| Previous changeset 4:10627af23f10 (2015-12-15) Next changeset 6:ebb0ac9b6fa9 (2016-05-23) |
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Commit message:
planemo upload |
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modified:
MDSplot/mdsplot.xml Rooting/rooting.xml SNP_density/calculateSlidingWindowsSNPdensitiesFromHapMap_wrapper.xml check_gwas_inputs/CheckGWASInputs.xml |
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| diff -r 10627af23f10 -r ec22fcacb66c MDSplot/mdsplot.xml --- a/MDSplot/mdsplot.xml Tue Dec 15 05:18:02 2015 -0500 +++ b/MDSplot/mdsplot.xml Mon Feb 15 10:26:18 2016 -0500 |
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| @@ -1,4 +1,4 @@ -<tool id="sniplay_mdsplot" name="MDS plot" version="1.1.1"> +<tool id="sniplay_mdsplot" name="MDS plot" version="1.2.0"> <!-- [REQUIRED] Tool description displayed after the tool name --> <description> IBS matrix / multi-dimensional scaling</description> @@ -37,8 +37,8 @@ <!-- [REQUIRED] Output files --> <outputs> - <data name="fileout_matrix" type="data" format="tabular" label="${fileout_label}.ibs_matrix.txt" /> - <data name="fileout_plot" type="data" format="tabular" label="${fileout_label}.mds_plot.txt" /> + <data name="fileout_matrix" type="data" format="txt" label="${fileout_label}.ibs_matrix.txt" /> + <data name="fileout_plot" type="data" format="txt" label="${fileout_label}.mds_plot.txt" /> <data name="fileout_log" type="data" format="txt" label="${fileout_label}.log" /> </outputs> |
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| diff -r 10627af23f10 -r ec22fcacb66c Rooting/rooting.xml --- a/Rooting/rooting.xml Tue Dec 15 05:18:02 2015 -0500 +++ b/Rooting/rooting.xml Mon Feb 15 10:26:18 2016 -0500 |
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| @@ -1,4 +1,4 @@ -<tool id="sniplay_rooting" name="Rooting" version="1.0.2"> +<tool id="sniplay_rooting" name="Rooting" version="1.0.3"> <!-- [REQUIRED] Tool description displayed after the tool name --> <description> Midpoint rooting of newick tree </description> @@ -30,14 +30,14 @@ <!-- [REQUIRED] Input files and tool parameters --> <inputs> - <param name="filein" type="data" format="txt" optional="false" label="Fasta alignment input" /> + <param name="filein" type="data" format="nwk" optional="false" label="Fasta alignment input" /> <param name="fileout_label" type="text" value="out tree" label="Output name" help="Output name for files" /> </inputs> <!-- [REQUIRED] Output files --> <outputs> <data name="fileout_log" type="data" format="txt" label="${fileout_label}.log" /> - <data name="fileout" type="data" format="txt" label="${fileout_label}" /> + <data name="fileout" type="data" format="nwk" label="${fileout_label}" /> </outputs> <!-- [OPTIONAL] Tests to be run manually by the Galaxy admin --> |
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| diff -r 10627af23f10 -r ec22fcacb66c SNP_density/calculateSlidingWindowsSNPdensitiesFromHapMap_wrapper.xml --- a/SNP_density/calculateSlidingWindowsSNPdensitiesFromHapMap_wrapper.xml Tue Dec 15 05:18:02 2015 -0500 +++ b/SNP_density/calculateSlidingWindowsSNPdensitiesFromHapMap_wrapper.xml Mon Feb 15 10:26:18 2016 -0500 |
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| @@ -1,4 +1,4 @@ -<tool id="sniplay_density" name="SNP density" version="1.3.0"> +<tool id="sniplay_density" name="SNP density" version="1.4.0"> <!-- [REQUIRED] Tool description displayed after the tool name --> <description> Calculate SNP densities along chromosome from HapMap</description> @@ -35,8 +35,8 @@ <!-- [REQUIRED] Output files --> <outputs> - <data name="fileout" type="data" format="tabular" label="${fileout_label}" /> - <data name="fileout_bysample" type="data" format="tabular" label="${fileout_label}.by_sample" /> + <data name="fileout" type="data" format="txt" label="${fileout_label}" /> + <data name="fileout_bysample" type="data" format="txt" label="${fileout_label}.by_sample" /> </outputs> <tests> |
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| diff -r 10627af23f10 -r ec22fcacb66c check_gwas_inputs/CheckGWASInputs.xml --- a/check_gwas_inputs/CheckGWASInputs.xml Tue Dec 15 05:18:02 2015 -0500 +++ b/check_gwas_inputs/CheckGWASInputs.xml Mon Feb 15 10:26:18 2016 -0500 |
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| @@ -1,4 +1,4 @@ -<tool id="check_GWAS_inputs" name="Check GWAS Inputs" version="1.0"> +<tool id="check_GWAS_inputs" name="Check GWAS Inputs" version="1.1"> <description>checks concordance between input files for GWAS analysis</description> <!-- [OPTIONAL] 3rd party tools, binaries, modules... required for the tool to work --> @@ -15,8 +15,8 @@ <command interpreter="bash">./CheckGWASInputs.sh $hapmap $trait $out_hapmap $out_trait $stats </command> <inputs> - <param format="text" name="hapmap" type="data" label="Allelic file in Hapmap format" help="Allelic file in Hapmap format"/> - <param format="text" name="trait" type="data" label="Trait file" help="Phenotypic file"/> + <param format="txt" name="hapmap" type="data" label="Allelic file in Hapmap format" help="Allelic file in Hapmap format"/> + <param format="txt" name="trait" type="data" label="Trait file" help="Phenotypic file"/> </inputs> <outputs> <data format="txt" name="out_hapmap" label="Hapmap output"/> |