TkAgg won't plot - how to debug?

hello,
the issue i'm experiencing is local to my laptop ( the other machines i
have run examples just fine).
I described it here
https://www.mail-archive.com/python-list at python.org/msg432343.html in
details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output to see
what exactly is happening behind the scene?

Thank you.
AZ
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more relevant information:
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.

import matplotlib
matplotlib.__file__

'/home/az/.local/lib/python3.5/site-packages/matplotlib/__init__.py'

matplotlib.get_configdir()

'/home/az/.config/matplotlib'

print(matplotlib.__version__)

2.1.0

now if i get the simplest plot :

[az at hp src]$ more ./main1.py
import matplotlib.pyplot as plt
print("imported")
plt.plot([1,2,4,1])
print("plot is done")
plt.show()
print("show is done")

[az at hp src]$ python3.5 main1.py --verbose-debug
$HOME=/home/az
matplotlib data path
/home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-data
loaded rc file
/home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-data/matplotlibrc
matplotlib version 2.1.0
verbose.level debug
interactive is False
platform is linux
loaded modules: ['_locale', 'urllib.request', 'numpy.lib.shape_base',
'numpy.matrixlib', 'ipaddress', 'hashlib', 'collections',
'numpy.lib.financial', 'atexit', 'numpy.lib._iotools',
'_frozen_importlib_external', 'numpy.polynomial.chebyshev', 'six',
'unittest.runner', '_sitebuiltins', 'numpy.compat', 'numpy.ma.core',
'abrt_exception_handler3', 'codecs', 'sre_constants', 'calendar',
'matplotlib.cbook', 'contextlib', 'heapq', 'ssl', 'dis', 'binascii',
'posixpath', 'cython_runtime', 'traceback', 'numpy.polynomial.laguerre',
'_hashlib', 'zipimport', 'email.utils', '_functools', 'copyreg', 'sys',
'_sre', 'matplotlib.cbook._backports', 'numpy.lib.arraysetops', 'random',
'email.parser', 'numpy.fft.helper', '_collections', 'difflib',
'numpy.lib.scimath', 'unittest', '_sysconfigdata', 'numpy', 'site', '_ast',
'json.scanner', 'os', 'http', 'functools', 'unittest.main', '
numpy.linalg.info', '_heapq', 'token', 'pathlib', 'tokenize', 'cycler',
'encodings.cp437', 'numpy.polynomial.polynomial',
'numpy.polynomial._polybase', 'numpy.lib.mixins', 'ctypes._endian',
'numpy.lib.arraypad', 'numpy.matrixlib.defmatrix', 'distutils.version',
'_signal', 'marshal', 'stat', 'pprint', 'base64', 'logging', 'enum',
'selectors', 'numpy.core', 'json.encoder', 'operator',
'numpy.testing.nosetester', 'matplotlib._version', 'numpy.ctypeslib',
'numpy.add_newdocs', 'unittest.util', '_weakref', 'select',
'importlib._bootstrap_external', 'mtrand', 'importlib._bootstrap',
'matplotlib.rcsetup', 'matplotlib.colors', 'numpy.testing.decorators',
'json', 'numpy.core.machar', 'email.encoders', 'six.moves.urllib',
'matplotlib', 'keyword', 'errno', 'numpy.lib.stride_tricks', '_socket',
'email.quoprimime', 'numpy.ma.extras', 'numbers', 'numpy.version',
'_bisect', '_string', 'numpy.lib.arrayterator', 'numpy.core.umath',
'numpy.lib', '_thread', 'time', '_frozen_importlib', 'numpy.core.info',
'numpy.core.multiarray', 'math', '_opcode', 'urllib.parse',
'distutils.sysconfig', 'ntpath', 'argparse', 'types', 'sre_compile',
'glob', '__main__', 'email._encoded_words', 'socket', '_struct', '
numpy.fft.info', 'unittest.signals', 'numpy.lib.npyio', 'grp',
'urllib.error', '_io', 'numpy._globals', 'gettext', 'numpy.compat.py3k',
'distutils', 'email.charset', 'ast', 'numpy.lib.function_base', 'uu',
'encodings', 'urllib', 'numpy.lib.twodim_base', 'encodings.latin_1',
'tempfile', 'numpy.lib._version', 'numpy.polynomial.polyutils', 'quopri',
'os.path', '_imp', 'email.base64mime', 'email.message', 'email.header',
'opcode', 'encodings.utf_8', 'reprlib', '_stat', '_warnings',
'email.feedparser', 'numpy.testing.utils', 'numpy.lib.utils',
'genericpath', 'numpy.polynomial.hermite', '_compat_pickle', 'bz2',
'_compression', 'subprocess', '_json', 'numpy.lib.nanfunctions', 'inspect',
'sysconfig', '_operator', 'shutil', 'pwd', 'warnings', '_ctypes',
'_random', 'email.iterators', '_collections_abc', '__future__', 'email',
'numpy._distributor_init', 'unittest.loader', '_bootlocale',
'numpy.core.records', 'fnmatch', '_posixsubprocess', 'numpy._import_tools',
'numpy.lib.format', '_lzma', 'numpy.core.arrayprint', 'json.decoder',
'signal', 'gzip', 'posix', 'textwrap', 'numpy.fft.fftpack',
'importlib.machinery', 'lzma', 'struct', 'pickle', '_codecs',
'numpy.core.einsumfunc', 'itertools', 'numpy.core.shape_base',
'encodings.aliases', 'numpy.lib.index_tricks', 'numpy.random.info',
'numpy.linalg._umath_linalg', 'matplotlib.fontconfig_pattern',
'six.moves.urllib.request', '_weakrefset', 'distutils.errors', 'io',
'locale', 'email.errors', 'numpy.core.numerictypes',
'numpy.compat._inspect', 'zlib', 'numpy.polynomial.hermite_e',
'numpy.lib.type_check', 'mpl_toolkits', 'numpy.fft.fftpack_lite', 'bisect',
'dateutil', 'numpy.polynomial', 'collections.abc', '_bz2', 'weakref',
'numpy.lib.ufunclike', 'numpy.core.function_base', 'abc', 'six.moves',
'numpy.linalg', 'numpy.polynomial.legendre', 'numpy.core.defchararray',
'numpy.linalg.lapack_lite', 'numpy.core._internal', 'importlib',
'unittest.suite', 'unittest.case', 'numpy.core.memmap', 'email._parseaddr',
'_pickle', '_ssl', 'matplotlib.compat.subprocess', 'numpy.random',
'datetime', 'email._policybase', 'sre_parse', 'numpy.linalg.linalg',
'copy', 'numpy.lib._datasource', 'numpy.core._methods', 'linecache',
'matplotlib.compat', 'numpy.testing', 'numpy.__config__',
'unittest.result', 're', 'http.client', 'numpy.lib.info',
'numpy.core.fromnumeric', 'numpy.core.getlimits', 'matplotlib._color_data',
'urllib.response', 'pyparsing', 'numpy.lib.polynomial', 'threading',
'string', 'numpy.core.numeric', 'numpy.ma', 'numpy.fft', 'ctypes',
'numpy.random.mtrand', 'matplotlib.cbook.deprecation', '_datetime',
'builtins']
CACHEDIR=/home/az/.cache/matplotlib
Using fontManager instance from /home/az/.cache/matplotlib/fontList.json
backend TkAgg version 8.6
imported
^C
Hangs at this point with CPU @ 100%

grep -v '#'
/home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-data/matplotlibrc

The only line is :
backend : TkAgg

[az at hp src]$ gcc --version
gcc (GCC) 6.3.1 20161221 (Red Hat 6.3.1-1)

I installed using pip3 into --user directory.
but i also remember that i used dnf to get tkInnter installed:
rpm -qa | grep tkin
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
tix-1:8.4.3-17.fc24.x86_64
if i were to compare "pip3 list" between system (root) and the user (az):
diff -u /tmp/root_pip /tmp/usr_pip
--- /tmp/root_pip 2017-11-04 15:26:09.612643559 -0400
+++ /tmp/usr_pip 2017-11-04 15:25:52.396473226 -0400
@@ -1,39 +1,65 @@
astroid (1.4.5)
beautifulsoup4 (4.6.0)
+bleach (2.1)
blivet (1.20.3)
chardet (2.2.1)
coverage (4.4.1)
cssselect (0.9.1)
cupshelpers (1.0)
+cx-Oracle (6.0.2)
cycler (0.10.0)
decorator (4.0.11)
distro (1.0.2)
dnf-langpacks (0.15.1)
+entrypoints (0.2.3)
fros (1.1)
-html5lib (0.999)
+html5lib (1.0b10)
humanize (0.5.1)
ib-insync (0.8.5)
+ibapi (9.73.2)
iniparse (0.4)
initial-setup (0.3.40)
IPy (0.81)
+ipykernel (4.6.1)
+ipython (6.2.0)
+ipython-genutils (0.2.0)
ipywidgets (7.0.0)
isc (1.0)
javapackages (4.6.0)
+jedi (0.11.0)
+Jinja2 (2.9.6)
+jsonschema (2.6.0)
jupyter (1.0.0)
+jupyter-client (5.1.0)
+jupyter-console (5.2.0)
+jupyter-core (4.3.0)
langtable (0.0.35)
lazy-object-proxy (1.2.1)
lxml (3.7.2)
+MarkupSafe (1.0)
+matplotlib (2.1.0)
+mistune (0.7.4)
+nbconvert (5.3.1)
+nbformat (4.4.0)
+notebook (5.1.0)
ntplib (0.3.3)
numpy (1.13.3)
ordered-set (2.0.0)
pandas (0.20.3)
+pandocfilters (1.4.2)
+parso (0.1.0)
+pexpect (4.2.1)
+pickleshare (0.7.4)
pid (2.0.1)
Pillow (3.2.0)
pip (9.0.1)
+prompt-toolkit (1.0.15)
+ptyprocess (0.5.2)
pwquality (1.3.0)
pycups (1.9.72)
pycurl (7.43.0)
pyenchant (1.6.8)
+Pygments (2.2.0)
pygobject (3.20.1)
pygpgme (0.3)
pyinotify (0.9.6)
@@ -42,6 +68,7 @@
pylint (1.5.6)
pyparsing (2.2.0)
pyparted (3.10.7)
+PyQt5 (5.9)
PySocks (1.5.6)
python-augeas (0.5.0)
python-dateutil (2.6.1)
@@ -50,6 +77,9 @@
pytz (2017.2)
pyudev (0.21.0)
pyxdg (0.25)
+pyzmq (16.0.2)
+qtconsole (4.3.1)
+Quamash (0.5.5)
requests (2.10.0)
requests-file (1.4)
requests-ftp (0.3.1)
@@ -60,11 +90,21 @@
sepolicy (1.1)
setroubleshoot (1.1)
setuptools (20.1.1)
+simplegeneric (0.8.1)
+sip (4.19.3)
six (1.11.0)
slip (0.6.4)
slip.dbus (0.6.4)
sos (3.2)
SSSDConfig (1.15.3)
systemd-python (232)
+terminado (0.6)
+testpath (0.3.1)
+tornado (4.5.2)
+traitlets (4.3.2)
+tws-async (0.5.5)
urllib3 (1.15.1)
+wcwidth (0.1.7)
+webencodings (0.5.1)
+widgetsnbextension (3.0.3)
wrapt (1.10.10)

I just removed html5lib from system(root) , but tha made no difference to
the plotting..

···

On Sat, Nov 4, 2017 at 11:09 AM, Andrew Z <formisc at gmail.com> wrote:

hello,
the issue i'm experiencing is local to my laptop ( the other machines i
have run examples just fine).
I described it here https://www.mail-archive.com/python-list at python.org/
msg432343.html in details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output to see
what exactly is happening behind the scene?

Thank you.
AZ

-------------- next part --------------
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URL: <http://mail.python.org/pipermail/matplotlib-users/attachments/20171104/4d302162/attachment.html>

How did you install Tkinter? Have you tested any other backends? Does this
happen for just the head-less "Agg" backend set as default?

···

On Sat, Nov 4, 2017 at 3:35 PM, Andrew Z <formisc at gmail.com> wrote:

more relevant information:
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.__file__
'/home/az/.local/lib/python3.5/site-packages/matplotlib/__init__.py'
>>> matplotlib.get_configdir()
'/home/az/.config/matplotlib'
>>> print(matplotlib.__version__)
2.1.0

now if i get the simplest plot :

[az at hp src]$ more ./main1.py
import matplotlib.pyplot as plt
print("imported")
plt.plot([1,2,4,1])
print("plot is done")
plt.show()
print("show is done")

[az at hp src]$ python3.5 main1.py --verbose-debug
$HOME=/home/az
matplotlib data path /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data
loaded rc file /home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-
data/matplotlibrc
matplotlib version 2.1.0
verbose.level debug
interactive is False
platform is linux
loaded modules: ['_locale', 'urllib.request', 'numpy.lib.shape_base',
'numpy.matrixlib', 'ipaddress', 'hashlib', 'collections',
'numpy.lib.financial', 'atexit', 'numpy.lib._iotools',
'_frozen_importlib_external', 'numpy.polynomial.chebyshev', 'six',
'unittest.runner', '_sitebuiltins', 'numpy.compat', 'numpy.ma.core',
'abrt_exception_handler3', 'codecs', 'sre_constants', 'calendar',
'matplotlib.cbook', 'contextlib', 'heapq', 'ssl', 'dis', 'binascii',
'posixpath', 'cython_runtime', 'traceback', 'numpy.polynomial.laguerre',
'_hashlib', 'zipimport', 'email.utils', '_functools', 'copyreg', 'sys',
'_sre', 'matplotlib.cbook._backports', 'numpy.lib.arraysetops', 'random',
'email.parser', 'numpy.fft.helper', '_collections', 'difflib',
'numpy.lib.scimath', 'unittest', '_sysconfigdata', 'numpy', 'site', '_ast',
'json.scanner', 'os', 'http', 'functools', 'unittest.main', '
numpy.linalg.info', '_heapq', 'token', 'pathlib', 'tokenize', 'cycler',
'encodings.cp437', 'numpy.polynomial.polynomial',
'numpy.polynomial._polybase', 'numpy.lib.mixins', 'ctypes._endian',
'numpy.lib.arraypad', 'numpy.matrixlib.defmatrix', 'distutils.version',
'_signal', 'marshal', 'stat', 'pprint', 'base64', 'logging', 'enum',
'selectors', 'numpy.core', 'json.encoder', 'operator',
'numpy.testing.nosetester', 'matplotlib._version', 'numpy.ctypeslib',
'numpy.add_newdocs', 'unittest.util', '_weakref', 'select',
'importlib._bootstrap_external', 'mtrand', 'importlib._bootstrap',
'matplotlib.rcsetup', 'matplotlib.colors', 'numpy.testing.decorators',
'json', 'numpy.core.machar', 'email.encoders', 'six.moves.urllib',
'matplotlib', 'keyword', 'errno', 'numpy.lib.stride_tricks', '_socket',
'email.quoprimime', 'numpy.ma.extras', 'numbers', 'numpy.version',
'_bisect', '_string', 'numpy.lib.arrayterator', 'numpy.core.umath',
'numpy.lib', '_thread', 'time', '_frozen_importlib', 'numpy.core.info',
'numpy.core.multiarray', 'math', '_opcode', 'urllib.parse',
'distutils.sysconfig', 'ntpath', 'argparse', 'types', 'sre_compile',
'glob', '__main__', 'email._encoded_words', 'socket', '_struct', '
numpy.fft.info', 'unittest.signals', 'numpy.lib.npyio', 'grp',
'urllib.error', '_io', 'numpy._globals', 'gettext', 'numpy.compat.py3k',
'distutils', 'email.charset', 'ast', 'numpy.lib.function_base', 'uu',
'encodings', 'urllib', 'numpy.lib.twodim_base', 'encodings.latin_1',
'tempfile', 'numpy.lib._version', 'numpy.polynomial.polyutils', 'quopri',
'os.path', '_imp', 'email.base64mime', 'email.message', 'email.header',
'opcode', 'encodings.utf_8', 'reprlib', '_stat', '_warnings',
'email.feedparser', 'numpy.testing.utils', 'numpy.lib.utils',
'genericpath', 'numpy.polynomial.hermite', '_compat_pickle', 'bz2',
'_compression', 'subprocess', '_json', 'numpy.lib.nanfunctions', 'inspect',
'sysconfig', '_operator', 'shutil', 'pwd', 'warnings', '_ctypes',
'_random', 'email.iterators', '_collections_abc', '__future__', 'email',
'numpy._distributor_init', 'unittest.loader', '_bootlocale',
'numpy.core.records', 'fnmatch', '_posixsubprocess', 'numpy._import_tools',
'numpy.lib.format', '_lzma', 'numpy.core.arrayprint', 'json.decoder',
'signal', 'gzip', 'posix', 'textwrap', 'numpy.fft.fftpack',
'importlib.machinery', 'lzma', 'struct', 'pickle', '_codecs',
'numpy.core.einsumfunc', 'itertools', 'numpy.core.shape_base',
'encodings.aliases', 'numpy.lib.index_tricks', 'numpy.random.info',
'numpy.linalg._umath_linalg', 'matplotlib.fontconfig_pattern',
'six.moves.urllib.request', '_weakrefset', 'distutils.errors', 'io',
'locale', 'email.errors', 'numpy.core.numerictypes',
'numpy.compat._inspect', 'zlib', 'numpy.polynomial.hermite_e',
'numpy.lib.type_check', 'mpl_toolkits', 'numpy.fft.fftpack_lite', 'bisect',
'dateutil', 'numpy.polynomial', 'collections.abc', '_bz2', 'weakref',
'numpy.lib.ufunclike', 'numpy.core.function_base', 'abc', 'six.moves',
'numpy.linalg', 'numpy.polynomial.legendre', 'numpy.core.defchararray',
'numpy.linalg.lapack_lite', 'numpy.core._internal', 'importlib',
'unittest.suite', 'unittest.case', 'numpy.core.memmap', 'email._parseaddr',
'_pickle', '_ssl', 'matplotlib.compat.subprocess', 'numpy.random',
'datetime', 'email._policybase', 'sre_parse', 'numpy.linalg.linalg',
'copy', 'numpy.lib._datasource', 'numpy.core._methods', 'linecache',
'matplotlib.compat', 'numpy.testing', 'numpy.__config__',
'unittest.result', 're', 'http.client', 'numpy.lib.info',
'numpy.core.fromnumeric', 'numpy.core.getlimits', 'matplotlib._color_data',
'urllib.response', 'pyparsing', 'numpy.lib.polynomial', 'threading',
'string', 'numpy.core.numeric', 'numpy.ma', 'numpy.fft', 'ctypes',
'numpy.random.mtrand', 'matplotlib.cbook.deprecation', '_datetime',
'builtins']
CACHEDIR=/home/az/.cache/matplotlib
Using fontManager instance from /home/az/.cache/matplotlib/fontList.json
backend TkAgg version 8.6
imported
^C
Hangs at this point with CPU @ 100%

grep -v '#' /home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-
data/matplotlibrc

