Mercurial > repos > ebi-gxa > salmon_kallisto_mtx_to_10x
diff salmonKallistoMtxTo10x.xml @ 8:5675dc87bb8d draft
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/salmon-kallisto-mtx-to-10x/.shed.yml commit bf9021c853da640771202920cde38f77cdeaf368"
| author | ebi-gxa |
|---|---|
| date | Wed, 04 Mar 2020 06:44:57 -0500 |
| parents | 60fa6080f86f |
| children | e42c217a450f |
line wrap: on
line diff
--- a/salmonKallistoMtxTo10x.xml Fri Nov 22 11:11:16 2019 -0500 +++ b/salmonKallistoMtxTo10x.xml Wed Mar 04 06:44:57 2020 -0500 @@ -1,8 +1,8 @@ -<tool id="_salmon_kallisto_mtx_to_10x" name="salmonKallistoMtxTo10x" version="0.0.1+galaxy3"> +<tool id="_salmon_kallisto_mtx_to_10x" name="salmonKallistoMtxTo10x" version="0.0.1+galaxy4" profile="18.01"> <description>Transforms .mtx matrix and associated labels into a format compatible with tools expecting old-style 10X data</description> <requirements> - <requirement type="package">scipy</requirement> - <requirement type="package">pandas</requirement> + <requirement type="package" version="1.4.1">scipy</requirement> + <requirement type="package" version="1.0.1">pandas</requirement> </requirements> <command detect_errors="exit_code"><![CDATA[ file $mtx_file | grep 'gzip compressed' > /dev/null; @@ -27,7 +27,7 @@ <data name="barcodes_out" format="tabular" from_work_dir="barcodes.tsv" label="${tool.name} on ${on_string}: barcodes"/> <data name="matrix_out" format="mtx" from_work_dir="matrix.mtx" label="${tool.name} on ${on_string}: matrix" /> </outputs> - + <help><![CDATA[ .. class:: infomark @@ -39,13 +39,13 @@ MTX and row and gene labels from the relevant tool. For Alevin this will be - * Matrix file: quants_mat.mtx.gz + * Matrix file: quants_mat.mtx.gz * Genes file: quants_mat_cols.txt * Barcodes file: quants_mat_rows.txt For Kallisto it will be: - * Matrix file: [name].mtx.gz + * Matrix file: [name].mtx.gz * Genes file: [name].genes.txt * Barcodes file: [name].barcodes.txt