Previous changeset 7:62adf13b86ea (2021-03-19) Next changeset 9:b47c006d90c5 (2022-05-03) |
Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dexseq commit d6fb005b0dbf26037aab1748d9b5df12876c674d" |
modified:
dexseq.xml dexseq_count.xml macros.xml plotdexseq.xml |
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diff -r 62adf13b86ea -r 2872c633f07e dexseq.xml --- a/dexseq.xml Fri Mar 19 09:45:03 2021 +0000 +++ b/dexseq.xml Sun Dec 19 23:02:46 2021 +0000 |
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@@ -1,5 +1,8 @@ -<tool id="dexseq" name="DEXSeq" version="@VERSION@+galaxy1"> +<tool id="dexseq" name="DEXSeq" version="@TOOL_VERSION@+galaxy2" profile="@PROFILE@"> <description>Determines differential exon usage from count tables</description> + <xrefs> + <xref type="bio.tools">dexseq</xref> + </xrefs> <macros> <import>macros.xml</import> </macros> @@ -99,11 +102,11 @@ <param name="fdr_cutoff" type="float" min="0.0" max="1.0" value="0.05" label="All the genes under this FDR threshold will be shown in the html report"/> </inputs> <outputs> - <data name="dexseq_out" format="tabular" label="DEXSeq result file on ${on_string}" /> - <data name="htmlreport" format="html" label="DEXSeq report on ${on_string}"> + <data name="dexseq_out" format="tabular" label="${tool.name} on ${on_string}: result" /> + <data name="htmlreport" format="html" label="${tool.name} on ${on_string}: report"> <filter>report is True</filter> </data> - <data name="rds_out" format="rdata" from_work_dir="DEXSeqResults.rds" label="DEXSeq rds file on ${on_string}"> + <data name="rds_out" format="rds" from_work_dir="DEXSeqResults.rds" label="${tool.name} on ${on_string}: rds file"> <filter>rds is True</filter> </data> </outputs> @@ -171,7 +174,7 @@ <param name="rds" value="True"/> <param name="fdr_cutoff" value="0.05"/> <output name="dexseq_out" ftype="tabular" file="dexseq_result.tabular" compare="sim_size"/> - <output name="rds_out" ftype="rdata" file="dexseq.rds" compare="sim_size"/> + <output name="rds_out" ftype="rds" file="dexseq.rds" compare="sim_size"/> </test> </tests> <help><![CDATA[ |
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diff -r 62adf13b86ea -r 2872c633f07e dexseq_count.xml --- a/dexseq_count.xml Fri Mar 19 09:45:03 2021 +0000 +++ b/dexseq_count.xml Sun Dec 19 23:02:46 2021 +0000 |
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@@ -1,5 +1,8 @@ -<tool id="dexseq_count" name="DEXSeq-Count" version="@VERSION@.0"> +<tool id="dexseq_count" name="DEXSeq-Count" version="@TOOL_VERSION@.1" profile="@PROFILE@"> <description>Prepare and count exon abundancies from RNA-seq data</description> + <xrefs> + <xref type="bio.tools">dexseq</xref> + </xrefs> <macros> <import>macros.xml</import> </macros> |
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diff -r 62adf13b86ea -r 2872c633f07e macros.xml --- a/macros.xml Fri Mar 19 09:45:03 2021 +0000 +++ b/macros.xml Sun Dec 19 23:02:46 2021 +0000 |
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@@ -1,9 +1,10 @@ <?xml version="1.0"?> <macros> - <token name="@VERSION@">1.28.1</token> + <token name="@TOOL_VERSION@">1.28.1</token> + <token name="@PROFILE@">21.01</token> <xml name="requirements"> <requirements> - <requirement type="package" version="@VERSION@">bioconductor-dexseq</requirement> + <requirement type="package" version="@TOOL_VERSION@">bioconductor-dexseq</requirement> <yield /> </requirements> </xml> |
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diff -r 62adf13b86ea -r 2872c633f07e plotdexseq.xml --- a/plotdexseq.xml Fri Mar 19 09:45:03 2021 +0000 +++ b/plotdexseq.xml Sun Dec 19 23:02:46 2021 +0000 |
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@@ -1,5 +1,8 @@ -<tool id="plotdexseq" name="plotDEXSeq" version="@VERSION@.0"> +<tool id="plotdexseq" name="plotDEXSeq" version="@VERSION@.1" profile="@PROFILE@"> <description>Visualization of the per gene DEXSeq results</description> + <xrefs> + <xref type="bio.tools">dexseq</xref> + </xrefs> <macros> <import>macros.xml</import> </macros> |