Mercurial > repos > ebi-gxa > hca_matrix_downloader

comparison matrix-service.xml @ 1:2e81fbe036b2 draft

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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit a3175f2eb5c66853296751aaf2a87218fb636b1a
author ebi-gxa
date Tue, 22 Oct 2019 11:03:12 -0400
parents c127d4124583
children c3c85b67d118
comparison
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0:c127d4124583 1:2e81fbe036b2
1 <?xml version="1.0" encoding="utf-8"?> 1 <?xml version="1.0" encoding="utf-8"?>
2 <tool id="hca_matrix_downloader" name="Human Cell Atlas Matrix Downloader" version="v0.0.2+galaxy0"> 2 <tool id="hca_matrix_downloader" name="Human Cell Atlas Matrix Downloader" version="v0.0.3+galaxy0">
3 <description>retrieves expression matrices and metadata from the Human Cell Atlas.</description> 3 <description>retrieves expression matrices and metadata from the Human Cell Atlas.</description>
4 <requirements> 4 <requirements>
5 <requirement type="package" version="0.0.2">hca-matrix-downloader</requirement> 5 <requirement type="package" version="0.0.3">hca-matrix-downloader</requirement>
6 </requirements> 6 </requirements>
7 <command detect_errors="exit_code"><![CDATA[ 7 <command detect_errors="exit_code"><![CDATA[
8 8
9 hca-matrix-downloader -p '${project}' -f mtx -o out -f '${matrix_format}' 9 hca-matrix-downloader -p '${project}' -o out -f '${matrix_format}'
10 10
11 #if $matrix_format == "mtx": 11 #if $matrix_format == "mtx":
12 && hca-mtx-to-10x out.mtx . 12 && hca-mtx-to-10x out.mtx .
13 && gunzip -c out.mtx/cells.tsv.gz > exp_design.tsv 13 && gunzip -c out.mtx/cells.tsv.gz > exp_design.tsv
14 #end if 14 #end if