Done.
-parsing GTF file: /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1.gtf
* Running CMD: /usr/local/bin/STAR  --runThreadN 8  --genomeDir /tmp/nxf.rvUREQo5zB/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.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1_1.fastp.fastq.gz /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1_2.fastp.fastq.gz  --genomeFastaFiles /tmp/nxf.rvUREQo5zB/fi_workdir/A673_FFPE_RNA_0001_B23LG7FLT4_1.fa  --outSAMfilter KeepAllAddedReferences  --sjdbGTFfile /tmp/nxf.rvUREQo5zB/fi_workdir/A673_FFPE_RNA_0001_B23LG7FLT4_1.gtf  --alignSJstitchMismatchNmax 5 -1 5 5  --scoreGapNoncan -6  --readFilesCommand 'gunzip -c' 
* Running CMD: mv Aligned.sortedByCoord.out.bam A673_FFPE_RNA_0001_B23LG7FLT4_1.star.sortedByCoord.out.bam
* Running CMD: samtools index A673_FFPE_RNA_0001_B23LG7FLT4_1.star.sortedByCoord.out.bam
11:10:10 : INFO : Done.
-parsing GTF file: /tmp/nxf.rvUREQo5zB/fi_workdir/A673_FFPE_RNA_0001_B23LG7FLT4_1.gtf
-parsing /tmp/nxf.rvUREQo5zB/fi_workdir/A673_FFPE_RNA_0001_B23LG7FLT4_1.star.cSorted.dupsMarked.bam

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[5020000]   -done parsing /tmp/nxf.rvUREQo5zB/fi_workdir/A673_FFPE_RNA_0001_B23LG7FLT4_1.star.cSorted.dupsMarked.bam.  Extracting junction info.
junction read elimination tally: $VAR1 = {
          'exons hit < 2' => 3,
          'num_hits: 6 != num_counted_on_fusion_contigs 4 ' => 364,
          'num_hits: 7 != num_counted_on_fusion_contigs 5 ' => 90,
          'excessive soft clipping' => 39781,
          'num_hits: 3 != num_counted_on_fusion_contigs 1 ' => 115,
          'low complexity anchor region' => 25,
          'seq-similar region overlap' => 1155,
          'num_hits: 6 != num_counted_on_fusion_contigs 1 ' => 59,
          'num_hits: 4 != num_counted_on_fusion_contigs 2 ' => 78,
          'num_hits: 6 != num_counted_on_fusion_contigs 2 ' => 232,
          'num_hits: 5 != num_counted_on_fusion_contigs 4 ' => 88,
          'num_hits: 2 != num_counted_on_fusion_contigs 1 ' => 1299,
          'num_hits: 5 != num_counted_on_fusion_contigs 2 ' => 18,
          'num genes matched < 2' => 15,
          'num_hits: 4 != num_counted_on_fusion_contigs 1 ' => 343,
          'num_hits: 6 != num_counted_on_fusion_contigs 3 ' => 111,
          'num_hits: 3 != num_counted_on_fusion_contigs 2 ' => 56,
          'num_hits: 7 != num_counted_on_fusion_contigs 3 ' => 3,
          'num_hits: 9 != num_counted_on_fusion_contigs 3 ' => 24,
          'num_hits: 5 != num_counted_on_fusion_contigs 3 ' => 15,
          'small anchor length' => 221,
          'num_hits: 4 != num_counted_on_fusion_contigs 3 ' => 1965,
          ' ** passed ** ' => 35990,
          'num_hits: 8 != num_counted_on_fusion_contigs 4 ' => 48,
          'num_hits: 6 != num_counted_on_fusion_contigs 5 ' => 875,
          'per_id < 96' => 30900,
          'num_hits: 5 != num_counted_on_fusion_contigs 1 ' => 9
        };
-writing fusion junction support info.
-outputting the spanning read info: /tmp/nxf.rvUREQo5zB/fi_workdir/A673_FFPE_RNA_0001_B23LG7FLT4_1.star.cSorted.dupsMarked.bam.fusion_spanning_info.
 - counting read alignments among fusion contigs.

