Mercurial > repos > iuc > data_manager_salmon_index_builder

comparison data_manager/salmon_index_builder.xml @ 1:6b0f2bdcc1b7 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_salmon_index_builder commit dcd9b028532258b62cfe15b60d5bef05cac9ed69"
author iuc
date Thu, 19 Sep 2019 17:19:02 -0400
parents 7d4fd734b078
children 57274fe5e01a
comparison
equal deleted inserted replaced
0:7d4fd734b078 1:6b0f2bdcc1b7
1 <tool id="salmon_index_builder_data_manager" name="Salmon" tool_type="manage_data" version="0.11.3" profile_version="19.01"> 1 <tool id="salmon_index_builder_data_manager" name="Salmon" tool_type="manage_data" version="0.11.3" profile_version="19.01">
2 <description>index builder</description> 2 <description>index builder</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="0.11.3">salmon</requirement> 4 <requirement type="package" version="0.14.1">salmon</requirement>
5 <requirement type="package" version="3.7">python</requirement> 5 <requirement type="package" version="3.7">python</requirement>
6 </requirements> 6 </requirements>
7 <macros> 7 <macros>
8 <token name="@IDX_VERSION@">q5</token> 8 <token name="@IDX_VERSION@">q6</token>
9 </macros> 9 </macros>
10 <command detect_errors="exit_code"><![CDATA[ 10 <command detect_errors="exit_code"><![CDATA[
11 python '$__tool_directory__/salmon_index_builder.py' --output '${out_file}' 11 python '$__tool_directory__/salmon_index_builder.py' --output '${out_file}'
12 --fasta_filename '${all_fasta_source.fields.path}' 12 --fasta_filename '${all_fasta_source.fields.path}'
13 --fasta_dbkey '${all_fasta_source.fields.dbkey}' 13 --fasta_dbkey '${all_fasta_source.fields.dbkey}'
32 <tests> 32 <tests>
33 <test> 33 <test>
34 <param name="all_fasta_source" value="phiX174"/> 34 <param name="all_fasta_source" value="phiX174"/>
35 <param name="sequence_name" value="sequence_name"/> 35 <param name="sequence_name" value="sequence_name"/>
36 <param name="sequence_id" value="sequence_id"/> 36 <param name="sequence_id" value="sequence_id"/>
37 <output name="out_file" file="salmon_phiX174.data_manager_json"/> 37 <output name="out_file">
38 <assert_contents>
39 <has_line line='{"data_tables": {"salmon_indexes_versioned": [{"dbkey": "phiX174", "name": "sequence_name", "path": "sequence_id", "value": "sequence_id", "version": "q6"}]}}' />
40 </assert_contents>
41 </output>
38 </test> 42 </test>
39 </tests> 43 </tests>
40 <help> 44 <help>
41 <![CDATA[ 45 <![CDATA[
42 .. class:: infomark 46 .. class:: infomark