diff --git a/docs/conf.py b/docs/conf.py index a3b72d1..2842943 100644 --- 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 index 92ea79e..af3856a 100644 --- 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 ` 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 index ee20f32..124d783 100644 --- 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 index 5efbf04..5917273 100644 --- 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":[