Mercurial > repos > iuc > colibread_lordec

changeset 7:c126b04edfd2 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/colibread commit 747394d19e88a569a5154615e366ea0401c820dd
author iuc
date Sat, 05 Oct 2024 19:56:00 +0000
parents a32b531f66a0
children
files lordec.xml macros.xml
diffstat 2 files changed, 11 insertions(+), 11 deletions(-) [+]
line wrap: on
line diff
--- a/lordec.xml	Thu May 06 12:44:48 2021 +0000
+++ b/lordec.xml	Sat Oct 05 19:56:00 2024 +0000
@@ -1,10 +1,11 @@
-<tool id="lordec" name="Lordec" version="0.9+galaxy2" profile="@PROFILE@">
+<tool id="lordec" name="Lordec" version="@TOOL_VERSION@+galaxy3" profile="@PROFILE@">
     <description>is a set a programs for correcting sequencing errors in PacBio reads</description>
     <macros>
+        <token name="@TOOL_VERSION@">0.9</token>
         <import>macros.xml</import>
     </macros>
     <requirements>
-        <requirement type="package" version="0.9">lordec</requirement>
+        <requirement type="package" version="@TOOL_VERSION@">lordec</requirement>
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
         #if str( $program_type_choice.program_type ) == "correct":
@@ -63,18 +64,18 @@
         </conditional>
     </inputs>
     <outputs>
-        <data format="fasta" name="corrected_read_file" label="Corrected long reads with ${tool.name} on ${on_string}" >
+        <data format="fasta" name="corrected_read_file" label="${tool.name} on ${on_string}: Corrected long reads" >
             <filter>program_type_choice['program_type'] == 'correct'</filter>
         </data>
-        <data format="fasta" name="trimmed_reads_file" label="Trimmed reads file with ${tool.name} on ${on_string}" >
+        <data format="fasta" name="trimmed_reads_file" label="${tool.name} on ${on_string}: Trimmed reads" >
             <filter>program_type_choice['program_type'] == 'trim'</filter>
         </data>
-        <data format="tabular" name="stat_file" label="Stats with ${tool.name} on ${on_string}" >
+        <data format="tabular" name="stat_file" label="${tool.name} on ${on_string}: Stats" >
             <filter>program_type_choice['program_type'] == 'stats'</filter>
         </data>
     </outputs>
     <tests>
-        <test>
+        <test expect_num_outputs="1">
             <conditional name="program_type_choice">
                 <param name="program_type" value="correct" />
                 <param name="inputs" value="lordec/ill-test-5K-1.fa.gz,lordec/ill-test-5K-2.fa.gz" ftype="fasta.gz"/>
@@ -83,14 +84,14 @@
             </conditional>
             <output name="corrected_read_file" file="lordec/corrected_reads.fa"/>
         </test>
-        <test>
+        <test expect_num_outputs="1">
             <conditional name="program_type_choice">
                 <param name="program_type" value="trim" />
                 <param name="i" value="lordec/corrected_reads.fa" ftype="fasta"/>
             </conditional>
             <output name="trimmed_reads_file" file="lordec/trimmed_reads.fa"/>
         </test>
-        <test>
+        <test expect_num_outputs="1">
             <conditional name="program_type_choice">
                 <param name="program_type" value="stats" />
                 <param name="inputs" value="lordec/ill-test-5K-1.fa.gz,lordec/ill-test-5K-2.fa.gz" />
--- a/macros.xml	Thu May 06 12:44:48 2021 +0000
+++ b/macros.xml	Sat Oct 05 19:56:00 2024 +0000
@@ -1,11 +1,10 @@
 <macros>
-    <token name="@DISCOSNP_VERSION@">2.5.4</token>
 
-    <token name="@PROFILE@">20.01</token>
+    <token name="@PROFILE@">23.1</token>
 
     <xml name="discosnp_requirements">
         <requirements>
-            <requirement type="package" version="@DISCOSNP_VERSION@">discosnp</requirement>
+            <requirement type="package" version="@TOOL_VERSION@">discosnp</requirement>
         </requirements>
     </xml>