Merge branch 'develop' of https://github.com/deeptools/deepTools into…

… develop
deeptools · Mar 15, 2020 · aeb8aca · aeb8aca
2 parents 339da5d + 4c7f2c4
commit aeb8aca
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diff --git a/CHANGES.txt b/CHANGES.txt
@@ -1,6 +1,7 @@
 3.4.1
 
  * Prevented temporary bedGraph files from being written to (possibly small) shared-memory drives even when TMPDIR is set to somewhere else. Now shared memory is only used if requested by setting TMPDIR (or other appropriate environment variables) to `/dev/shm`.
+ * Fixed a bug in bamPEFragmentSize that caused incompatibility with newer matplotlib releases. (issue #928)
 
 3.4.0
 

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)