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Bump version number ready for 1.55 beta; clarify 2to3 notes

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peterjc committed Aug 18, 2010
1 parent 4b55fc0 commit b336ac0840387a298640d5e4e2a190c711f6e801
Showing with 13 additions and 9 deletions.
  1. +1 −1 Bio/__init__.py
  2. +1 −1 Doc/Tutorial.tex
  3. +5 −4 NEWS
  4. +6 −3 README
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@@ -10,7 +10,7 @@
http://biopython.org
"""
-__version__ = "1.54+"
+__version__ = "1.55b"
class MissingExternalDependencyError(Exception):
pass
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@@ -80,7 +80,7 @@
\author{Jeff Chang, Brad Chapman, Iddo Friedberg, Thomas Hamelryck, \\
Michiel de Hoon, Peter Cock, Tiago Antao, Eric Talevich}
-\date{Last Update -- 13 August 2010 (Biopython 1.54+)}
+\date{Last Update -- 18 August 2010 (Biopython 1.55 \textit{beta})}
%Hack to get the logo at the start of the HTML front page:
%(hopefully this isn't going to be too wide for most people)
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9 NEWS
@@ -9,7 +9,11 @@ The latest news is at the top.
===================================================================
-In progress: Biopython 1.55 (not yet released).
+18 August 2010: Biopython 1.55 beta released.
+
+This is a beta release for testing purposes, both for new features added,
+and more importantly updates to avoid code deprecated in Python 2.7 or in
+Python 3. This is an important step towards Python 3 support.
We are phasing out support for Python 2.4. We will continue to support it
for at least one further release (Biopython 1.56). This could be delayed
@@ -38,9 +42,6 @@ can use them to call the tool (using the subprocess module internally) and
capture the output and any error messages as strings (stdout and stderr).
This avoids having to worry about the details of how best to use subprocess.
-We have also been working on updates to avoid code which has been deprecated
-in Python 2.7 or Python 3, an important step towards Python 3 support.
-
(At least) 10 people have contributed to this release, including 5 new people:
Andres Colubri (first contribution)
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9 README
@@ -42,6 +42,8 @@ sudo python setup.py install
**System Requirements**
o "Python 2.4, 2.5, 2.6 or 2.7":http://www.python.org/
+ We are phasing out support for Python 2.4.
+ See below for notes about testing with Python 3.
o "NumPy":http://numpy.scipy.org/ (optional, but strongly recommended)
This package is only used in the computationally-oriented modules.
@@ -72,8 +74,8 @@ already functional. In order to be able to run Biopython with Python 3
you first need to convert the code. The conversion process is easy but
it has to be done BEFORE running setup.py.
-To convert the code to Python 3, the 2to3 tool is required (comes
-with Python 3). On the top-level directory do:
+To convert the code to Python 3, the 2to3 tool is required (this comes
+with Python 2.6+ and Python 3). On the top-level directory do:
$ 2to3 --nofix=long --no-diffs -n -w Bio BioSQL Tests Scripts Doc/examples
$ 2to3 --nofix=long --no-diffs -n -w -d Bio BioSQL Tests Scripts Doc/examples
@@ -83,7 +85,8 @@ doctests (examples within the docstrings). You can in general ignore
the output of 2to3. The tool takes some time to complete, please be
patient (or use the -j option to set the number of threads used).
-After 2to3 execution the normal setup process should be followed.
+After 2to3 execution the normal install from source process should be
+followed, i.e. "python3 setup.py build" etc (see below).
**Installation**

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