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[4000]   -fusion SPANNING read extraction for scaff: CCDC169--SOHLH2

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[428000]   
[429000]   -fusion SPANNING read extraction for scaff: CPSF6--HOOK1

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[3000]   -fusion SPANNING read extraction for scaff: CYP7B1--LINC01414

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[793000]   -fusion SPANNING read extraction for scaff: EWSR1--FLI1

[1000]   
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[3000]   
[4000]   
[5000]   -fusion SPANNING read extraction for scaff: FBXO25--AC240565.1

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
[11000]   -fusion SPANNING read extraction for scaff: GOLGA6L10--GOLGA2P6

[1000]   
[2000]   
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[4000]   
[5000]   
[6000]   
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[20000]   
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[23000]   
[24000]   
[25000]   -fusion SPANNING read extraction for scaff: HIVEP3--AL158828.1

[1000]   
[2000]   
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[4000]   
[5000]   
[6000]   
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[8000]   
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[20000]   
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[24000]   
[25000]   
[26000]   -fusion SPANNING read extraction for scaff: HIVEP3--AL353613.1

[1000]   
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[5000]   
[6000]   
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[91000]   
[92000]   -fusion SPANNING read extraction for scaff: IGH-@-ext--SPG7

[1000]   
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[93000]   -fusion SPANNING read extraction for scaff: IGH@-ext--SPG7

[1000]   
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[1066000]   
[1067000]   -fusion SPANNING read extraction for scaff: NPM1--MT-RNR2

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
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[77000]   
[78000]   
[79000]   
[80000]   
[81000]   
[82000]   
[83000]   
[84000]   
[85000]   -fusion SPANNING read extraction for scaff: PCDHA10--PCDHAC2

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
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[97000]   
[98000]   
[99000]   -fusion SPANNING read extraction for scaff: PCDHA10--PCDHAC1

[1000]   
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[4000]   
[5000]   
[6000]   
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[8000]   
[9000]   
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[101000]   
[102000]   -fusion SPANNING read extraction for scaff: PCDHA10--PCDHA13

[1000]   
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[127000]   
[128000]   -fusion SPANNING read extraction for scaff: PCDHA11--PCDHA13

[1000]   
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[118000]   
[119000]   
[120000]   
[121000]   
[122000]   
[123000]   
[124000]   
[125000]   -fusion SPANNING read extraction for scaff: PCDHA11--PCDHAC1

[1000]   
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[3000]   
[4000]   
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[6000]   
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[8000]   
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[100000]   
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[102000]   
[103000]   
[104000]   
[105000]   
[106000]   
[107000]   
[108000]   
[109000]   
[110000]   
[111000]   -fusion SPANNING read extraction for scaff: PCDHA11--PCDHAC2

[1000]   
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[4000]   
[5000]   
[6000]   
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[8000]   
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[111000]   
[112000]   
[113000]   
[114000]   
[115000]   
[116000]   
[117000]   
[118000]   -fusion SPANNING read extraction for scaff: PCDHA6--PCDHA13

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
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[100000]   
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[102000]   
[103000]   
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[108000]   
[109000]   
[110000]   
[111000]   
[112000]   
[113000]   
[114000]   
[115000]   -fusion SPANNING read extraction for scaff: PCDHA6--PCDHAC1

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
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[95000]   
[96000]   
[97000]   
[98000]   
[99000]   
[100000]   
[101000]   
[102000]   -fusion SPANNING read extraction for scaff: PCDHA6--PCDHAC2

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
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[72000]   
[73000]   
[74000]   
[75000]   
[76000]   
[77000]   
[78000]   
[79000]   
[80000]   -fusion SPANNING read extraction for scaff: PCDHA8--PCDHA10

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
[11000]   
[12000]   
[13000]   
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[27000]   
[28000]   
[29000]   
[30000]   
[31000]   
[32000]   
[33000]   
[34000]   
[35000]   -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGA8

[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--PCDHGC4

[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--PCDHGC5

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
[11000]   
[12000]   
[13000]   
[14000]   
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[17000]   
[18000]   
[19000]   
[20000]   
[21000]   
[22000]   
[23000]   
[24000]   
[25000]   -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGB6

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
[11000]   
[12000]   
[13000]   
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[17000]   
[18000]   
[19000]   
[20000]   
[21000]   
[22000]   
[23000]   
[24000]   
[25000]   -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGA10

