm for [ENSG00000273897.1]
WARNING, no entry stored in dbm for [ENSG00000273897.1]
WARNING, no entry stored in dbm for [ENSG00000282057.1]
WARNING, no entry stored in dbm for [ENSG00000282057.1]
WARNING, no entry stored in dbm for [ENSG00000282057.1]
WARNING, no entry stored in dbm for [ENSG00000206120.11]
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionAnnotator/util/fusion_to_coding_region_effect.pl --fusions /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv.annotated --genome_lib_dir /tmp/nxf.LHmdQCES1p/ctat_genome_lib_build_dir > /tmp/nxf.LHmdQCES1p/tih_rna_sample_00136_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv.annotated.coding_effect
Running: touch /tmp/nxf.LHmdQCES1p/chckpts_dir/fusion_coding_region_effect.ok
ls: cannot access 'IGV_inputs': No such file or directory