ejeschke
commented
9 years ago @hcferguson, are you running with an Anaconda python distribution?
Closed hcferguson closed 9 years ago
ejeschke
commented
9 years ago @hcferguson, are you running with an Anaconda python distribution?
hcferguson
commented
9 years ago @ejeschke Yes.
pllim
commented
9 years ago @hcferguson, would be useful if you could paste the output of your conda list command here.
hcferguson
commented
9 years ago Here's conda list for my laptop
Henrys-MacBook-Pro:~ hcferguson$ conda list
# packages in environment at /Users/hcferguson/anaconda:
#
_license 1.1 py27_0
abstract-rendering 0.5.1 np19py27_0
alabaster 0.7.3 py27_0
anaconda 2.3.0 np19py27_0
appscript 1.0.1 py27_0
argcomplete 0.8.9 py27_0
astropy 1.0.3 np19py27_0
babel 1.3 py27_0
backports.ssl-match-hostname 3.4.0.2 <pip>
bcolz 0.9.0 np19py27_0
beautiful-soup 4.3.2 py27_0
beautifulsoup4 4.3.2 <pip>
binstar 0.11.0 py27_0
bitarray 0.8.1 py27_0
blaze 0.8.0 <pip>
blaze-core 0.8.0 np19py27_0
blz 0.6.2 np19py27_1
bokeh 0.9.0 np19py27_0
boto 2.38.0 py27_0
bottleneck 1.0.0 np19py27_0
cdecimal 2.3 py27_0
certifi 14.05.14 py27_0
cffi 1.1.0 py27_0
clyent 0.3.4 py27_0
colorama 0.3.3 py27_0
conda 3.16.0 py27_0
conda-build 1.14.1 py27_0
conda-env 2.4.1 py27_0
configobj 5.0.6 py27_0
cryptography 0.9.1 py27_0
curl 7.43.0 0
cython 0.22.1 py27_0
cytoolz 0.7.3 py27_0
datashape 0.4.5 np19py27_0
decorator 4.0.2 py27_0
docutils 0.12 py27_0
dynd-python 0.6.5 np19py27_0
emcee 2.1.0 <pip>
enum34 1.0.4 py27_0
fastcache 1.0.2 py27_0
flask 0.10.1 py27_1
freetype 2.5.2 2
funcsigs 0.4 py27_0
gevent 1.0.1 py27_0
gevent-websocket 0.9.3 py27_0
ginga 2.5.20151022033143 <pip>
glueviz 0.5.1 np19py27_1
greenlet 0.4.7 py27_0
grin 1.2.1 py27_1
h5py 2.5.0 np19py27_3
hdf5 1.8.15.1 1
idna 2.0 py27_0
ipaddress 1.0.7 py27_0
ipython 3.2.0 py27_0
ipython-notebook 3.2.0 py27_0
ipython-qtconsole 3.2.0 py27_0
itsdangerous 0.24 py27_0
jdcal 1.0 py27_0
jedi 0.8.1 py27_0
jinja2 2.7.3 py27_1
jpeg 8d 1
jsonschema 2.4.0 py27_0
launcher 1.0.0 3
libdynd 0.6.5 0
libpng 1.6.17 0
libsodium 0.4.5 0
libtiff 4.0.2 1
libxml2 2.9.2 0
libxslt 1.1.28 2
llvmlite 0.5.0 py27_0
lxml 3.4.4 py27_0
markupsafe 0.23 py27_0
matplotlib 1.4.3 np19py27_3
mistune 0.5.1 py27_1
mock 1.0.1 py27_0
multipledispatch 0.4.7 py27_0
networkx 1.10 py27_0
nltk 3.0.3 np19py27_0
node-webkit 0.10.1 0
nose 1.3.7 py27_0
numba 0.19.1 np19py27_0
numexpr 2.4.3 np19py27_0
numpy 1.9.2 py27_0
odo 0.3.2 np19py27_0
openpyxl 1.8.5 py27_0
openssl 1.0.1k 1
pandas 0.16.2 np19py27_0
patsy 0.3.0 np19py27_0
pep8 1.6.2 py27_0
pillow 2.9.0 py27_0
pip 7.1.0 py27_1
ply 3.6 py27_0
psutil 2.2.1 py27_0
ptyprocess 0.4 py27_0
py 1.4.27 py27_0
pyasn1 0.1.7 py27_0
pyaudio 0.2.7 py27_0
pycosat 0.6.1 py27_0
pycparser 2.14 py27_0
pycrypto 2.6.1 py27_0
pycurl 7.19.5.1 py27_2
pyflakes 0.9.2 py27_0
pygments 2.0.2 py27_0
pyopenssl 0.15.1 py27_1
pyparsing 2.0.3 py27_0
pyqt 4.11.3 py27_0
pytables 3.2.0 np19py27_0
pytest 2.7.1 py27_0
python 2.7.10 0
python-dateutil 2.4.2 py27_0
python.app 1.2 py27_4
pytz 2015.4 py27_0
pyyaml 3.11 py27_1
pyzmq 14.7.0 py27_0
qt 4.8.6 3
readline 6.2 2
redis 2.6.9 0
redis-py 2.10.3 py27_0
