Mercurial > repos > jjohnson > snpeff
changeset 4:47ddc9f4d0b6
Add tests to datamanagers
| author | Jim Johnson <jj@umn.edu> |
|---|---|
| date | Mon, 07 Oct 2013 10:59:44 -0500 |
| parents | a8f4ebfb8253 |
| children | 8952990fcab9 |
| files | data_manager/data_manager_snpEff_databases.xml data_manager/data_manager_snpEff_download.xml |
| diffstat | 2 files changed, 23 insertions(+), 2 deletions(-) [+] |
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--- a/data_manager/data_manager_snpEff_databases.xml Fri Oct 04 09:31:27 2013 -0500 +++ b/data_manager/data_manager_snpEff_databases.xml Mon Oct 07 10:59:44 2013 -0500 @@ -15,7 +15,16 @@ <exit_code range=":-1" level="fatal" description="Error: Cannot open file" /> <exit_code range="1:" level="fatal" description="Error" /> </stdio> - + <tests> + <test> + <output name="out_file"> + <assert_contents> + <!-- Check that a genome was added --> + <has_text text="GRCh37.72" /> + </assert_contents> + </output> + </test> + </tests> <help> This tool updatess the list of SnpEff databases for the SnpEff Download data manager.
--- a/data_manager/data_manager_snpEff_download.xml Fri Oct 04 09:31:27 2013 -0500 +++ b/data_manager/data_manager_snpEff_download.xml Mon Oct 07 10:59:44 2013 -0500 @@ -22,7 +22,19 @@ <exit_code range=":-1" level="fatal" description="Error: Cannot open file" /> <exit_code range="1:" level="fatal" description="Error" /> </stdio> - + <tests> + <test> + <param name="genome_databases" value="GRCh37.71"/> + <output name="out_file"> + <assert_contents> + <!-- Check that a genome was added --> + <has_text text="GRCh37.71" /> + <has_text text="snpeff_regulationdb" /> + <has_text text="snpeff_annotations" /> + </assert_contents> + </output> + </test> + </tests> <help> This tool downloads a SnpEff database.