The only line is :
backend : TkAgg

[az at hp src]$ gcc --version
gcc (GCC) 6.3.1 20161221 (Red Hat 6.3.1-1)

I installed using pip3 into --user directory.
but i also remember that i used dnf to get tkInnter installed:
rpm -qa | grep tkin
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
tix-1:8.4.3-17.fc24.x86_64
if i were to compare "pip3 list" between system (root) and the user (az):
diff -u /tmp/root_pip /tmp/usr_pip
--- /tmp/root_pip 2017-11-04 15:26:09.612643559 -0400
+++ /tmp/usr_pip 2017-11-04 15:25:52.396473226 -0400
@@ -1,39 +1,65 @@
astroid (1.4.5)
beautifulsoup4 (4.6.0)
+bleach (2.1)
blivet (1.20.3)
chardet (2.2.1)
coverage (4.4.1)
cssselect (0.9.1)
cupshelpers (1.0)
+cx-Oracle (6.0.2)
cycler (0.10.0)
decorator (4.0.11)
distro (1.0.2)
dnf-langpacks (0.15.1)
+entrypoints (0.2.3)
fros (1.1)
-html5lib (0.999)
+html5lib (1.0b10)
humanize (0.5.1)
ib-insync (0.8.5)
+ibapi (9.73.2)
iniparse (0.4)
initial-setup (0.3.40)
IPy (0.81)
+ipykernel (4.6.1)
+ipython (6.2.0)
+ipython-genutils (0.2.0)
ipywidgets (7.0.0)
isc (1.0)
javapackages (4.6.0)
+jedi (0.11.0)
+Jinja2 (2.9.6)
+jsonschema (2.6.0)
jupyter (1.0.0)
+jupyter-client (5.1.0)
+jupyter-console (5.2.0)
+jupyter-core (4.3.0)
langtable (0.0.35)
lazy-object-proxy (1.2.1)
lxml (3.7.2)
+MarkupSafe (1.0)
+matplotlib (2.1.0)
+mistune (0.7.4)
+nbconvert (5.3.1)
+nbformat (4.4.0)
+notebook (5.1.0)
ntplib (0.3.3)
numpy (1.13.3)
ordered-set (2.0.0)
pandas (0.20.3)
+pandocfilters (1.4.2)
+parso (0.1.0)
+pexpect (4.2.1)
+pickleshare (0.7.4)
pid (2.0.1)
Pillow (3.2.0)
pip (9.0.1)
+prompt-toolkit (1.0.15)
+ptyprocess (0.5.2)
pwquality (1.3.0)
pycups (1.9.72)
pycurl (7.43.0)
pyenchant (1.6.8)
+Pygments (2.2.0)
pygobject (3.20.1)
pygpgme (0.3)
pyinotify (0.9.6)
@@ -42,6 +68,7 @@
pylint (1.5.6)
pyparsing (2.2.0)
pyparted (3.10.7)
+PyQt5 (5.9)
PySocks (1.5.6)
python-augeas (0.5.0)
python-dateutil (2.6.1)
@@ -50,6 +77,9 @@
pytz (2017.2)
pyudev (0.21.0)
pyxdg (0.25)
+pyzmq (16.0.2)
+qtconsole (4.3.1)
+Quamash (0.5.5)
requests (2.10.0)
requests-file (1.4)
requests-ftp (0.3.1)
@@ -60,11 +90,21 @@
sepolicy (1.1)
setroubleshoot (1.1)
setuptools (20.1.1)
+simplegeneric (0.8.1)
+sip (4.19.3)
six (1.11.0)
slip (0.6.4)
slip.dbus (0.6.4)
sos (3.2)
SSSDConfig (1.15.3)
systemd-python (232)
+terminado (0.6)
+testpath (0.3.1)
+tornado (4.5.2)
+traitlets (4.3.2)
+tws-async (0.5.5)
urllib3 (1.15.1)
+wcwidth (0.1.7)
+webencodings (0.5.1)
+widgetsnbextension (3.0.3)
wrapt (1.10.10)

I just removed html5lib from system(root) , but tha made no difference to
the plotting..

On Sat, Nov 4, 2017 at 11:09 AM, Andrew Z <formisc at gmail.com> wrote:

hello,
the issue i'm experiencing is local to my laptop ( the other machines i
have run examples just fine).
I described it here https://www.mail-archive.com/p
ython-list at python.org/msg432343.html in details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output to see
what exactly is happening behind the scene?

Thank you.
AZ

_______________________________________________
Matplotlib-users mailing list
Matplotlib-users at python.org
https://mail.python.org/mailman/listinfo/matplotlib-users

-------------- next part --------------
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Tkinter was most likely installed as part of rpm install.
Backends - not really. I do know that with mpld3and agg the scripts hang.
Ihave reinstalled matplot using rpm ( rpm comes only in 1.5 version) and
with pip3.
Today i tried on the office machine (fedora 25). Rpm brings only matplot1.5.

maybe 2 installed locally using pip3 messes with 1.5 leftover or libraries.
Not sure how to validate this idea though..
Probably unrelated:
In pycharm pyplot is not been recognized as part of matplotlib when i
"import matplotlib.pyplot. yet the script doesnt crash on import
statement...

How did you install Tkinter? Have you tested any other backends? Does this
happen for just the head-less "Agg" backend set as default?

···

On Nov 6, 2017 15:13, "Benjamin Root" <ben.v.root at gmail.com> wrote:

On Sat, Nov 4, 2017 at 3:35 PM, Andrew Z <formisc at gmail.com> wrote:

more relevant information:
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.__file__
'/home/az/.local/lib/python3.5/site-packages/matplotlib/__init__.py'
>>> matplotlib.get_configdir()
'/home/az/.config/matplotlib'
>>> print(matplotlib.__version__)
2.1.0

now if i get the simplest plot :

[az at hp src]$ more ./main1.py
import matplotlib.pyplot as plt
print("imported")
plt.plot([1,2,4,1])
print("plot is done")
plt.show()
print("show is done")

[az at hp src]$ python3.5 main1.py --verbose-debug
$HOME=/home/az
matplotlib data path /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data
loaded rc file /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc
matplotlib version 2.1.0
verbose.level debug
interactive is False
platform is linux
loaded modules: ['_locale', 'urllib.request', 'numpy.lib.shape_base',
'numpy.matrixlib', 'ipaddress', 'hashlib', 'collections',
'numpy.lib.financial', 'atexit', 'numpy.lib._iotools',
'_frozen_importlib_external', 'numpy.polynomial.chebyshev', 'six',
'unittest.runner', '_sitebuiltins', 'numpy.compat', 'numpy.ma.core',
'abrt_exception_handler3', 'codecs', 'sre_constants', 'calendar',
'matplotlib.cbook', 'contextlib', 'heapq', 'ssl', 'dis', 'binascii',
'posixpath', 'cython_runtime', 'traceback', 'numpy.polynomial.laguerre',
'_hashlib', 'zipimport', 'email.utils', '_functools', 'copyreg', 'sys',
'_sre', 'matplotlib.cbook._backports', 'numpy.lib.arraysetops', 'random',
'email.parser', 'numpy.fft.helper', '_collections', 'difflib',
'numpy.lib.scimath', 'unittest', '_sysconfigdata', 'numpy', 'site', '_ast',
'json.scanner', 'os', 'http', 'functools', 'unittest.main', '
numpy.linalg.info', '_heapq', 'token', 'pathlib', 'tokenize', 'cycler',
'encodings.cp437', 'numpy.polynomial.polynomial',
'numpy.polynomial._polybase', 'numpy.lib.mixins', 'ctypes._endian',
'numpy.lib.arraypad', 'numpy.matrixlib.defmatrix', 'distutils.version',
'_signal', 'marshal', 'stat', 'pprint', 'base64', 'logging', 'enum',
'selectors', 'numpy.core', 'json.encoder', 'operator',
'numpy.testing.nosetester', 'matplotlib._version', 'numpy.ctypeslib',
'numpy.add_newdocs', 'unittest.util', '_weakref', 'select',
'importlib._bootstrap_external', 'mtrand', 'importlib._bootstrap',
'matplotlib.rcsetup', 'matplotlib.colors', 'numpy.testing.decorators',
'json', 'numpy.core.machar', 'email.encoders', 'six.moves.urllib',
'matplotlib', 'keyword', 'errno', 'numpy.lib.stride_tricks', '_socket',
'email.quoprimime', 'numpy.ma.extras', 'numbers', 'numpy.version',
'_bisect', '_string', 'numpy.lib.arrayterator', 'numpy.core.umath',
'numpy.lib', '_thread', 'time', '_frozen_importlib', 'numpy.core.info',
'numpy.core.multiarray', 'math', '_opcode', 'urllib.parse',
'distutils.sysconfig', 'ntpath', 'argparse', 'types', 'sre_compile',
'glob', '__main__', 'email._encoded_words', 'socket', '_struct', '
numpy.fft.info', 'unittest.signals', 'numpy.lib.npyio', 'grp',
'urllib.error', '_io', 'numpy._globals', 'gettext', 'numpy.compat.py3k',
'distutils', 'email.charset', 'ast', 'numpy.lib.function_base', 'uu',
'encodings', 'urllib', 'numpy.lib.twodim_base', 'encodings.latin_1',
'tempfile', 'numpy.lib._version', 'numpy.polynomial.polyutils', 'quopri',
'os.path', '_imp', 'email.base64mime', 'email.message', 'email.header',
'opcode', 'encodings.utf_8', 'reprlib', '_stat', '_warnings',
'email.feedparser', 'numpy.testing.utils', 'numpy.lib.utils',
'genericpath', 'numpy.polynomial.hermite', '_compat_pickle', 'bz2',
'_compression', 'subprocess', '_json', 'numpy.lib.nanfunctions', 'inspect',
'sysconfig', '_operator', 'shutil', 'pwd', 'warnings', '_ctypes',
'_random', 'email.iterators', '_collections_abc', '__future__', 'email',
'numpy._distributor_init', 'unittest.loader', '_bootlocale',
'numpy.core.records', 'fnmatch', '_posixsubprocess', 'numpy._import_tools',
'numpy.lib.format', '_lzma', 'numpy.core.arrayprint', 'json.decoder',
'signal', 'gzip', 'posix', 'textwrap', 'numpy.fft.fftpack',
'importlib.machinery', 'lzma', 'struct', 'pickle', '_codecs',
'numpy.core.einsumfunc', 'itertools', 'numpy.core.shape_base',
'encodings.aliases', 'numpy.lib.index_tricks', 'numpy.random.info',
'numpy.linalg._umath_linalg', 'matplotlib.fontconfig_pattern',
'six.moves.urllib.request', '_weakrefset', 'distutils.errors', 'io',
'locale', 'email.errors', 'numpy.core.numerictypes',
'numpy.compat._inspect', 'zlib', 'numpy.polynomial.hermite_e',
'numpy.lib.type_check', 'mpl_toolkits', 'numpy.fft.fftpack_lite', 'bisect',
'dateutil', 'numpy.polynomial', 'collections.abc', '_bz2', 'weakref',
'numpy.lib.ufunclike', 'numpy.core.function_base', 'abc', 'six.moves',
'numpy.linalg', 'numpy.polynomial.legendre', 'numpy.core.defchararray',
'numpy.linalg.lapack_lite', 'numpy.core._internal', 'importlib',
'unittest.suite', 'unittest.case', 'numpy.core.memmap', 'email._parseaddr',
'_pickle', '_ssl', 'matplotlib.compat.subprocess', 'numpy.random',
'datetime', 'email._policybase', 'sre_parse', 'numpy.linalg.linalg',
'copy', 'numpy.lib._datasource', 'numpy.core._methods', 'linecache',
'matplotlib.compat', 'numpy.testing', 'numpy.__config__',
'unittest.result', 're', 'http.client', 'numpy.lib.info',
'numpy.core.fromnumeric', 'numpy.core.getlimits', 'matplotlib._color_data',
'urllib.response', 'pyparsing', 'numpy.lib.polynomial', 'threading',
'string', 'numpy.core.numeric', 'numpy.ma', 'numpy.fft', 'ctypes',
'numpy.random.mtrand', 'matplotlib.cbook.deprecation', '_datetime',
'builtins']
CACHEDIR=/home/az/.cache/matplotlib
Using fontManager instance from /home/az/.cache/matplotlib/fontList.json
backend TkAgg version 8.6
imported
^C
Hangs at this point with CPU @ 100%

grep -v '#' /home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-d
ata/matplotlibrc

The only line is :
backend : TkAgg

[az at hp src]$ gcc --version
gcc (GCC) 6.3.1 20161221 (Red Hat 6.3.1-1)

I installed using pip3 into --user directory.
but i also remember that i used dnf to get tkInnter installed:
rpm -qa | grep tkin
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
tix-1:8.4.3-17.fc24.x86_64
if i were to compare "pip3 list" between system (root) and the user (az):
diff -u /tmp/root_pip /tmp/usr_pip
--- /tmp/root_pip 2017-11-04 15:26:09.612643559 -0400
+++ /tmp/usr_pip 2017-11-04 15:25:52.396473226 -0400
@@ -1,39 +1,65 @@
astroid (1.4.5)
beautifulsoup4 (4.6.0)
+bleach (2.1)
blivet (1.20.3)
chardet (2.2.1)
coverage (4.4.1)
cssselect (0.9.1)
cupshelpers (1.0)
+cx-Oracle (6.0.2)
cycler (0.10.0)
decorator (4.0.11)
distro (1.0.2)
dnf-langpacks (0.15.1)
+entrypoints (0.2.3)
fros (1.1)
-html5lib (0.999)
+html5lib (1.0b10)
humanize (0.5.1)
ib-insync (0.8.5)
+ibapi (9.73.2)
iniparse (0.4)
initial-setup (0.3.40)
IPy (0.81)
+ipykernel (4.6.1)
+ipython (6.2.0)
+ipython-genutils (0.2.0)
ipywidgets (7.0.0)
isc (1.0)
javapackages (4.6.0)
+jedi (0.11.0)
+Jinja2 (2.9.6)
+jsonschema (2.6.0)
jupyter (1.0.0)
+jupyter-client (5.1.0)
+jupyter-console (5.2.0)
+jupyter-core (4.3.0)
langtable (0.0.35)
lazy-object-proxy (1.2.1)
lxml (3.7.2)
+MarkupSafe (1.0)
+matplotlib (2.1.0)
+mistune (0.7.4)
+nbconvert (5.3.1)
+nbformat (4.4.0)
+notebook (5.1.0)
ntplib (0.3.3)
numpy (1.13.3)
ordered-set (2.0.0)
pandas (0.20.3)
+pandocfilters (1.4.2)
+parso (0.1.0)
+pexpect (4.2.1)
+pickleshare (0.7.4)
pid (2.0.1)
Pillow (3.2.0)
pip (9.0.1)
+prompt-toolkit (1.0.15)
+ptyprocess (0.5.2)
pwquality (1.3.0)
pycups (1.9.72)
pycurl (7.43.0)
pyenchant (1.6.8)
+Pygments (2.2.0)
pygobject (3.20.1)
pygpgme (0.3)
pyinotify (0.9.6)
@@ -42,6 +68,7 @@
pylint (1.5.6)
pyparsing (2.2.0)
pyparted (3.10.7)
+PyQt5 (5.9)
PySocks (1.5.6)
python-augeas (0.5.0)
python-dateutil (2.6.1)
@@ -50,6 +77,9 @@
pytz (2017.2)
pyudev (0.21.0)
pyxdg (0.25)
+pyzmq (16.0.2)
+qtconsole (4.3.1)
+Quamash (0.5.5)
requests (2.10.0)
requests-file (1.4)
requests-ftp (0.3.1)
@@ -60,11 +90,21 @@
sepolicy (1.1)
setroubleshoot (1.1)
setuptools (20.1.1)
+simplegeneric (0.8.1)
+sip (4.19.3)
six (1.11.0)
slip (0.6.4)
slip.dbus (0.6.4)
sos (3.2)
SSSDConfig (1.15.3)
systemd-python (232)
+terminado (0.6)
+testpath (0.3.1)
+tornado (4.5.2)
+traitlets (4.3.2)
+tws-async (0.5.5)
urllib3 (1.15.1)
+wcwidth (0.1.7)
+webencodings (0.5.1)
+widgetsnbextension (3.0.3)
wrapt (1.10.10)

I just removed html5lib from system(root) , but tha made no difference to
the plotting..

