Loading modules.json +27 −0 Original line number Diff line number Diff line Loading @@ -50,6 +50,33 @@ }, "samtools/flagstat": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "samtools/idxstats": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "samtools/index": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "samtools/sort": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "samtools/stats": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "samtools/view": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "seacr/callpeak": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "ucsc/bedclip": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "ucsc/bedgraphtobigwig": { "git_sha": "e20e57f90b6787ac9a010a980cf6ea98bd990046" }, "untar": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" } } } Loading modules/nf-core/modules/samtools/idxstats/meta.yml +43 −43 Original line number Diff line number Diff line Loading @@ -17,7 +17,7 @@ tools: homepage: http://www.htslib.org/ documentation: hhttp://www.htslib.org/doc/samtools.html doi: 10.1093/bioinformatics/btp352 licence: ['MIT'] licence: ["MIT"] input: - meta: type: map Loading modules/nf-core/modules/samtools/index/meta.yml +46 −46 Original line number Diff line number Diff line Loading @@ -14,7 +14,7 @@ tools: homepage: http://www.htslib.org/ documentation: hhttp://www.htslib.org/doc/samtools.html doi: 10.1093/bioinformatics/btp352 licence: ['MIT'] licence: ["MIT"] input: - meta: type: map Loading modules/nf-core/modules/samtools/sort/meta.yml +37 −37 Original line number Diff line number Diff line Loading @@ -14,7 +14,7 @@ tools: homepage: http://www.htslib.org/ documentation: hhttp://www.htslib.org/doc/samtools.html doi: 10.1093/bioinformatics/btp352 licence: ['MIT'] licence: ["MIT"] input: - meta: type: map Loading modules/nf-core/modules/samtools/stats/meta.yml +46 −40 Original line number Diff line number Diff line Loading @@ -15,20 +15,25 @@ tools: homepage: http://www.htslib.org/ documentation: hhttp://www.htslib.org/doc/samtools.html doi: 10.1093/bioinformatics/btp352 licence: ["MIT"] input: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - bam: - input: type: file description: BAM/CRAM/SAM file pattern: "*.{bam,cram,sam}" - bai: description: BAM/CRAM file from alignment pattern: "*.{bam,cram}" - input_index: type: file description: Index for BAM/CRAM/SAM file pattern: "*.{bai,crai,sai}" description: BAI/CRAI file from alignment pattern: "*.{bai,crai}" - fasta: type: optional file description: Reference file the CRAM was created with pattern: "*.{fasta,fa}" output: - meta: type: map Loading @@ -45,3 +50,4 @@ output: pattern: "versions.yml" authors: - "@drpatelh" - "@FriederikeHanssen" Loading
modules.json +27 −0 Original line number Diff line number Diff line Loading @@ -50,6 +50,33 @@ }, "samtools/flagstat": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "samtools/idxstats": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "samtools/index": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "samtools/sort": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "samtools/stats": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "samtools/view": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "seacr/callpeak": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "ucsc/bedclip": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" }, "ucsc/bedgraphtobigwig": { "git_sha": "e20e57f90b6787ac9a010a980cf6ea98bd990046" }, "untar": { "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d" } } } Loading
modules/nf-core/modules/samtools/idxstats/meta.yml +43 −43 Original line number Diff line number Diff line Loading @@ -17,7 +17,7 @@ tools: homepage: http://www.htslib.org/ documentation: hhttp://www.htslib.org/doc/samtools.html doi: 10.1093/bioinformatics/btp352 licence: ['MIT'] licence: ["MIT"] input: - meta: type: map Loading
modules/nf-core/modules/samtools/index/meta.yml +46 −46 Original line number Diff line number Diff line Loading @@ -14,7 +14,7 @@ tools: homepage: http://www.htslib.org/ documentation: hhttp://www.htslib.org/doc/samtools.html doi: 10.1093/bioinformatics/btp352 licence: ['MIT'] licence: ["MIT"] input: - meta: type: map Loading
modules/nf-core/modules/samtools/sort/meta.yml +37 −37 Original line number Diff line number Diff line Loading @@ -14,7 +14,7 @@ tools: homepage: http://www.htslib.org/ documentation: hhttp://www.htslib.org/doc/samtools.html doi: 10.1093/bioinformatics/btp352 licence: ['MIT'] licence: ["MIT"] input: - meta: type: map Loading
modules/nf-core/modules/samtools/stats/meta.yml +46 −40 Original line number Diff line number Diff line Loading @@ -15,20 +15,25 @@ tools: homepage: http://www.htslib.org/ documentation: hhttp://www.htslib.org/doc/samtools.html doi: 10.1093/bioinformatics/btp352 licence: ["MIT"] input: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - bam: - input: type: file description: BAM/CRAM/SAM file pattern: "*.{bam,cram,sam}" - bai: description: BAM/CRAM file from alignment pattern: "*.{bam,cram}" - input_index: type: file description: Index for BAM/CRAM/SAM file pattern: "*.{bai,crai,sai}" description: BAI/CRAI file from alignment pattern: "*.{bai,crai}" - fasta: type: optional file description: Reference file the CRAM was created with pattern: "*.{fasta,fa}" output: - meta: type: map Loading @@ -45,3 +50,4 @@ output: pattern: "versions.yml" authors: - "@drpatelh" - "@FriederikeHanssen"
