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comparison data_manager/data_manager_snpEff_download.xml @ 5:78bcf4ac437c

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Use tool_data_table with key and version columns added to allow for multiple versions in a .loc file
author Jim Johnson <jj@umn.edu>
date Tue, 13 Jan 2015 12:54:20 -0600
parents 6a378d0f4856
children a329eda0cdff
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4:6a378d0f4856 5:78bcf4ac437c
26 <param name="genome_version" value="GRCh38.76"/> 26 <param name="genome_version" value="GRCh38.76"/>
27 <output name="out_file"> 27 <output name="out_file">
28 <assert_contents> 28 <assert_contents>
29 <!-- Check that a genome was added --> 29 <!-- Check that a genome was added -->
30 <has_text text="GRCh38.76" /> 30 <has_text text="GRCh38.76" />
31 <has_text text="snpeff4_regulationdb" /> 31 <has_text text="snpeffv_regulationdb" />
32 <has_text text="snpeff4_annotations" /> 32 <has_text text="snpeffv_annotations" />
33 </assert_contents> 33 </assert_contents>
34 </output> 34 </output>
35 </test> 35 </test>
36 </tests> 36 </tests>
37 <help> 37 <help>
38 38
39 This tool downloads a SnpEff database and populates data tables: snpeff4_genomedb, snpeff4_regulationdb, and snpeff4_annotations. 39 This tool downloads a SnpEff database and populates data tables: snpeffv_genomedb, snpeffv_regulationdb, and snpeffv_annotations.
40 40
41 To see the list of available SnpEff genomes run the "SnpEff Databases" data manager which records the available genome databases in data table: snpeff4_databases 41 To see the list of available SnpEff genomes run the "SnpEff Databases" data manager which records the available genome databases in data table: snpeff4_databases
42 42
43 The SnpEff genome databases are at: http://sourceforge.net/projects/snpeff/files/databases/ 43 The SnpEff genome databases are at: http://sourceforge.net/projects/snpeff/files/databases/
44 44