Update version

docs/conf.py

@@ -69,7 +69,7 @@
 # The short X.Y version.
 version = '1.0'
 # The full version, including alpha/beta/rc tags.
-release = '1.0.3'
+release = '1.0.4'
 
 # The language for content autogenerated by Sphinx. Refer to documentation
 # for a list of supported languages.

docs/index.rst

@@ -38,17 +38,11 @@ New in version |release|
 
 This is a hotfix release. It fixes the following issues:
 
-- Stop-gain mutation were previously not handled correctly. If a mutation had
-  a \* (stop gain) in the VEP Amino_acids field, pVACseq would throw an error.
-  We now ensure that those cases are handled. pVACseq will also skip stop-gain
-  mutations if the resulting mutant peptide sequence is not novel.
-- pVACseq would previously throw an error if multiple mutations resulted
-  in the same consequence. This is now handled by assigning a unique
-  identifier to each mutation.
-- We added a better warning messages if the chosen prediction algorithms and
-  alleles MHC classes are mutually exclusive, e.g., if only class I prediction
-  algorithms were chosen with only class II alleles. Previously, pVACseq would
-  simply finish without producing any output or errors.
+- We discovered a couple more cases of mutations involving stop codons that
+  would result in errors. These are amino acid changes (VEP Amino_acids field)
+  for large indels that would span exon boundaries (multiple \* in the Amino_acids
+  field), or amino acid changes involving the transcript stop codon (ending in X).
+  These cases are now handled.
 
 Coming soon
 -----------

setup.py

@@ -45,7 +45,7 @@
 
 setup(
     name="pvactools",
-    version="1.0.3",
+    version="1.0.4",
     packages=["tools", "tools.pvacfuse", "tools.pvacvector", "tools.pvacseq", "lib", "utils.pvacapi", "utils.pvacapi.controllers"],
     entry_points={
         "console_scripts":[