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Update NEWS and FAQ regarding Bio.PDB.MMCIFParser

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commit e5ebb85d0614a34e59e7c2118a366512dc4d1320 1 parent 47180e6
@peterjc peterjc authored
Showing with 6 additions and 4 deletions.
  1. +3 −4 Doc/Tutorial.tex
  2. +3 −0  NEWS
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7 Doc/Tutorial.tex
@@ -286,10 +286,9 @@ \section{Frequently Asked Questions (FAQ)}
turns a list into a comma separated string automatically.
\item \emph{Why doesn't} \verb|Bio.PDB.MMCIFParser| \emph{work? I see an import error about} \verb|MMCIFlex| \\
- Since Biopython 1.42, the underlying \verb|Bio.PDB.mmCIF.MMCIFlex| module has
- not been installed by default. It requires a third party tool called flex
- (fast lexical analyzer generator). At the time of writing, you'll have install
- flex, then tweak your Biopython \verb|setup.py| file and reinstall from source.
+ From Biopython 1.42 to 1.59, the underlying \verb|Bio.PDB.mmCIF.MMCIFlex| module
+ was not been installed by default. It required a third party tool called flex
+ (fast lexical analyzer generator). This should work with Biopython 1.60 onwards.
\item \emph{Why doesn't} \verb|Bio.Blast.NCBIWWW.qblast()| \emph{give the same results as the NCBI BLAST website?} \\
You need to specify the same options -- the NCBI often adjust the default settings on the website,
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3  NEWS
@@ -16,6 +16,9 @@ The GenBank/EMBL parser will now give a warning on unrecognised feature
locations and continue parsing (leaving the feature's location as None).
Previously it would abort with an exception, which was often unhelpful.
+The Bio.PDB.MMCIFParser is now compiled by default (but is still not
+available under Jython, PyPy or Python 3).
+
Additionally there have been other minor bug fixes and more unit tests.
Many thanks to the Biopython developers and community for making this release
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