succeeded NFCORE_SAREK:PREPARE_GENOME:MSISENSOR2_SCAN (Homo_sapiens_assembly38.fasta) 5m 7s 2m 20s 2m 19s 28s 386.9 MB 109% 3.0 GB 1.5 GB 0 bytes 1.5 GB 1
succeeded NFCORE_SAREK:PREPARE_GENOME:UNZIP_ALLELES (G1000_alleles_hg38.zip) 1m 32s 1m 30s - - 11.0 MB 110% 9.8 MB 30.0 MB 0 bytes 30.0 MB 1
succeeded NFCORE_SAREK:PREPARE_GENOME:UNZIP_GC (GC_G1000_hg38.zip) 2m 12s 2m 6s 2s 4s 11.0 MB 102% 100.1 MB 345.6 MB 0 bytes 345.6 MB 1
succeeded NFCORE_SAREK:PREPARE_GENOME:UNZIP_LOCI (G1000_loci_hg38.zip) 1m 39s 1m 38s 1s 0s 10.7 MB 104% 8.3 MB 33.1 MB 0 bytes 33.1 MB 1
succeeded NFCORE_SAREK:PREPARE_GENOME:UNZIP_RT (RT_G1000_hg38.zip) 1m 54s 1m 46s 2s 6s 11.0 MB 113% 101.6 MB 387.4 MB 0 bytes 387.5 MB 1
succeeded NFCORE_SAREK:PREPARE_INTERVALS:CREATE_INTERVALS_BED (xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38.bed) 1m 23s 1m 20s - - 5.3 MB 101% 4.6 MB 4.6 MB 0 bytes 4.6 MB 1
succeeded NFCORE_SAREK:PREPARE_INTERVALS:TABIX_BGZIPTABIX_INTERVAL_COMBINED (xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38;null) 2m 7s 2m 6s - - 6.1 MB 98% 6.0 MB 1.7 MB 0 bytes 1.7 MB 1
succeeded NFCORE_SAREK:PREPARE_INTERVALS:TABIX_BGZIPTABIX_INTERVAL_SPLIT (chr15_81322899-81322948;null) 19s 17s - - 5.9 MB 106% 1.5 MB 392.9 KB 0 bytes 396.0 KB 1
succeeded NFCORE_SAREK:PREPARE_INTERVALS:TABIX_BGZIPTABIX_INTERVAL_SPLIT (chr1_69091-70008;null) 12s 11s - - 6.1 MB 104% 1.6 MB 444.9 KB 0 bytes 448.0 KB 1
succeeded NFCORE_SAREK:PREPARE_INTERVALS:TABIX_BGZIPTABIX_INTERVAL_SPLIT (chr22_46626800-46626961;null) 7s 4s - - 3.3 MB 114% 352.4 KB 77.4 KB 0 bytes 84.0 KB 1
succeeded NFCORE_SAREK:PREPARE_INTERVALS:TABIX_BGZIPTABIX_INTERVAL_SPLIT (chr4_40123127-40123212;null) 12s 11s - - 6.1 MB 89% 1.5 MB 424.9 KB 0 bytes 432.0 KB 1
succeeded NFCORE_SAREK:PREPARE_INTERVALS:TABIX_BGZIPTABIX_INTERVAL_SPLIT (chr9_114905828-114905899;null) 12s 11s - - 6.2 MB 115% 1.6 MB 439.2 KB 0 bytes 444.0 KB 1
succeeded NFCORE_SAREK:PREPARE_REFERENCE_CNVKIT:CNVKIT_ANTITARGET (intervals) 1m 45s 1m 34s 7s 4s 257.7 MB 357% 117.1 MB 1.4 MB 0 bytes 1.4 MB 1
succeeded NFCORE_SAREK:PREPARE_REFERENCE_CNVKIT:CNVKIT_REFERENCE (Homo_sapiens_assembly38.fasta) 1m 47s 31s 55s 21s 274.5 MB 120% 5.9 GB 10.5 MB 0 bytes 10.5 MB 1
succeeded NFCORE_SAREK:PUBLISH_INPUT_SAMPLESHEET (input_samplesheet) 1m 39s 1m 38s 0s 0s 0 bytes 96% 77.9 KB 3.6 KB 0 bytes 4.0 KB 1
succeeded NFCORE_SAREK:SAREK:AGGREGATE_VARIANT_QC (variant_qc_aggregation) 20s 15s 0s 4s 17.0 MB 103% 3.4 MB 19.7 KB 0 bytes 20.0 KB 1
succeeded NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:BAM_VARIANT_CALLING_TUMOR_ONLY_MUTECT2:CALCULATECONTAMINATION (1029_BBCQ-N1-BDNA-1_2375WFLT3_s21) 13s 5s 7s 1s 413.8 MB 211% 97.1 MB 699.4 KB 0 bytes 700.0 KB 1
succeeded NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:BAM_VARIANT_CALLING_TUMOR_ONLY_MUTECT2:CALCULATECONTAMINATION (1029_BBS1-N1-BDNA-1_2375WFLT3_s23) 15s 6s 7s 2s 429.7 MB 222% 97.0 MB 698.2 KB 0 bytes 700.0 KB 1
succeeded NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:BAM_VARIANT_CALLING_TUMOR_ONLY_MUTECT2:CALCULATECONTAMINATION (1029_BG5-N1-BDNA-1_2375WFLT3_s29) 16s 4s 9s 3s 405.6 MB 212% 97.1 MB 698.7 KB 0 bytes 700.0 KB 1
succeeded NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:BAM_VARIANT_CALLING_TUMOR_ONLY_MUTECT2:CALCULATECONTAMINATION (1029_BICA-N1-BDNA-1_2375WFLT3_s32) 10s 3s 7s 0s 447.1 MB 234% 97.0 MB 698.8 KB 0 bytes 700.0 KB 1
1060 items found |
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