On Sat, Nov 4, 2017 at 11:09 AM, Andrew Z <formisc at gmail.com> wrote:

hello,
the issue i'm experiencing is local to my laptop ( the other machines i
have run examples just fine).
I described it here https://www.mail-archive.com/p
ython-list at python.org/msg432343.html in details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output to see
what exactly is happening behind the scene?

Thank you.
AZ

_______________________________________________
Matplotlib-users mailing list
Matplotlib-users at python.org
https://mail.python.org/mailman/listinfo/matplotlib-users

-------------- next part --------------
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Just to make absolutely clear, you set the default backend in your
matplotlibrc file to "agg" and it still hung on you? If that is the case,
then the problem isn't tkinter.

Some possibilities are

1) a massive font database that matplotlib is trying to build a cache for
2) import of matplotlib from somewhere else unexpected (which would explain
pycharm's behavior), and that file/module is misbehaving. We have seen
instances in the past where users would name their plotting porting of
their code "matplotlib.py" or "pylab.py" or some such, and then start to
wonder why their code doesn't work properly.

Have you looked to see if there are other programs that are running during
the import stage? One thing matplotlib does for the first import is to
create a font cache, and it does this by using some fc-list program, iirc.
This can take a long time on some machines that have adobe's font
collection installed, for example, but that is usually a Windows thing....

Ben Root

···

On Mon, Nov 6, 2017 at 4:09 PM, Andrew Z <formisc at gmail.com> wrote:

Tkinter was most likely installed as part of rpm install.
Backends - not really. I do know that with mpld3and agg the scripts hang.
Ihave reinstalled matplot using rpm ( rpm comes only in 1.5 version) and
with pip3.
Today i tried on the office machine (fedora 25). Rpm brings only
matplot1.5.

maybe 2 installed locally using pip3 messes with 1.5 leftover or libraries.
Not sure how to validate this idea though..
Probably unrelated:
In pycharm pyplot is not been recognized as part of matplotlib when i
"import matplotlib.pyplot. yet the script doesnt crash on import
statement...

On Nov 6, 2017 15:13, "Benjamin Root" <ben.v.root at gmail.com> wrote:

How did you install Tkinter? Have you tested any other backends? Does this
happen for just the head-less "Agg" backend set as default?

On Sat, Nov 4, 2017 at 3:35 PM, Andrew Z <formisc at gmail.com> wrote:

more relevant information:
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.__file__
'/home/az/.local/lib/python3.5/site-packages/matplotlib/__init__.py'
>>> matplotlib.get_configdir()
'/home/az/.config/matplotlib'
>>> print(matplotlib.__version__)
2.1.0

now if i get the simplest plot :

[az at hp src]$ more ./main1.py
import matplotlib.pyplot as plt
print("imported")
plt.plot([1,2,4,1])
print("plot is done")
plt.show()
print("show is done")

[az at hp src]$ python3.5 main1.py --verbose-debug
$HOME=/home/az
matplotlib data path /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data
loaded rc file /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc
matplotlib version 2.1.0
verbose.level debug
interactive is False
platform is linux
loaded modules: ['_locale', 'urllib.request', 'numpy.lib.shape_base',
'numpy.matrixlib', 'ipaddress', 'hashlib', 'collections',
'numpy.lib.financial', 'atexit', 'numpy.lib._iotools',
'_frozen_importlib_external', 'numpy.polynomial.chebyshev', 'six',
'unittest.runner', '_sitebuiltins', 'numpy.compat', 'numpy.ma.core',
'abrt_exception_handler3', 'codecs', 'sre_constants', 'calendar',
'matplotlib.cbook', 'contextlib', 'heapq', 'ssl', 'dis', 'binascii',
'posixpath', 'cython_runtime', 'traceback', 'numpy.polynomial.laguerre',
'_hashlib', 'zipimport', 'email.utils', '_functools', 'copyreg', 'sys',
'_sre', 'matplotlib.cbook._backports', 'numpy.lib.arraysetops', 'random',
'email.parser', 'numpy.fft.helper', '_collections', 'difflib',
'numpy.lib.scimath', 'unittest', '_sysconfigdata', 'numpy', 'site', '_ast',
'json.scanner', 'os', 'http', 'functools', 'unittest.main', '
numpy.linalg.info', '_heapq', 'token', 'pathlib', 'tokenize', 'cycler',
'encodings.cp437', 'numpy.polynomial.polynomial',
'numpy.polynomial._polybase', 'numpy.lib.mixins', 'ctypes._endian',
'numpy.lib.arraypad', 'numpy.matrixlib.defmatrix', 'distutils.version',
'_signal', 'marshal', 'stat', 'pprint', 'base64', 'logging', 'enum',
'selectors', 'numpy.core', 'json.encoder', 'operator',
'numpy.testing.nosetester', 'matplotlib._version', 'numpy.ctypeslib',
'numpy.add_newdocs', 'unittest.util', '_weakref', 'select',
'importlib._bootstrap_external', 'mtrand', 'importlib._bootstrap',
'matplotlib.rcsetup', 'matplotlib.colors', 'numpy.testing.decorators',
'json', 'numpy.core.machar', 'email.encoders', 'six.moves.urllib',
'matplotlib', 'keyword', 'errno', 'numpy.lib.stride_tricks', '_socket',
'email.quoprimime', 'numpy.ma.extras', 'numbers', 'numpy.version',
'_bisect', '_string', 'numpy.lib.arrayterator', 'numpy.core.umath',
'numpy.lib', '_thread', 'time', '_frozen_importlib', 'numpy.core.info',
'numpy.core.multiarray', 'math', '_opcode', 'urllib.parse',
'distutils.sysconfig', 'ntpath', 'argparse', 'types', 'sre_compile',
'glob', '__main__', 'email._encoded_words', 'socket', '_struct', '
numpy.fft.info', 'unittest.signals', 'numpy.lib.npyio', 'grp',
'urllib.error', '_io', 'numpy._globals', 'gettext', 'numpy.compat.py3k',
'distutils', 'email.charset', 'ast', 'numpy.lib.function_base', 'uu',
'encodings', 'urllib', 'numpy.lib.twodim_base', 'encodings.latin_1',
'tempfile', 'numpy.lib._version', 'numpy.polynomial.polyutils', 'quopri',
'os.path', '_imp', 'email.base64mime', 'email.message', 'email.header',
'opcode', 'encodings.utf_8', 'reprlib', '_stat', '_warnings',
'email.feedparser', 'numpy.testing.utils', 'numpy.lib.utils',
'genericpath', 'numpy.polynomial.hermite', '_compat_pickle', 'bz2',
'_compression', 'subprocess', '_json', 'numpy.lib.nanfunctions', 'inspect',
'sysconfig', '_operator', 'shutil', 'pwd', 'warnings', '_ctypes',
'_random', 'email.iterators', '_collections_abc', '__future__', 'email',
'numpy._distributor_init', 'unittest.loader', '_bootlocale',
'numpy.core.records', 'fnmatch', '_posixsubprocess', 'numpy._import_tools',
'numpy.lib.format', '_lzma', 'numpy.core.arrayprint', 'json.decoder',
'signal', 'gzip', 'posix', 'textwrap', 'numpy.fft.fftpack',
'importlib.machinery', 'lzma', 'struct', 'pickle', '_codecs',
'numpy.core.einsumfunc', 'itertools', 'numpy.core.shape_base',
'encodings.aliases', 'numpy.lib.index_tricks', 'numpy.random.info',
'numpy.linalg._umath_linalg', 'matplotlib.fontconfig_pattern',
'six.moves.urllib.request', '_weakrefset', 'distutils.errors', 'io',
'locale', 'email.errors', 'numpy.core.numerictypes',
'numpy.compat._inspect', 'zlib', 'numpy.polynomial.hermite_e',
'numpy.lib.type_check', 'mpl_toolkits', 'numpy.fft.fftpack_lite', 'bisect',
'dateutil', 'numpy.polynomial', 'collections.abc', '_bz2', 'weakref',
'numpy.lib.ufunclike', 'numpy.core.function_base', 'abc', 'six.moves',
'numpy.linalg', 'numpy.polynomial.legendre', 'numpy.core.defchararray',
'numpy.linalg.lapack_lite', 'numpy.core._internal', 'importlib',
'unittest.suite', 'unittest.case', 'numpy.core.memmap', 'email._parseaddr',
'_pickle', '_ssl', 'matplotlib.compat.subprocess', 'numpy.random',
'datetime', 'email._policybase', 'sre_parse', 'numpy.linalg.linalg',
'copy', 'numpy.lib._datasource', 'numpy.core._methods', 'linecache',
'matplotlib.compat', 'numpy.testing', 'numpy.__config__',
'unittest.result', 're', 'http.client', 'numpy.lib.info',
'numpy.core.fromnumeric', 'numpy.core.getlimits', 'matplotlib._color_data',
'urllib.response', 'pyparsing', 'numpy.lib.polynomial', 'threading',
'string', 'numpy.core.numeric', 'numpy.ma', 'numpy.fft', 'ctypes',
'numpy.random.mtrand', 'matplotlib.cbook.deprecation', '_datetime',
'builtins']
CACHEDIR=/home/az/.cache/matplotlib
Using fontManager instance from /home/az/.cache/matplotlib/fontList.json
backend TkAgg version 8.6
imported
^C
Hangs at this point with CPU @ 100%

grep -v '#' /home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-d
ata/matplotlibrc

The only line is :
backend : TkAgg

[az at hp src]$ gcc --version
gcc (GCC) 6.3.1 20161221 (Red Hat 6.3.1-1)

I installed using pip3 into --user directory.
but i also remember that i used dnf to get tkInnter installed:
rpm -qa | grep tkin
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
tix-1:8.4.3-17.fc24.x86_64
if i were to compare "pip3 list" between system (root) and the user (az):
diff -u /tmp/root_pip /tmp/usr_pip
--- /tmp/root_pip 2017-11-04 15:26:09.612643559 -0400
+++ /tmp/usr_pip 2017-11-04 15:25:52.396473226 -0400
@@ -1,39 +1,65 @@
astroid (1.4.5)
beautifulsoup4 (4.6.0)
+bleach (2.1)
blivet (1.20.3)
chardet (2.2.1)
coverage (4.4.1)
cssselect (0.9.1)
cupshelpers (1.0)
+cx-Oracle (6.0.2)
cycler (0.10.0)
decorator (4.0.11)
distro (1.0.2)
dnf-langpacks (0.15.1)
+entrypoints (0.2.3)
fros (1.1)
-html5lib (0.999)
+html5lib (1.0b10)
humanize (0.5.1)
ib-insync (0.8.5)
+ibapi (9.73.2)
iniparse (0.4)
initial-setup (0.3.40)
IPy (0.81)
+ipykernel (4.6.1)
+ipython (6.2.0)
+ipython-genutils (0.2.0)
ipywidgets (7.0.0)
isc (1.0)
javapackages (4.6.0)
+jedi (0.11.0)
+Jinja2 (2.9.6)
+jsonschema (2.6.0)
jupyter (1.0.0)
+jupyter-client (5.1.0)
+jupyter-console (5.2.0)
+jupyter-core (4.3.0)
langtable (0.0.35)
lazy-object-proxy (1.2.1)
lxml (3.7.2)
+MarkupSafe (1.0)
+matplotlib (2.1.0)
+mistune (0.7.4)
+nbconvert (5.3.1)
+nbformat (4.4.0)
+notebook (5.1.0)
ntplib (0.3.3)
numpy (1.13.3)
ordered-set (2.0.0)
pandas (0.20.3)
+pandocfilters (1.4.2)
+parso (0.1.0)
+pexpect (4.2.1)
+pickleshare (0.7.4)
pid (2.0.1)
Pillow (3.2.0)
pip (9.0.1)
+prompt-toolkit (1.0.15)
+ptyprocess (0.5.2)
pwquality (1.3.0)
pycups (1.9.72)
pycurl (7.43.0)
pyenchant (1.6.8)
+Pygments (2.2.0)
pygobject (3.20.1)
pygpgme (0.3)
pyinotify (0.9.6)
@@ -42,6 +68,7 @@
pylint (1.5.6)
pyparsing (2.2.0)
pyparted (3.10.7)
+PyQt5 (5.9)
PySocks (1.5.6)
python-augeas (0.5.0)
python-dateutil (2.6.1)
@@ -50,6 +77,9 @@
pytz (2017.2)
pyudev (0.21.0)
pyxdg (0.25)
+pyzmq (16.0.2)
+qtconsole (4.3.1)
+Quamash (0.5.5)
requests (2.10.0)
requests-file (1.4)
requests-ftp (0.3.1)
@@ -60,11 +90,21 @@
sepolicy (1.1)
setroubleshoot (1.1)
setuptools (20.1.1)
+simplegeneric (0.8.1)
+sip (4.19.3)
six (1.11.0)
slip (0.6.4)
slip.dbus (0.6.4)
sos (3.2)
SSSDConfig (1.15.3)
systemd-python (232)
+terminado (0.6)
+testpath (0.3.1)
+tornado (4.5.2)
+traitlets (4.3.2)
+tws-async (0.5.5)
urllib3 (1.15.1)
+wcwidth (0.1.7)
+webencodings (0.5.1)
+widgetsnbextension (3.0.3)
wrapt (1.10.10)

I just removed html5lib from system(root) , but tha made no difference to
the plotting..

On Sat, Nov 4, 2017 at 11:09 AM, Andrew Z <formisc at gmail.com> wrote:

hello,
the issue i'm experiencing is local to my laptop ( the other machines i
have run examples just fine).
I described it here https://www.mail-archive.com/p
ython-list at python.org/msg432343.html in details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output to
see what exactly is happening behind the scene?

Thank you.
AZ

_______________________________________________
Matplotlib-users mailing list
Matplotlib-users at python.org
https://mail.python.org/mailman/listinfo/matplotlib-users

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backend in your matplotlibrc file to "agg" and it still hung on you?

Yes. I can confirm that

Some possibilities are
...."matplotlib.py" or "pylab.py" or some such, and then start to wonder

why their code doesn't work properly.

I used pycharms "scratch files" and typed directly in the interpreter-
always same result. I saw this naming issue whileresearching my problem. My
file is plot.py and works perfectly fine on any other machine but
this.(drives me mad, honestly). Directory is /home/az/work/nja/src. Also
consistent across machines (minus username)

Have you looked to see if there are other programs that are running during

the import stage?

Im not sure what do you mean?
I have a xwindow terminal , nothing but Firefox is up.(well a tons of
regular background processes).

···

On Nov 6, 2017 16:18, "Benjamin Root" <ben.v.root at gmail.com> wrote:

Just to make absolutely clear, you set the default backend in your
matplotlibrc file to "agg" and it still hung on you? If that is the case,
then the problem isn't tkinter.

Some possibilities are

1) a massive font database that matplotlib is trying to build a cache for
2) import of matplotlib from somewhere else unexpected (which would
explain pycharm's behavior), and that file/module is misbehaving. We have
seen instances in the past where users would name their plotting porting of
their code "matplotlib.py" or "pylab.py" or some such, and then start to
wonder why their code doesn't work properly.

Have you looked to see if there are other programs that are running during
the import stage? One thing matplotlib does for the first import is to
create a font cache, and it does this by using some fc-list program, iirc.
This can take a long time on some machines that have adobe's font
collection installed, for example, but that is usually a Windows thing....

Ben Root

On Mon, Nov 6, 2017 at 4:09 PM, Andrew Z <formisc at gmail.com> wrote:

Tkinter was most likely installed as part of rpm install.
Backends - not really. I do know that with mpld3and agg the scripts hang.
Ihave reinstalled matplot using rpm ( rpm comes only in 1.5 version) and
with pip3.
Today i tried on the office machine (fedora 25). Rpm brings only
matplot1.5.

maybe 2 installed locally using pip3 messes with 1.5 leftover or
libraries.
Not sure how to validate this idea though..
Probably unrelated:
In pycharm pyplot is not been recognized as part of matplotlib when i
"import matplotlib.pyplot. yet the script doesnt crash on import
statement...

On Nov 6, 2017 15:13, "Benjamin Root" <ben.v.root at gmail.com> wrote:

How did you install Tkinter? Have you tested any other backends? Does
this happen for just the head-less "Agg" backend set as default?