requests 2.7.0 py27_0
rope 0.9.4 py27_1
runipy 0.1.3 py27_0
runstats 0.5.3 <pip>
scikit-image 0.11.3 np19py27_0
scikit-learn 0.16.1 np19py27_0
scipy 0.16.0 np19py27_1
setuptools 18.0.1 py27_0
sip 4.16.5 py27_0
six 1.9.0 py27_0
snowballstemmer 1.2.0 py27_0
sockjs-tornado 1.0.1 py27_0
specview 0.2.dev383 <pip>
sphinx 1.3.1 py27_0
sphinx-rtd-theme 0.1.7 <pip>
sphinx_rtd_theme 0.1.7 py27_0
spyder 2.3.5.2 py27_0
spyder-app 2.3.5.2 py27_0
sqlalchemy 1.0.5 py27_0
sqlite 3.8.4.1 1
ssl_match_hostname 3.4.0.2 py27_0
statsmodels 0.6.1 np19py27_0
sympy 0.7.6 py27_0
tables 3.2.0 <pip>
terminado 0.5 py27_0
tk 8.5.18 0
toolz 0.7.2 py27_0
tornado 4.2 py27_0
ujson 1.33 py27_0
unicodecsv 0.9.4 py27_0
werkzeug 0.10.4 py27_0
wheel 0.24.0 py27_0
xlrd 0.9.3 py27_0
xlsxwriter 0.7.3 py27_0
xlwings 0.3.5 py27_0
xlwt 1.0.0 py27_0
yaml 0.1.6 0
zeromq 4.0.5 0
zlib 1.2.8 0 Here is conda list for my desktop.
ferguson% source Docondasetup
Fetching package metadata: ....
Solving package specifications: ................
# All requested packages already installed.
# packages in environment at /Users/ferguson/anaconda:
#
tk 8.5.13 1
[ssbx-osx] [planxty:~] ferguson% conda list
# packages in environment at /Users/ferguson/anaconda:
#
_license 1.1 py27_0
abstract-rendering 0.5.1 np19py27_0
alabaster 0.7.3 py27_0
anaconda 2.3.0 np19py27_0
appscript 1.0.1 py27_0
argcomplete 0.8.9 py27_0
astropy 1.0.3 np19py27_0
babel 1.3 py27_0
backports.ssl-match-hostname 3.4.0.2 <pip>
bcolz 0.9.0 np19py27_0
beautiful-soup 4.3.2 py27_0
beautifulsoup4 4.3.2 <pip>
binstar 0.11.0 py27_0
bitarray 0.8.1 py27_0
blaze 0.8.0 <pip>
blaze-core 0.8.0 np19py27_0
blz 0.6.2 np19py27_1
bokeh 0.9.0 np19py27_0
boto 2.38.0 py27_0
bottleneck 1.0.0 np19py27_0
cdecimal 2.3 py27_0
certifi 14.05.14 py27_0
cffi 1.1.0 py27_0
clyent 0.3.4 py27_0
colorama 0.3.3 py27_0
conda 3.18.3 py27_0
conda-build 1.14.1 py27_0
conda-env 2.4.2 py27_0
configobj 5.0.6 py27_0
cryptography 0.9.1 py27_0
curl 7.43.0 0
cython 0.22.1 py27_0
cytoolz 0.7.3 py27_0
datashape 0.4.5 np19py27_0
decorator 3.4.2 py27_0
docutils 0.12 py27_0
dynd-python 0.6.5 np19py27_0
emcee 2.1.0 <pip>
enum34 1.0.4 py27_0
fastcache 1.0.2 py27_0
flask 0.10.1 py27_1
freetype 2.5.2 2
funcsigs 0.4 py27_0
gevent 1.0.1 py27_0
gevent-websocket 0.9.3 py27_0
ginga 2.5.20151022033143 <pip>
greenlet 0.4.7 py27_0
grin 1.2.1 py27_1
h5py 2.5.0 np19py27_3
hdf5 1.8.15.1 1
idna 2.0 py27_0
ipaddress 1.0.7 py27_0
ipython 3.2.0 py27_0
ipython-notebook 3.2.0 py27_0
ipython-qtconsole 3.2.0 py27_0
itsdangerous 0.24 py27_0
jdcal 1.0 py27_0
jedi 0.8.1 py27_0
jinja2 2.7.3 py27_1
jpeg 8d 1
jsonschema 2.4.0 py27_0
launcher 1.0.0 3
libdynd 0.6.5 0
libpng 1.6.17 0
libsodium 0.4.5 0
libtiff 4.0.2 1
libxml2 2.9.2 0
libxslt 1.1.28 2
llvmlite 0.5.0 py27_0
lxml 3.4.4 py27_0
markupsafe 0.23 py27_0
matplotlib 1.4.3 np19py27_2
mistune 0.5.1 py27_1
mock 1.0.1 py27_0
multipledispatch 0.4.7 py27_0
networkx 1.9.1 py27_0
nltk 3.0.3 np19py27_0
node-webkit 0.10.1 0
nose 1.3.7 py27_0
numba 0.19.1 np19py27_0
numexpr 2.4.3 np19py27_0
numpy 1.9.2 py27_0
odo 0.3.2 np19py27_0
openpyxl 1.8.5 py27_0
openssl 1.0.2d 0
pandas 0.16.2 np19py27_0
