Mercurial > repos > nilesh > rseqc
diff read_NVC.xml @ 63:27e16a30667a draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rseqc commit d7544582d5599c67a284faf9232cd2ccc4daa1de
| author | iuc |
|---|---|
| date | Tue, 09 Apr 2024 11:24:55 +0000 |
| parents | 473382134e56 |
| children |
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--- a/read_NVC.xml Wed Feb 22 15:06:01 2023 +0000 +++ b/read_NVC.xml Tue Apr 09 11:24:55 2024 +0000 @@ -4,13 +4,9 @@ <import>rseqc_macros.xml</import> </macros> <expand macro="bio_tools"/> - - <expand macro="requirements" /> - - <expand macro="stdio" /> - + <expand macro="requirements"/> + <expand macro="stdio"/> <version_command><![CDATA[read_NVC.py --version]]></version_command> - <command><![CDATA[ @BAM_SAM_INPUTS@ read_NVC.py @@ -20,30 +16,26 @@ --mapq ${mapq} ]]> </command> - <inputs> - <expand macro="bam_sam_param" /> + <expand macro="bam_sam_param"/> <param name="nx" type="boolean" value="false" truevalue="--nx" falsevalue="" label="Include N,X in NVC plot" help="(--nx)"/> - <expand macro="mapq_param" /> - <expand macro="rscript_output_param" /> + <expand macro="mapq_param"/> + <expand macro="rscript_output_param"/> </inputs> - <outputs> - <expand macro="pdf_output_data" filename="output.NVC_plot.pdf" /> - <expand macro="xls_output_data" filename="output.NVC.xls" /> - <expand macro="rscript_output_data" filename="output.NVC_plot.r" /> + <expand macro="pdf_output_data" filename="output.NVC_plot.pdf"/> + <expand macro="xls_output_data" filename="output.NVC.xls"/> + <expand macro="rscript_output_data" filename="output.NVC_plot.r"/> </outputs> - <tests> - <test> - <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam" /> - <param name="rscript_output" value="true" /> + <test expect_num_outputs="3"> + <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam"/> + <param name="rscript_output" value="true"/> <output name="outputxls" file="output.NVC.xls" ftype="tabular"/> - <output name="outputr" file="output.NVC_plot_r" /> - <output name="outputpdf" file="output.NVC_plot.pdf" compare="sim_size" /> + <output name="outputr" file="output.NVC_plot_r"/> + <output name="outputpdf" file="output.NVC_plot.pdf" compare="sim_size"/> </test> </tests> - <help><![CDATA[ read_NVC.py +++++++++++ @@ -86,7 +78,5 @@ ]]> </help> - - <expand macro="citations" /> - + <expand macro="citations"/> </tool>