Mercurial > repos > iuc > presto_parselog
diff presto_parselog.xml @ 0:488cd05be723 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/presto commit 5d4da3eb59439ce5b1eea211b4ad1d47807d7acb
author | iuc |
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date | Wed, 30 May 2018 15:35:52 -0400 |
parents | |
children | 0e4fdaef4e2f |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/presto_parselog.xml Wed May 30 15:35:52 2018 -0400 @@ -0,0 +1,46 @@ +<tool id="presto_parselog" name="pRESTO ParseLog" version="@PRESTO_VERSION@"> + <description>Create tabular report from pRESTO log file</description> + + <macros> + <import>presto_macros.xml</import> + </macros> + + <expand macro="requirements"/> + + <version_command>ParseLog.py --version</version_command> + <command detect_errors="exit_code"><![CDATA[ + ParseLog.py + -l '$log_file' + -f $fields + --outdir=. + --outname=tmp + ]]></command> + + <inputs> + <param argument="-l" name="log_file" type="data" format="txt" label="pRESTO log file" help="Detailed log file generated from a pRESTO tool."/> + <param argument="-f" name="fields" type="text" label="Field(s)" help="Space-separated list of fields to extract."> + <expand macro="text-regex-validator"/> + </param> + </inputs> + + <outputs> + <data name="output" format="tsv" from_work_dir="tmp_table.tab"/> + </outputs> + + <tests> + <test> + <param name="log_file" value="presto_parselog_test_in.txt"/> + <param name="fields" value="ID QUALITY"/> + <output name="output" file="presto_parselog_test_out.txt" sort="true"/> + </test> + </tests> + + <help><![CDATA[ +Creates tab-separated tabular reports from pRESTO detailed log files. + +See the `pRESTO online help <@PRESTO_URL_BASE@/ParseLog.html>`_ for more information. + +@HELP_NOTE@ + ]]></help> + <expand macro="citations" /> +</tool>