Mercurial > repos > sauria > hifive
diff hifive.xml @ 10:c11b964e96b3 draft
planemo upload for repository https://github.com/bxlab/galaxy_tools/suites/suite_hifive commit ded5555ebf85f4807cbe4f1bf1945a757bdc724d
| author | sauria |
|---|---|
| date | Wed, 26 Aug 2015 16:46:18 -0400 |
| parents | 5e3de32a8688 |
| children | 1164d73354cb |
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--- a/hifive.xml Fri Jun 05 14:03:05 2015 -0400 +++ b/hifive.xml Wed Aug 26 16:46:18 2015 -0400 @@ -74,6 +74,13 @@ #end if $hic_project $hic_int_output #end if +#if str( $command.command_select ) == "hic-mrheatmap": + @HIC_CHROMOSOMES@ + @HIC_DATATYPE@ + $command.trans1 + @MRH_OPTIONS@ + $hic_project $hic_mrheatmap +#end if #if str( $command.command_select ) == "5c-complete": @5C_NORMALIZE@ @5C_SEQUENCE@ @@ -148,6 +155,7 @@ <option value="hic-normalize">Normalize HiC project</option> <option value="hic-heatmap">Create HiC heatmap set</option> <option value="hic-interval">Extract HiC interval</option> + <option value="hic-mrheatmap">Create HiC multi-resolution heatmap</option> <option value="fragments">Create 5C fragment set</option> <option value="5c-data">Create 5C data set</option> <option value="5c-project">Create 5C project</option> @@ -232,6 +240,16 @@ <when value="no"/> </conditional> </when> + <when value="hic-mrheatmap"> + <param name="hic_project" type="data" format="h5" label="HiFive HiC project file" optional="False"/> + <expand macro="hic_chromosomes_xml"/> + <param type="select" name="trans1" label="Calculate and include trans interactions"> + <option value="-t">yes</option> + <option value="">no</option> + </param> + <expand macro="mrh_options_xml"/> + <expand macro="hic_datatype_xml"/> + </when> <when value="5c-complete"> <expand macro="5c_fragment_xml"/> <expand macro="5c_sequence_xml"/> @@ -344,6 +362,9 @@ <filter>(command["command_select"] == "hic-interval")</filter> <filter>(command["image"]["generate"] == "yes")</filter> </data> + <data format="mrh" name="hic_mrheatmap" label="${tool.name} on ${on_string}: HiC MR-heatmap"> + <filter>(command["command_select"] == "hic-mrheatmap")</filter> + </data> <data format="h5" name="fivec_comp_frags" label="${tool.name} on ${on_string}: 5C frags"> <filter>(command["command_select"] == "5c-complete")</filter> </data> @@ -380,6 +401,8 @@ <filter>(command["image"]["generate"] == "yes")</filter> </data> </outputs> + <tests> + </tests> <help><![CDATA[ @COMMAND_HELP@ @HIC_HELP@