Mercurial > repos > iuc > data_manager_fetch_index_maf
comparison data_manager/data_manager_fetch_and_index_maf.xml @ 0:aed50ca398bb draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_fetch_index_maf commit 9c8e61ce03ebd67c2c852f5db4a62d19200c77fe"
author | iuc |
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date | Thu, 25 Jun 2020 14:02:25 -0400 |
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1 <tool id="data_manager_fetch_and_index_maf" name="Fetch and index" version="1.0.0" tool_type="manage_data" profile="19.01"> | |
2 <description>multiple alignments from UCSC</description> | |
3 <requirements> | |
4 <requirement type="package" version="3.7">python</requirement> | |
5 <requirement type="package" version="0.8.8">bx-python</requirement> | |
6 </requirements> | |
7 <command detect_errors="exit_code"><![CDATA[ | |
8 python '$__tool_directory__/data_manager_fetch_and_index_maf.py' --nexus '$nexus' | |
9 --name '$name' --output '$output' --dbkey '${dbkey.fields.dbkey}' | |
10 ]]></command> | |
11 <inputs> | |
12 <param name="dbkey" type="select" label="Species aligned against"> | |
13 <options from_data_table="all_fasta"/> | |
14 </param> | |
15 <param name="nexus" type="text" label="FTP path to nexus file on UCSC." help="The MAF paths will be computed from this" /> | |
16 <param name="name" type="text" label="Display name for this multi-alignment" /> | |
17 </inputs> | |
18 <outputs> | |
19 <data name="output" format="data_manager_json" metadata_source="dbkey" /> | |
20 </outputs> | |
21 <help> | |
22 **What it does** | |
23 | |
24 This data manager fetches a multiple alignment from UCSC's FTP server and indexes it with bx-python. | |
25 </help> | |
26 </tool> |