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comparison describe_samples.xml @ 18:adb996f86b18 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/trinity commit 1d443e73d2eb888660bbbc7af198f5bcca9c1a70
author iuc
date Tue, 11 Apr 2023 19:46:47 +0000
parents b2f54a291114
children
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17:9f179dee1985 18:adb996f86b18
1 <?xml version="1.0"?> 1 <tool id="describe_samples" name="Describe samples" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.05">
2 <tool id="describe_samples" name="Describe samples" version="@WRAPPER_VERSION@">
3 <description>and replicates</description> 2 <description>and replicates</description>
4 <macros> 3 <macros>
5 <import>macros.xml</import> 4 <import>macros.xml</import>
6 </macros> 5 </macros>
7 <expand macro="bio_tools"/> 6 <expand macro="bio_tools"/>
8 <command detect_errors="aggressive"><![CDATA[ 7 <command detect_errors="aggressive"><![CDATA[
9 cp $sample_list $output 8 mv '$sample_list' '$output'
10 ]]></command> 9 ]]></command>
11 <configfiles> 10 <configfiles>
12 <configfile name="sample_list"><![CDATA[#for $sample in $samples: 11 <configfile name="sample_list"><![CDATA[#for $sample in $samples:
13 $sample.condition $sample.name 12 $sample.condition $sample.name
14 #end for]]></configfile> 13 #end for]]></configfile>
15 </configfiles> 14 </configfiles>
16 <inputs> 15 <inputs>
17 <repeat name="samples" title="Samples"> 16 <repeat name="samples" title="Samples">
18 <param name="name" type="text" label="Full sample name" help="e.g. CondA_replicate1" optional="False" /> 17 <param name="name" type="text" label="Full sample name" help="e.g. CondA_replicate1" />
19 <param name="condition" type="text" label="Condition" help="e.g. ConditionA" optional="False" /> 18 <param name="condition" type="text" label="Condition" help="e.g. ConditionA" />
20 </repeat> 19 </repeat>
21 </inputs> 20 </inputs>
22 <outputs> 21 <outputs>
23 <data format="tabular" name="output"/> 22 <data format="tabular" name="output"/>
24 </outputs> 23 </outputs>
60 ConditionC CondC_replicate2 59 ConditionC CondC_replicate2
61 ----------- ---------------- 60 ----------- ----------------
62 ConditionC CondC_replicate3 61 ConditionC CondC_replicate3
63 =========== ================ 62 =========== ================
64 63
65 IThe output file can be used in the tools 'RNASeq samples quality check for transcript quantification' and 'Differential expression analysis'. 64 The output file can be used in the tools 'RNASeq samples quality check for transcript quantification' and 'Differential expression analysis'.
66 The names in column 2 must match the names given to the datasets in your history. 65 The names in column 2 must match the names given to the datasets in your history.
67 ]]></help> 66 ]]></help>
68 <expand macro="citation"/> 67 <expand macro="citation"/>
69 </tool> 68 </tool>