patsy 0.3.0 np19py27_0
pep8 1.6.2 py27_0
pillow 2.8.2 py27_0
pip 7.1.2 py27_0
ply 3.6 py27_0
psutil 2.2.1 py27_0
ptyprocess 0.4 py27_0
py 1.4.27 py27_0
pyasn1 0.1.7 py27_0
pyaudio 0.2.7 py27_0
pycosat 0.6.1 py27_0
pycparser 2.14 py27_0
pycrypto 2.6.1 py27_0
pycurl 7.19.5.1 py27_2
pyds9 1.2 <pip>
pyflakes 0.9.2 py27_0
pygments 2.0.2 py27_0
pygoods 2.2 <pip>
pyhm 0.0.1 <pip>
pyopenssl 0.15.1 py27_1
pyparsing 2.0.3 py27_0
pyqt 4.11.3 py27_0
pytables 3.2.0 np19py27_0
pytest 2.7.1 py27_0
python 2.7.10 2
python-dateutil 2.4.2 py27_0
python.app 1.2 py27_4
pytz 2015.4 py27_0
pyyaml 3.11 py27_1
pyzmq 14.7.0 py27_0
qt 4.8.6 3
readline 6.2 2
redis 2.6.9 0
redis-py 2.10.3 py27_0
requests 2.8.1 py27_0
rope 0.9.4 py27_1
runipy 0.1.3 py27_0
scikit-image 0.11.3 np19py27_0
scikit-learn 0.16.1 np19py27_0
scipy 0.15.1 np19py27_0
setuptools 18.4 py27_0
sip 4.16.5 py27_0
six 1.9.0 py27_0
snowballstemmer 1.2.0 py27_0
sockjs-tornado 1.0.1 py27_0
sphinx 1.3.1 py27_0
sphinx-rtd-theme 0.1.7 <pip>
sphinx_rtd_theme 0.1.7 py27_0
spyder 2.3.5.2 py27_0
spyder-app 2.3.5.2 py27_0
sqlalchemy 1.0.5 py27_0
sqlite 3.8.4.1 1
ssl_match_hostname 3.4.0.2 py27_0
statsmodels 0.6.1 np19py27_0
subtract-background 1.0 <pip>
sympy 0.7.6 py27_0
tables 3.1.1 <pip>
terminado 0.5 py27_0
tk 8.5.13 1
toolz 0.7.2 py27_0
tornado 4.2 py27_0
ujson 1.33 py27_0
unicodecsv 0.9.4 py27_0
werkzeug 0.10.4 py27_0
wheel 0.26.0 py27_1
xlrd 0.9.3 py27_0
xlsxwriter 0.7.3 py27_0
xlwings 0.3.5 py27_0
xlwt 1.0.0 py27_0
yaml 0.1.6 0
zeromq 4.0.5 0
zlib 1.2.8 0 Mine appears comparable on Linux.
hcferguson
commented
9 years ago Hmm....looking at the ginga script, it appears that it used ssbx on the install. Not sure how that happened.
#!/Users/ferguson/ssbvirt/ssbx-osx/bin/python
#
# ginga -- astronomical image viewer and toolkit
#
"""
Usage:
ginga --help
ginga [options] [fitsfile] ...
"""
import sys
from ginga import main
if __name__ == "__main__":
main.reference_viewer(sys.argv)Nope...nevermind...I wasn't using the ssbx version in testing. I have been using the anaconda version, just hadn't set the environment in that window. The startup script for that is quite different.
#!/Users/ferguson/anaconda/bin/python
# EASY-INSTALL-SCRIPT: 'ginga==2.5.20151022033143','ginga'
__requires__ = 'ginga==2.5.20151022033143'
__import__('pkg_resources').run_script('ginga==2.5.20151022033143', 'ginga')After speaking offline with @hcferguson, my suspicion is that there are some mix-up in his paths:
PATH has a mix of Anaconda, SSBX, /sw/..., /usr/..., and /opt/... directories.LD_LIBRARY_PATH is not explicitly set to use Anaconda libraries.PYTHONPATH does not explicitly set to use Anaconda packages first.My recommendation is to clear up the above first, and see if the problem goes away.
pllim
commented
9 years ago @hcferguson reported that the problem "magically" disappeared.
The word "Instructions", for example, is half obscured by the sub-window below it as in the attached screenshot. This is a generic issue for @hcferguson but not for @stscieisenhamer who is also running Qt on a Mac. Also, @pllim, on linux with Qt doesn't see the problem.