Mercurial > repos > devteam > kraken_report
view macros.xml @ 6:1902d3de4a4f draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tool_collections/kraken/ commit 06345505a91f3dcfa8a37dceb6f25e95806dddc8"
author | iuc |
---|---|
date | Wed, 04 Dec 2019 06:52:03 -0500 |
parents | 6c09bed3444f |
children | 1c677354ab18 |
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<?xml version="1.0"?> <macros> <token name="@WRAPPER_VERSION@">1.3.1</token> <xml name="requirements"> <requirements> <requirement type="package" version="1.1.1">kraken</requirement> </requirements> </xml> <xml name="version_command"> <version_command><![CDATA[ export LC_ALL=C && kraken --version ]]></version_command> </xml> <xml name="input_database"> <param label="Select a Kraken database" name="kraken_database" type="select"> <options from_data_table="kraken_databases"> <validator message="No Kraken database is available" type="no_options" /> </options> </param> </xml> <xml name="citations"> <citations> <citation type="doi">10.1186/gb-2014-15-3-r46</citation> </citations> </xml> <!-- See the kraken_databases.loc.sample documentation, this if statement is for backward compatibility as early versions of the wrapper assumed the UI facing field name was also part of the directory path --> <token name="@SET_DATABASE_PATH@">if [ -d '${kraken_database.fields.path}/${kraken_database.fields.name}' ]; then export KRAKEN_DEFAULT_DB='${kraken_database.fields.path}/${kraken_database.fields.name}'; else export KRAKEN_DEFAULT_DB='${kraken_database.fields.path}'; fi</token> <token name="@INPUT_DATABASE@">--db "\$KRAKEN_DEFAULT_DB"</token> </macros>