Fix #928

deeptools · Mar 11, 2020 · 01997e0 · 01997e0
1 parent 0965841
commit 01997e0
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Showing 4 changed files with 8 additions and 4 deletions.
diff --git a/CHANGES.txt b/CHANGES.txt
@@ -1,3 +1,7 @@
+3.4.1
+
+ * Fixed a bug in bamPEFragmentSize that caused incompatibility with newer matplotlib releases. (issue #928)
+
 3.4.0
 
  * Fixed a bug in one of the Galaxy wrappers.

diff --git a/deeptools/_version.py b/deeptools/_version.py
@@ -2,4 +2,4 @@
 # This file is originally generated from Git information by running 'setup.py
 # version'. Distribution tarballs contain a pre-generated copy of this file.
 
-__version__ = '3.4.0'
+__version__ = '3.4.1'
diff --git a/deeptools/bamPEFragmentSize.py b/deeptools/bamPEFragmentSize.py
@@ -119,7 +119,7 @@ def getDensity(lengths, minVal, maxVal):
     This is essentially computing what hist() in matplotlib is doing and returning the results.
     This then allows us to free up the memory consumed by each sample rather than returning it all back to main() for plotting.
     """
-    n, bins, patches = plt.hist(lengths, bins=100, range=(minVal, maxVal), normed=True)
+    n, bins, patches = plt.hist(lengths, bins=100, range=(minVal, maxVal), density=True)
     plt.clf()
     return (n, bins)
 

diff --git a/galaxy/wrapper/deepTools_macros.xml b/galaxy/wrapper/deepTools_macros.xml
@@ -1,10 +1,10 @@
 <macros>
 
     <token name="@THREADS@">--numberOfProcessors "\${GALAXY_SLOTS:-4}"</token>
-    <token name="@WRAPPER_VERSION@">3.4.0.0</token>
+    <token name="@WRAPPER_VERSION@">3.4.1.0</token>
     <xml name="requirements">
         <requirements>
-            <requirement type="package" version="3.4.0">deeptools</requirement>
+            <requirement type="package" version="3.4.1">deeptools</requirement>
             <requirement type="package" version="1.9">samtools</requirement>
         </requirements>
         <expand macro="stdio" />