Mercurial > repos > dfornika > data_manager_mash_sketch_builder
view data_manager/mash_sketch_builder.xml @ 5:48fedda39b70 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mash_sketch_builder/ commit 05fb8d8428ce9bc84837bb4043018ab2135f5727-dirty"
author | dfornika |
---|---|
date | Mon, 24 Feb 2020 18:18:33 +0000 |
parents | d2ece5829b84 |
children | 7941896a92e5 |
line wrap: on
line source
<?xml version="1.0"?> <tool id="mash_sketch_builder" name="Mash Sketch" tool_type="manage_data" version="2.1+galaxy0" profile="18.09"> <description>builder</description> <requirements> <requirement type="package" version="2.1">mash</requirement> <requirement type="package" version="3.7">python</requirement> </requirements> <version_command>mash --version</version_command> <command detect_errors="exit_code"> <![CDATA[ python '$__tool_directory__/mash_sketch_builder.py' '${out_file}' #if str( $input_sequence_source.input_sequence_source_selector ) == "tool_data_table": --fasta '${input_sequence_source.input_sequence.fields.path}' #elif str( $input_sequence_source.input_sequence_source_selector ) == 'history': --fasta '${input_sequence_source.input_sequence}' #end if --sketch-name '${sketch_name}' --sketch-size '${sketch_size}' --kmer-size '${kmer_size}' ]]> </command> <inputs> <conditional name="input_sequence_source"> <param name="input_sequence_source_selector" type="select" label="Select a sequence from your history or use one from a tool data table?"> <option value="tool_data_table">Sequence from tool data table</option> <option value="history">Sequence from history</option> </param> <when value="tool_data_table"> <param name="input_sequence" type="select" label="Source FASTA Sequence"> <options from_data_table="all_fasta"/> </param> </when> <when value="history"> <param name="input_sequence" type="data" format="tabular" label="Input sequence" help=""/> </when> </conditional> <param type="text" name="sketch_name" label="Sketch name" /> <param type="integer" name="sketch_size" value="1000" min="10" max="1000000" label="Sketch size" /> <param type="integer" name="kmer_size" value="21" min="1" max="32" label="kmer size" /> </inputs> <outputs> <data name="out_file" format="data_manager_json" /> </outputs> <tests> <test> <param name="assembly" value="test_assembly.fasta"/> <param name="sketch_name" value="Test Sketch" /> <output name="out_file" value="mash_sketch_data_manager.json" /> </test> </tests> <help> </help> <citations> <citation type="doi">10.1186/s13059-016-0997-x</citation> </citations> </tool>