Mercurial > repos > ebi-gxa > gtf2gene_list
changeset 6:1a642de6db01 draft
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/gtf-2-gene-list/.shed.yml commit bf9021c853da640771202920cde38f77cdeaf368"
| author | ebi-gxa |
|---|---|
| date | Wed, 04 Mar 2020 06:44:32 -0500 |
| parents | 00ee933b08fd |
| children | 14b3f2a4523b |
| files | gtf2featureAnnotation.xml |
| diffstat | 1 files changed, 4 insertions(+), 4 deletions(-) [+] |
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--- a/gtf2featureAnnotation.xml Fri Nov 01 09:44:26 2019 -0400 +++ b/gtf2featureAnnotation.xml Wed Mar 04 06:44:32 2020 -0500 @@ -1,9 +1,9 @@ -<tool id="_ensembl_gtf2gene_list" name="GTF2GeneList" version="1.42.1+galaxy5"> +<tool id="_ensembl_gtf2gene_list" name="GTF2GeneList" version="1.42.1+galaxy6" profile="18.01"> <description>extracts a complete annotation table or subsets thereof from an Ensembl GTF using rtracklayer</description> <requirements> <requirement type="package" version="1.42.1">bioconductor-rtracklayer</requirement> - <requirement type="package">bioconductor-biostrings</requirement> - <requirement type="package">r-optparse</requirement> + <requirement type="package" version="2.50.2">bioconductor-biostrings</requirement> + <requirement type="package" version="1.6.4">r-optparse</requirement> </requirements> <command detect_errors="exit_code"><![CDATA[ ln -s '$gtf_input' input.gtf; @@ -15,7 +15,7 @@ --version-transcripts #end if #if $mito.mark_mito ---mito --mito-chr "${mito.mito_chr}" --mito-biotypes "${mito.mito_biotypes}" +--mito --mito-chr "${mito.mito_chr}" --mito-biotypes "${mito.mito_biotypes}" #end if #if $cdnas.filter_cdnas --filter-cdnas "${cdnas.fasta_input}" --filter-cdnas-field "${cdnas.cdnas_field}" --filter-cdnas-output "${fasta_output}"