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comparison customProDB.xml @ 1:0d9ce24ea038 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
author galaxyp
date Thu, 14 Jan 2016 13:12:20 -0500
parents d01419542f62
children e6f488178a45
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0:d01419542f62 1:0d9ce24ea038
1 <tool id="custom_pro_db" name="CustomProDB" version="1.10.0"> 1 <tool id="custom_pro_db" name="CustomProDB" version="1.10.0">
2 <description>Generate protein FASTAs from exosome/transcriptome data</description> 2 <description>Generate protein FASTAs from exosome or transcriptome data</description>
3 <stdio> 3 <stdio>
4 <exit_code range="1:" level="fatal" description="Job Failed" /> 4 <exit_code range="1:" level="fatal" description="Job Failed" />
5 </stdio> 5 </stdio>
6 <command interpreter="Rscript --vanilla">PSM2SAM.R 6 <command interpreter="Rscript --vanilla">PSM2SAM.R
7 #if str($input).strip() != "": 7 #if str($input).strip() != "":
26 --OutputFile="$output" 26 --OutputFile="$output"
27 #end if 27 #end if
28 28
29 2&gt;&amp;1</command> 29 2&gt;&amp;1</command>
30 <inputs> 30 <inputs>
31 <param name="input" type="data" format="bam" help="A BAM file to translate to FASTA." label="Input PSMs"> 31 <param name="input" type="data" format="bam" help="A BAM file to translate to FASTA." label="Input BAMs">
32 <validator type="empty_field" message="This field is required."/> 32 <validator type="empty_field" message="This field is required."/>
33 </param> 33 </param>
34 <param name="vcfInput" type="data" format="vcf" help="A VCF file to create variant proteins based on individual variation." label="Input Variant Calls"> 34 <param name="vcfInput" type="data" format="vcf" help="A VCF file to create variant proteins based on individual variation." label="Input Variant Calls">
35 <validator type="empty_field" message="This field is required."/> 35 <validator type="empty_field" message="This field is required."/>
36 </param> 36 </param>
57 </test> 57 </test>
58 </tests>--> 58 </tests>-->
59 <help> 59 <help>
60 **Description** 60 **Description**
61 61
62 Generate protein FASTAs from exosome/transcriptome data (in the form of BAM files). 62 Generate protein FASTAs from exosome or transcriptome data (in the form of BAM files).
63 </help> 63 </help>
64 </tool> 64 </tool>