Commit cfb14e34 authored by eric pellegrini's avatar eric pellegrini
Browse files

Merge branch 'release-1.0.12'

parents 0f17e512 55f5b8bb
Pipeline #3060 passed with stages
in 9 minutes and 56 seconds
...@@ -9,3 +9,4 @@ dist/ ...@@ -9,3 +9,4 @@ dist/
Tests/FunctionalTests/Jobs Tests/FunctionalTests/Jobs
/.gitignore /.gitignore
...@@ -77,7 +77,7 @@ build:osx: ...@@ -77,7 +77,7 @@ build:osx:
- build - build
expire_in: 1 day expire_in: 1 day
tags: tags:
- mac - macmini2
test:osx: test:osx:
stage: test stage: test
...@@ -95,7 +95,7 @@ test:osx: ...@@ -95,7 +95,7 @@ test:osx:
dependencies: dependencies:
- build:osx - build:osx
tags: tags:
- mac - macmini2
deploy:osx: deploy:osx:
stage: deploy stage: deploy
...@@ -110,7 +110,7 @@ deploy:osx: ...@@ -110,7 +110,7 @@ deploy:osx:
paths: paths:
- BuildServer/Darwin/Build/*.dmg - BuildServer/Darwin/Build/*.dmg
tags: tags:
- mac - macmini2
# # windows 7 pipeline # # windows 7 pipeline
...@@ -17,7 +17,7 @@ if sys.platform.startswith('darwin'): ...@@ -17,7 +17,7 @@ if sys.platform.startswith('darwin'):
u'LSApplicationCategoryType': u'' u'LSApplicationCategoryType': u''
} }
'argv_emulation': True, 'argv_emulation': False,# has to be False otherwise triggers problems zith wxPython which lose some events that are captured by OS
'iconfile': u'../../../MDANSE/GUI/Icons/mdanse.icns', 'iconfile': u'../../../MDANSE/GUI/Icons/mdanse.icns',
'excludes': 'PyQt4', 'excludes': 'PyQt4',
'matplotlib_backends': '-', 'matplotlib_backends': '-',
...@@ -26,14 +26,15 @@ if sys.platform.startswith('darwin'): ...@@ -26,14 +26,15 @@ if sys.platform.startswith('darwin'):
'bdist_base': '../Build/build', 'bdist_base': '../Build/build',
'dist_dir': '../Build/dist', 'dist_dir': '../Build/dist',
'graph': False, 'graph': False,
'xref': False 'xref': False,
'packages' : ["MDANSE","MMTK","Scientific"]
} }
setup( setup(
name="MDANSE", name='MDANSE',
app=APP, app=APP,
options={'py2app': OPTIONS}, options={'py2app': OPTIONS},
setup_requires=['py2app'] setup_requires=['py2app']
) )
else: else:
print 'No build_app implementation for your system.' print 'No build_app implementation for your system.'
files=`ls ./dist/*.dylib`
libs="osx_cocoau_xrc osx_cocoau_webview osx_cocoau_html osx_cocoau_qa osx_cocoau_adv osx_cocoau_core baseu_xml baseu_net baseu"
for f in $files
chmod 777 $f
for l in $libs
install_name_tool -change /usr/local/lib/libwx_$l-3.0.dylib @executable_path/../Frameworks/libwx_$l-3.0.dylib $f
...@@ -11,7 +11,7 @@ ROUGE="\\033[1;31m" ...@@ -11,7 +11,7 @@ ROUGE="\\033[1;31m"
BLEU="\\033[1;34m" BLEU="\\033[1;34m"
##Select the build target ##Select the build target
# take the latest version of nmoldyn available on the forge # take the latest version of nmoldyn available on the forge
echo -e "$BLEU""Getting last MDANSE revision" "$NORMAL" echo -e "$BLEU""Getting last MDANSE revision" "$NORMAL"
...@@ -31,10 +31,10 @@ rm -rf build ...@@ -31,10 +31,10 @@ rm -rf build
rm -rf dist rm -rf dist
# Remove previous install of MDANSE # Remove previous install of MDANSE
rm /usr/local/bin/mdanse* rm /Library/Frameworks/Python.framework/Versions/2.7/bin/mdanse*
rm /usr/local/lib/python2.7/site-packages/MDANSE*.egg-info rm /Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/MDANSE*.egg-info
rm -rf /usr/local/lib/python2.7/site-packages/MDANSE rm -rf /Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/MDANSE
# Build and install MDANSE to the homebrewed python # Build and install MDANSE to the homebrewed python
/usr/local/bin/python build >> BuildServer/Darwin/Scripts/build_log.txt 2>&1 /Library/Frameworks/Python.framework/Versions/2.7/bin/python build >> BuildServer/Darwin/Scripts/build_log.txt 2>&1
/usr/local/bin/python install >> BuildServer/Darwin/Scripts/build_log.txt 2>&1 /Library/Frameworks/Python.framework/Versions/2.7/bin/python install >> BuildServer/Darwin/Scripts/build_log.txt 2>&1
...@@ -36,7 +36,7 @@ export DISTUTILS_DEBUG=0 ...@@ -36,7 +36,7 @@ export DISTUTILS_DEBUG=0
cd BuildServer/Darwin/Scripts cd BuildServer/Darwin/Scripts
/usr/local/bin/python py2app >> build_log.txt 2>&1 /usr/local/bin/python py2app
rc=$? rc=$?
