Mercurial > repos > dereeper > sniplay
comparison check_gwas_inputs/CheckGWASInputs.xml @ 4:10627af23f10 draft
planemo upload
| author | gandres |
|---|---|
| date | Tue, 15 Dec 2015 05:18:02 -0500 |
| parents | 345f88a8f483 |
| children | ec22fcacb66c |
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| 3:345f88a8f483 | 4:10627af23f10 |
|---|---|
| 1 <tool id="check_GWAS_inputs" name="Check GWAS Inputs" version="1.1"> | 1 <tool id="check_GWAS_inputs" name="Check GWAS Inputs" version="1.0"> |
| 2 <description>checks concordance between input files for GWAS analysis</description> | 2 <description>checks concordance between input files for GWAS analysis</description> |
| 3 | |
| 4 <!-- [OPTIONAL] 3rd party tools, binaries, modules... required for the tool to work --> | |
| 5 <requirements> | |
| 6 <requirement type="binary">perl</requirement> | |
| 7 </requirements> | |
| 8 | |
| 9 <!-- [STRONGLY RECOMMANDED] Exit code rules --> | |
| 10 <stdio> | |
| 11 <!-- [HELP] If no exit code rule is defined, the tool will stop if anything is written to STDERR --> | |
| 12 <exit_code range="1:" level="fatal" /> | |
| 13 </stdio> | |
| 14 | |
| 3 <command interpreter="bash">./CheckGWASInputs.sh $hapmap $trait $out_hapmap $out_trait $stats | 15 <command interpreter="bash">./CheckGWASInputs.sh $hapmap $trait $out_hapmap $out_trait $stats |
| 4 </command> | 16 </command> |
| 5 <inputs> | 17 <inputs> |
| 6 <param format="txt" name="hapmap" type="data" label="Allelic file in Hapmap format" help="Allelic file in Hapmap format"/> | 18 <param format="text" name="hapmap" type="data" label="Allelic file in Hapmap format" help="Allelic file in Hapmap format"/> |
| 7 <param format="txt" name="trait" type="data" label="Trait file" help="Phenotypic file"/> | 19 <param format="text" name="trait" type="data" label="Trait file" help="Phenotypic file"/> |
| 8 </inputs> | 20 </inputs> |
| 9 <outputs> | 21 <outputs> |
| 10 <data format="txt" name="out_hapmap" label="Hapmap output"/> | 22 <data format="txt" name="out_hapmap" label="Hapmap output"/> |
| 11 <data format="txt" name="out_trait" label="Trait output"/> | 23 <data format="txt" name="out_trait" label="Trait output"/> |
| 12 <data format="txt" name="stats" label="Logfile and statistics"/> | 24 <data format="txt" name="stats" label="Logfile and statistics"/> |
| 13 </outputs> | 25 </outputs> |
| 14 <!-- [STRONGLY RECOMMANDED] Exit code rules --> | |
| 15 <stdio> | |
| 16 <!-- [HELP] If no exit code rule is defined, the tool will stop if anything is written to STDERR --> | |
| 17 <exit_code range="1:" level="fatal" /> | |
| 18 </stdio> | |
| 19 | 26 |
| 20 <!-- [OPTIONAL] Tests to be run manually by the Galaxy admin --> | 27 <!-- [OPTIONAL] Tests to be run manually by the Galaxy admin --> |
| 21 <tests> | 28 <tests> |
| 22 <!-- [HELP] Test files have to be in the ~/test-data directory --> | 29 <!-- [HELP] Test files have to be in the ~/test-data directory --> |
| 23 <!-- [HELP] Multiple tests can be defined with different parameters --> | 30 <!-- [HELP] Multiple tests can be defined with different parameters --> |
| 24 <!-- | |
| 25 <test> | 31 <test> |
| 32 <param name="hapmap" value="gwas-hapmap" /> | |
| 33 <param name="trait" value="gwas-trait" /> | |
| 34 <output name="out_hapmap" file="gwas-result.hapmap" /> | |
| 35 <output name="out_trait" file="gwas-result.trait" /> | |
| 36 <output name="stats" file="gwas-result.stats" /> | |
| 26 </test> | 37 </test> |
| 27 --> | |
| 28 </tests> | 38 </tests> |
| 29 <help> | 39 <help> |
| 30 | 40 |
| 31 <![CDATA[ | 41 <![CDATA[ |
| 32 | 42 |