On Sat, Nov 4, 2017 at 3:35 PM, Andrew Z <formisc at gmail.com> wrote:

more relevant information:
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.__file__
'/home/az/.local/lib/python3.5/site-packages/matplotlib/__init__.py'
>>> matplotlib.get_configdir()
'/home/az/.config/matplotlib'
>>> print(matplotlib.__version__)
2.1.0

now if i get the simplest plot :

[az at hp src]$ more ./main1.py
import matplotlib.pyplot as plt
print("imported")
plt.plot([1,2,4,1])
print("plot is done")
plt.show()
print("show is done")

[az at hp src]$ python3.5 main1.py --verbose-debug
$HOME=/home/az
matplotlib data path /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data
loaded rc file /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc
matplotlib version 2.1.0
verbose.level debug
interactive is False
platform is linux
loaded modules: ['_locale', 'urllib.request', 'numpy.lib.shape_base',
'numpy.matrixlib', 'ipaddress', 'hashlib', 'collections',
'numpy.lib.financial', 'atexit', 'numpy.lib._iotools',
'_frozen_importlib_external', 'numpy.polynomial.chebyshev', 'six',
'unittest.runner', '_sitebuiltins', 'numpy.compat', 'numpy.ma.core',
'abrt_exception_handler3', 'codecs', 'sre_constants', 'calendar',
'matplotlib.cbook', 'contextlib', 'heapq', 'ssl', 'dis', 'binascii',
'posixpath', 'cython_runtime', 'traceback', 'numpy.polynomial.laguerre',
'_hashlib', 'zipimport', 'email.utils', '_functools', 'copyreg', 'sys',
'_sre', 'matplotlib.cbook._backports', 'numpy.lib.arraysetops', 'random',
'email.parser', 'numpy.fft.helper', '_collections', 'difflib',
'numpy.lib.scimath', 'unittest', '_sysconfigdata', 'numpy', 'site', '_ast',
'json.scanner', 'os', 'http', 'functools', 'unittest.main', '
numpy.linalg.info', '_heapq', 'token', 'pathlib', 'tokenize', 'cycler',
'encodings.cp437', 'numpy.polynomial.polynomial',
'numpy.polynomial._polybase', 'numpy.lib.mixins', 'ctypes._endian',
'numpy.lib.arraypad', 'numpy.matrixlib.defmatrix', 'distutils.version',
'_signal', 'marshal', 'stat', 'pprint', 'base64', 'logging', 'enum',
'selectors', 'numpy.core', 'json.encoder', 'operator',
'numpy.testing.nosetester', 'matplotlib._version', 'numpy.ctypeslib',
'numpy.add_newdocs', 'unittest.util', '_weakref', 'select',
'importlib._bootstrap_external', 'mtrand', 'importlib._bootstrap',
'matplotlib.rcsetup', 'matplotlib.colors', 'numpy.testing.decorators',
'json', 'numpy.core.machar', 'email.encoders', 'six.moves.urllib',
'matplotlib', 'keyword', 'errno', 'numpy.lib.stride_tricks', '_socket',
'email.quoprimime', 'numpy.ma.extras', 'numbers', 'numpy.version',
'_bisect', '_string', 'numpy.lib.arrayterator', 'numpy.core.umath',
'numpy.lib', '_thread', 'time', '_frozen_importlib', 'numpy.core.info',
'numpy.core.multiarray', 'math', '_opcode', 'urllib.parse',
'distutils.sysconfig', 'ntpath', 'argparse', 'types', 'sre_compile',
'glob', '__main__', 'email._encoded_words', 'socket', '_struct', '
numpy.fft.info', 'unittest.signals', 'numpy.lib.npyio', 'grp',
'urllib.error', '_io', 'numpy._globals', 'gettext', 'numpy.compat.py3k',
'distutils', 'email.charset', 'ast', 'numpy.lib.function_base', 'uu',
'encodings', 'urllib', 'numpy.lib.twodim_base', 'encodings.latin_1',
'tempfile', 'numpy.lib._version', 'numpy.polynomial.polyutils', 'quopri',
'os.path', '_imp', 'email.base64mime', 'email.message', 'email.header',
'opcode', 'encodings.utf_8', 'reprlib', '_stat', '_warnings',
'email.feedparser', 'numpy.testing.utils', 'numpy.lib.utils',
'genericpath', 'numpy.polynomial.hermite', '_compat_pickle', 'bz2',
'_compression', 'subprocess', '_json', 'numpy.lib.nanfunctions', 'inspect',
'sysconfig', '_operator', 'shutil', 'pwd', 'warnings', '_ctypes',
'_random', 'email.iterators', '_collections_abc', '__future__', 'email',
'numpy._distributor_init', 'unittest.loader', '_bootlocale',
'numpy.core.records', 'fnmatch', '_posixsubprocess', 'numpy._import_tools',
'numpy.lib.format', '_lzma', 'numpy.core.arrayprint', 'json.decoder',
'signal', 'gzip', 'posix', 'textwrap', 'numpy.fft.fftpack',
'importlib.machinery', 'lzma', 'struct', 'pickle', '_codecs',
'numpy.core.einsumfunc', 'itertools', 'numpy.core.shape_base',
'encodings.aliases', 'numpy.lib.index_tricks', 'numpy.random.info',
'numpy.linalg._umath_linalg', 'matplotlib.fontconfig_pattern',
'six.moves.urllib.request', '_weakrefset', 'distutils.errors', 'io',
'locale', 'email.errors', 'numpy.core.numerictypes',
'numpy.compat._inspect', 'zlib', 'numpy.polynomial.hermite_e',
'numpy.lib.type_check', 'mpl_toolkits', 'numpy.fft.fftpack_lite', 'bisect',
'dateutil', 'numpy.polynomial', 'collections.abc', '_bz2', 'weakref',
'numpy.lib.ufunclike', 'numpy.core.function_base', 'abc', 'six.moves',
'numpy.linalg', 'numpy.polynomial.legendre', 'numpy.core.defchararray',
'numpy.linalg.lapack_lite', 'numpy.core._internal', 'importlib',
'unittest.suite', 'unittest.case', 'numpy.core.memmap', 'email._parseaddr',
'_pickle', '_ssl', 'matplotlib.compat.subprocess', 'numpy.random',
'datetime', 'email._policybase', 'sre_parse', 'numpy.linalg.linalg',
'copy', 'numpy.lib._datasource', 'numpy.core._methods', 'linecache',
'matplotlib.compat', 'numpy.testing', 'numpy.__config__',
'unittest.result', 're', 'http.client', 'numpy.lib.info',
'numpy.core.fromnumeric', 'numpy.core.getlimits', 'matplotlib._color_data',
'urllib.response', 'pyparsing', 'numpy.lib.polynomial', 'threading',
'string', 'numpy.core.numeric', 'numpy.ma', 'numpy.fft', 'ctypes',
'numpy.random.mtrand', 'matplotlib.cbook.deprecation', '_datetime',
'builtins']
CACHEDIR=/home/az/.cache/matplotlib
Using fontManager instance from /home/az/.cache/matplotlib/fontList.json
backend TkAgg version 8.6
imported
^C
Hangs at this point with CPU @ 100%

grep -v '#' /home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-d
ata/matplotlibrc

The only line is :
backend : TkAgg

[az at hp src]$ gcc --version
gcc (GCC) 6.3.1 20161221 (Red Hat 6.3.1-1)

I installed using pip3 into --user directory.
but i also remember that i used dnf to get tkInnter installed:
rpm -qa | grep tkin
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
tix-1:8.4.3-17.fc24.x86_64
if i were to compare "pip3 list" between system (root) and the user (az):
diff -u /tmp/root_pip /tmp/usr_pip
--- /tmp/root_pip 2017-11-04 15:26:09.612643559 -0400
+++ /tmp/usr_pip 2017-11-04 15:25:52.396473226 -0400
@@ -1,39 +1,65 @@
astroid (1.4.5)
beautifulsoup4 (4.6.0)
+bleach (2.1)
blivet (1.20.3)
chardet (2.2.1)
coverage (4.4.1)
cssselect (0.9.1)
cupshelpers (1.0)
+cx-Oracle (6.0.2)
cycler (0.10.0)
decorator (4.0.11)
distro (1.0.2)
dnf-langpacks (0.15.1)
+entrypoints (0.2.3)
fros (1.1)
-html5lib (0.999)
+html5lib (1.0b10)
humanize (0.5.1)
ib-insync (0.8.5)
+ibapi (9.73.2)
iniparse (0.4)
initial-setup (0.3.40)
IPy (0.81)
+ipykernel (4.6.1)
+ipython (6.2.0)
+ipython-genutils (0.2.0)
ipywidgets (7.0.0)
isc (1.0)
javapackages (4.6.0)
+jedi (0.11.0)
+Jinja2 (2.9.6)
+jsonschema (2.6.0)
jupyter (1.0.0)
+jupyter-client (5.1.0)
+jupyter-console (5.2.0)
+jupyter-core (4.3.0)
langtable (0.0.35)
lazy-object-proxy (1.2.1)
lxml (3.7.2)
+MarkupSafe (1.0)
+matplotlib (2.1.0)
+mistune (0.7.4)
+nbconvert (5.3.1)
+nbformat (4.4.0)
+notebook (5.1.0)
ntplib (0.3.3)
numpy (1.13.3)
ordered-set (2.0.0)
pandas (0.20.3)
+pandocfilters (1.4.2)
+parso (0.1.0)
+pexpect (4.2.1)
+pickleshare (0.7.4)
pid (2.0.1)
Pillow (3.2.0)
pip (9.0.1)
+prompt-toolkit (1.0.15)
+ptyprocess (0.5.2)
pwquality (1.3.0)
pycups (1.9.72)
pycurl (7.43.0)
pyenchant (1.6.8)
+Pygments (2.2.0)
pygobject (3.20.1)
pygpgme (0.3)
pyinotify (0.9.6)
@@ -42,6 +68,7 @@
pylint (1.5.6)
pyparsing (2.2.0)
pyparted (3.10.7)
+PyQt5 (5.9)
PySocks (1.5.6)
python-augeas (0.5.0)
python-dateutil (2.6.1)
@@ -50,6 +77,9 @@
pytz (2017.2)
pyudev (0.21.0)
pyxdg (0.25)
+pyzmq (16.0.2)
+qtconsole (4.3.1)
+Quamash (0.5.5)
requests (2.10.0)
requests-file (1.4)
requests-ftp (0.3.1)
@@ -60,11 +90,21 @@
sepolicy (1.1)
setroubleshoot (1.1)
setuptools (20.1.1)
+simplegeneric (0.8.1)
+sip (4.19.3)
six (1.11.0)
slip (0.6.4)
slip.dbus (0.6.4)
sos (3.2)
SSSDConfig (1.15.3)
systemd-python (232)
+terminado (0.6)
+testpath (0.3.1)
+tornado (4.5.2)
+traitlets (4.3.2)
+tws-async (0.5.5)
urllib3 (1.15.1)
+wcwidth (0.1.7)
+webencodings (0.5.1)
+widgetsnbextension (3.0.3)
wrapt (1.10.10)

I just removed html5lib from system(root) , but tha made no difference
to the plotting..

On Sat, Nov 4, 2017 at 11:09 AM, Andrew Z <formisc at gmail.com> wrote:

hello,
the issue i'm experiencing is local to my laptop ( the other machines
i have run examples just fine).
I described it here https://www.mail-archive.com/p
ython-list at python.org/msg432343.html in details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output to
see what exactly is happening behind the scene?

Thank you.
AZ

_______________________________________________
Matplotlib-users mailing list
Matplotlib-users at python.org
https://mail.python.org/mailman/listinfo/matplotlib-users

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this is what i have installed:
[az at hp src]$ rpm -qa | grep tkint
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
[az at hp src]$

[az at hp src]$ pip3 list | grep tk
DEPRECATION: The default format will switch to columns in the future. You
can use --format=(legacy|columns) (or define a format=(legacy|columns) in
your pip.conf under the [list] section) to disable this warning.

rpm -qa | grep matplot
python-matplotlib-data-fonts-1.5.2-0.1.rc2.fc24.noarch
python3-matplotlib-1.5.2-0.1.rc2.fc24.x86_64
python3-matplotlib-tk-1.5.2-0.1.rc2.fc24.x86_64
python-matplotlib-data-1.5.2-0.1.rc2.fc24.noarch

basically i removed the pip3 installed matplot and felt back to rpm
provided in hope to have that config working.

Copy/paste from
https://matplotlib.org/gallery/pyplots/pyplot_simple.html#sphx-glr-gallery-pyplots-pyplot-simple-py
[az at hp src]$ which python3.5
/usr/bin/python3.5
[az at hp src]$ file /usr/bin/python3.5
/usr/bin/python3.5: ELF 64-bit LSB shared object, x86-64, version 1 (SYSV),
dynamically linked, interpreter /lib64/ld-linux-x86-64.so.2, for GNU/Linux
2.6.32, BuildID[sha1]=cc90b759ab34ba1043b3a96779f17eba4c0baf7a, stripped
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.

import matplotlib.pyplot as plt
plt.plot([1,2,3,4])

<hangs with one core 100% busy>
Terminated
[az at hp src]$
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.

import matplotlib.pyplot as plt
import matplotlib
matplotlib.get_backend()

'TkAgg'

exit

Use exit() or Ctrl-D (i.e. EOF) to exit

removing TKagg from config:
[az at hp src]$ find / -name matplotlibrc* 2>>/dev/null
/etc/matplotlibrc
[az at hp src]$ grep -v ^# /etc/matplotlibrc
backend : TkAgg

changing to Agg and running the same code:

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.

import matplotlib
matplotlib.get_backend()

'agg'

import matplotlib.pyplot as plt
plt.ylabel('some numbers')

^C^Z
[1]+ Stopped python3.5

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.

import matplotlib.pyplot as plt
plt.plot([1,2,3,4])

<Hangs>

I'll stop making any changes to the env now, since i don't want to bring
any confusion into the matter.
thank you for helping out!

···

On Mon, Nov 6, 2017 at 4:48 PM, Andrew Z <formisc at gmail.com> wrote:

>backend in your matplotlibrc file to "agg" and it still hung on you?

Yes. I can confirm that

>Some possibilities are
>...."matplotlib.py" or "pylab.py" or some such, and then start to wonder
why their code doesn't work properly.

I used pycharms "scratch files" and typed directly in the interpreter-
always same result. I saw this naming issue whileresearching my problem. My
file is plot.py and works perfectly fine on any other machine but
this.(drives me mad, honestly). Directory is /home/az/work/nja/src. Also
consistent across machines (minus username)

>Have you looked to see if there are other programs that are running
during the import stage?

Im not sure what do you mean?
I have a xwindow terminal , nothing but Firefox is up.(well a tons of
regular background processes).

On Nov 6, 2017 16:18, "Benjamin Root" <ben.v.root at gmail.com> wrote:

Just to make absolutely clear, you set the default backend in your
matplotlibrc file to "agg" and it still hung on you? If that is the case,
then the problem isn't tkinter.

Some possibilities are

1) a massive font database that matplotlib is trying to build a cache for
2) import of matplotlib from somewhere else unexpected (which would
explain pycharm's behavior), and that file/module is misbehaving. We have
seen instances in the past where users would name their plotting porting of
their code "matplotlib.py" or "pylab.py" or some such, and then start to
wonder why their code doesn't work properly.

Have you looked to see if there are other programs that are running
during the import stage? One thing matplotlib does for the first import is
to create a font cache, and it does this by using some fc-list program,
iirc. This can take a long time on some machines that have adobe's font
collection installed, for example, but that is usually a Windows thing....

Ben Root

On Mon, Nov 6, 2017 at 4:09 PM, Andrew Z <formisc at gmail.com> wrote:

Tkinter was most likely installed as part of rpm install.
Backends - not really. I do know that with mpld3and agg the scripts
hang.
Ihave reinstalled matplot using rpm ( rpm comes only in 1.5 version) and
with pip3.
Today i tried on the office machine (fedora 25). Rpm brings only
matplot1.5.

maybe 2 installed locally using pip3 messes with 1.5 leftover or
libraries.
Not sure how to validate this idea though..
Probably unrelated:
In pycharm pyplot is not been recognized as part of matplotlib when i
"import matplotlib.pyplot. yet the script doesnt crash on import
statement...

On Nov 6, 2017 15:13, "Benjamin Root" <ben.v.root at gmail.com> wrote:

How did you install Tkinter? Have you tested any other backends? Does
this happen for just the head-less "Agg" backend set as default?