if [[ $rc != 0 ]]; then if [[ $rc != 0 ]]; then
...@@ -63,6 +63,25 @@ hdiutil unmount /Volumes/MDANSE -force -quiet ...@@ -63,6 +63,25 @@ hdiutil unmount /Volumes/MDANSE -force -quiet
sleep 5 sleep 5
# When launching the bundle, the executable target (i.e. MDANSE) modify the python that is shipped with the bundle (si.e. package path, dylib dependencies ...)
# see for technical details
# In our case we also want the user to be able to start directly python without launching the bundle executable (e.g. to run scripts in command line) which is the reason
# why we have to modify the python executable appropriately with the following commands
cp -r /Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/ ./dist/
rm -rf ./dist/*
cp /Library/Frameworks/Python.framework/Versions/2.7/Resources/ ./dist/
cp /Library/Frameworks/Python.framework/Versions/2.7/Python ./dist/
install_name_tool -change /Library/Frameworks/Python.framework/Versions/2.7/Python @executable_path/../Frameworks/Python.framework/Versions/2.7/libpython2.7.dylib ./dist/
chmod 777 ./dist/
install_name_tool -id @executable_path/../Frameworks/Python.framework/Versions/2.7/libpython2.7.dylib ./dist/
# In order that the modified python in the bundle import the zipped sitepackages located in Contents/Resources we provide a modified that will
# update the sys.path accordingly
cp ../Scripts/ ./dist/
chmod 777 ../Scripts/
../Tools/create-dmg/create-dmg --background "../Resources/background.jpg" --volname "MDANSE" --window-pos 200 120 --window-size 800 400 --icon 200 190 --hide-extension --app-drop-link 600 185 "${MDANSE_DMG}" ./dist ../Tools/create-dmg/create-dmg --background "../Resources/background.jpg" --volname "MDANSE" --window-pos 200 120 --window-size 800 400 --icon 200 190 --hide-extension --app-drop-link 600 185 "${MDANSE_DMG}" ./dist
exit exit
...@@ -4,7 +4,7 @@ ROUGE="\\033[1;31m" ...@@ -4,7 +4,7 @@ ROUGE="\\033[1;31m"
# Performs the unit tests # Performs the unit tests
cd Tests/UnitTests cd Tests/UnitTests
nosetests --verbosity=3 -P . /Library/Frameworks/Python.framework/Versions/2.7/bin/nosetests --verbosity=3 -P .
# Exit now if unable to run tests # Exit now if unable to run tests
if [ $? -ne 0 ]; then if [ $? -ne 0 ]; then
status = $? status = $?
...@@ -14,8 +14,8 @@ fi ...@@ -14,8 +14,8 @@ fi
cd ../.. cd ../..
cd Tests/FunctionalTests/Jobs cd Tests/FunctionalTests/Jobs
python /Library/Frameworks/Python.framework/Versions/2.7/bin/python
nosetests --verbosity=3 --exe -P . /Library/Frameworks/Python.framework/Versions/2.7/bin/nosetests --verbosity=3 --exe -P .
if [ $? -ne 0 ]; then if [ $? -ne 0 ]; then
status=$? status=$?
echo -e "$ROUGE""One or several functional tests failed" echo -e "$ROUGE""One or several functional tests failed"
"""Append module search paths for third-party packages to sys.path.
* This module is automatically imported during initialization. *
In earlier versions of Python (up to 1.5a3), scripts or modules that
needed to use site-specific modules would place ``import site''
somewhere near the top of their code. Because of the automatic
import, this is no longer necessary (but code that does it still
This will append site-specific paths to the module search path. On
Unix (including Mac OSX), it starts with sys.prefix and
sys.exec_prefix (if different) and appends
lib/python<version>/site-packages as well as lib/site-python.
On other platforms (such as Windows), it tries each of the
prefixes directly, as well as with lib/site-packages appended. The
resulting directories, if they exist, are appended to sys.path, and
also inspected for path configuration files.
