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cutesv: fix wrong test parameter (#6427)
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* fix wrong test parameter

* add profile

and bump
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bernt-matthias authored Oct 5, 2024
1 parent 1b0b5c7 commit 1221a5d
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Showing 3 changed files with 7 additions and 9 deletions.
2 changes: 0 additions & 2 deletions tools/cutesv/.lint_skip

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12 changes: 6 additions & 6 deletions tools/cutesv/cutesv.xml
Original file line number Diff line number Diff line change
@@ -1,11 +1,11 @@
<tool id="cutesv" name="cuteSV" version="@WRAPPER_VERSION@">
<tool id="cutesv" name="cuteSV" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="23.1">
<description>detects long-read-based SVs</description>
<xrefs>
<xref type="bio.tools">cuteSV</xref>
</xrefs>
<macros>
<import>macros.xml</import>
</macros>
<xrefs>
<xref type="bio.tools">cuteSV</xref>
</xrefs>
<requirements>
<requirement type="package" version="@TOOL_VERSION@">cutesv</requirement>
<requirement type="package" version="1.10">samtools</requirement>
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<param name="ref_selector" value="history"/>
<param name="ref" ftype="fasta" value="genome.fasta" />
</conditional>
<param name="seq_method" value="pb_ccs" />
<param name="sel_method|meth_selector" value="pb_ccs" />
<param name="input_sample_file" ftype="bam" value="sample.bam" />
<output name="out_sample">
<assert_contents>
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<param name="ref_selector" value="cached"/>
<param name="ref" value="test_buildid"/>
</conditional>
<param name="seq_method" value="pb_ccs" />
<param name="sel_method|meth_selector" value="pb_ccs" />
<param name="input_sample_file" ftype="bam" value="sample.bam" />
<output name="out_sample">
<assert_contents>
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2 changes: 1 addition & 1 deletion tools/cutesv/macros.xml
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
<macros>
<token name="@WRAPPER_VERSION@">@TOOL_VERSION@+galaxy0</token>
<token name="@VERSION_SUFFIX@">1</token>
<token name="@TOOL_VERSION@">1.0.8</token>
<xml name="reference_interface">
<conditional name="reference_source">
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