Mercurial > repos > iuc > data_manager_fetch_refseq

comparison data_manager/fetch_refseq.xml @ 1:4eb858aa879c draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_fetch_refseq commit 8cad1e44b2393cb36f60a4d705536dee235a8434
author iuc
date Sun, 13 Jan 2019 09:26:31 -0500
parents 214e68e8852c
children f0b1b5b4d227
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0:214e68e8852c 1:4eb858aa879c
5 <requirement type="package">requests</requirement> 5 <requirement type="package">requests</requirement>
6 </requirements> 6 </requirements>
7 <command detect_errors="exit_code"><![CDATA[ 7 <command detect_errors="exit_code"><![CDATA[
8 python $__tool_directory__/fetch_refseq.py 8 python $__tool_directory__/fetch_refseq.py
9 #if str( $advanced.advanced_selector ) == 'advanced': 9 #if str( $advanced.advanced_selector ) == 'advanced':
10 '${advanced.compress}' 10 ${advanced.compress}
11 #end if 11 #end if
12 --galaxy_datamanager_filename '${output_file}' 12 --galaxy_datamanager_filename '${output_file}'
13 --division_names ${division_names} 13 --division_names ${division_names}
14 --mol_types ${mol_types} 14 --mol_types ${mol_types}
15 #if str( $pin_date ) != 'NO': 15 #if str( $pin_date ) != 'NO':
67 <has_text text="refseq_plastid"/> 67 <has_text text="refseq_plastid"/>
68 <has_text text="/refseq_plastid."/> 68 <has_text text="/refseq_plastid."/>
69 </assert_contents> 69 </assert_contents>
70 </output> 70 </output>
71 </test> 71 </test>
72 <test>
73 <param name="division_names" value="plastid"/>
74 <param name="mol_types" value="protein"/>
75 <param name="pin_date" value="2018-03-14"/>
76 <param name="advanced_selector" value="advanced"/>
77 <param name="compress" value="" />
78 <output name="output_file">
79 <assert_contents>
80 <has_text text="2018-03-14"/>
81 <has_text text="refseq_plastid"/>
82 <has_text text="/refseq_plastid."/>
83 </assert_contents>
84 </output>
85 </test>
86
72 </tests> 87 </tests>
73 <help><![CDATA[ 88 <help><![CDATA[
74 This data manager fetches FASTA format collections of proteins, nucleotides (genomic DNA) and RNA 89 This data manager fetches FASTA format collections of proteins, nucleotides (genomic DNA) and RNA
75 from NCBI's RefSeq_ data collection. 90 from NCBI's RefSeq_ data collection.
76 91