A path configuration file is a file whose name has the form
<package>.pth; its contents are additional directories (one per line)
to be added to sys.path. Non-existing directories (or
non-directories) are never added to sys.path; no directory is added to
sys.path more than once. Blank lines and lines beginning with
'#' are skipped. Lines starting with 'import' are executed.
For example, suppose sys.prefix and sys.exec_prefix are set to
/usr/local and there is a directory /usr/local/lib/python2.5/site-packages
with three subdirectories, foo, bar and spam, and two path
configuration files, foo.pth and bar.pth. Assume foo.pth contains the
# foo package configuration
and bar.pth contains:
# bar package configuration
Then the following directories are added to sys.path, in this order:
Note that bletch is omitted because it doesn't exist; bar precedes foo
because bar.pth comes alphabetically before foo.pth; and spam is
omitted because it is not mentioned in either path configuration file.
After these path manipulations, an attempt is made to import a module
named sitecustomize, which can perform arbitrary additional
site-specific customizations. If this import fails with an
ImportError exception, it is silently ignored.
import sys
import os
import __builtin__
import traceback
# Prefixes for site-packages; add additional prefixes like /usr/local here
PREFIXES = [sys.prefix, sys.exec_prefix]
# Enable per user site-packages directory
# set it to False to disable the feature or True to force the feature
# for distutils.commands.install
# These values are initialized by the getuserbase() and getusersitepackages()
# functions, through the main() function when Python starts.
def makepath(*paths):
dir = os.path.join(*paths)
dir = os.path.abspath(dir)
except OSError:
return dir, os.path.normcase(dir)
def abs__file__():
"""Set all module' __file__ attribute to an absolute path"""
for m in sys.modules.values():
if hasattr(m, '__loader__'):
continue # don't mess with a PEP 302-supplied __file__
m.__file__ = os.path.abspath(m.__file__)
except (AttributeError, OSError):
def removeduppaths():
""" Remove duplicate entries from sys.path along with making them
# This ensures that the initial path provided by the interpreter contains
# only absolute pathnames, even if we're running from the build directory.
L = []
known_paths = set()
for dir in sys.path:
# Filter out duplicate paths (on case-insensitive file systems also
# if they only differ in case); turn relative paths into absolute
# paths.
dir, dircase = makepath(dir)
if not dircase in known_paths:
sys.path[:] = L
return known_paths
def _init_pathinfo():
"""Return a set containing all existing directory entries from sys.path"""
d = set()
for dir in sys.path:
if os.path.isdir(dir):
dir, dircase = makepath(dir)
except TypeError:
return d
def addpackage(sitedir, name, known_paths):
"""Process a .pth file within the site-packages directory:
For each line in the file, either combine it with sitedir to a path
and add that to known_paths, or execute it if it starts with 'import '.
if known_paths is None:
reset = 1
reset = 0
fullname = os.path.join(sitedir, name)
f = open(fullname, "rU")
except IOError:
with f:
for n, line in enumerate(f):
if line.startswith("#"):
if line.startswith(("import ", "import\t")):
exec line
line = line.rstrip()
dir, dircase = makepath(sitedir, line)
if not dircase in known_paths and os.path.exists(dir):
except Exception as err:
print >>sys.stderr, "Error processing line {:d} of {}:\n".format(
n+1, fullname)
for record in traceback.format_exception(*sys.exc_info()):
for line in record.splitlines():
print >>sys.stderr, ' '+line
print >>sys.stderr, "\nRemainder of file ignored"
if reset:
known_paths = None
return known_paths
def addsitedir(sitedir, known_paths=None):
"""Add 'sitedir' argument to sys.path if missing and handle .pth files in
if known_paths is None:
known_paths = _init_pathinfo()
reset = 1
reset = 0
sitedir, sitedircase = makepath(sitedir)
if not sitedircase in known_paths:
sys.path.append(sitedir) # Add path component
names = os.listdir(sitedir)
except os.error:
dotpth = os.extsep + "pth"
names = [name for name in names if name.endswith(dotpth)]
for name in sorted(names):
addpackage(sitedir, name, known_paths)
if reset:
known_paths = None
return known_paths
def check_enableusersite():
"""Check if user site directory is safe for inclusion
The function tests for the command line flag (including environment var),
process uid/gid equal to effective uid/gid.
None: Disabled for security reasons
False: Disabled by user (command line option)
True: Safe and enabled
if sys.flags.no_user_site:
return False
if hasattr(os, "getuid") and hasattr(os, "geteuid"):
# check process uid == effective uid
if os.geteuid() != os.getuid():
return None
if hasattr(os, "getgid") and hasattr(os, "getegid"):
# check process gid == effective gid
if os.getegid() != os.getgid():
return None
return True
def getuserbase():
"""Returns the `user base` directory path.
