Upgrade to version 4.0.5

griffithlab · Sep 26, 2023 · 2d2c7df · 2d2c7df
1 parent 71ac9b2
commit 2d2c7df
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Showing 4 changed files with 26 additions and 4 deletions.
diff --git a/docs/conf.py b/docs/conf.py
@@ -70,7 +70,7 @@
 # The short X.Y version.
 version = '4.0'
 # The full version, including alpha/beta/rc tags.
-release = '4.0.4'
+release = '4.0.5'
 
 
 # The language for content autogenerated by Sphinx. Refer to documentation

diff --git a/docs/index.rst b/docs/index.rst
@@ -56,8 +56,15 @@ New in Release |release|
 
 This is a bugfix release. It fixes the following problem(s):
 
-- This release makes various fixes to allow pVACtools to run with non-human
-  data.
+- In recent releases, users have noticed that at some point during pipeline
+  runs, predictions to MHCflurry would hang or get killed. We were able to
+  determine that the cause was related to
+  `PR 988 <https://github.com/griffithlab/pVACtools/pull/988>`_.
+  This PR originally updated calls to MHCflurry to happen by instantiating
+  their predictor within Python instead of calling it on the command line.
+  However, we suspect that this causes a substantial increase in memory usage
+  resulting in the observed behavior. This release reverts the change from PR
+  988.
 
 New in Version |version|
 ------------------------

diff --git a/docs/releases/4_0.rst b/docs/releases/4_0.rst
@@ -114,3 +114,18 @@ This is a bugfix release. It fixes the following problem(s):
 
 - This release makes various fixes to allow pVACtools to run with non-human
   data.
+
+New in Version 4.0.5
+--------------------
+
+This is a bugfix release. It fixes the following problem(s):
+
+- In recent releases, users have noticed that at some point during pipeline
+  runs, predictions to MHCflurry would hang or get killed. We were able to
+  determine that the cause was related to
+  `PR 988 <https://github.com/griffithlab/pVACtools/pull/988>`_.
+  This PR originally updated calls to MHCflurry to happen by instantiating
+  their predictor within Python instead of calling it on the command line.
+  However, we suspect that this causes a substantial increase in memory usage
+  resulting in the observed behavior. This release reverts the change from PR
+  988.
diff --git a/setup.py b/setup.py
@@ -51,7 +51,7 @@
 
 setup(
     name="pvactools",
-    version="4.0.4",
+    version="4.0.5",
     packages=[
         "pvactools.tools",
         "pvactools.tools.pvacbind",