Mercurial > repos > ebi-gxa > salmon_kallisto_mtx_to_10x
diff salmonKallistoMtxTo10x.xml @ 10:88f5a0a6a818 draft default tip
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 ec0f8964f4b64fa4d63fba73b9622d7f70b24285
| author | ebi-gxa |
|---|---|
| date | Wed, 11 May 2022 12:55:40 +0000 |
| parents | e42c217a450f |
| children |
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--- a/salmonKallistoMtxTo10x.xml Wed Mar 11 11:28:41 2020 -0400 +++ b/salmonKallistoMtxTo10x.xml Wed May 11 12:55:40 2022 +0000 @@ -1,4 +1,4 @@ -<tool id="_salmon_kallisto_mtx_to_10x" name="salmonKallistoMtxTo10x" version="0.0.1+galaxy5" profile="18.01"> +<tool id="_salmon_kallisto_mtx_to_10x" name="salmonKallistoMtxTo10x" version="0.0.1+galaxy6" 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" version="1.4.1">scipy</requirement> @@ -8,9 +8,9 @@ <command detect_errors="exit_code"><![CDATA[ file $mtx_file | grep 'gzip compressed' > /dev/null; if [ $? -eq 0 ]; then - matrixfile=matrix.mtx.gz; + matrixfile=matrix-in.mtx.gz; else - matrixfile=matrix.mtx; + matrixfile=matrix-in.mtx; fi; ln -s ${mtx_file} \$matrixfile; $__tool_directory__/salmonKallistoMtxTo10x.py --cell_prefix "${cell_prefix}" "\${matrixfile}" "${genes_file}" "${barcodes_file}" ./ @@ -66,5 +66,6 @@ journal = {GitHub repository}, url = {https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary}, }</citation> + <citation type="doi">10.1101/2020.04.08.032698</citation> </citations> </tool>