| Previous changeset 12:541082d03bef (2024-09-08) Next changeset 14:1ed8ed887035 (2025-06-27) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_stats commit c508c3af0f4121dcc38e0be63db00a604e997b8a |
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modified:
macros.xml samtools_stats.xml |
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| diff -r 541082d03bef -r e221fe58c2f5 macros.xml --- a/macros.xml Sun Sep 08 03:27:04 2024 +0000 +++ b/macros.xml Thu Jun 19 13:01:32 2025 +0000 |
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| @@ -11,8 +11,8 @@ please only bump the minor version in order to let the requirement version catch up eventually). To find the tools check: `grep "<tool" . -r | grep -v VERSION_SUFFIX | cut -d":" -f 1` --> - <token name="@TOOL_VERSION@">1.20</token> - <token name="@VERSION_SUFFIX@">2</token> + <token name="@TOOL_VERSION@">1.21</token> + <token name="@VERSION_SUFFIX@">0</token> <token name="@PROFILE@">22.05</token> <token name="@FLAGS@"><![CDATA[ #set $flags = 0 @@ -220,6 +220,7 @@ <xml name="citations"> <citations> <citation type="doi">10.1093/gigascience/giab008</citation> + <citation type="doi">10.1093/bioinformatics/btr076</citation> </citations> </xml> <xml name="version_command"> |
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| diff -r 541082d03bef -r e221fe58c2f5 samtools_stats.xml --- a/samtools_stats.xml Sun Sep 08 03:27:04 2024 +0000 +++ b/samtools_stats.xml Thu Jun 19 13:01:32 2025 +0000 |
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| @@ -1,4 +1,4 @@ -<tool id="samtools_stats" name="Samtools stats" version="2.0.5" profile="@PROFILE@"> +<tool id="samtools_stats" name="Samtools stats" version="2.0.6" profile="@PROFILE@"> <description>generate statistics for BAM dataset</description> <macros> <import>macros.xml</import> @@ -275,7 +275,7 @@ <param name="select_region" value="tab"/> <param name="targetregions" value="12_3reads.bed" ftype="tabular" /> </conditional> - <param name="remove_overlaps" value="-p"/> + <param name="remove_overlaps" value="true"/> <output name="output" file="12.3reads.nooverlap.expected" ftype="tabular" lines_diff="4" /> </test> <!-- test_cmd($opts,out=>'stat/12.3reads.nooverlap.expected',cmd=>"$$opts{bin}/samtools stats $$opts{path}/stat/12_overlaps.bam -p -t $$opts{path}/stat/12_3reads.bed | tail -n+4", exp_fix=>$efix);--> @@ -300,7 +300,7 @@ <param name="select_region" value="tab"/> <param name="targetregions" value="12_2reads.bed" ftype="tabular" /> </conditional> - <param name="remove_overlaps" value="-p"/> + <param name="remove_overlaps" value="true"/> <output name="output" file="12.2reads.nooverlap.expected" ftype="tabular" lines_diff="4" /> </test> <!-- test_cmd($opts,out=>'stat/12.2reads.nooverlap.expected',cmd=>"$$opts{bin}/samtools stats $$opts{path}/stat/12_overlaps.bam -p -t $$opts{path}/stat/12_2reads.bed | tail -n+4", exp_fix=>$efix);--> |