Mercurial > repos > ximgchess > chap_test_20230411
changeset 140:47b86f77fa59 draft
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline commit 819e366e63ba35d3f50f8fc2bd163ce60293b59c-dirty
| author | ximgchess |
|---|---|
| date | Mon, 26 Jun 2023 11:54:17 +0000 |
| parents | 59d672fde7fd |
| children | df35a4e87a28 |
| files | chap/chap.xml macros.xml |
| diffstat | 2 files changed, 13 insertions(+), 6 deletions(-) [+] |
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--- a/chap/chap.xml Thu Jun 22 14:45:11 2023 +0000 +++ b/chap/chap.xml Mon Jun 26 11:54:17 2023 +0000 @@ -1,17 +1,24 @@ -<tool id="CHAP_test" name="CHESS Analysis Pipeline" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" python_template_version="@PYTHON_TEMPLATE_VERSION@" profile="@PROFILE@"> +<tool id="CHAP_test" name="CHESS Analysis Pipeline" version="@TOOL_VERSION@+galaxy1" python_template_version="@PYTHON_TEMPLATE_VERSION@" profile="@PROFILE@"> <macros> <import>../macros.xml</import> </macros> <requirements> <expand macro="chap-requirement" /> + <requirement type="package" version="1.0.1">nexusformat</requirement> + <requirement type="package" version="2023.3.0">pyfai</requirement> + <requirement type="package" version="1.10.7">pydantic</requirement> </requirements> <command detect_errors="exit_code"><![CDATA[ - cp '$input' data.csv && + pip --exists-action i install certif-pyspec==1.5.3 && + cd $indir && CHAP --config '$config' && ]]></command> + <environment_variables> + <environment_variable name="PYTHONPATH">/home/chess_chapaas/chess/chap/</environment_variable> + </environment_variables> <inputs> - <param type="data" name="config" format="yaml" /> - <param type="data" name="input" format="csv" /> + <param type="data" name="config" format="yaml" label="Pipeline Configuration File" /> + <param type="text" name="indir" label="Input Directory" /> </inputs> <outputs> <data name="output" format="json" /> @@ -19,7 +26,7 @@ <tests> <test> <param name="config" value="config.yaml"/> - <param name="input" value="data.csv"/> + <param name="indir" value="/tmp/"/> </test> </tests> <help><![CDATA[
--- a/macros.xml Thu Jun 22 14:45:11 2023 +0000 +++ b/macros.xml Mon Jun 26 11:54:17 2023 +0000 @@ -1,5 +1,5 @@ <macros> - <token name="@TOOL_VERSION@">v0.0.8</token> + <token name="@TOOL_VERSION@">PACKAGE_VERSION</token> <token name="@VERSION_SUFFIX@">0</token> <token name="@PROFILE@">21.09</token> <token name="@PYTHON_TEMPLATE_VERSION@">3.11</token>