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comparison chimerascan.xml @ 3:27d8ed014662 draft

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planemo upload commit 93e677982c3636da455de2f827a87e516c7985ac-dirty
author bioitcore
date Tue, 12 Sep 2017 14:13:20 -0400
parents ec38f053b647
children 713d8c903d0d
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2:ec38f053b647 3:27d8ed014662
1 <tool id="chimerascan" name="ChimeraScan"> 1 <tool id="chimerascan" name="ChimeraScan">
2 <description>A tool for identifying chimeric transcription in sequencing data.</description> 2 <description>A tool for identifying chimeric transcription in sequencing data.</description>
3 <command detect_errors="exit_code"> 3 <command detect_errors="exit_code"><![CDATA[
4 bash $__tool_directory__/run.sh && python $__tool_directory__/chimerascan_run.py -p 8 $__tool_directory__/myindex 4 bash $__tool_directory__/run.sh &&
5 python $__tool_directory__/chimerascan_run.py -p 8 $__tool_directory__/myindex
5 #if $input_type_conditional.chimerascan_input_type == "paired" 6 #if $input_type_conditional.chimerascan_input_type == "paired"
6 $input_type_conditional.input_1 $input_type_conditional.input_2 7 $input_type_conditional.input_1 $input_type_conditional.input_2
7 #else 8 #else
8 $input_type_conditional.input.forward $input_type_conditional.input.reverse 9 $input_type_conditional.input.forward $input_type_conditional.input.reverse
9 #end if 10 #end if
10 $galaxy_output 11 $galaxy_output
12 ]]>
11 </command> 13 </command>
12 <inputs> 14 <inputs>
13 <conditional name="input_type_conditional"> 15 <conditional name="input_type_conditional">
14 <param name="chimerascan_input_type" type="select" label="Input Type" help="Select between paired and paired collection"> 16 <param name="chimerascan_input_type" type="select" label="Input Type" help="Select between paired and paired collection">
15 <option value="paired" selected="true">Paired</option> 17 <option value="paired" selected="true">Paired</option>