On Sat, Nov 4, 2017 at 3:35 PM, Andrew Z <formisc at gmail.com> wrote:

more relevant information:
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.__file__
'/home/az/.local/lib/python3.5/site-packages/matplotlib/__init__.py'
>>> matplotlib.get_configdir()
'/home/az/.config/matplotlib'
>>> print(matplotlib.__version__)
2.1.0

now if i get the simplest plot :

[az at hp src]$ more ./main1.py
import matplotlib.pyplot as plt
print("imported")
plt.plot([1,2,4,1])
print("plot is done")
plt.show()
print("show is done")

[az at hp src]$ python3.5 main1.py --verbose-debug
$HOME=/home/az
matplotlib data path /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data
loaded rc file /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc
matplotlib version 2.1.0
verbose.level debug
interactive is False
platform is linux
loaded modules: ['_locale', 'urllib.request', 'numpy.lib.shape_base',
'numpy.matrixlib', 'ipaddress', 'hashlib', 'collections',
'numpy.lib.financial', 'atexit', 'numpy.lib._iotools',
'_frozen_importlib_external', 'numpy.polynomial.chebyshev', 'six',
'unittest.runner', '_sitebuiltins', 'numpy.compat', 'numpy.ma.core',
'abrt_exception_handler3', 'codecs', 'sre_constants', 'calendar',
'matplotlib.cbook', 'contextlib', 'heapq', 'ssl', 'dis', 'binascii',
'posixpath', 'cython_runtime', 'traceback', 'numpy.polynomial.laguerre',
'_hashlib', 'zipimport', 'email.utils', '_functools', 'copyreg', 'sys',
'_sre', 'matplotlib.cbook._backports', 'numpy.lib.arraysetops', 'random',
'email.parser', 'numpy.fft.helper', '_collections', 'difflib',
'numpy.lib.scimath', 'unittest', '_sysconfigdata', 'numpy', 'site', '_ast',
'json.scanner', 'os', 'http', 'functools', 'unittest.main', '
numpy.linalg.info', '_heapq', 'token', 'pathlib', 'tokenize',
'cycler', 'encodings.cp437', 'numpy.polynomial.polynomial',
'numpy.polynomial._polybase', 'numpy.lib.mixins', 'ctypes._endian',
'numpy.lib.arraypad', 'numpy.matrixlib.defmatrix', 'distutils.version',
'_signal', 'marshal', 'stat', 'pprint', 'base64', 'logging', 'enum',
'selectors', 'numpy.core', 'json.encoder', 'operator',
'numpy.testing.nosetester', 'matplotlib._version', 'numpy.ctypeslib',
'numpy.add_newdocs', 'unittest.util', '_weakref', 'select',
'importlib._bootstrap_external', 'mtrand', 'importlib._bootstrap',
'matplotlib.rcsetup', 'matplotlib.colors', 'numpy.testing.decorators',
'json', 'numpy.core.machar', 'email.encoders', 'six.moves.urllib',
'matplotlib', 'keyword', 'errno', 'numpy.lib.stride_tricks', '_socket',
'email.quoprimime', 'numpy.ma.extras', 'numbers', 'numpy.version',
'_bisect', '_string', 'numpy.lib.arrayterator', 'numpy.core.umath',
'numpy.lib', '_thread', 'time', '_frozen_importlib', 'numpy.core.info',
'numpy.core.multiarray', 'math', '_opcode', 'urllib.parse',
'distutils.sysconfig', 'ntpath', 'argparse', 'types', 'sre_compile',
'glob', '__main__', 'email._encoded_words', 'socket', '_struct', '
numpy.fft.info', 'unittest.signals', 'numpy.lib.npyio', 'grp',
'urllib.error', '_io', 'numpy._globals', 'gettext', 'numpy.compat.py3k',
'distutils', 'email.charset', 'ast', 'numpy.lib.function_base', 'uu',
'encodings', 'urllib', 'numpy.lib.twodim_base', 'encodings.latin_1',
'tempfile', 'numpy.lib._version', 'numpy.polynomial.polyutils', 'quopri',
'os.path', '_imp', 'email.base64mime', 'email.message', 'email.header',
'opcode', 'encodings.utf_8', 'reprlib', '_stat', '_warnings',
'email.feedparser', 'numpy.testing.utils', 'numpy.lib.utils',
'genericpath', 'numpy.polynomial.hermite', '_compat_pickle', 'bz2',
'_compression', 'subprocess', '_json', 'numpy.lib.nanfunctions', 'inspect',
'sysconfig', '_operator', 'shutil', 'pwd', 'warnings', '_ctypes',
'_random', 'email.iterators', '_collections_abc', '__future__', 'email',
'numpy._distributor_init', 'unittest.loader', '_bootlocale',
'numpy.core.records', 'fnmatch', '_posixsubprocess', 'numpy._import_tools',
'numpy.lib.format', '_lzma', 'numpy.core.arrayprint', 'json.decoder',
'signal', 'gzip', 'posix', 'textwrap', 'numpy.fft.fftpack',
'importlib.machinery', 'lzma', 'struct', 'pickle', '_codecs',
'numpy.core.einsumfunc', 'itertools', 'numpy.core.shape_base',
'encodings.aliases', 'numpy.lib.index_tricks', 'numpy.random.info',
'numpy.linalg._umath_linalg', 'matplotlib.fontconfig_pattern',
'six.moves.urllib.request', '_weakrefset', 'distutils.errors', 'io',
'locale', 'email.errors', 'numpy.core.numerictypes',
'numpy.compat._inspect', 'zlib', 'numpy.polynomial.hermite_e',
'numpy.lib.type_check', 'mpl_toolkits', 'numpy.fft.fftpack_lite', 'bisect',
'dateutil', 'numpy.polynomial', 'collections.abc', '_bz2', 'weakref',
'numpy.lib.ufunclike', 'numpy.core.function_base', 'abc', 'six.moves',
'numpy.linalg', 'numpy.polynomial.legendre', 'numpy.core.defchararray',
'numpy.linalg.lapack_lite', 'numpy.core._internal', 'importlib',
'unittest.suite', 'unittest.case', 'numpy.core.memmap', 'email._parseaddr',
'_pickle', '_ssl', 'matplotlib.compat.subprocess', 'numpy.random',
'datetime', 'email._policybase', 'sre_parse', 'numpy.linalg.linalg',
'copy', 'numpy.lib._datasource', 'numpy.core._methods', 'linecache',
'matplotlib.compat', 'numpy.testing', 'numpy.__config__',
'unittest.result', 're', 'http.client', 'numpy.lib.info',
'numpy.core.fromnumeric', 'numpy.core.getlimits', 'matplotlib._color_data',
'urllib.response', 'pyparsing', 'numpy.lib.polynomial', 'threading',
'string', 'numpy.core.numeric', 'numpy.ma', 'numpy.fft', 'ctypes',
'numpy.random.mtrand', 'matplotlib.cbook.deprecation', '_datetime',
'builtins']
CACHEDIR=/home/az/.cache/matplotlib
Using fontManager instance from /home/az/.cache/matplotlib/fon
tList.json
backend TkAgg version 8.6
imported
^C
Hangs at this point with CPU @ 100%

grep -v '#' /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc

The only line is :
backend : TkAgg

[az at hp src]$ gcc --version
gcc (GCC) 6.3.1 20161221 (Red Hat 6.3.1-1)

I installed using pip3 into --user directory.
but i also remember that i used dnf to get tkInnter installed:
rpm -qa | grep tkin
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
tix-1:8.4.3-17.fc24.x86_64
if i were to compare "pip3 list" between system (root) and the user
(az):
diff -u /tmp/root_pip /tmp/usr_pip
--- /tmp/root_pip 2017-11-04 15:26:09.612643559 -0400
+++ /tmp/usr_pip 2017-11-04 15:25:52.396473226 -0400
@@ -1,39 +1,65 @@
astroid (1.4.5)
beautifulsoup4 (4.6.0)
+bleach (2.1)
blivet (1.20.3)
chardet (2.2.1)
coverage (4.4.1)
cssselect (0.9.1)
cupshelpers (1.0)
+cx-Oracle (6.0.2)
cycler (0.10.0)
decorator (4.0.11)
distro (1.0.2)
dnf-langpacks (0.15.1)
+entrypoints (0.2.3)
fros (1.1)
-html5lib (0.999)
+html5lib (1.0b10)
humanize (0.5.1)
ib-insync (0.8.5)
+ibapi (9.73.2)
iniparse (0.4)
initial-setup (0.3.40)
IPy (0.81)
+ipykernel (4.6.1)
+ipython (6.2.0)
+ipython-genutils (0.2.0)
ipywidgets (7.0.0)
isc (1.0)
javapackages (4.6.0)
+jedi (0.11.0)
+Jinja2 (2.9.6)
+jsonschema (2.6.0)
jupyter (1.0.0)
+jupyter-client (5.1.0)
+jupyter-console (5.2.0)
+jupyter-core (4.3.0)
langtable (0.0.35)
lazy-object-proxy (1.2.1)
lxml (3.7.2)
+MarkupSafe (1.0)
+matplotlib (2.1.0)
+mistune (0.7.4)
+nbconvert (5.3.1)
+nbformat (4.4.0)
+notebook (5.1.0)
ntplib (0.3.3)
numpy (1.13.3)
ordered-set (2.0.0)
pandas (0.20.3)
+pandocfilters (1.4.2)
+parso (0.1.0)
+pexpect (4.2.1)
+pickleshare (0.7.4)
pid (2.0.1)
Pillow (3.2.0)
pip (9.0.1)
+prompt-toolkit (1.0.15)
+ptyprocess (0.5.2)
pwquality (1.3.0)
pycups (1.9.72)
pycurl (7.43.0)
pyenchant (1.6.8)
+Pygments (2.2.0)
pygobject (3.20.1)
pygpgme (0.3)
pyinotify (0.9.6)
@@ -42,6 +68,7 @@
pylint (1.5.6)
pyparsing (2.2.0)
pyparted (3.10.7)
+PyQt5 (5.9)
PySocks (1.5.6)
python-augeas (0.5.0)
python-dateutil (2.6.1)
@@ -50,6 +77,9 @@
pytz (2017.2)
pyudev (0.21.0)
pyxdg (0.25)
+pyzmq (16.0.2)
+qtconsole (4.3.1)
+Quamash (0.5.5)
requests (2.10.0)
requests-file (1.4)
requests-ftp (0.3.1)
@@ -60,11 +90,21 @@
sepolicy (1.1)
setroubleshoot (1.1)
setuptools (20.1.1)
+simplegeneric (0.8.1)
+sip (4.19.3)
six (1.11.0)
slip (0.6.4)
slip.dbus (0.6.4)
sos (3.2)
SSSDConfig (1.15.3)
systemd-python (232)
+terminado (0.6)
+testpath (0.3.1)
+tornado (4.5.2)
+traitlets (4.3.2)
+tws-async (0.5.5)
urllib3 (1.15.1)
+wcwidth (0.1.7)
+webencodings (0.5.1)
+widgetsnbextension (3.0.3)
wrapt (1.10.10)

I just removed html5lib from system(root) , but tha made no difference
to the plotting..

On Sat, Nov 4, 2017 at 11:09 AM, Andrew Z <formisc at gmail.com> wrote:

hello,
the issue i'm experiencing is local to my laptop ( the other machines
i have run examples just fine).
I described it here https://www.mail-archive.com/p
ython-list at python.org/msg432343.html in details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output to
see what exactly is happening behind the scene?

Thank you.
AZ

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I tried PyQT5 with the same unhappy results:

First, i verified that pyqt5 works -

PyQt5 (5.9.1) - Python bindings for the Qt cross
platform UI and application toolkit
  INSTALLED: 5.9
  LATEST: 5.9.1

ran http://www.thehackeruniversity.com/2014/01/23/pyqt5-beginner-tutorial/
- exampled worked with no issues. Everything got resolved in pycharm.

next installed the matplot backend:
   python3-matplotlib-qt5.x86_64

ran examples from here https://pythonspot.com/en/pyqt5-matplotlib/ - and it
hanged.
pycharm is complaining about :

from matplotlib.backends.backend_qt5agg import FigureCanvasQTAgg as FigureCanvas
from matplotlib.figure import Figure
import matplotlib.pyplot as plt

"can not find reference 'backends' in __init__.py'
' unresolved reference backend_qt5agg'
'cant reference 'figure' '
'no module named pyplot'

···

On Mon, Nov 6, 2017 at 6:33 PM, Andrew Z <formisc at gmail.com> wrote:

this is what i have installed:
[az at hp src]$ rpm -qa | grep tkint
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
[az at hp src]$

[az at hp src]$ pip3 list | grep tk
DEPRECATION: The default format will switch to columns in the future. You
can use --format=(legacy|columns) (or define a format=(legacy|columns) in
your pip.conf under the [list] section) to disable this warning.

rpm -qa | grep matplot
python-matplotlib-data-fonts-1.5.2-0.1.rc2.fc24.noarch
python3-matplotlib-1.5.2-0.1.rc2.fc24.x86_64
python3-matplotlib-tk-1.5.2-0.1.rc2.fc24.x86_64
python-matplotlib-data-1.5.2-0.1.rc2.fc24.noarch

basically i removed the pip3 installed matplot and felt back to rpm
provided in hope to have that config working.

Copy/paste from https://matplotlib.org/gallery/pyplots/pyplot_simple.
html#sphx-glr-gallery-pyplots-pyplot-simple-py
[az at hp src]$ which python3.5
/usr/bin/python3.5
[az at hp src]$ file /usr/bin/python3.5
/usr/bin/python3.5: ELF 64-bit LSB shared object, x86-64, version 1
(SYSV), dynamically linked, interpreter /lib64/ld-linux-x86-64.so.2, for
GNU/Linux 2.6.32, BuildID[sha1]=cc90b759ab34ba1043b3a96779f17eba4c0baf7a,
stripped
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,2,3,4])
<hangs with one core 100% busy>
Terminated
[az at hp src]$
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> import matplotlib
>>> matplotlib.get_backend()
'TkAgg'
>>> exit
Use exit() or Ctrl-D (i.e. EOF) to exit

removing TKagg from config:
[az at hp src]$ find / -name matplotlibrc* 2>>/dev/null
/etc/matplotlibrc
[az at hp src]$ grep -v ^# /etc/matplotlibrc
backend : TkAgg

changing to Agg and running the same code:

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.get_backend()
'agg'
>>> import matplotlib.pyplot as plt
>>> plt.ylabel('some numbers')
^C^Z
[1]+ Stopped python3.5

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,2,3,4])
<Hangs>

I'll stop making any changes to the env now, since i don't want to bring
any confusion into the matter.
thank you for helping out!

On Mon, Nov 6, 2017 at 4:48 PM, Andrew Z <formisc at gmail.com> wrote:

>backend in your matplotlibrc file to "agg" and it still hung on you?

Yes. I can confirm that

>Some possibilities are
>...."matplotlib.py" or "pylab.py" or some such, and then start to wonder
why their code doesn't work properly.

I used pycharms "scratch files" and typed directly in the interpreter-
always same result. I saw this naming issue whileresearching my problem. My
file is plot.py and works perfectly fine on any other machine but
this.(drives me mad, honestly). Directory is /home/az/work/nja/src. Also
consistent across machines (minus username)

>Have you looked to see if there are other programs that are running
during the import stage?

Im not sure what do you mean?
I have a xwindow terminal , nothing but Firefox is up.(well a tons of
regular background processes).

On Nov 6, 2017 16:18, "Benjamin Root" <ben.v.root at gmail.com> wrote:

Just to make absolutely clear, you set the default backend in your
matplotlibrc file to "agg" and it still hung on you? If that is the case,
then the problem isn't tkinter.

Some possibilities are

1) a massive font database that matplotlib is trying to build a cache for
2) import of matplotlib from somewhere else unexpected (which would
explain pycharm's behavior), and that file/module is misbehaving. We have
seen instances in the past where users would name their plotting porting of
their code "matplotlib.py" or "pylab.py" or some such, and then start to
wonder why their code doesn't work properly.

Have you looked to see if there are other programs that are running
during the import stage? One thing matplotlib does for the first import is
to create a font cache, and it does this by using some fc-list program,
iirc. This can take a long time on some machines that have adobe's font
collection installed, for example, but that is usually a Windows thing....

Ben Root

On Mon, Nov 6, 2017 at 4:09 PM, Andrew Z <formisc at gmail.com> wrote:

Tkinter was most likely installed as part of rpm install.
Backends - not really. I do know that with mpld3and agg the scripts
hang.
Ihave reinstalled matplot using rpm ( rpm comes only in 1.5 version)
and with pip3.
Today i tried on the office machine (fedora 25). Rpm brings only
matplot1.5.

maybe 2 installed locally using pip3 messes with 1.5 leftover or
libraries.
Not sure how to validate this idea though..
Probably unrelated:
In pycharm pyplot is not been recognized as part of matplotlib when i
"import matplotlib.pyplot. yet the script doesnt crash on import
statement...

On Nov 6, 2017 15:13, "Benjamin Root" <ben.v.root at gmail.com> wrote:

How did you install Tkinter? Have you tested any other backends? Does
this happen for just the head-less "Agg" backend set as default?

On Sat, Nov 4, 2017 at 3:35 PM, Andrew Z <formisc at gmail.com> wrote:

more relevant information:
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.__file__
'/home/az/.local/lib/python3.5/site-packages/matplotlib/__init__.py'
>>> matplotlib.get_configdir()
'/home/az/.config/matplotlib'
>>> print(matplotlib.__version__)
2.1.0

now if i get the simplest plot :

[az at hp src]$ more ./main1.py
import matplotlib.pyplot as plt
print("imported")
plt.plot([1,2,4,1])
print("plot is done")
plt.show()
print("show is done")

