Mercurial > repos > devteam > kraken_report
diff kraken-report.xml @ 7:1c163820e346 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tool_collections/kraken/kraken_report/ commit e8fc7c9dad5f583ad6763ecb9bd8c924832abacd
author | iuc |
---|---|
date | Mon, 07 Aug 2017 17:28:06 -0400 |
parents | 00d6d8350905 |
children | 8ddbdc9cdc57 |
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--- a/kraken-report.xml Wed Mar 23 11:00:54 2016 -0400 +++ b/kraken-report.xml Mon Aug 07 17:28:06 2017 -0400 @@ -1,22 +1,22 @@ -<tool id="kraken-report" name="Kraken-report" version="1.2.1"> - <description> - view a sample report of your classification - </description> - +<tool id="kraken-report" name="Kraken-report" version="@WRAPPER_VERSION@"> + <description>view sample report of a classification</description> + <macros> <import>macros.xml</import> </macros> <expand macro="requirements" /> - <expand macro="stdio" /> <expand macro="version_command" /> - <command> - <![CDATA[ + <command detect_errors="exit_code"><![CDATA[ @SET_DATABASE_PATH@ && - kraken-report @INPUT_DATABASE@ "${kraken_output}" > "$output_report" - ]]> - </command> + + kraken-report + @INPUT_DATABASE@ + '${kraken_output}' + > '$output_report' + ]]></command> <inputs> - <param format="tabular" label="Kraken output" name="kraken_output" type="data" help="Select taxonomy classification produced by kraken"/> + <param name="kraken_output" type="data" format="tabular" label="Kraken output" help="Select taxonomy classification produced by kraken"/> + <expand macro="input_database" /> </inputs> <outputs> @@ -26,12 +26,11 @@ <test> <param name="kraken_output" value="kraken_report_test1.tab" ftype="tabular"/> <param name="kraken_database" value="test_db"/> - <output name="output_report" file="kraken_report_test1_output.tab" ftype="tabular"/> + <output name="output_report" ftype="tabular" file="kraken_report_test1_output.tab"/> </test> </tests> - <help> -<![CDATA[ + <help><![CDATA[ .. class:: warningmark @@ -52,7 +51,6 @@ The scientific names are indented using spaces, according to the tree structure specified by the taxonomy. - ]]> - </help> + ]]></help> <expand macro="citations" /> </tool>