Fix #928 (#929)

Author: dpryan79

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.

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'

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)
 

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" />