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
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[61000]   
[62000]   
[63000]   
[64000]   
[65000]   
[66000]   
[67000]   
[68000]   
[69000]   
[70000]   
[71000]   -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]   -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGB7

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
[11000]   
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[19000]   
[20000]   
[21000]   
[22000]   
[23000]   
[24000]   
[25000]   
[26000]   
[27000]   -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGA12

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
[11000]   
[12000]   
[13000]   
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[20000]   
[21000]   
[22000]   
[23000]   
[24000]   
[25000]   
[26000]   
[27000]   
[28000]   
[29000]   -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGA9

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
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[95000]   -fusion SPANNING read extraction for scaff: PCDHGA6--PCDHGA11

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[34000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA8

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[18000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC4

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[17000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC5

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[24000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGB6

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[24000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA10

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[70000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC3

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[16000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGB7

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[25000]   
[26000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA12

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[27000]   
[28000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA9

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[93000]   
[94000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA11

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[240000]   -fusion SPANNING read extraction for scaff: RCN3--FCGRT

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[31000]   
[32000]   -fusion SPANNING read extraction for scaff: SMURF2P1--SP2

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[120000]   
[121000]   -fusion SPANNING read extraction for scaff: SOGA3--KIAA0408

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[58000]   
[59000]   -fusion SPANNING read extraction for scaff: SPG7--PLSCR5

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[58000]   
[59000]   -fusion SPANNING read extraction for scaff: SPG7--AC092957.1

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[17000]   -fusion SPANNING read extraction for scaff: SUCLA2--AL158828.1

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[17000]   -fusion SPANNING read extraction for scaff: SUCLA2--AL353613.1

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[78000]   -fusion SPANNING read extraction for scaff: SUPT20H--CHRDL2

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[8000]   -fusion SPANNING read extraction for scaff: TLK2P1--AC110079.1

