Mercurial > repos > devteam > samtools_phase
diff samtools_phase.xml @ 7:2504000d5158 draft default tip
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_phase commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
| author | iuc |
|---|---|
| date | Tue, 28 Sep 2021 16:05:18 +0000 |
| parents | dd8305e4e58e |
| children |
line wrap: on
line diff
--- a/samtools_phase.xml Sun Jul 28 14:49:27 2019 -0400 +++ b/samtools_phase.xml Tue Sep 28 16:05:18 2021 +0000 @@ -1,5 +1,5 @@ -<tool id="samtools_phase" name="Call and phase" version="2.0.1"> - <description>heterozygous SNPs</description> +<tool id="samtools_phase" name="Samtools phase" version="2.0.2" profile="@PROFILE@"> + <description>call and phase heterozygous SNPs</description> <macros> <import>macros.xml</import> </macros> @@ -49,16 +49,16 @@ </outputs> <tests> <test> - <param name="option_sets" value="default" /> - <param name="input_bam" value="samtools_phase_in_1.bam" /> + <param name="option_sets" value="default" /> + <param name="input_bam" value="samtools_phase_in_1.bam" /> <output name="phase_sets" file="samtools_phase_out_1_log.txt" ftype="txt" /> - <output name="phase0" file="samtools_phase_out_1_phase0.bam" ftype="bam" /> - <output name="phase1" file="samtools_phase_out_1_phase1.bam" ftype="bam" /> - <output name="chimera" file="empty_file.bam" ftype="bam" /> + <output name="phase0" file="samtools_phase_out_1_phase0.bam" ftype="bam" lines_diff="4" /> + <output name="phase1" file="samtools_phase_out_1_phase1.bam" ftype="bam" lines_diff="4" /> + <output name="chimera" file="empty_file_1.bam" ftype="bam" lines_diff="4" /> </test> <test> - <param name="input_bam" value="samtools_phase_in_2.bam" /> - <param name="option_sets" value="advanced" /> + <param name="input_bam" value="samtools_phase_in_2.bam" /> + <param name="option_sets" value="advanced" /> <param name="option_set|block_length" value="13" /> <param name="option_set|min_het" value="37" /> <param name="option_set|min_bq" value="13" /> @@ -66,13 +66,13 @@ <param name="option_set|ignore_chimeras" value="false" /> <param name="option_set|drop_ambiguous" value="true" /> <output name="phase_sets" file="samtools_phase_out_2_log.txt" ftype="txt" /> - <output name="phase0" file="samtools_phase_out_2_phase0.bam" ftype="bam" /> - <output name="phase1" file="samtools_phase_out_2_phase1.bam" ftype="bam" /> - <output name="chimera" file="samtools_phase_out_2_chimera.bam" /> + <output name="phase0" file="samtools_phase_out_2_phase0.bam" ftype="bam" lines_diff="4" /> + <output name="phase1" file="samtools_phase_out_2_phase1.bam" ftype="bam" lines_diff="4" /> + <output name="chimera" file="samtools_phase_out_2_chimera.bam" ftype="bam" lines_diff="4" /> </test> <test> - <param name="input_bam" value="samtools_phase_in_2.bam" /> - <param name="option_sets" value="advanced" /> + <param name="input_bam" value="samtools_phase_in_2.bam" /> + <param name="option_sets" value="advanced" /> <param name="option_set|block_length" value="13" /> <param name="option_set|min_het" value="37" /> <param name="option_set|min_bq" value="13" /> @@ -80,9 +80,9 @@ <param name="option_set|ignore_chimeras" value="true" /> <param name="option_set|drop_ambiguous" value="false" /> <output name="phase_sets" file="samtools_phase_out_3_log.txt" ftype="txt" /> - <output name="phase0" file="samtools_phase_out_3_phase0.bam" ftype="bam" /> - <output name="phase1" file="samtools_phase_out_3_phase1.bam" ftype="bam" /> - <output name="chimera" file="empty_file.bam"/> + <output name="phase0" file="samtools_phase_out_3_phase0.bam" ftype="bam" lines_diff="4" /> + <output name="phase1" file="samtools_phase_out_3_phase1.bam" ftype="bam" lines_diff="4" /> + <output name="chimera" file="empty_file_3.bam" ftype="bam" lines_diff="4" /> </test> </tests> <help><![CDATA[