Mercurial > repos > jjohnson > defuse

comparison datamanager_create_reference.xml @ 13:3a4876d01c7e draft

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author jjohnson
date Tue, 12 Dec 2017 10:01:42 -0500
parents b22f8634ff84
children b67c24d902aa
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12:4fe2e80d4ae1 13:3a4876d01c7e
1 <tool id="data_manager_defuse_reference" name="DeFuse Reference DataManager" version="1.6.1" tool_type="manage_data"> 1 <tool id="data_manager_defuse_reference" name="DeFuse Reference DataManager" version="1.6.1" tool_type="manage_data">
2 <description>create a defuse reference from Ensembl and UCSC sources</description> 2 <description>create a defuse reference from Ensembl and UCSC sources</description>
3 <requirements> 3 <macros>
4 <requirement type="package" version="0.6.1">defuse</requirement> 4 <import>macros.xml</import>
5 <requirement type="package" version="0.1.18">samtools</requirement> 5 </macros>
6 <requirement type="package" version="1.0.0">bowtie</requirement> 6 <requirements>
7 <requirement type="package" version="2013-05-09">gmap</requirement> 7 <expand macro="defuse_requirement" />
8 <requirement type="package" version="latest">kent</requirement> 8 <expand macro="mapping_requirements" />
9 </requirements> 9 </requirements>
10 <command interpreter="python"> datamanager_create_reference.py 10 <command interpreter="python"> datamanager_create_reference.py
11 --dbkey $genome.ensembl_genome_version 11 --dbkey $genome.ensembl_genome_version
12 --description "$genome.ensembl_prefix $genome.ensembl_genome_version ($genome.ucsc_genome_version)" 12 --description "$genome.ensembl_prefix $genome.ensembl_genome_version ($genome.ucsc_genome_version)"
13 --defuse_config $defuse_config 13 --defuse_config $defuse_config
14 --defuse_script $defuse_script 14 --defuse_script $defuse_script