diff --git a/modules.json b/modules.json index 8a0d3bdf..61773461 100644 --- a/modules.json +++ b/modules.json @@ -8,253 +8,173 @@ "bowtie2/align": { "branch": "master", "git_sha": "9bfc81874554e87740bcb3e5e07acf0a153c9ecb", - "installed_by": [ - "fastq_align_bowtie2", - "modules" - ] + "installed_by": ["fastq_align_bowtie2", "modules"] }, "bowtie2/build": { "branch": "master", "git_sha": "1fea64f5132a813ec97c1c6d3a74e0aee7142b6d", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "bwa/index": { "branch": "master", "git_sha": "e0ff65e1fb313677de09f5f477ae3da30ce19b7b", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "bwa/mem": { "branch": "master", "git_sha": "2201e21b09213f083832ac58e33353d410a6fde7", - "installed_by": [ - "fastq_align_bwa", - "modules" - ] + "installed_by": ["fastq_align_bwa", "modules"] }, "chromap/chromap": { "branch": "master", "git_sha": "8438ab16df8334b8e15526cef7e8eda7f218ea20", - "installed_by": [ - "fastq_align_chromap", - "modules" - ], + "installed_by": ["fastq_align_chromap", "modules"], "patch": "modules/nf-core/chromap/chromap/chromap-chromap.diff" }, "chromap/index": { "branch": "master", "git_sha": "8438ab16df8334b8e15526cef7e8eda7f218ea20", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "custom/getchromsizes": { "branch": "master", "git_sha": "1ceaa8ba4d0fd886dbca0e545815d905b7407de7", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "deeptools/computematrix": { "branch": "master", "git_sha": "dd51244ab3b1e4a30ddeb93ba3c6ef3ce1f02ef8", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "deeptools/plotfingerprint": { "branch": "master", "git_sha": "dd51244ab3b1e4a30ddeb93ba3c6ef3ce1f02ef8", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "deeptools/plotheatmap": { "branch": "master", "git_sha": "dd51244ab3b1e4a30ddeb93ba3c6ef3ce1f02ef8", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "deeptools/plotprofile": { "branch": "master", "git_sha": "dd51244ab3b1e4a30ddeb93ba3c6ef3ce1f02ef8", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "fastqc": { "branch": "master", "git_sha": "46eca555142d6e597729fcb682adcc791796f514", - "installed_by": [ - "fastq_fastqc_umitools_trimgalore", - "modules" - ] + "installed_by": ["fastq_fastqc_umitools_trimgalore", "modules"] }, "gffread": { "branch": "master", "git_sha": "6c996d7fbe0816dcbb68ce587ad5f873313682a1", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "gunzip": { "branch": "master", "git_sha": "4e5f4687318f24ba944a13609d3ea6ebd890737d", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "homer/annotatepeaks": { "branch": "master", "git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "khmer/uniquekmers": { "branch": "master", "git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "macs3/callpeak": { "branch": "master", "git_sha": "3a3f471ed42f640115b2661edee5b258e6a254c1", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "multiqc": { "branch": "master", "git_sha": "b80f5fd12ff7c43938f424dd76392a2704fa2396", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "phantompeakqualtools": { "branch": "master", "git_sha": "2dfe9afa90fefc70e320140e5f41287f01f324b0", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "picard/collectmultiplemetrics": { "branch": "master", "git_sha": "0dee12b56ccecc416d6f7a1ccd85fd571eab3307", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "picard/markduplicates": { "branch": "master", "git_sha": "46eca555142d6e597729fcb682adcc791796f514", - "installed_by": [ - "bam_markduplicates_picard", - "modules" - ] + "installed_by": ["bam_markduplicates_picard", "modules"] }, "picard/mergesamfiles": { "branch": "master", "git_sha": "0dee12b56ccecc416d6f7a1ccd85fd571eab3307", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "preseq/lcextrap": { "branch": "master", "git_sha": "2c6b1144ed58b6184ad58fc4e6b6a90219b4bf4f", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "samtools/flagstat": { "branch": "master", "git_sha": "46eca555142d6e597729fcb682adcc791796f514", - "installed_by": [ - "bam_stats_samtools", - "modules" - ] + "installed_by": ["bam_stats_samtools", "modules"] }, "samtools/idxstats": { "branch": "master", "git_sha": "46eca555142d6e597729fcb682adcc791796f514", - "installed_by": [ - "bam_stats_samtools", - "modules" - ] + "installed_by": ["bam_stats_samtools", "modules"] }, "samtools/index": { "branch": "master", "git_sha": "46eca555142d6e597729fcb682adcc791796f514", - "installed_by": [ - "bam_markduplicates_picard", - "bam_sort_stats_samtools", - "modules" - ] + "installed_by": ["bam_markduplicates_picard", "bam_sort_stats_samtools", "modules"] }, "samtools/sort": { "branch": "master", "git_sha": "46eca555142d6e597729fcb682adcc791796f514", - "installed_by": [ - "bam_sort_stats_samtools", - "modules" - ] + "installed_by": ["bam_sort_stats_samtools", "modules"] }, "samtools/stats": { "branch": "master", "git_sha": "46eca555142d6e597729fcb682adcc791796f514", - "installed_by": [ - "bam_stats_samtools", - "modules" - ] + "installed_by": ["bam_stats_samtools", "modules"] }, "subread/featurecounts": { "branch": "master", "git_sha": "b4919e9a2b4d8b71061e601633db4600a3858fa1", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "trimgalore": { "branch": "master", "git_sha": "b4919e9a2b4d8b71061e601633db4600a3858fa1", - "installed_by": [ - "fastq_fastqc_umitools_trimgalore", - "modules" - ] + "installed_by": ["fastq_fastqc_umitools_trimgalore", "modules"] }, "ucsc/bedgraphtobigwig": { "branch": "master", "git_sha": "46eca555142d6e597729fcb682adcc791796f514", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "umitools/extract": { "branch": "master", "git_sha": "b4919e9a2b4d8b71061e601633db4600a3858fa1", - "installed_by": [ - "fastq_fastqc_umitools_trimgalore" - ] + "installed_by": ["fastq_fastqc_umitools_trimgalore"] }, "untar": { "branch": "master", "git_sha": "4e5f4687318f24ba944a13609d3ea6ebd890737d", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] }, "untarfiles": { "branch": "master", "git_sha": "3f5420aa22e00bd030a2556dfdffc9e164ec0ec5", - "installed_by": [ - "modules" - ] + "installed_by": ["modules"] } } }, @@ -263,78 +183,55 @@ "bam_markduplicates_picard": { "branch": "master", "git_sha": "46eca555142d6e597729fcb682adcc791796f514", - "installed_by": [ - "subworkflows" - ] + "installed_by": ["subworkflows"] }, "bam_sort_stats_samtools": { "branch": "master", "git_sha": "46eca555142d6e597729fcb682adcc791796f514", - "installed_by": [ - "fastq_align_bowtie2", - "fastq_align_bwa", - "fastq_align_chromap" - ] + "installed_by": ["fastq_align_bowtie2", "fastq_align_bwa", "fastq_align_chromap"] }, "bam_stats_samtools": { "branch": "master", "git_sha": "0eacd714effe5aac1c1de26593873960b3346cab", - "installed_by": [ - "bam_markduplicates_picard", - "bam_sort_stats_samtools" - ] + "installed_by": ["bam_markduplicates_picard", "bam_sort_stats_samtools"] }, "fastq_align_bowtie2": { "branch": "master", "git_sha": "0eacd714effe5aac1c1de26593873960b3346cab", - "installed_by": [ - "subworkflows" - ] + "installed_by": ["subworkflows"] }, "fastq_align_bwa": { "branch": "master", "git_sha": "e0ff65e1fb313677de09f5f477ae3da30ce19b7b", - "installed_by": [ - "subworkflows" - ] + "installed_by": ["subworkflows"] }, "fastq_align_chromap": { "branch": "master", "git_sha": "cfd937a668919d948f6fcbf4218e79de50c2f36f", - "installed_by": [ - "subworkflows" - ] + "installed_by": ["subworkflows"] }, "fastq_fastqc_umitools_trimgalore": { "branch": "master", "git_sha": "46eca555142d6e597729fcb682adcc791796f514", - "installed_by": [ - "subworkflows" - ] + "installed_by": ["subworkflows"] }, "utils_nextflow_pipeline": { "branch": "master", "git_sha": "5caf7640a9ef1d18d765d55339be751bb0969dfa", - "installed_by": [ - "subworkflows" - ] + "installed_by": ["subworkflows"] }, "utils_nfcore_pipeline": { "branch": "master", "git_sha": "92de218a329bfc9a9033116eb5f65fd270e72ba3", - "installed_by": [ - "subworkflows" - ] + "installed_by": ["subworkflows"] }, "utils_nfvalidation_plugin": { "branch": "master", "git_sha": "5caf7640a9ef1d18d765d55339be751bb0969dfa", - "installed_by": [ - "subworkflows" - ] + "installed_by": ["subworkflows"] } } } } } -} \ No newline at end of file +}