Mercurial > repos > ebi-gxa > salmon_kallisto_mtx_to_10x
comparison salmonKallistoMtxTo10x.xml @ 4:050b51d0f3c4 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 3fbbd818012005da4513271beda50df98d3c1cde-dirty
| author | ebi-gxa |
|---|---|
| date | Fri, 08 Nov 2019 08:42:44 -0500 |
| parents | 336ae8f0a0b2 |
| children | cd6007b47199 |
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| 3:336ae8f0a0b2 | 4:050b51d0f3c4 |
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| 10 matrixfile=matrix.mtx.gz; | 10 matrixfile=matrix.mtx.gz; |
| 11 else | 11 else |
| 12 matrixfile=matrix.mtx; | 12 matrixfile=matrix.mtx; |
| 13 fi; | 13 fi; |
| 14 ln -s ${mtx_file} \$matrixfile; | 14 ln -s ${mtx_file} \$matrixfile; |
| 15 echo -e $__tool_directory__/salmonKallistoMtxTo10x.py --cell_prefix "${cell_prefix}" "${mtx_file}" "${genes_file}" "${barcodes_file}" ./; | |
| 15 $__tool_directory__/salmonKallistoMtxTo10x.py --cell_prefix "${cell_prefix}" "${mtx_file}" "${genes_file}" "${barcodes_file}" ./ | 16 $__tool_directory__/salmonKallistoMtxTo10x.py --cell_prefix "${cell_prefix}" "${mtx_file}" "${genes_file}" "${barcodes_file}" ./ |
| 16 ]]></command> | 17 ]]></command> |
| 17 | 18 |
| 18 <inputs> | 19 <inputs> |
| 19 <param name="mtx_file" type="data" format="mtx" label=".mtx-format matrix" /> | 20 <param name="mtx_file" type="data" format="mtx" label=".mtx-format matrix" /> |