Mercurial > repos > iuc > ivar_removereads
diff ivar_removereads.xml @ 12:8c05afb547fa draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ivar/ commit 02d1d482bda9804c69d2d03c890151bc491e5c73
| author | iuc |
|---|---|
| date | Mon, 13 Feb 2023 17:31:02 +0000 |
| parents | 7f1cfa4c0e32 |
| children |
line wrap: on
line diff
--- a/ivar_removereads.xml Wed Jan 11 09:56:04 2023 +0000 +++ b/ivar_removereads.xml Mon Feb 13 17:31:02 2023 +0000 @@ -1,4 +1,4 @@ -<tool id="ivar_removereads" name="ivar removereads" version="@TOOL_VERSION@+galaxy4" profile="@PROFILE@"> +<tool id="ivar_removereads" name="ivar removereads" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@"> <description>Remove reads from trimmed BAM file</description> <macros> <import>macros.xml</import> @@ -60,9 +60,14 @@ <param name="computed" value="no"/> <param name="amplicon_info" value="zika/db/pair_information.tsv"/> </conditional> + <assert_stdout> + <!-- check that primer pairs are picked up correctly + from the amplicon info file --> + <has_text text="400_18_out_L**	400_18_out_R**	400_23_out_L	400_23_out_R	400_32_out_L	400_32_out_R"/> + </assert_stdout> <output name="output_bam" ftype="bam"> <assert_contents> - <has_size value="3185672" delta="1000"/> + <has_size value="3130923" delta="1000"/> </assert_contents> </output> </test> @@ -73,9 +78,14 @@ <conditional name="amplicons"> <param name="computed" value="yes"/> </conditional> + <assert_stdout> + <!-- check that primer pairs are picked up correctly + from the autogenerated amplicon info file --> + <has_text text="400_18_out_L**	400_18_out_R**	400_23_out_L	400_23_out_R	400_32_out_L	400_32_out_R"/> + </assert_stdout> <output name="output_bam" ftype="bam"> <assert_contents> - <has_size value="3185672" delta="1000"/> + <has_size value="3130923" delta="1000"/> </assert_contents> </output> </test>