# HG changeset patch
# User iuc
# Date 1580948408 0
# Node ID a4cf24e6f1f246ad54392c27aed710e9c5742d18
# Parent f9ac06c531b52c223e1c016e3c40d948b440952b
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 0f4a6baff82058bb67678f402d302e2b8964f750"
diff -r f9ac06c531b5 -r a4cf24e6f1f2 hicTransform.xml
--- a/hicTransform.xml Mon Dec 16 22:36:10 2019 +0000
+++ b/hicTransform.xml Thu Feb 06 00:20:08 2020 +0000
@@ -10,7 +10,16 @@
ln -s '$matrix_h5_cooler' 'matrix.$matrix_h5_cooler.ext' &&
@BINARY@ --matrix 'matrix.$matrix_h5_cooler.ext'
--method $method_selector
+ #if $ligation_factor:
+ $ligation_factor
+ #end if
+ $perChromosome
+ #set chroms = ' '.join([ '\'' + str($var.chromosome) + '\'' for $var in $chromosomeOrder ])
+ #if chroms:
+ --chromosomes $chroms
+ #end if
--outFileName 'matrix.$matrix_h5_cooler.ext'
+
&& mv 'matrix.$matrix_h5_cooler.ext' matrix
]]>
@@ -18,12 +27,19 @@
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@@ -35,7 +51,18 @@
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