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[8000]   
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[44000]   
[45000]   -fusion SPANNING read extraction for scaff: TMEM132B--TDG
-filtered reads reasons: $VAR1 = {
          'seq similar region alignment' => 223015,
          'lacks exon overlap' => 69579
        };
EM: Starting log likelihood: -17924.426466
EM: Round [1] log likelihood: -17907.033243
EM: Round [2] log likelihood: -17903.366952
EM: Round [3] log likelihood: -17900.703450
EM: Round [4] log likelihood: -17898.454464
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EM: Round [465] log likelihood: -17875.267191
EM: Round [466] log likelihood: -17875.266812
EM: Round [467] log likelihood: -17875.266437
EM: Round [468] log likelihood: -17875.266065
EM: Round [469] log likelihood: -17875.265697
EM: Round [470] log likelihood: -17875.265332
EM: Round [471] log likelihood: -17875.264971
EM: Round [472] log likelihood: -17875.264613
EM: Round [473] log likelihood: -17875.264259
EM: Round [474] log likelihood: -17875.263908
EM: Round [475] log likelihood: -17875.263561
EM: Round [476] log likelihood: -17875.263217
EM: Round [477] log likelihood: -17875.262876
EM: Round [478] log likelihood: -17875.262538
EM: Round [479] log likelihood: -17875.262204
EM: Round [480] log likelihood: -17875.261873
EM: Round [481] log likelihood: -17875.261545
EM: Round [482] log likelihood: -17875.261220
EM: Round [483] log likelihood: -17875.260898
EM: Round [484] log likelihood: -17875.260580
EM: Round [485] log likelihood: -17875.260264
EM: Round [486] log likelihood: -17875.259952
EM: Round [487] log likelihood: -17875.259642
EM: Round [488] log likelihood: -17875.259335
EM: Round [489] log likelihood: -17875.259032
EM: Round [490] log likelihood: -17875.258731
EM: Round [491] log likelihood: -17875.258433
EM: Round [492] log likelihood: -17875.258138
EM: Round [493] log likelihood: -17875.257846
EM: Round [494] log likelihood: -17875.257556
EM: Round [495] log likelihood: -17875.257269
EM: Round [496] log likelihood: -17875.256985
EM: Round [497] log likelihood: -17875.256704
EM: Round [498] log likelihood: -17875.256426
EM: Round [499] log likelihood: -17875.256150
EM: Round [500] log likelihood: -17875.255876
EM: Round [501] log likelihood: -17875.255606
EM: Round [502] log likelihood: -17875.255338
EM: Round [503] log likelihood: -17875.255072
EM: Round [504] log likelihood: -17875.254809
EM: Round [505] log likelihood: -17875.254549
EM: Round [506] log likelihood: -17875.254291
EM: Round [507] log likelihood: -17875.254035
EM: Round [508] log likelihood: -17875.253782
EM: Round [509] log likelihood: -17875.253531
EM: Round [510] log likelihood: -17875.253283
EM: Round [511] log likelihood: -17875.253037
EM: Round [512] log likelihood: -17875.252794
EM: Round [513] log likelihood: -17875.252552
EM: Round [514] log likelihood: -17875.252313
EM: Round [515] log likelihood: -17875.252077
EM: Round [516] log likelihood: -17875.251842
EM: Round [517] log likelihood: -17875.251610
EM: Round [518] log likelihood: -17875.251380
EM: Round [519] log likelihood: -17875.251152
EM: Round [520] log likelihood: -17875.250927
EM: Round [521] log likelihood: -17875.250703
EM: Round [522] log likelihood: -17875.250482
EM: Round [523] log likelihood: -17875.250263
EM: Round [524] log likelihood: -17875.250046
EM: Round [525] log likelihood: -17875.249831
EM: Round [526] log likelihood: -17875.249618
EM: Round [527] log likelihood: -17875.249407
EM: Round [528] log likelihood: -17875.249198
EM: Round [529] log likelihood: -17875.248991
EM: Round [530] log likelihood: -17875.248786
EM: Round [531] log likelihood: -17875.248583
EM: Round [532] log likelihood: -17875.248381
EM: Round [533] log likelihood: -17875.248182
EM: Round [534] log likelihood: -17875.247985
EM: Round [535] log likelihood: -17875.247789
EM: Round [536] log likelihood: -17875.247596
EM: Round [537] log likelihood: -17875.247404
EM: Round [538] log likelihood: -17875.247214
EM: Round [539] log likelihood: -17875.247026
EM: Round [540] log likelihood: -17875.246840
EM: Round [541] log likelihood: -17875.246655
EM: Round [542] log likelihood: -17875.246472
EM: Round [543] log likelihood: -17875.246291
EM: Round [544] log likelihood: -17875.246112
EM: Round [545] log likelihood: -17875.245934
EM: Round [546] log likelihood: -17875.245758
EM: Round [547] log likelihood: -17875.245584
EM: Round [548] log likelihood: -17875.245411
EM: Round [549] log likelihood: -17875.245240
EM: Round [550] log likelihood: -17875.245071
EM: Round [551] log likelihood: -17875.244903
EM: Round [552] log likelihood: -17875.244737
EM: Round [553] log likelihood: -17875.244573
EM: Round [554] log likelihood: -17875.244410
EM: Round [555] log likelihood: -17875.244248
EM: Round [556] log likelihood: -17875.244088
EM: Round [557] log likelihood: -17875.243930
EM: Round [558] log likelihood: -17875.243773
EM: Round [559] log likelihood: -17875.243618
EM: Round [560] log likelihood: -17875.243464
EM: Round [561] log likelihood: -17875.243311
EM: Round [562] log likelihood: -17875.243160
EM: Round [563] log likelihood: -17875.243010
EM: Round [564] log likelihood: -17875.242862
EM: Round [565] log likelihood: -17875.242716
EM: Round [566] log likelihood: -17875.242570
EM: Round [567] log likelihood: -17875.242426
EM: Round [568] log likelihood: -17875.242283
EM: Round [569] log likelihood: -17875.242142
EM: Round [570] log likelihood: -17875.242002
EM: Round [571] log likelihood: -17875.241864
EM: Round [572] log likelihood: -17875.241726
EM: Round [573] log likelihood: -17875.241590
EM: Round [574] log likelihood: -17875.241456
EM: Round [575] log likelihood: -17875.241322
EM: Round [576] log likelihood: -17875.241190
EM: Round [577] log likelihood: -17875.241059
EM: Round [578] log likelihood: -17875.240929
EM: Round [579] log likelihood: -17875.240801
EM: Round [580] log likelihood: -17875.240674
EM: Round [581] log likelihood: -17875.240548
EM: Round [582] log likelihood: -17875.240423
EM: Round [583] log likelihood: -17875.240299
EM: Round [584] log likelihood: -17875.240177
EM: Round [585] log likelihood: -17875.240055
EM: Round [586] log likelihood: -17875.239935
EM: Round [587] log likelihood: -17875.239816
EM: Round [588] log likelihood: -17875.239698
EM: Round [589] log likelihood: -17875.239582
EM: Round [590] log likelihood: -17875.239466
EM: Round [591] log likelihood: -17875.239351
EM: Round [592] log likelihood: -17875.239238
EM: Round [593] log likelihood: -17875.239125
EM: Round [594] log likelihood: -17875.239014
EM: Round [595] log likelihood: -17875.238904
EM: Round [596] log likelihood: -17875.238794
EM: Round [597] log likelihood: -17875.238686
EM: Round [598] log likelihood: -17875.238579
EM: Round [599] log likelihood: -17875.238473
EM: Round [600] log likelihood: -17875.238368
EM: Round [601] log likelihood: -17875.238263
EM: Round [602] log likelihood: -17875.238160
EM: Round [603] log likelihood: -17875.238058
EM: Round [604] log likelihood: -17875.237957
EM: Round [605] log likelihood: -17875.237856
EM: Round [606] log likelihood: -17875.237757
EM: Stopping iterations at round 606 due to insufficient improvement in likelihood.
[bam_sort_core] merging from 0 files and 8 in-memory blocks...
-extracting read coordinates from /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1.consolidated.bam into /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1.consolidated.bam.read_coords