[az at hp src]$ python3.5 main1.py --verbose-debug
$HOME=/home/az
matplotlib data path /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data
loaded rc file /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc
matplotlib version 2.1.0
verbose.level debug
interactive is False
platform is linux
loaded modules: ['_locale', 'urllib.request', 'numpy.lib.shape_base',
'numpy.matrixlib', 'ipaddress', 'hashlib', 'collections',
'numpy.lib.financial', 'atexit', 'numpy.lib._iotools',
'_frozen_importlib_external', 'numpy.polynomial.chebyshev', 'six',
'unittest.runner', '_sitebuiltins', 'numpy.compat', 'numpy.ma.core',
'abrt_exception_handler3', 'codecs', 'sre_constants', 'calendar',
'matplotlib.cbook', 'contextlib', 'heapq', 'ssl', 'dis', 'binascii',
'posixpath', 'cython_runtime', 'traceback', 'numpy.polynomial.laguerre',
'_hashlib', 'zipimport', 'email.utils', '_functools', 'copyreg', 'sys',
'_sre', 'matplotlib.cbook._backports', 'numpy.lib.arraysetops', 'random',
'email.parser', 'numpy.fft.helper', '_collections', 'difflib',
'numpy.lib.scimath', 'unittest', '_sysconfigdata', 'numpy', 'site', '_ast',
'json.scanner', 'os', 'http', 'functools', 'unittest.main', '
numpy.linalg.info', '_heapq', 'token', 'pathlib', 'tokenize',
'cycler', 'encodings.cp437', 'numpy.polynomial.polynomial',
'numpy.polynomial._polybase', 'numpy.lib.mixins', 'ctypes._endian',
'numpy.lib.arraypad', 'numpy.matrixlib.defmatrix', 'distutils.version',
'_signal', 'marshal', 'stat', 'pprint', 'base64', 'logging', 'enum',
'selectors', 'numpy.core', 'json.encoder', 'operator',
'numpy.testing.nosetester', 'matplotlib._version', 'numpy.ctypeslib',
'numpy.add_newdocs', 'unittest.util', '_weakref', 'select',
'importlib._bootstrap_external', 'mtrand', 'importlib._bootstrap',
'matplotlib.rcsetup', 'matplotlib.colors', 'numpy.testing.decorators',
'json', 'numpy.core.machar', 'email.encoders', 'six.moves.urllib',
'matplotlib', 'keyword', 'errno', 'numpy.lib.stride_tricks', '_socket',
'email.quoprimime', 'numpy.ma.extras', 'numbers', 'numpy.version',
'_bisect', '_string', 'numpy.lib.arrayterator', 'numpy.core.umath',
'numpy.lib', '_thread', 'time', '_frozen_importlib', 'numpy.core.info',
'numpy.core.multiarray', 'math', '_opcode', 'urllib.parse',
'distutils.sysconfig', 'ntpath', 'argparse', 'types', 'sre_compile',
'glob', '__main__', 'email._encoded_words', 'socket', '_struct', '
numpy.fft.info', 'unittest.signals', 'numpy.lib.npyio', 'grp',
'urllib.error', '_io', 'numpy._globals', 'gettext', 'numpy.compat.py3k',
'distutils', 'email.charset', 'ast', 'numpy.lib.function_base', 'uu',
'encodings', 'urllib', 'numpy.lib.twodim_base', 'encodings.latin_1',
'tempfile', 'numpy.lib._version', 'numpy.polynomial.polyutils', 'quopri',
'os.path', '_imp', 'email.base64mime', 'email.message', 'email.header',
'opcode', 'encodings.utf_8', 'reprlib', '_stat', '_warnings',
'email.feedparser', 'numpy.testing.utils', 'numpy.lib.utils',
'genericpath', 'numpy.polynomial.hermite', '_compat_pickle', 'bz2',
'_compression', 'subprocess', '_json', 'numpy.lib.nanfunctions', 'inspect',
'sysconfig', '_operator', 'shutil', 'pwd', 'warnings', '_ctypes',
'_random', 'email.iterators', '_collections_abc', '__future__', 'email',
'numpy._distributor_init', 'unittest.loader', '_bootlocale',
'numpy.core.records', 'fnmatch', '_posixsubprocess', 'numpy._import_tools',
'numpy.lib.format', '_lzma', 'numpy.core.arrayprint', 'json.decoder',
'signal', 'gzip', 'posix', 'textwrap', 'numpy.fft.fftpack',
'importlib.machinery', 'lzma', 'struct', 'pickle', '_codecs',
'numpy.core.einsumfunc', 'itertools', 'numpy.core.shape_base',
'encodings.aliases', 'numpy.lib.index_tricks', 'numpy.random.info',
'numpy.linalg._umath_linalg', 'matplotlib.fontconfig_pattern',
'six.moves.urllib.request', '_weakrefset', 'distutils.errors', 'io',
'locale', 'email.errors', 'numpy.core.numerictypes',
'numpy.compat._inspect', 'zlib', 'numpy.polynomial.hermite_e',
'numpy.lib.type_check', 'mpl_toolkits', 'numpy.fft.fftpack_lite', 'bisect',
'dateutil', 'numpy.polynomial', 'collections.abc', '_bz2', 'weakref',
'numpy.lib.ufunclike', 'numpy.core.function_base', 'abc', 'six.moves',
'numpy.linalg', 'numpy.polynomial.legendre', 'numpy.core.defchararray',
'numpy.linalg.lapack_lite', 'numpy.core._internal', 'importlib',
'unittest.suite', 'unittest.case', 'numpy.core.memmap', 'email._parseaddr',
'_pickle', '_ssl', 'matplotlib.compat.subprocess', 'numpy.random',
'datetime', 'email._policybase', 'sre_parse', 'numpy.linalg.linalg',
'copy', 'numpy.lib._datasource', 'numpy.core._methods', 'linecache',
'matplotlib.compat', 'numpy.testing', 'numpy.__config__',
'unittest.result', 're', 'http.client', 'numpy.lib.info',
'numpy.core.fromnumeric', 'numpy.core.getlimits', 'matplotlib._color_data',
'urllib.response', 'pyparsing', 'numpy.lib.polynomial', 'threading',
'string', 'numpy.core.numeric', 'numpy.ma', 'numpy.fft', 'ctypes',
'numpy.random.mtrand', 'matplotlib.cbook.deprecation', '_datetime',
'builtins']
CACHEDIR=/home/az/.cache/matplotlib
Using fontManager instance from /home/az/.cache/matplotlib/fon
tList.json
backend TkAgg version 8.6
imported
^C
Hangs at this point with CPU @ 100%

grep -v '#' /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc

The only line is :
backend : TkAgg

[az at hp src]$ gcc --version
gcc (GCC) 6.3.1 20161221 (Red Hat 6.3.1-1)

I installed using pip3 into --user directory.
but i also remember that i used dnf to get tkInnter installed:
rpm -qa | grep tkin
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
tix-1:8.4.3-17.fc24.x86_64
if i were to compare "pip3 list" between system (root) and the user
(az):
diff -u /tmp/root_pip /tmp/usr_pip
--- /tmp/root_pip 2017-11-04 15:26:09.612643559 -0400
+++ /tmp/usr_pip 2017-11-04 15:25:52.396473226 -0400
@@ -1,39 +1,65 @@
astroid (1.4.5)
beautifulsoup4 (4.6.0)
+bleach (2.1)
blivet (1.20.3)
chardet (2.2.1)
coverage (4.4.1)
cssselect (0.9.1)
cupshelpers (1.0)
+cx-Oracle (6.0.2)
cycler (0.10.0)
decorator (4.0.11)
distro (1.0.2)
dnf-langpacks (0.15.1)
+entrypoints (0.2.3)
fros (1.1)
-html5lib (0.999)
+html5lib (1.0b10)
humanize (0.5.1)
ib-insync (0.8.5)
+ibapi (9.73.2)
iniparse (0.4)
initial-setup (0.3.40)
IPy (0.81)
+ipykernel (4.6.1)
+ipython (6.2.0)
+ipython-genutils (0.2.0)
ipywidgets (7.0.0)
isc (1.0)
javapackages (4.6.0)
+jedi (0.11.0)
+Jinja2 (2.9.6)
+jsonschema (2.6.0)
jupyter (1.0.0)
+jupyter-client (5.1.0)
+jupyter-console (5.2.0)
+jupyter-core (4.3.0)
langtable (0.0.35)
lazy-object-proxy (1.2.1)
lxml (3.7.2)
+MarkupSafe (1.0)
+matplotlib (2.1.0)
+mistune (0.7.4)
+nbconvert (5.3.1)
+nbformat (4.4.0)
+notebook (5.1.0)
ntplib (0.3.3)
numpy (1.13.3)
ordered-set (2.0.0)
pandas (0.20.3)
+pandocfilters (1.4.2)
+parso (0.1.0)
+pexpect (4.2.1)
+pickleshare (0.7.4)
pid (2.0.1)
Pillow (3.2.0)
pip (9.0.1)
+prompt-toolkit (1.0.15)
+ptyprocess (0.5.2)
pwquality (1.3.0)
pycups (1.9.72)
pycurl (7.43.0)
pyenchant (1.6.8)
+Pygments (2.2.0)
pygobject (3.20.1)
pygpgme (0.3)
pyinotify (0.9.6)
@@ -42,6 +68,7 @@
pylint (1.5.6)
pyparsing (2.2.0)
pyparted (3.10.7)
+PyQt5 (5.9)
PySocks (1.5.6)
python-augeas (0.5.0)
python-dateutil (2.6.1)
@@ -50,6 +77,9 @@
pytz (2017.2)
pyudev (0.21.0)
pyxdg (0.25)
+pyzmq (16.0.2)
+qtconsole (4.3.1)
+Quamash (0.5.5)
requests (2.10.0)
requests-file (1.4)
requests-ftp (0.3.1)
@@ -60,11 +90,21 @@
sepolicy (1.1)
setroubleshoot (1.1)
setuptools (20.1.1)
+simplegeneric (0.8.1)
+sip (4.19.3)
six (1.11.0)
slip (0.6.4)
slip.dbus (0.6.4)
sos (3.2)
SSSDConfig (1.15.3)
systemd-python (232)
+terminado (0.6)
+testpath (0.3.1)
+tornado (4.5.2)
+traitlets (4.3.2)
+tws-async (0.5.5)
urllib3 (1.15.1)
+wcwidth (0.1.7)
+webencodings (0.5.1)
+widgetsnbextension (3.0.3)
wrapt (1.10.10)

I just removed html5lib from system(root) , but tha made no difference
to the plotting..

On Sat, Nov 4, 2017 at 11:09 AM, Andrew Z <formisc at gmail.com> wrote:

hello,
the issue i'm experiencing is local to my laptop ( the other
machines i have run examples just fine).
I described it here https://www.mail-archive.com/p
ython-list at python.org/msg432343.html in details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output to
see what exactly is happening behind the scene?

Thank you.
AZ

_______________________________________________
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Andrew,

Can I *strongly* suggest you just use anaconda, unless you have some compelling reason not to?

It takes care of most of these packaging headaches. I guess I?m ignorant about pycharm, but I?m pretty sure people use it w/ pycharm.

Cheers, Jody

···

On 8 Nov 2017, at 13:41 PM, Andrew Z <formisc at gmail.com> wrote:

I tried PyQT5 with the same unhappy results:

First, i verified that pyqt5 works -

PyQt5 (5.9.1) - Python bindings for the Qt cross platform UI and application toolkit
  INSTALLED: 5.9
  LATEST: 5.9.1

ran http://www.thehackeruniversity.com/2014/01/23/pyqt5-beginner-tutorial/ - exampled worked with no issues. Everything got resolved in pycharm.

next installed the matplot backend:
   python3-matplotlib-qt5.x86_64

ran examples from here https://pythonspot.com/en/pyqt5-matplotlib/ - and it hanged.
pycharm is complaining about :
from matplotlib.backends.backend_qt5agg import FigureCanvasQTAgg as FigureCanvas
from matplotlib.figure import Figure
import matplotlib.pyplot as plt
"can not find reference 'backends' in __init__.py'
' unresolved reference backend_qt5agg'
'cant reference 'figure' '
'no module named pyplot'

On Mon, Nov 6, 2017 at 6:33 PM, Andrew Z <formisc at gmail.com <mailto:formisc at gmail.com>> wrote:
this is what i have installed:
[az at hp src]$ rpm -qa | grep tkint
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
[az at hp src]$

[az at hp src]$ pip3 list | grep tk
DEPRECATION: The default format will switch to columns in the future. You can use --format=(legacy|columns) (or define a format=(legacy|columns) in your pip.conf under the [list] section) to disable this warning.

rpm -qa | grep matplot
python-matplotlib-data-fonts-1.5.2-0.1.rc2.fc24.noarch
python3-matplotlib-1.5.2-0.1.rc2.fc24.x86_64
python3-matplotlib-tk-1.5.2-0.1.rc2.fc24.x86_64
python-matplotlib-data-1.5.2-0.1.rc2.fc24.noarch

basically i removed the pip3 installed matplot and felt back to rpm provided in hope to have that config working.

Copy/paste from https://matplotlib.org/gallery/pyplots/pyplot_simple.html#sphx-glr-gallery-pyplots-pyplot-simple-py
[az at hp src]$ which python3.5
/usr/bin/python3.5
[az at hp src]$ file /usr/bin/python3.5
/usr/bin/python3.5: ELF 64-bit LSB shared object, x86-64, version 1 (SYSV), dynamically linked, interpreter /lib64/ld-linux-x86-64.so.2, for GNU/Linux 2.6.32, BuildID[sha1]=cc90b759ab34ba1043b3a96779f17eba4c0baf7a, stripped
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,2,3,4])
<hangs with one core 100% busy>
Terminated
[az at hp src]$
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> import matplotlib
>>> matplotlib.get_backend()
'TkAgg'
>>> exit
Use exit() or Ctrl-D (i.e. EOF) to exit

removing TKagg from config:
[az at hp src]$ find / -name matplotlibrc* 2>>/dev/null
/etc/matplotlibrc
[az at hp src]$ grep -v ^# /etc/matplotlibrc
backend : TkAgg

changing to Agg and running the same code:

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.get_backend()
'agg'
>>> import matplotlib.pyplot as plt
>>> plt.ylabel('some numbers')
^C^Z
[1]+ Stopped python3.5

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,2,3,4])
<Hangs>

I'll stop making any changes to the env now, since i don't want to bring any confusion into the matter.
thank you for helping out!

On Mon, Nov 6, 2017 at 4:48 PM, Andrew Z <formisc at gmail.com <mailto:formisc at gmail.com>> wrote:

>backend in your matplotlibrc file to "agg" and it still hung on you?

Yes. I can confirm that

>Some possibilities are
>...."matplotlib.py" or "pylab.py" or some such, and then start to wonder why their code doesn't work properly.

I used pycharms "scratch files" and typed directly in the interpreter- always same result. I saw this naming issue whileresearching my problem. My file is plot.py and works perfectly fine on any other machine but this.(drives me mad, honestly). Directory is /home/az/work/nja/src. Also consistent across machines (minus username)

>Have you looked to see if there are other programs that are running during the import stage?

Im not sure what do you mean?
I have a xwindow terminal , nothing but Firefox is up.(well a tons of regular background processes).

On Nov 6, 2017 16:18, "Benjamin Root" <ben.v.root at gmail.com <mailto:ben.v.root at gmail.com>> wrote:
Just to make absolutely clear, you set the default backend in your matplotlibrc file to "agg" and it still hung on you? If that is the case, then the problem isn't tkinter.

Some possibilities are

1) a massive font database that matplotlib is trying to build a cache for
2) import of matplotlib from somewhere else unexpected (which would explain pycharm's behavior), and that file/module is misbehaving. We have seen instances in the past where users would name their plotting porting of their code "matplotlib.py" or "pylab.py" or some such, and then start to wonder why their code doesn't work properly.

Have you looked to see if there are other programs that are running during the import stage? One thing matplotlib does for the first import is to create a font cache, and it does this by using some fc-list program, iirc. This can take a long time on some machines that have adobe's font collection installed, for example, but that is usually a Windows thing....

Ben Root

On Mon, Nov 6, 2017 at 4:09 PM, Andrew Z <formisc at gmail.com <mailto:formisc at gmail.com>> wrote:
Tkinter was most likely installed as part of rpm install.
Backends - not really. I do know that with mpld3and agg the scripts hang.
Ihave reinstalled matplot using rpm ( rpm comes only in 1.5 version) and with pip3.
Today i tried on the office machine (fedora 25). Rpm brings only matplot1.5.

maybe 2 installed locally using pip3 messes with 1.5 leftover or libraries.
Not sure how to validate this idea though..
Probably unrelated:
In pycharm pyplot is not been recognized as part of matplotlib when i "import matplotlib.pyplot. yet the script doesnt crash on import statement...

On Nov 6, 2017 15:13, "Benjamin Root" <ben.v.root at gmail.com <mailto:ben.v.root at gmail.com>> wrote:
How did you install Tkinter? Have you tested any other backends? Does this happen for just the head-less "Agg" backend set as default?

On Sat, Nov 4, 2017 at 3:35 PM, Andrew Z <formisc at gmail.com <mailto:formisc at gmail.com>> wrote:
more relevant information:
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.__file__
'/home/az/.local/lib/python3.5/site-packages/matplotlib/__init__.py'
>>> matplotlib.get_configdir()
'/home/az/.config/matplotlib'
>>> print(matplotlib.__version__)
2.1.0

now if i get the simplest plot :

[az at hp src]$ more ./main1.py
import matplotlib.pyplot as plt
print("imported")
plt.plot([1,2,4,1])
print("plot is done")
plt.show()
print("show is done")