The `user base` directory can be used to store data. If the global
variable ``USER_BASE`` is not initialized yet, this function will also set
global USER_BASE
if USER_BASE is not None:
return USER_BASE
from sysconfig import get_config_var
USER_BASE = get_config_var('userbase')
return USER_BASE
def getusersitepackages():
"""Returns the user-specific site-packages directory path.
If the global variable ``USER_SITE`` is not initialized yet, this
function will also set it.
global USER_SITE
user_base = getuserbase() # this will also set USER_BASE
if USER_SITE is not None:
return USER_SITE
from sysconfig import get_path
import os
if sys.platform == 'darwin':
from sysconfig import get_config_var
if get_config_var('PYTHONFRAMEWORK'):
USER_SITE = get_path('purelib', 'osx_framework_user')
return USER_SITE
USER_SITE = get_path('purelib', '%s_user' %
return USER_SITE
def addusersitepackages(known_paths):
"""Add a per user site-package to sys.path
Each user has its own python directory with site-packages in the
home directory.
# get the per user site-package path
# this call will also make sure USER_BASE and USER_SITE are set
user_site = getusersitepackages()
if ENABLE_USER_SITE and os.path.isdir(user_site):
addsitedir(user_site, known_paths)
return known_paths
def getsitepackages():
"""Returns a list containing all global site-packages directories
(and possibly site-python).
For each directory present in the global ``PREFIXES``, this function
will find its `site-packages` subdirectory depending on the system
environment, and will return a list of full paths.
sitepackages = []
seen = set()
for prefix in PREFIXES:
if not prefix or prefix in seen:
if sys.platform in ('os2emx', 'riscos'):
sitepackages.append(os.path.join(prefix, "Lib", "site-packages"))
elif os.sep == '/':
sitepackages.append(os.path.join(prefix, "lib",
"python" + sys.version[:3],
sitepackages.append(os.path.join(prefix, "lib", "site-python"))
sitepackages.append(os.path.join(prefix, "lib", "site-packages"))
return sitepackages
def addsitepackages(known_paths):
"""Add site-packages (and possibly site-python) to sys.path"""
for sitedir in getsitepackages():
if os.path.isdir(sitedir):
addsitedir(sitedir, known_paths)
return known_paths
"""The OS/2 EMX port has optional extension modules that do double duty
as DLLs (and must use the .DLL file extension) for other extensions.
The library search path needs to be amended so these will be found
during module import. Use BEGINLIBPATH so that these are at the start
of the library search path.
dllpath = os.path.join(sys.prefix, "Lib", "lib-dynload")
libpath = os.environ['BEGINLIBPATH'].split(';')
if libpath[-1]:
libpath[-1] = dllpath
os.environ['BEGINLIBPATH'] = ';'.join(libpath)
def setquit():
"""Define new builtins 'quit' and 'exit'.
These are objects which make the interpreter exit when called.
The repr of each object contains a hint at how it works.
if os.sep == ':':
eof = 'Cmd-Q'
elif os.sep == '\\':
eof = 'Ctrl-Z plus Return'
eof = 'Ctrl-D (i.e. EOF)'
class Quitter(object):
def __init__(self, name): = name
def __repr__(self):
return 'Use %s() or %s to exit' % (, eof)
def __call__(self, code=None):
# Shells like IDLE catch the SystemExit, but listen when their
# stdin wrapper is closed.
raise SystemExit(code)
__builtin__.quit = Quitter('quit')
__builtin__.exit = Quitter('exit')
class _Printer(object):
"""interactive prompt objects for printing the license text, a list of
contributors and the copyright notice."""
def __init__(self, name, data, files=(), dirs=()):
self.__name = name
self.__data = data
self.__files = files
self.__dirs = dirs
self.__lines = None
def __setup(self):
if self.__lines:
data = None
for dir in self.__dirs:
for filename in self.__files:
filename = os.path.join(dir, filename)
fp = file(filename, "rU")
data =
except IOError:
if data:
if not data:
data = self.__data
self.__lines = data.split('\n')
self.__linecnt = len(self.__lines)
def __repr__(self):
if len(self.__lines) <= self.MAXLINES:
return "\n".join(self.__lines)
return "Type %s() to see the full %s text" % ((self.__name,)*2)
def __call__(self):
prompt = 'Hit Return for more, or q (and Return) to quit: '
lineno = 0
while 1:
for i in range(lineno, lineno + self.MAXLINES):
print self.__lines[i]
except IndexError: