# HG changeset patch
# User iuc
# Date 1673377015 0
# Node ID 41dbf4d162a2758556b3950fac9b497a0819c00f
# Parent  3b5b54ed6392747a010c0227b4a1d49b0bd567a9
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit fa140a9f660eab2459e21b0b637b129d7de24c02

diff -r 3b5b54ed6392 -r 41dbf4d162a2 hicPCA.xml
--- a/hicPCA.xml	Tue Mar 16 15:05:22 2021 +0000
+++ b/hicPCA.xml	Tue Jan 10 18:56:55 2023 +0000
@@ -95,13 +95,13 @@
             </change_format>
         </data>
 
-        <data name="pearson_outfile" from_work_dir="pearson" format="cool">
+        <data name="pearson_outfile" from_work_dir="pearson" format="cool" label="${tool.name} on ${on_string}: Pearson matrix">
             <filter>pearsonMatrix</filter>
             <change_format>
-                <when input_dataset="matrix_h5_cooler" attribute="ext" value="h5" format="h5" />
+                <when input_dataset="matrix_h5_cooler" attribute="ext" value="h5" format="h5"/>
             </change_format>
         </data>
-        <data name="obsexp_outfile" from_work_dir="obsexp" format="cool">
+        <data name="obsexp_outfile" from_work_dir="obsexp" format="cool" label="${tool.name} on ${on_string}: observed / expected matrix">
             <filter>obsexpMatrix</filter>
             <change_format>
                 <when input_dataset="matrix_h5_cooler" attribute="ext" value="h5" format="h5" />
@@ -228,7 +228,7 @@
 | For more information about HiCExplorer please consider our documentation on readthedocs.io_
 
 .. _readthedocs.io: http://hicexplorer.readthedocs.io/en/latest/index.html
-.. _`Lieberman-Aiden et al. (2009)`: https://doi.org/10.1126%2Fscience.1181369
+.. _`Lieberman-Aiden et al. (2009)`: https://doi.org/10.1126/science.1181369
 ]]>    </help>
     <expand macro="citations" />
 </tool>
diff -r 3b5b54ed6392 -r 41dbf4d162a2 macros.xml
--- a/macros.xml	Tue Mar 16 15:05:22 2021 +0000
+++ b/macros.xml	Tue Jan 10 18:56:55 2023 +0000
@@ -1,7 +1,7 @@
 <macros>
     <token name="@THREADS@">\${GALAXY_SLOTS:-4}</token>
     <token name="@TOOL_VERSION@">3.6</token>
-    <token name="@VERSION_SUFFIX@">0</token>
+    <token name="@VERSION_SUFFIX@">1</token>
     <token name="@USE_RANGE@">
         #if $use_range.select_use_range == "yes_use_range":
             --range $use_range.range_min:$use_range.range_max
@@ -333,7 +333,7 @@
         <param name="scaleFactor2" type="float" value="1" label="Scale factor for input" help="(--scaleFactors)" />
     </xml>
     <xml name="xMax">
-        <param argument="--xMax" name="xMax" type="integer" optional="true" value="" label="Max value for the x-axis in counts per bin" />
+        <param argument="--xMax" type="integer" optional="true" value="" label="Max value for the x-axis in counts per bin" />
     </xml>
     <xml name="filterThreshold">
         <param argument="--filterThreshold" name="filterThreshold_low" type="float" value="-1.5" label="Remove bins of low coverage" help="e.g. -1.5; Both Thresholds needs to be set to take effect." />