| Previous changeset 0:e1b29d705286 (2016-04-18) |
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Commit message:
planemo upload for repository https://github.com/workflow4metabolomics/nmr_normalization commit 1634b22a58db1c33119dda35ffa3127d2e1b7928 |
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modified:
NmrNormalization_xml.xml |
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| diff -r e1b29d705286 -r fc66c35dcd4f NmrNormalization_xml.xml --- a/NmrNormalization_xml.xml Mon Apr 18 11:29:30 2016 -0400 +++ b/NmrNormalization_xml.xml Mon Jul 04 11:53:19 2016 -0400 |
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| @@ -2,16 +2,16 @@ <description>Normalization of NMR bucketed and integrated spectra</description> - <requirements> - <requirement type="package" version="3.1.2">R</requirement> - <requirement type="package" version="1.1_4">r-batch</requirement> + <requirements> + <requirement type="package" version="3.1.2">R</requirement> + <requirement type="package" version="1.1_4">r-batch</requirement> </requirements> - <stdio> - <exit_code range="1:" level="fatal" /> - </stdio> - - <command> + <stdio> + <exit_code range="1:" level="fatal" /> + </stdio> + + <command> Rscript $__tool_directory__/NmrNormalization_wrapper.R ## Data matrix of bucketed and integrated spectra @@ -84,23 +84,23 @@ <outputs> <data format="txt" name="logOut" label="${tool.name}_log" /> - <data format="tabular" name="dataMatrixOut" label="${tool.name}_bucketedData" /> <data format="tabular" name="sampleMetadataOut" label="${tool.name}_samplemetadata" /> <data format="tabular" name="variableMetadataOut" label="${tool.name}_variableMetadataOut" /> + <data format="tabular" name="dataMatrixOut" label="${tool.name}_bucketedData" /> <data format="pdf" name="graphOut" label="${tool.name}_spectra" > <filter> graphType != "None" </filter> </data> </outputs> - <tests> - <test> - <param name="dataMatrix" value="MTBLS1_bucketedData.tabular" ftype="tabular" /> - <param name="scalingMethod|method" value="Total" /> - <param name="graphType" value="Overlay" /> - <output name="dataMatrixOut" file="MTBLS1_bucketedData_normalized.tabular" /> - <output name="sampleMetadataOut" file="MTBLS1_sampleMetadata_normalized.tabular" /> - <output name="variableMetadataOut" file="MTBLS1_variableMetadata_normalized.tabular" /> - </test> + <tests> + <test> + <param name="dataMatrix" value="MTBLS1_bucketedData.tabular" ftype="tabular" /> + <param name="scalingMethod|method" value="Total" /> + <param name="graphType" value="Overlay" /> + <output name="dataMatrixOut" file="MTBLS1_bucketedData_normalized.tabular" /> + <output name="sampleMetadataOut" file="MTBLS1_sampleMetadata_normalized.tabular" /> + <output name="variableMetadataOut" file="MTBLS1_variableMetadata_normalized.tabular" /> + </test> </tests> <help> @@ -255,9 +255,9 @@ :width: 100 - </help> - <citations> - <citation type="doi">10.1093/bioinformatics/btu813</citation> + </help> + <citations> + <citation type="doi">10.1093/bioinformatics/btu813</citation> </citations> </tool> |