CMD: touch /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1.consolidated.bam.read_coords.ok
CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k2,2 -k4,4n /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1.consolidated.bam.read_coords > /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1.consolidated.bam.read_coords.sort_by_readname
CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k3,3n /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1.consolidated.bam.frag_coords > /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1.consolidated.bam.frag_coords.coord_sorted
CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.rvUREQo5zB/fi_workdir/A673_FFPE_RNA_0001_B23LG7FLT4_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.rvUREQo5zB/fi_workdir/A673_FFPE_RNA_0001_B23LG7FLT4_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.rvUREQo5zB/fi_workdir/A673_FFPE_RNA_0001_B23LG7FLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter.post_promisc_filter /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1.post_blast_and_promiscuity_filter
-done, see /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass
EM: Starting log likelihood: -11058.803437
EM: Round [1] log likelihood: -11056.042573
EM: Round [2] log likelihood: -11056.042416
EM: Round [3] log likelihood: -11056.042415
EM: Stopping iterations at round 3 due to insufficient improvement in likelihood.
-total frags in /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1_1.fastp.fastq.gz: 295019057
Warning - not locating file: /tmp/nxf.rvUREQo5zB/A673_FFPE_RNA_0001_B23LG7FLT4_1.gmap_trinity_GG.fusions.gff3.bed
WARNING, no entry stored in dbm for [ENSG00000248121.8]
WARNING, no entry stored in dbm for [ENSG00000248121.8]
WARNING, no entry stored in dbm for [ENSG00000248121.8]
WARNING, no entry stored in dbm for [ENSG00000248121.8]
WARNING, no entry stored in dbm for [ENSG00000248121.8]
WARNING, no entry stored in dbm for [ENSG00000280136.2]
WARNING, no entry stored in dbm for [ENSG00000253554.7]
WARNING, no entry stored in dbm for [ENSG00000253554.7]
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 [ENSG00000210082.2]
WARNING, no entry stored in dbm for [ENSG00000210082.2]
WARNING, no entry stored in dbm for [ENSG00000210082.2]
WARNING, no entry stored in dbm for [ENSG00000210082.2]
WARNING, no entry stored in dbm for [ENSG00000241621.1]
WARNING, no entry stored in dbm for [ENSG00000232211.1]
ls: cannot access 'IGV_inputs': No such file or directory