Mercurial > repos > iuc > tracy_assemble

diff tracy_assemble.xml @ 1:d33fbee185ef draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/tracy commit 8eb3532d394f6a44d1edbcbe5ef05fd0474cdab3
author iuc
date Thu, 20 Mar 2025 07:17:40 +0000
parents 99a9baef8c93
children
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--- a/tracy_assemble.xml	Tue Oct 12 14:17:41 2021 +0000
+++ b/tracy_assemble.xml	Thu Mar 20 07:17:40 2025 +0000
@@ -1,4 +1,4 @@
-<tool id="tracy_assemble" name="tracy Assemble" version="@TOOL_VERSION@+galaxy0" profile="20.09">
+<tool id="tracy_assemble" name="tracy Assemble" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@">
     <description>genomic region from tiled, overlapping Sanger Chromatogram trace files</description>
     <macros>
         <import>macros.xml</import>
@@ -70,26 +70,26 @@
         <data name="out_alignment" format="fasta" from_work_dir="out.align.fa" label="tracy assemble alignment on ${on_string}" />
     </outputs>
     <tests>
-        <test expect_num_outputs="2">
-            <param name="tracefiles" value="input1.ab1,input1.ab1" ftype="ab1" />
+        <test expect_num_outputs="2"> <!-- test1 -->
+            <param name="tracefiles" value="input1_f.ab1,input1_r.ab1" ftype="ab1" />
             <output name="out_consensus" value="out1.consensus.fasta" ftype="fasta" />    
             <output name="out_alignment" value="out1.alignment.fasta" ftype="fasta" lines_diff="4" />    
         </test>
-        <test expect_num_outputs="2">
-            <param name="tracefiles" value="input1.ab1,input1.ab1" ftype="ab1" />
+        <test expect_num_outputs="2"> <!-- test2 -->
+            <param name="tracefiles" value="input1_f.ab1,input1_r.ab1" ftype="ab1" />
             <conditional name="ref">
                 <param name="useref" value="yes" />
                 <param name="reference" value="reference1.fasta" />
             </conditional>
-            <output name="out_consensus" value="out1.consensus.fasta" ftype="fasta" />    
+            <output name="out_consensus" value="out2.consensus.fasta" ftype="fasta" />    
             <output name="out_alignment" value="out2.alignment.fasta" ftype="fasta" lines_diff="4" />    
         </test>
-        <test expect_num_outputs="3">
-            <param name="tracefiles" value="input1.ab1,input1.ab1" ftype="ab1" />
+        <test expect_num_outputs="3"> <!-- test3 -->
+            <param name="tracefiles" value="input1_f.ab1,input1_r.ab1" ftype="ab1" />
             <param name="json_output" value="true" />
             <output name="out_json" ftype="json">
                 <assert_contents>
-                    <has_text text='"peakA": [5, 5, 5, 5, 5, 4' />
+                    <has_text text='"peakA": [283, 278, 264, 236, 194, 143' />
                 </assert_contents>
             </output>
             <output name="out_consensus" value="out1.consensus.fasta" ftype="fasta" />