I am running OSX 10.10.5 and MantidPlot 3.4. I have python installed and I added the following path to the PYTHONPATH:
/Applications/MantidPlot.app/Contents/MacOS/
When I try to import the Mantid module into python (2.7.9) I get the following error:
>>> from mantid.simpleapi import *
Fatal Python error: PyThreadState_Get: no current thread
Abort trap: 6
Then Python crashes.
Any idea what could be the problem?
Thanks,
Sándor
Hi Sandor
to import into ipython i use this method rather than appending the pythonpath
import sys
sys.path.append(r’/Applications/MantidPlot.app/Contents/MacOS’)
from mantid.simpleapi import *
i then get the message:
FrameworkManager-[Notice] Welcome to Mantid 3.5.0
FrameworkManager-[Notice] Please cite: http://dx.doi.org/10.1016/j.nima.2014.07.029 and this release: http://dx.doi.org/10.5286/Software/Mantid3.5
DownloadInstrument-[Notice] All instrument definitions up to date
let me know how this goes
all the best
Jon
Dear Jon,
Thank you for the quick answer! I get the same error message as before (after running your lines in python). Is there any debugging I could do to figure out what could be the problem? (the MantidPlot.app runs fine)
Thanks,
Sandor
Hi Sandor,
a couple of questions are you using the python 2.7 that is installed with osx and have you installed anything using brew or another mac package manager?
cheers
jon
I use python installed with brew, beside many other unrelated packages:
autoconf hdf5 p7zip
automake hicolor-icon-theme pango
boost icu4c pixman
boost-python intltool pkg-config
brew-cask jasper poco147p1
cabextract jpeg pyqt
cairo jsoncpp python
cmake libffi python3
docbook libgphoto2 qscintilla2
fontconfig libicns qt
freeimage libmxml qwt5
freetype libpng qwtplot3d
ftgl libtiff readline
gd libtool sane-backends
gdbm libusb sip
gettext libusb-compat sqlite
gl2ps libxml2 szip
glib little-cms2 unrar
gobject-introspection makedepend wine
gperftools muparser winetricks
gsl nexusformat xz
harfbuzz oce0p16p1
hdf4 openssl
I also have a long list of python modules installed by pip:
alabaster (0.7.6)
appnope (0.1.0)
Babel (2.1.1)
backports.ssl-match-hostname (3.4.0.2)
BeautifulSoup (3.2.1)
certifi (2015.9.6.2)
decorator (4.0.4)
docutils (0.12)
funcsigs (0.4)
functools32 (3.2.3.post2)
gnureadline (6.3.3)
ipykernel (4.0.3)
ipython (4.0.0)
ipython-genutils (0.1.0)
ipywidgets (4.0.3)
Jinja2 (2.8)
jsonschema (2.5.1)
jupyter (1.0.0)
jupyter-client (4.0.0)
jupyter-console (4.0.2)
jupyter-core (4.0.6)
MarkupSafe (0.23)
matplotlib (1.4.3)
mistune (0.7.1)
mock (1.3.0)
nbconvert (4.0.0)
nbformat (4.0.0)
nose (1.3.7)
notebook (4.0.5)
numpy (1.9.3)
path.py (8.1.1)
pbr (1.8.0)
pexpect (3.3)
phonopy (1.9.6.2)
pickleshare (0.5)
pip (7.1.2)
psutil (3.2.2)
ptyprocess (0.5)
Pygments (2.0.2)
pyparsing (2.0.3)
python-dateutil (2.4.2)
pytz (2015.6)
PyYAML (3.11)
pyzmq (14.7.0)
qtconsole (4.0.1)
scipy (0.16.0)
setuptools (18.3.2)
simplegeneric (0.8.1)
six (1.9.0)
snowballstemmer (1.2.0)
Sphinx (1.3.1)
sphinx-bootstrap-theme (0.4.7)
sphinx-rtd-theme (0.1.9)
terminado (0.5)
tornado (4.2.1)
traitlets (4.0.0)
vboxapi (1.0)
wheel (0.26.0)
Cheers,
Sandor
Hi
so it turned out that i had the same issue when running a python shell & homebrew python 2.7 (normally i use ipython notebook linked to the osx system python2.7)
could you try importing the module using python at /usr/bin/python which points to the osx system python.
with brew installed the python that gets picked up is /usr/local/Cellar/python which gets a sym link in /usr/local/bin.
if you could check that things work with the system python first I’ll ask people who use brew more than me what to do
cheers
jon
Dear Jon,
thank you for the quick answer! Removing the brew python installation helped. Now I can import the mantid.simpleapi module.
Best,
Sandor