Mercurial > repos > jjohnson > bcftools_consensus
changeset 1:e7657a41b32a draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
| author | jjohnson |
|---|---|
| date | Sun, 26 Jun 2016 15:47:57 -0400 |
| parents | 1c55de3bf217 |
| children | |
| files | bcftools_consensus.xml test-data/fixploidy.ploidy test-data/fixploidy.samples |
| diffstat | 3 files changed, 22 insertions(+), 14 deletions(-) [+] |
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--- a/bcftools_consensus.xml Sat Jun 25 20:47:06 2016 -0400 +++ b/bcftools_consensus.xml Sun Jun 26 15:47:57 2016 -0400 @@ -67,8 +67,16 @@ <param name="input_file" ftype="vcf" value="consensus.vcf" /> <param name="mask" ftype="tabular" value="consensus.tab" /> <param name="chain" value="True" /> - <output name="output_file" file="consensus.1.out" lines_diff="6"/> - <output name="output_file" file="consensus.1.chain" /> + <output name="output_file"> + <assert_contents> + <has_text text="NNNNNNNNNNNNNNNNNNNNNNNNNN" /> + </assert_contents> + </output> + <output name="chain_file"> + <assert_contents> + <has_text text="chain 497 1 501 + 1 501 1 502 + 1 502 1" /> + </assert_contents> + </output> </test> </tests> <help><![CDATA[
--- a/test-data/fixploidy.ploidy Sat Jun 25 20:47:06 2016 -0400 +++ b/test-data/fixploidy.ploidy Sun Jun 26 15:47:57 2016 -0400 @@ -1,9 +1,9 @@ -1 3000001 3000001 X 0 -1 3000001 3000001 Y 1 -1 3000001 3000001 Z 2 -1 3000002 3000002 X 3 -1 3000002 3000002 Y 4 -1 3000002 3000002 Z 5 -1 3000004 3000004 X 6 -1 3000004 3000004 Y 7 -1 3000004 3000004 Z 8 +1 3000001 3000001 X 0 +1 3000001 3000001 Y 1 +1 3000001 3000001 Z 2 +1 3000002 3000002 X 3 +1 3000002 3000002 Y 4 +1 3000002 3000002 Z 5 +1 3000004 3000004 X 6 +1 3000004 3000004 Y 7 +1 3000004 3000004 Z 8