Update to version 4.0.7

griffithlab · Mar 1, 2017 · a05ccb7 · a05ccb7
1 parent eabbf77
commit a05ccb7
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Showing 4 changed files with 13 additions and 8 deletions.
diff --git a/docs/conf.py b/docs/conf.py
@@ -62,9 +62,9 @@
 # built documents.
 #
 # The short X.Y version.
-version = '4.0.6'
+version = '4.0.7'
 # The full version, including alpha/beta/rc tags.
-release = '4.0.6'
+release = '4.0.7'
 
 # The language for content autogenerated by Sphinx. Refer to documentation
 # for a list of supported languages.

diff --git a/docs/index.rst b/docs/index.rst
@@ -23,12 +23,17 @@ pVAC-Seq is a cancer immunotherapy pipeline for the identification of **p**\ ers
 New in version |version|
 ------------------------
 
-This version updates the IEDB RESTful API URL to the new target announced in IEDB Analysis Resource v2.15.1.
+This version improves the sorting of the final report file. The file will now be
+sorted by "Gene Name" and "Mutation" and within these categories by the MT score
+- either "Median MT Score" or "Best MT score" depending on the
+top-score-metric used.
 
-This release introduces a change in how invalid alleles are handeled. Previously, the pipeline would throw a fatal error. The
-pipeline will now proceed but invalid alleles will be skipped.
+This release implements a 60 second wait between each request to the IEDB
+RESTful API in order to decrease the load on their servers. We recommend the
+usage of the :ref:`standalone IEDB tools <iedb_install>` for long-running processes with many
+variants, prediction algorithm, epitope lengths, or alleles.
 
-This version also has improved error handling around calling standalone IEDB installations.
+There also have been various bugfixes in this release.
 
 Citation
 --------

diff --git a/docs/install.rst b/docs/install.rst
@@ -36,7 +36,7 @@ If you have an old version of pVAC-Seq installed you might want to consider upgr
 .. _iedb_install:
 
 Installing IEDB binding prediction tools (strongly recommended)
----------------------------------------------------
+---------------------------------------------------------------
 
 .. warning::
    Using a local IEDB installation is strongly recommended for larger datasets

diff --git a/setup.py b/setup.py
@@ -29,7 +29,7 @@
 
 setup(
     name="pvacseq",
-    version="4.0.6",
+    version="4.0.7",
     packages=["pvacseq", "pvacseq.lib", "pvacseq.server"],
     entry_points={
         "console_scripts":[