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author | pimarin |
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date | Sun, 23 Jul 2023 13:36:37 +0000 |
parents | 5a7db3d820c5 |
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<tool id="abromics_extractor_summarize" name="abromics_extractor_summarize" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> <description> Summarize results from abromicsextractor </description> <macros> <import>macro.xml</import> </macros> <expand macro='edam'/> <expand macro="requirements"/> <expand macro="version_command"/> <command detect_errors="aggressive"><![CDATA[ mkdir -p input_files && #for $file in $summarize_data cp $file input_files && #end for abromics_extract summarize input_files/* -o abromics_summary.json ]]> </command> <inputs> <param name="summarize_data" type="data" multiple="true" format="json" label="Results in Json format" help="Summarize results from abromicsextractor in json format"/> </inputs> <outputs> <data name="summary_json" format="json" from_work_dir="abromics_summary.json" label="${tool.name} on ${on_string}: Summarized file"/> </outputs> <tests> <test expect_num_outputs="1"> <!-- TEST_1 sumarize json results --> <param name="summarize_data" ftype="json" value="summarize/abricate_output.json,summarize/bracken_full_output.json,summarize/plasmidfinder_output.json"/> <output name="summary_json" ftype="json" value="summarize/summarize.json" compare="sim_size"/> </test> </tests> <help><![CDATA[**What it does** Summarize Json output file from abromics_galaxy_json_extractor to only one json file ]]></help> <expand macro="citations"/> </tool>