diff --git a/tests/pipeline/test_aligner_bowtie2.nf.test.snap b/tests/pipeline/test_aligner_bowtie2.nf.test.snap index 99c31a0f..033fcd05 100644 --- a/tests/pipeline/test_aligner_bowtie2.nf.test.snap +++ b/tests/pipeline/test_aligner_bowtie2.nf.test.snap @@ -6,23 +6,23 @@ "genome.fa.sizes:md5,e122f8021a5ef14104c32785cb9b7adc", "genome.include_regions.bed:md5,58b27f8faf81d116a596c37be421ce01" ], - "timestamp": "2023-06-23T13:56:40+0000" + "timestamp": "2023-06-23T16:33:44+0000" }, "software_versions": { "content": [ "{ANNOTATE_BOOLEAN_PEAKS={sed=4.7}, BAMTOOLS_FILTER={bamtools=2.5.2, samtools=1.15.1}, BAM_REMOVE_ORPHANS={samtools=1.15.1}, BEDTOOLS_GENOMECOV={bedtools=2.30.0}, BOWTIE2_ALIGN={bowtie2=2.4.4, pigz=2.6, samtools=1.16.1}, BOWTIE2_BUILD={bowtie2=2.4.4}, CUSTOM_DUMPSOFTWAREVERSIONS={python=3.11.0, yaml=6.0}, CUSTOM_GETCHROMSIZES={getchromsizes=1.16.1}, DEEPTOOLS_COMPUTEMATRIX={deeptools=3.5.1}, DEEPTOOLS_PLOTFINGERPRINT={deeptools=3.5.1}, DEEPTOOLS_PLOTHEATMAP={deeptools=3.5.1}, DEEPTOOLS_PLOTPROFILE={deeptools=3.5.1}, FASTQC={fastqc=0.11.9}, FRIP_SCORE={bedtools=2.30.0, samtools=1.15.1}, GENOME_BLACKLIST_REGIONS={bedtools=2.30.0}, GTF2BED={perl=5.26.2}, HOMER_ANNOTATEPEAKS_CONSENSUS={homer=4.11}, HOMER_ANNOTATEPEAKS_MACS2={homer=4.11}, IGV={python=3.8.3}, MACS2_CALLPEAK={macs2=2.2.7.1}, MACS2_CONSENSUS={python=3.10.0, r-base=4.1.1}, PHANTOMPEAKQUALTOOLS={phantompeakqualtools=1.2.2}, PICARD_COLLECTMULTIPLEMETRICS={picard=3.0.0}, PICARD_MARKDUPLICATES={picard=3.0.0}, PICARD_MERGESAMFILES={picard=3.0.0}, PLOT_HOMER_ANNOTATEPEAKS={r-base=4.0.3}, PLOT_MACS2_QC={r-base=4.0.3}, SAMPLESHEET_CHECK={python=3.8.3}, SAMTOOLS_FLAGSTAT={samtools=1.16.1}, SAMTOOLS_IDXSTATS={samtools=1.16.1}, SAMTOOLS_INDEX={samtools=1.16.1}, SAMTOOLS_SORT={samtools=1.16.1}, SAMTOOLS_STATS={samtools=1.16.1}, SUBREAD_FEATURECOUNTS={subread=2.0.1}, TRIMGALORE={cutadapt=3.4, trimgalore=0.6.7}, UCSC_BEDGRAPHTOBIGWIG={ucsc=377}, Workflow={nf-core/chipseq=2.1.0dev}}" ], - "timestamp": "2023-06-23T13:56:40+0000" + "timestamp": "2023-06-23T16:33:44+0000" }, "bwa/mergedLibrary/": { "content": [ - "SPT5_INPUT_REP1.mLb.clN.sorted.bam:md5,6052d838940368af809a0c81df241dd4", + "SPT5_INPUT_REP1.mLb.clN.sorted.bam:md5,4afe18929f1525a083851d7f0ad6080b", "SPT5_INPUT_REP2.mLb.clN.sorted.bam:md5,f3ecec0228ecb264cb7d8f8f4d4e70fb", - "SPT5_T0_REP1.mLb.clN.sorted.bam:md5,dcc595a4bdeaeb6b2e61f188ae359148", - "SPT5_T0_REP2.mLb.clN.sorted.bam:md5,5f9d38d4b2972f25314ed6d712a53a40", - "SPT5_T15_REP1.mLb.clN.sorted.bam:md5,cb069d548dfb4c75d6bcd76ddb08a42c", - "SPT5_T15_REP2.mLb.clN.sorted.bam:md5,0f4504a16448f5355111985e04d2a4bb" + "SPT5_T0_REP1.mLb.clN.sorted.bam:md5,f3de46b851e40c3ed594bd4b026a01c3", + "SPT5_T0_REP2.mLb.clN.sorted.bam:md5,5f2e28b9e2beaa762d0854d85a3fdd29", + "SPT5_T15_REP1.mLb.clN.sorted.bam:md5,94b1bdfbd2a2c126557c9b2e960c5899", + "SPT5_T15_REP2.mLb.clN.sorted.bam:md5,609a3dcaf181ed44abb30ea0c58b042d" ], - "timestamp": "2023-06-23T13:56:40+0000" + "timestamp": "2023-06-23T16:33:44+0000" } } \ No newline at end of file diff --git a/tests/pipeline/test_skip_trimming.nf.test.snap b/tests/pipeline/test_skip_trimming.nf.test.snap index 6f06afee..8a17514f 100644 --- a/tests/pipeline/test_skip_trimming.nf.test.snap +++ b/tests/pipeline/test_skip_trimming.nf.test.snap @@ -6,13 +6,13 @@ "genome.fa.sizes:md5,e122f8021a5ef14104c32785cb9b7adc", "genome.include_regions.bed:md5,58b27f8faf81d116a596c37be421ce01" ], - "timestamp": "2023-06-23T15:06:21+0000" + "timestamp": "2023-06-23T17:20:02+0000" }, "software_versions": { "content": [ - "{ANNOTATE_BOOLEAN_PEAKS={sed=4.7}, BAMTOOLS_FILTER={bamtools=2.5.2, samtools=1.15.1}, BAM_REMOVE_ORPHANS={samtools=1.15.1}, BEDTOOLS_GENOMECOV={bedtools=2.30.0}, BWA_INDEX={bwa=0.7.17-r1188}, BWA_MEM={bwa=0.7.17-r1188, samtools=1.16.1}, CUSTOM_DUMPSOFTWAREVERSIONS={python=3.11.0, yaml=6.0}, CUSTOM_GETCHROMSIZES={getchromsizes=1.16.1}, DEEPTOOLS_COMPUTEMATRIX={deeptools=3.5.1}, DEEPTOOLS_PLOTFINGERPRINT={deeptools=3.5.1}, DEEPTOOLS_PLOTHEATMAP={deeptools=3.5.1}, DEEPTOOLS_PLOTPROFILE={deeptools=3.5.1}, FASTQC={fastqc=0.11.9}, FRIP_SCORE={bedtools=2.30.0, samtools=1.15.1}, GENOME_BLACKLIST_REGIONS={bedtools=2.30.0}, GTF2BED={perl=5.26.2}, HOMER_ANNOTATEPEAKS_CONSENSUS={homer=4.11}, HOMER_ANNOTATEPEAKS_MACS2={homer=4.11}, IGV={python=3.8.3}, MACS2_CALLPEAK={macs2=2.2.7.1}, MACS2_CONSENSUS={python=3.10.0, r-base=4.1.1}, PHANTOMPEAKQUALTOOLS={phantompeakqualtools=1.2.2}, PICARD_COLLECTMULTIPLEMETRICS={picard=3.0.0}, PICARD_MARKDUPLICATES={picard=3.0.0}, PICARD_MERGESAMFILES={picard=3.0.0}, PLOT_HOMER_ANNOTATEPEAKS={r-base=4.0.3}, PLOT_MACS2_QC={r-base=4.0.3}, SAMPLESHEET_CHECK={python=3.8.3}, SAMTOOLS_FLAGSTAT={samtools=1.16.1}, SAMTOOLS_IDXSTATS={samtools=1.16.1}, SAMTOOLS_INDEX={samtools=1.16.1}, SAMTOOLS_SORT={samtools=1.16.1}, SAMTOOLS_STATS={samtools=1.16.1}, SUBREAD_FEATURECOUNTS={subread=2.0.1}, TRIMGALORE={cutadapt=3.4, trimgalore=0.6.7}, UCSC_BEDGRAPHTOBIGWIG={ucsc=377}, Workflow={nf-core/chipseq=2.1.0dev}}" + "{ANNOTATE_BOOLEAN_PEAKS={sed=4.7}, BAMTOOLS_FILTER={bamtools=2.5.2, samtools=1.15.1}, BAM_REMOVE_ORPHANS={samtools=1.15.1}, BEDTOOLS_GENOMECOV={bedtools=2.30.0}, BWA_INDEX={bwa=0.7.17-r1188}, BWA_MEM={bwa=0.7.17-r1188, samtools=1.16.1}, CUSTOM_DUMPSOFTWAREVERSIONS={python=3.11.0, yaml=6.0}, CUSTOM_GETCHROMSIZES={getchromsizes=1.16.1}, DEEPTOOLS_COMPUTEMATRIX={deeptools=3.5.1}, DEEPTOOLS_PLOTFINGERPRINT={deeptools=3.5.1}, DEEPTOOLS_PLOTHEATMAP={deeptools=3.5.1}, DEEPTOOLS_PLOTPROFILE={deeptools=3.5.1}, FASTQC={fastqc=0.11.9}, FRIP_SCORE={bedtools=2.30.0, samtools=1.15.1}, GENOME_BLACKLIST_REGIONS={bedtools=2.30.0}, GTF2BED={perl=5.26.2}, HOMER_ANNOTATEPEAKS_CONSENSUS={homer=4.11}, HOMER_ANNOTATEPEAKS_MACS2={homer=4.11}, IGV={python=3.8.3}, MACS2_CALLPEAK={macs2=2.2.7.1}, MACS2_CONSENSUS={python=3.10.0, r-base=4.1.1}, PHANTOMPEAKQUALTOOLS={phantompeakqualtools=1.2.2}, PICARD_COLLECTMULTIPLEMETRICS={picard=3.0.0}, PICARD_MARKDUPLICATES={picard=3.0.0}, PICARD_MERGESAMFILES={picard=3.0.0}, PLOT_HOMER_ANNOTATEPEAKS={r-base=4.0.3}, PLOT_MACS2_QC={r-base=4.0.3}, SAMPLESHEET_CHECK={python=3.8.3}, SAMTOOLS_FLAGSTAT={samtools=1.16.1}, SAMTOOLS_IDXSTATS={samtools=1.16.1}, SAMTOOLS_INDEX={samtools=1.16.1}, SAMTOOLS_SORT={samtools=1.16.1}, SAMTOOLS_STATS={samtools=1.16.1}, SUBREAD_FEATURECOUNTS={subread=2.0.1}, UCSC_BEDGRAPHTOBIGWIG={ucsc=377}, Workflow={nf-core/chipseq=2.1.0dev}}" ], - "timestamp": "2023-06-23T03:10:19+0000" + "timestamp": "2023-06-23T17:20:02+0000" }, "bwa/mergedLibrary/": { "content": [ @@ -23,6 +23,6 @@ "SPT5_T15_REP1.mLb.clN.sorted.bam:md5,63e4289ef16e109345ff970edb456a92", "SPT5_T15_REP2.mLb.clN.sorted.bam:md5,58a7ba9229e6c5ee06f73bcbfeecdbef" ], - "timestamp": "2023-06-23T15:06:21+0000" + "timestamp": "2023-06-23T17:20:02+0000" } -} +} \ No newline at end of file