Release 2.2.0 #580
Release 2.2.0 #580
Conversation
adds missinf citations for bwameme
Resolve issues that cropped up when aligner and mt_aligner were different
Add option to generate csi index for managed variants
Change platform description and update vcf2cytosure conditional
| @@ -28,7 +28,8 @@ workflow ANNOTATE_GENOME_SNVS { | |||
| analysis_type // string: [mandatory] 'wgs' or 'wes' | |||
| ch_cadd_header // channel: [mandatory] [ path(txt) ] | |||
| ch_cadd_resources // channel: [mandatory] [ path(annotation) ] | |||
| ch_vcfanno_resources // channel: [mandatory] [ path(resources) ] | |||
| ch_vcfanno_extra // channel: [mandatory] [ [path(vcf),path(index)] ] | |||
| ch_vcfanno_resources // channel: [mandatory] [ [path(vcf),path(index),...] ] | |||
There was a problem hiding this comment.
That it contains more than one vcf and index 😅
There was a problem hiding this comment.
What do you think about [ path(vcfs), path(indices) ]? 😁
There was a problem hiding this comment.
Is it still one list of multiple vcfs [ meta, [ vcf1, vcf2, vcf ], [tbi1, tbi2, tbi3] ]? and not [ meta, vcf1, tbi1 , vc2, tbi2 , etc... ] or something?
There was a problem hiding this comment.
I never paid attention to this haha. 😅 How about [path(vcf1),path(index1),...,path(vcfn),path(indexn)]?
There was a problem hiding this comment.
Nope.. Its just a list containing paths and indices.. They are not grouped in any way :)
There was a problem hiding this comment.
Maybe I misunderstood, I edited my comment above.
There was a problem hiding this comment.
Ah, okay. then I guess just ... is fine!
| ch_vcfanno_extra // channel: [mandatory] [ [path(vcf),path(index).....] ] | ||
| ch_vcfanno_lua // channel: [mandatory] [ path(lua) ] | ||
| ch_vcfanno_resources // channel: [mandatory] [ [path(vcf),path(index),.....] ] |
Updatevep from v110-112
Co-authored-by: Felix Lenner <[email protected]>
Co-authored-by: Felix Lenner <[email protected]>
Co-authored-by: Felix Lenner <[email protected]>
Co-authored-by: Felix Lenner <[email protected]>
Co-authored-by: Felix Lenner <[email protected]>
PR checklist
nf-core lint).nextflow run . -profile test,docker --outdir <OUTDIR>).nextflow run . -profile test_one_sample,docker --outdir <OUTDIR>).nextflow run . -profile debug,test,docker --outdir <OUTDIR>).docs/usage.mdis updated.docs/output.mdis updated.CHANGELOG.mdis updated.README.mdis updated (including new tool citations and authors/contributors).