[az at hp src]$ python3.5 main1.py --verbose-debug
$HOME=/home/az
matplotlib data path /home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-data
loaded rc file /home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-data/matplotlibrc
matplotlib version 2.1.0
verbose.level debug
interactive is False
platform is linux
loaded modules: ['_locale', 'urllib.request', 'numpy.lib.shape_base', 'numpy.matrixlib', 'ipaddress', 'hashlib', 'collections', 'numpy.lib.financial', 'atexit', 'numpy.lib._iotools', '_frozen_importlib_external', 'numpy.polynomial.chebyshev', 'six', 'unittest.runner', '_sitebuiltins', 'numpy.compat', 'numpy.ma.core', 'abrt_exception_handler3', 'codecs', 'sre_constants', 'calendar', 'matplotlib.cbook', 'contextlib', 'heapq', 'ssl', 'dis', 'binascii', 'posixpath', 'cython_runtime', 'traceback', 'numpy.polynomial.laguerre', '_hashlib', 'zipimport', 'email.utils', '_functools', 'copyreg', 'sys', '_sre', 'matplotlib.cbook._backports', 'numpy.lib.arraysetops', 'random', 'email.parser', 'numpy.fft.helper', '_collections', 'difflib', 'numpy.lib.scimath', 'unittest', '_sysconfigdata', 'numpy', 'site', '_ast', 'json.scanner', 'os', 'http', 'functools', 'unittest.main', 'numpy.linalg.info <http://numpy.linalg.info/>', '_heapq', 'token', 'pathlib', 'tokenize', 'cycler', 'encodings.cp437', 'numpy.polynomial.polynomial', 'numpy.polynomial._polybase', 'numpy.lib.mixins', 'ctypes._endian', 'numpy.lib.arraypad', 'numpy.matrixlib.defmatrix', 'distutils.version', '_signal', 'marshal', 'stat', 'pprint', 'base64', 'logging', 'enum', 'selectors', 'numpy.core', 'json.encoder', 'operator', 'numpy.testing.nosetester', 'matplotlib._version', 'numpy.ctypeslib', 'numpy.add_newdocs', 'unittest.util', '_weakref', 'select', 'importlib._bootstrap_external', 'mtrand', 'importlib._bootstrap', 'matplotlib.rcsetup', 'matplotlib.colors', 'numpy.testing.decorators', 'json', 'numpy.core.machar', 'email.encoders', 'six.moves.urllib', 'matplotlib', 'keyword', 'errno', 'numpy.lib.stride_tricks', '_socket', 'email.quoprimime', 'numpy.ma.extras', 'numbers', 'numpy.version', '_bisect', '_string', 'numpy.lib.arrayterator', 'numpy.core.umath', 'numpy.lib', '_thread', 'time', '_frozen_importlib', 'numpy.core.info <http://numpy.core.info/>', 'numpy.core.multiarray', 'math', '_opcode', 'urllib.parse', 'distutils.sysconfig', 'ntpath', 'argparse', 'types', 'sre_compile', 'glob', '__main__', 'email._encoded_words', 'socket', '_struct', 'numpy.fft.info <http://numpy.fft.info/>', 'unittest.signals', 'numpy.lib.npyio', 'grp', 'urllib.error', '_io', 'numpy._globals', 'gettext', 'numpy.compat.py3k', 'distutils', 'email.charset', 'ast', 'numpy.lib.function_base', 'uu', 'encodings', 'urllib', 'numpy.lib.twodim_base', 'encodings.latin_1', 'tempfile', 'numpy.lib._version', 'numpy.polynomial.polyutils', 'quopri', 'os.path', '_imp', 'email.base64mime', 'email.message', 'email.header', 'opcode', 'encodings.utf_8', 'reprlib', '_stat', '_warnings', 'email.feedparser', 'numpy.testing.utils', 'numpy.lib.utils', 'genericpath', 'numpy.polynomial.hermite', '_compat_pickle', 'bz2', '_compression', 'subprocess', '_json', 'numpy.lib.nanfunctions', 'inspect', 'sysconfig', '_operator', 'shutil', 'pwd', 'warnings', '_ctypes', '_random', 'email.iterators', '_collections_abc', '__future__', 'email', 'numpy._distributor_init', 'unittest.loader', '_bootlocale', 'numpy.core.records', 'fnmatch', '_posixsubprocess', 'numpy._import_tools', 'numpy.lib.format', '_lzma', 'numpy.core.arrayprint', 'json.decoder', 'signal', 'gzip', 'posix', 'textwrap', 'numpy.fft.fftpack', 'importlib.machinery', 'lzma', 'struct', 'pickle', '_codecs', 'numpy.core.einsumfunc', 'itertools', 'numpy.core.shape_base', 'encodings.aliases', 'numpy.lib.index_tricks', 'numpy.random.info <http://numpy.random.info/>', 'numpy.linalg._umath_linalg', 'matplotlib.fontconfig_pattern', 'six.moves.urllib.request', '_weakrefset', 'distutils.errors', 'io', 'locale', 'email.errors', 'numpy.core.numerictypes', 'numpy.compat._inspect', 'zlib', 'numpy.polynomial.hermite_e', 'numpy.lib.type_check', 'mpl_toolkits', 'numpy.fft.fftpack_lite', 'bisect', 'dateutil', 'numpy.polynomial', 'collections.abc', '_bz2', 'weakref', 'numpy.lib.ufunclike', 'numpy.core.function_base', 'abc', 'six.moves', 'numpy.linalg', 'numpy.polynomial.legendre', 'numpy.core.defchararray', 'numpy.linalg.lapack_lite', 'numpy.core._internal', 'importlib', 'unittest.suite', 'unittest.case', 'numpy.core.memmap', 'email._parseaddr', '_pickle', '_ssl', 'matplotlib.compat.subprocess', 'numpy.random', 'datetime', 'email._policybase', 'sre_parse', 'numpy.linalg.linalg', 'copy', 'numpy.lib._datasource', 'numpy.core._methods', 'linecache', 'matplotlib.compat', 'numpy.testing', 'numpy.__config__', 'unittest.result', 're', 'http.client', 'numpy.lib.info <http://numpy.lib.info/>', 'numpy.core.fromnumeric', 'numpy.core.getlimits', 'matplotlib._color_data', 'urllib.response', 'pyparsing', 'numpy.lib.polynomial', 'threading', 'string', 'numpy.core.numeric', 'numpy.ma <http://numpy.ma/>', 'numpy.fft', 'ctypes', 'numpy.random.mtrand', 'matplotlib.cbook.deprecation', '_datetime', 'builtins']
CACHEDIR=/home/az/.cache/matplotlib
Using fontManager instance from /home/az/.cache/matplotlib/fontList.json
backend TkAgg version 8.6
imported
^C
Hangs at this point with CPU @ 100%

grep -v '#' /home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-data/matplotlibrc

The only line is :
backend : TkAgg

[az at hp src]$ gcc --version
gcc (GCC) 6.3.1 20161221 (Red Hat 6.3.1-1)

I installed using pip3 into --user directory.
but i also remember that i used dnf to get tkInnter installed:
rpm -qa | grep tkin
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
tix-1:8.4.3-17.fc24.x86_64
if i were to compare "pip3 list" between system (root) and the user (az):
diff -u /tmp/root_pip /tmp/usr_pip
--- /tmp/root_pip 2017-11-04 15:26:09.612643559 -0400
+++ /tmp/usr_pip 2017-11-04 15:25:52.396473226 -0400
@@ -1,39 +1,65 @@
astroid (1.4.5)
beautifulsoup4 (4.6.0)
+bleach (2.1)
blivet (1.20.3)
chardet (2.2.1)
coverage (4.4.1)
cssselect (0.9.1)
cupshelpers (1.0)
+cx-Oracle (6.0.2)
cycler (0.10.0)
decorator (4.0.11)
distro (1.0.2)
dnf-langpacks (0.15.1)
+entrypoints (0.2.3)
fros (1.1)
-html5lib (0.999)
+html5lib (1.0b10)
humanize (0.5.1)
ib-insync (0.8.5)
+ibapi (9.73.2)
iniparse (0.4)
initial-setup (0.3.40)
IPy (0.81)
+ipykernel (4.6.1)
+ipython (6.2.0)
+ipython-genutils (0.2.0)
ipywidgets (7.0.0)
isc (1.0)
javapackages (4.6.0)
+jedi (0.11.0)
+Jinja2 (2.9.6)
+jsonschema (2.6.0)
jupyter (1.0.0)
+jupyter-client (5.1.0)
+jupyter-console (5.2.0)
+jupyter-core (4.3.0)
langtable (0.0.35)
lazy-object-proxy (1.2.1)
lxml (3.7.2)
+MarkupSafe (1.0)
+matplotlib (2.1.0)
+mistune (0.7.4)
+nbconvert (5.3.1)
+nbformat (4.4.0)
+notebook (5.1.0)
ntplib (0.3.3)
numpy (1.13.3)
ordered-set (2.0.0)
pandas (0.20.3)
+pandocfilters (1.4.2)
+parso (0.1.0)
+pexpect (4.2.1)
+pickleshare (0.7.4)
pid (2.0.1)
Pillow (3.2.0)
pip (9.0.1)
+prompt-toolkit (1.0.15)
+ptyprocess (0.5.2)
pwquality (1.3.0)
pycups (1.9.72)
pycurl (7.43.0)
pyenchant (1.6.8)
+Pygments (2.2.0)
pygobject (3.20.1)
pygpgme (0.3)
pyinotify (0.9.6)
@@ -42,6 +68,7 @@
pylint (1.5.6)
pyparsing (2.2.0)
pyparted (3.10.7)
+PyQt5 (5.9)
PySocks (1.5.6)
python-augeas (0.5.0)
python-dateutil (2.6.1)
@@ -50,6 +77,9 @@
pytz (2017.2)
pyudev (0.21.0)
pyxdg (0.25)
+pyzmq (16.0.2)
+qtconsole (4.3.1)
+Quamash (0.5.5)
requests (2.10.0)
requests-file (1.4)
requests-ftp (0.3.1)
@@ -60,11 +90,21 @@
sepolicy (1.1)
setroubleshoot (1.1)
setuptools (20.1.1)
+simplegeneric (0.8.1)
+sip (4.19.3)
six (1.11.0)
slip (0.6.4)
slip.dbus (0.6.4)
sos (3.2)
SSSDConfig (1.15.3)
systemd-python (232)
+terminado (0.6)
+testpath (0.3.1)
+tornado (4.5.2)
+traitlets (4.3.2)
+tws-async (0.5.5)
urllib3 (1.15.1)
+wcwidth (0.1.7)
+webencodings (0.5.1)
+widgetsnbextension (3.0.3)
wrapt (1.10.10)

I just removed html5lib from system(root) , but tha made no difference to the plotting..

On Sat, Nov 4, 2017 at 11:09 AM, Andrew Z <formisc at gmail.com <mailto:formisc at gmail.com>> wrote:
hello,
the issue i'm experiencing is local to my laptop ( the other machines i have run examples just fine).
I described it here https://www.mail-archive.com/python-list at python.org/msg432343.html <https://www.mail-archive.com/python-list at python.org/msg432343.html> in details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output to see what exactly is happening behind the scene?

Thank you.
AZ

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http://web.uvic.ca/~jklymak/

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Jody,
what do i need to use ? i've been using either dnf or pip3 depending on
the situation ( if i want to install in to user's env - > pip3 ir system
wide - dnf ).

···

On Wed, Nov 8, 2017 at 4:50 PM, Jody Klymak <jklymak at uvic.ca> wrote:

Andrew,

Can I *strongly* suggest you just use anaconda, unless you have some
compelling reason not to?

It takes care of most of these packaging headaches. I guess I?m ignorant
about pycharm, but I?m pretty sure people use it w/ pycharm.

Cheers, Jody

On 8 Nov 2017, at 13:41 PM, Andrew Z <formisc at gmail.com> wrote:

I tried PyQT5 with the same unhappy results:

First, i verified that pyqt5 works -

PyQt5 (5.9.1) - Python bindings for the Qt cross
platform UI and application toolkit
  INSTALLED: 5.9
  LATEST: 5.9.1

ran http://www.thehackeruniversity.com/2014/01/23/pyqt5-beginner-tutorial/
- exampled worked with no issues. Everything got resolved in pycharm.

next installed the matplot backend:
   python3-matplotlib-qt5.x86_64

ran examples from here https://pythonspot.com/en/pyqt5-matplotlib/ - and
it hanged.
pycharm is complaining about :

from matplotlib.backends.backend_qt5agg import FigureCanvasQTAgg as FigureCanvas
from matplotlib.figure import Figure
import matplotlib.pyplot as plt

"can not find reference 'backends' in __init__.py'
' unresolved reference backend_qt5agg'
'cant reference 'figure' '
'no module named pyplot'

On Mon, Nov 6, 2017 at 6:33 PM, Andrew Z <formisc at gmail.com> wrote:

this is what i have installed:
[az at hp src]$ rpm -qa | grep tkint
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
[az at hp src]$

[az at hp src]$ pip3 list | grep tk
DEPRECATION: The default format will switch to columns in the future. You
can use --format=(legacy|columns) (or define a format=(legacy|columns) in
your pip.conf under the [list] section) to disable this warning.

rpm -qa | grep matplot
python-matplotlib-data-fonts-1.5.2-0.1.rc2.fc24.noarch
python3-matplotlib-1.5.2-0.1.rc2.fc24.x86_64
python3-matplotlib-tk-1.5.2-0.1.rc2.fc24.x86_64
python-matplotlib-data-1.5.2-0.1.rc2.fc24.noarch

basically i removed the pip3 installed matplot and felt back to rpm
provided in hope to have that config working.

Copy/paste from https://matplotlib.org/gallery
/pyplots/pyplot_simple.html#sphx-glr-gallery-pyplots-pyplot-simple-py
[az at hp src]$ which python3.5
/usr/bin/python3.5
[az at hp src]$ file /usr/bin/python3.5
/usr/bin/python3.5: ELF 64-bit LSB shared object, x86-64, version 1
(SYSV), dynamically linked, interpreter /lib64/ld-linux-x86-64.so.2, for
GNU/Linux 2.6.32, BuildID[sha1]=cc90b759ab34ba1043b3a96779f17eba4c0baf7a,
stripped
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,2,3,4])
<hangs with one core 100% busy>
Terminated
[az at hp src]$
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> import matplotlib
>>> matplotlib.get_backend()
'TkAgg'
>>> exit
Use exit() or Ctrl-D (i.e. EOF) to exit

removing TKagg from config:
[az at hp src]$ find / -name matplotlibrc* 2>>/dev/null
/etc/matplotlibrc
[az at hp src]$ grep -v ^# /etc/matplotlibrc
backend : TkAgg

changing to Agg and running the same code:

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.get_backend()
'agg'
>>> import matplotlib.pyplot as plt
>>> plt.ylabel('some numbers')
^C^Z
[1]+ Stopped python3.5

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,2,3,4])
<Hangs>

I'll stop making any changes to the env now, since i don't want to bring
any confusion into the matter.
thank you for helping out!

On Mon, Nov 6, 2017 at 4:48 PM, Andrew Z <formisc at gmail.com> wrote:

>backend in your matplotlibrc file to "agg" and it still hung on you?

Yes. I can confirm that

>Some possibilities are
>...."matplotlib.py" or "pylab.py" or some such, and then start to
wonder why their code doesn't work properly.

I used pycharms "scratch files" and typed directly in the interpreter-
always same result. I saw this naming issue whileresearching my problem. My
file is plot.py and works perfectly fine on any other machine but
this.(drives me mad, honestly). Directory is /home/az/work/nja/src. Also
consistent across machines (minus username)

>Have you looked to see if there are other programs that are running
during the import stage?

Im not sure what do you mean?
I have a xwindow terminal , nothing but Firefox is up.(well a tons of
regular background processes).

On Nov 6, 2017 16:18, "Benjamin Root" <ben.v.root at gmail.com> wrote:

Just to make absolutely clear, you set the default backend in your
matplotlibrc file to "agg" and it still hung on you? If that is the case,
then the problem isn't tkinter.

Some possibilities are

1) a massive font database that matplotlib is trying to build a cache
for
2) import of matplotlib from somewhere else unexpected (which would
explain pycharm's behavior), and that file/module is misbehaving. We have
seen instances in the past where users would name their plotting porting of
their code "matplotlib.py" or "pylab.py" or some such, and then start to
wonder why their code doesn't work properly.

Have you looked to see if there are other programs that are running
during the import stage? One thing matplotlib does for the first import is
to create a font cache, and it does this by using some fc-list program,
iirc. This can take a long time on some machines that have adobe's font
collection installed, for example, but that is usually a Windows thing....

Ben Root

On Mon, Nov 6, 2017 at 4:09 PM, Andrew Z <formisc at gmail.com> wrote:

Tkinter was most likely installed as part of rpm install.
Backends - not really. I do know that with mpld3and agg the scripts
hang.
Ihave reinstalled matplot using rpm ( rpm comes only in 1.5 version)
and with pip3.
Today i tried on the office machine (fedora 25). Rpm brings only
matplot1.5.

maybe 2 installed locally using pip3 messes with 1.5 leftover or
libraries.
Not sure how to validate this idea though..
Probably unrelated:
In pycharm pyplot is not been recognized as part of matplotlib when i
"import matplotlib.pyplot. yet the script doesnt crash on import
statement...

On Nov 6, 2017 15:13, "Benjamin Root" <ben.v.root at gmail.com> wrote:

How did you install Tkinter? Have you tested any other backends? Does
this happen for just the head-less "Agg" backend set as default?

