Mercurial > repos > bgruening > deeptools_plot_enrichment
changeset 17:d9114ef1c8a5 draft
planemo upload for repository https://github.com/deeptools/deepTools/tree/master/galaxy/wrapper/ commit 9092b83f7ab4d7d57409f0cd9046d573209e9a83
| author | bgruening |
|---|---|
| date | Wed, 29 May 2019 09:43:25 -0400 |
| parents | ce4ce3316f74 |
| children | e65d16fb2724 |
| files | deepTools_macros.xml plotEnrichment.xml test-data/plotCoverage.metrics test-data/plotCoverage_result1.png |
| diffstat | 4 files changed, 20 insertions(+), 2 deletions(-) [+] |
line wrap: on
line diff
--- a/deepTools_macros.xml Tue Apr 02 08:13:06 2019 -0400 +++ b/deepTools_macros.xml Wed May 29 09:43:25 2019 -0400 @@ -1,10 +1,10 @@ <macros> <token name="@THREADS@">--numberOfProcessors "\${GALAXY_SLOTS:-4}"</token> - <token name="@WRAPPER_VERSION@">3.2.1.0</token> + <token name="@WRAPPER_VERSION@">3.3.0.0</token> <xml name="requirements"> <requirements> - <requirement type="package" version="3.2.1">deeptools</requirement> + <requirement type="package" version="3.3.0">deeptools</requirement> <requirement type="package" version="1.9">samtools</requirement> </requirements> <expand macro="stdio" />
--- a/plotEnrichment.xml Tue Apr 02 08:13:06 2019 -0400 +++ b/plotEnrichment.xml Wed May 29 09:43:25 2019 -0400 @@ -29,6 +29,10 @@ #end if #if $advancedOpt.showAdvancedOpt == "yes" + #if $advancedOpt.attributeKey: + --attributeKey '$advancedOpt.attributeKey' + #end if + #if $advancedOpt.labels and str($advancedOpt.labels).strip() != "": --labels $advancedOpt.labels #end if @@ -84,6 +88,11 @@ <expand macro="input_image_file_format" /> <expand macro="advancedOpt_scaffold"> + <param argument="--attributeKey" type="text" optional="true" label="Optional attribute key" + help="Instead of deriving the feature label from the feature column, use the value of the given + attribute key. For example, the gene_biotype. Note that 'None' is used for BED files + or entries where the attributeKey is not found." /> + <param argument="--plotHeight" type="integer" value="20" min="3" label="Plot height" help="Height in cm. The default for the plot height is 20 centimeters. The minimum value is 3 cm." />
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/plotCoverage.metrics Wed May 29 09:43:25 2019 -0400 @@ -0,0 +1,9 @@ +Sample Threshold Percent +bowtie2 test1.bam 0 100.000 +bowtie2 test1.bam 0 100.000 +bowtie2 test1.bam 5 1.509 +bowtie2 test1.bam 5 1.509 +bowtie2 test1.bam 10 1.461 +bowtie2 test1.bam 10 1.461 +bowtie2 test1.bam 20 1.406 +bowtie2 test1.bam 20 1.406