On Sat, Nov 4, 2017 at 3:35 PM, Andrew Z <formisc at gmail.com> wrote:

more relevant information:
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.__file__
'/home/az/.local/lib/python3.5/site-packages/matplotlib/__init__.py'
>>> matplotlib.get_configdir()
'/home/az/.config/matplotlib'
>>> print(matplotlib.__version__)
2.1.0

now if i get the simplest plot :

[az at hp src]$ more ./main1.py
import matplotlib.pyplot as plt
print("imported")
plt.plot([1,2,4,1])
print("plot is done")
plt.show()
print("show is done")

[az at hp src]$ python3.5 main1.py --verbose-debug
$HOME=/home/az
matplotlib data path /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data
loaded rc file /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc
matplotlib version 2.1.0
verbose.level debug
interactive is False
platform is linux
loaded modules: ['_locale', 'urllib.request', 'numpy.lib.shape_base',
'numpy.matrixlib', 'ipaddress', 'hashlib', 'collections',
'numpy.lib.financial', 'atexit', 'numpy.lib._iotools',
'_frozen_importlib_external', 'numpy.polynomial.chebyshev', 'six',
'unittest.runner', '_sitebuiltins', 'numpy.compat', 'numpy.ma.core',
'abrt_exception_handler3', 'codecs', 'sre_constants', 'calendar',
'matplotlib.cbook', 'contextlib', 'heapq', 'ssl', 'dis', 'binascii',
'posixpath', 'cython_runtime', 'traceback', 'numpy.polynomial.laguerre',
'_hashlib', 'zipimport', 'email.utils', '_functools', 'copyreg', 'sys',
'_sre', 'matplotlib.cbook._backports', 'numpy.lib.arraysetops', 'random',
'email.parser', 'numpy.fft.helper', '_collections', 'difflib',
'numpy.lib.scimath', 'unittest', '_sysconfigdata', 'numpy', 'site', '_ast',
'json.scanner', 'os', 'http', 'functools', 'unittest.main', '
numpy.linalg.info', '_heapq', 'token', 'pathlib', 'tokenize',
'cycler', 'encodings.cp437', 'numpy.polynomial.polynomial',
'numpy.polynomial._polybase', 'numpy.lib.mixins', 'ctypes._endian',
'numpy.lib.arraypad', 'numpy.matrixlib.defmatrix', 'distutils.version',
'_signal', 'marshal', 'stat', 'pprint', 'base64', 'logging', 'enum',
'selectors', 'numpy.core', 'json.encoder', 'operator',
'numpy.testing.nosetester', 'matplotlib._version', 'numpy.ctypeslib',
'numpy.add_newdocs', 'unittest.util', '_weakref', 'select',
'importlib._bootstrap_external', 'mtrand', 'importlib._bootstrap',
'matplotlib.rcsetup', 'matplotlib.colors', 'numpy.testing.decorators',
'json', 'numpy.core.machar', 'email.encoders', 'six.moves.urllib',
'matplotlib', 'keyword', 'errno', 'numpy.lib.stride_tricks', '_socket',
'email.quoprimime', 'numpy.ma.extras', 'numbers', 'numpy.version',
'_bisect', '_string', 'numpy.lib.arrayterator', 'numpy.core.umath',
'numpy.lib', '_thread', 'time', '_frozen_importlib', 'numpy.core.info',
'numpy.core.multiarray', 'math', '_opcode', 'urllib.parse',
'distutils.sysconfig', 'ntpath', 'argparse', 'types', 'sre_compile',
'glob', '__main__', 'email._encoded_words', 'socket', '_struct', '
numpy.fft.info', 'unittest.signals', 'numpy.lib.npyio', 'grp',
'urllib.error', '_io', 'numpy._globals', 'gettext', 'numpy.compat.py3k',
'distutils', 'email.charset', 'ast', 'numpy.lib.function_base', 'uu',
'encodings', 'urllib', 'numpy.lib.twodim_base', 'encodings.latin_1',
'tempfile', 'numpy.lib._version', 'numpy.polynomial.polyutils', 'quopri',
'os.path', '_imp', 'email.base64mime', 'email.message', 'email.header',
'opcode', 'encodings.utf_8', 'reprlib', '_stat', '_warnings',
'email.feedparser', 'numpy.testing.utils', 'numpy.lib.utils',
'genericpath', 'numpy.polynomial.hermite', '_compat_pickle', 'bz2',
'_compression', 'subprocess', '_json', 'numpy.lib.nanfunctions', 'inspect',
'sysconfig', '_operator', 'shutil', 'pwd', 'warnings', '_ctypes',
'_random', 'email.iterators', '_collections_abc', '__future__', 'email',
'numpy._distributor_init', 'unittest.loader', '_bootlocale',
'numpy.core.records', 'fnmatch', '_posixsubprocess', 'numpy._import_tools',
'numpy.lib.format', '_lzma', 'numpy.core.arrayprint', 'json.decoder',
'signal', 'gzip', 'posix', 'textwrap', 'numpy.fft.fftpack',
'importlib.machinery', 'lzma', 'struct', 'pickle', '_codecs',
'numpy.core.einsumfunc', 'itertools', 'numpy.core.shape_base',
'encodings.aliases', 'numpy.lib.index_tricks', 'numpy.random.info',
'numpy.linalg._umath_linalg', 'matplotlib.fontconfig_pattern',
'six.moves.urllib.request', '_weakrefset', 'distutils.errors', 'io',
'locale', 'email.errors', 'numpy.core.numerictypes',
'numpy.compat._inspect', 'zlib', 'numpy.polynomial.hermite_e',
'numpy.lib.type_check', 'mpl_toolkits', 'numpy.fft.fftpack_lite', 'bisect',
'dateutil', 'numpy.polynomial', 'collections.abc', '_bz2', 'weakref',
'numpy.lib.ufunclike', 'numpy.core.function_base', 'abc', 'six.moves',
'numpy.linalg', 'numpy.polynomial.legendre', 'numpy.core.defchararray',
'numpy.linalg.lapack_lite', 'numpy.core._internal', 'importlib',
'unittest.suite', 'unittest.case', 'numpy.core.memmap', 'email._parseaddr',
'_pickle', '_ssl', 'matplotlib.compat.subprocess', 'numpy.random',
'datetime', 'email._policybase', 'sre_parse', 'numpy.linalg.linalg',
'copy', 'numpy.lib._datasource', 'numpy.core._methods', 'linecache',
'matplotlib.compat', 'numpy.testing', 'numpy.__config__',
'unittest.result', 're', 'http.client', 'numpy.lib.info',
'numpy.core.fromnumeric', 'numpy.core.getlimits', 'matplotlib._color_data',
'urllib.response', 'pyparsing', 'numpy.lib.polynomial', 'threading',
'string', 'numpy.core.numeric', 'numpy.ma', 'numpy.fft', 'ctypes',
'numpy.random.mtrand', 'matplotlib.cbook.deprecation', '_datetime',
'builtins']
CACHEDIR=/home/az/.cache/matplotlib
Using fontManager instance from /home/az/.cache/matplotlib/fon
tList.json
backend TkAgg version 8.6
imported
^C
Hangs at this point with CPU @ 100%

grep -v '#' /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc

The only line is :
backend : TkAgg

[az at hp src]$ gcc --version
gcc (GCC) 6.3.1 20161221 (Red Hat 6.3.1-1)

I installed using pip3 into --user directory.
but i also remember that i used dnf to get tkInnter installed:
rpm -qa | grep tkin
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
tix-1:8.4.3-17.fc24.x86_64
if i were to compare "pip3 list" between system (root) and the user
(az):
diff -u /tmp/root_pip /tmp/usr_pip
--- /tmp/root_pip 2017-11-04 15:26:09.612643559 -0400
+++ /tmp/usr_pip 2017-11-04 15:25:52.396473226 -0400
@@ -1,39 +1,65 @@
astroid (1.4.5)
beautifulsoup4 (4.6.0)
+bleach (2.1)
blivet (1.20.3)
chardet (2.2.1)
coverage (4.4.1)
cssselect (0.9.1)
cupshelpers (1.0)
+cx-Oracle (6.0.2)
cycler (0.10.0)
decorator (4.0.11)
distro (1.0.2)
dnf-langpacks (0.15.1)
+entrypoints (0.2.3)
fros (1.1)
-html5lib (0.999)
+html5lib (1.0b10)
humanize (0.5.1)
ib-insync (0.8.5)
+ibapi (9.73.2)
iniparse (0.4)
initial-setup (0.3.40)
IPy (0.81)
+ipykernel (4.6.1)
+ipython (6.2.0)
+ipython-genutils (0.2.0)
ipywidgets (7.0.0)
isc (1.0)
javapackages (4.6.0)
+jedi (0.11.0)
+Jinja2 (2.9.6)
+jsonschema (2.6.0)
jupyter (1.0.0)
+jupyter-client (5.1.0)
+jupyter-console (5.2.0)
+jupyter-core (4.3.0)
langtable (0.0.35)
lazy-object-proxy (1.2.1)
lxml (3.7.2)
+MarkupSafe (1.0)
+matplotlib (2.1.0)
+mistune (0.7.4)
+nbconvert (5.3.1)
+nbformat (4.4.0)
+notebook (5.1.0)
ntplib (0.3.3)
numpy (1.13.3)
ordered-set (2.0.0)
pandas (0.20.3)
+pandocfilters (1.4.2)
+parso (0.1.0)
+pexpect (4.2.1)
+pickleshare (0.7.4)
pid (2.0.1)
Pillow (3.2.0)
pip (9.0.1)
+prompt-toolkit (1.0.15)
+ptyprocess (0.5.2)
pwquality (1.3.0)
pycups (1.9.72)
pycurl (7.43.0)
pyenchant (1.6.8)
+Pygments (2.2.0)
pygobject (3.20.1)
pygpgme (0.3)
pyinotify (0.9.6)
@@ -42,6 +68,7 @@
pylint (1.5.6)
pyparsing (2.2.0)
pyparted (3.10.7)
+PyQt5 (5.9)
PySocks (1.5.6)
python-augeas (0.5.0)
python-dateutil (2.6.1)
@@ -50,6 +77,9 @@
pytz (2017.2)
pyudev (0.21.0)
pyxdg (0.25)
+pyzmq (16.0.2)
+qtconsole (4.3.1)
+Quamash (0.5.5)
requests (2.10.0)
requests-file (1.4)
requests-ftp (0.3.1)
@@ -60,11 +90,21 @@
sepolicy (1.1)
setroubleshoot (1.1)
setuptools (20.1.1)
+simplegeneric (0.8.1)
+sip (4.19.3)
six (1.11.0)
slip (0.6.4)
slip.dbus (0.6.4)
sos (3.2)
SSSDConfig (1.15.3)
systemd-python (232)
+terminado (0.6)
+testpath (0.3.1)
+tornado (4.5.2)
+traitlets (4.3.2)
+tws-async (0.5.5)
urllib3 (1.15.1)
+wcwidth (0.1.7)
+webencodings (0.5.1)
+widgetsnbextension (3.0.3)
wrapt (1.10.10)

I just removed html5lib from system(root) , but tha made no
difference to the plotting..

On Sat, Nov 4, 2017 at 11:09 AM, Andrew Z <formisc at gmail.com> wrote:

hello,
the issue i'm experiencing is local to my laptop ( the other
machines i have run examples just fine).
I described it here https://www.mail-archive.com/p
ython-list at python.org/msg432343.html in details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output
to see what exactly is happening behind the scene?

Thank you.
AZ

_______________________________________________
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Matplotlib-users at python.org
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_______________________________________________
Matplotlib-users mailing list
Matplotlib-users at python.org
https://mail.python.org/mailman/listinfo/matplotlib-users

--
Jody Klymak
http://web.uvic.ca/~jklymak/

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https://conda.io/docs/index.html

···

On 8 Nov 2017, at 13:53 PM, Andrew Z <formisc at gmail.com> wrote:

Jody,
what do i need to use ? i've been using either dnf or pip3 depending on the situation ( if i want to install in to user's env - > pip3 ir system wide - dnf ).

On Wed, Nov 8, 2017 at 4:50 PM, Jody Klymak <jklymak at uvic.ca <mailto:jklymak at uvic.ca>> wrote:
Andrew,

Can I *strongly* suggest you just use anaconda, unless you have some compelling reason not to?

It takes care of most of these packaging headaches. I guess I?m ignorant about pycharm, but I?m pretty sure people use it w/ pycharm.

Cheers, Jody

On 8 Nov 2017, at 13:41 PM, Andrew Z <formisc at gmail.com <mailto:formisc at gmail.com>> wrote:

I tried PyQT5 with the same unhappy results:

First, i verified that pyqt5 works -

PyQt5 (5.9.1) - Python bindings for the Qt cross platform UI and application toolkit
  INSTALLED: 5.9
  LATEST: 5.9.1

ran http://www.thehackeruniversity.com/2014/01/23/pyqt5-beginner-tutorial/ - exampled worked with no issues. Everything got resolved in pycharm.

next installed the matplot backend:
   python3-matplotlib-qt5.x86_64

ran examples from here https://pythonspot.com/en/pyqt5-matplotlib/ - and it hanged.
pycharm is complaining about :
from matplotlib.backends.backend_qt5agg import FigureCanvasQTAgg as FigureCanvas
from matplotlib.figure import Figure
import matplotlib.pyplot as plt
"can not find reference 'backends' in __init__.py'
' unresolved reference backend_qt5agg'
'cant reference 'figure' '
'no module named pyplot'

On Mon, Nov 6, 2017 at 6:33 PM, Andrew Z <formisc at gmail.com <mailto:formisc at gmail.com>> wrote:
this is what i have installed:
[az at hp src]$ rpm -qa | grep tkint
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
[az at hp src]$

[az at hp src]$ pip3 list | grep tk
DEPRECATION: The default format will switch to columns in the future. You can use --format=(legacy|columns) (or define a format=(legacy|columns) in your pip.conf under the [list] section) to disable this warning.

rpm -qa | grep matplot
python-matplotlib-data-fonts-1.5.2-0.1.rc2.fc24.noarch
python3-matplotlib-1.5.2-0.1.rc2.fc24.x86_64
python3-matplotlib-tk-1.5.2-0.1.rc2.fc24.x86_64
python-matplotlib-data-1.5.2-0.1.rc2.fc24.noarch

basically i removed the pip3 installed matplot and felt back to rpm provided in hope to have that config working.

Copy/paste from https://matplotlib.org/gallery/pyplots/pyplot_simple.html#sphx-glr-gallery-pyplots-pyplot-simple-py
[az at hp src]$ which python3.5
/usr/bin/python3.5
[az at hp src]$ file /usr/bin/python3.5
/usr/bin/python3.5: ELF 64-bit LSB shared object, x86-64, version 1 (SYSV), dynamically linked, interpreter /lib64/ld-linux-x86-64.so.2, for GNU/Linux 2.6.32, BuildID[sha1]=cc90b759ab34ba1043b3a96779f17eba4c0baf7a, stripped
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,2,3,4])
<hangs with one core 100% busy>
Terminated
[az at hp src]$
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> import matplotlib
>>> matplotlib.get_backend()
'TkAgg'
>>> exit
Use exit() or Ctrl-D (i.e. EOF) to exit

removing TKagg from config:
[az at hp src]$ find / -name matplotlibrc* 2>>/dev/null
/etc/matplotlibrc
[az at hp src]$ grep -v ^# /etc/matplotlibrc
backend : TkAgg

changing to Agg and running the same code:

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.get_backend()
'agg'
>>> import matplotlib.pyplot as plt
>>> plt.ylabel('some numbers')
^C^Z
[1]+ Stopped python3.5

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,2,3,4])
<Hangs>

I'll stop making any changes to the env now, since i don't want to bring any confusion into the matter.
thank you for helping out!

On Mon, Nov 6, 2017 at 4:48 PM, Andrew Z <formisc at gmail.com <mailto:formisc at gmail.com>> wrote:

>backend in your matplotlibrc file to "agg" and it still hung on you?

Yes. I can confirm that

>Some possibilities are
>...."matplotlib.py" or "pylab.py" or some such, and then start to wonder why their code doesn't work properly.

I used pycharms "scratch files" and typed directly in the interpreter- always same result. I saw this naming issue whileresearching my problem. My file is plot.py and works perfectly fine on any other machine but this.(drives me mad, honestly). Directory is /home/az/work/nja/src. Also consistent across machines (minus username)

>Have you looked to see if there are other programs that are running during the import stage?

Im not sure what do you mean?
I have a xwindow terminal , nothing but Firefox is up.(well a tons of regular background processes).

On Nov 6, 2017 16:18, "Benjamin Root" <ben.v.root at gmail.com <mailto:ben.v.root at gmail.com>> wrote:
Just to make absolutely clear, you set the default backend in your matplotlibrc file to "agg" and it still hung on you? If that is the case, then the problem isn't tkinter.

Some possibilities are

1) a massive font database that matplotlib is trying to build a cache for
2) import of matplotlib from somewhere else unexpected (which would explain pycharm's behavior), and that file/module is misbehaving. We have seen instances in the past where users would name their plotting porting of their code "matplotlib.py" or "pylab.py" or some such, and then start to wonder why their code doesn't work properly.

Have you looked to see if there are other programs that are running during the import stage? One thing matplotlib does for the first import is to create a font cache, and it does this by using some fc-list program, iirc. This can take a long time on some machines that have adobe's font collection installed, for example, but that is usually a Windows thing....

Ben Root

On Mon, Nov 6, 2017 at 4:09 PM, Andrew Z <formisc at gmail.com <mailto:formisc at gmail.com>> wrote:
Tkinter was most likely installed as part of rpm install.
Backends - not really. I do know that with mpld3and agg the scripts hang.
Ihave reinstalled matplot using rpm ( rpm comes only in 1.5 version) and with pip3.
Today i tried on the office machine (fedora 25). Rpm brings only matplot1.5.

maybe 2 installed locally using pip3 messes with 1.5 leftover or libraries.
Not sure how to validate this idea though..
Probably unrelated:
In pycharm pyplot is not been recognized as part of matplotlib when i "import matplotlib.pyplot. yet the script doesnt crash on import statement...

On Nov 6, 2017 15:13, "Benjamin Root" <ben.v.root at gmail.com <mailto:ben.v.root at gmail.com>> wrote:
How did you install Tkinter? Have you tested any other backends? Does this happen for just the head-less "Agg" backend set as default?

On Sat, Nov 4, 2017 at 3:35 PM, Andrew Z <formisc at gmail.com <mailto:formisc at gmail.com>> wrote:
more relevant information:
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.__file__
'/home/az/.local/lib/python3.5/site-packages/matplotlib/__init__.py'
>>> matplotlib.get_configdir()
'/home/az/.config/matplotlib'
>>> print(matplotlib.__version__)
2.1.0

now if i get the simplest plot :

[az at hp src]$ more ./main1.py
import matplotlib.pyplot as plt
print("imported")
plt.plot([1,2,4,1])
print("plot is done")
plt.show()
print("show is done")

[az at hp src]$ python3.5 main1.py --verbose-debug
$HOME=/home/az
matplotlib data path /home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-data
loaded rc file /home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-data/matplotlibrc
matplotlib version 2.1.0
verbose.level debug
interactive is False
platform is linux
loaded modules: ['_locale', 'urllib.request', 'numpy.lib.shape_base', 'numpy.matrixlib', 'ipaddress', 'hashlib', 'collections', 'numpy.lib.financial', 'atexit', 'numpy.lib._iotools', '_frozen_importlib_external', 'numpy.polynomial.chebyshev', 'six', 'unittest.runner', '_sitebuiltins', 'numpy.compat', 'numpy.ma.core', 'abrt_exception_handler3', 'codecs', 'sre_constants', 'calendar', 'matplotlib.cbook', 'contextlib', 'heapq', 'ssl', 'dis', 'binascii', 'posixpath', 'cython_runtime', 'traceback', 'numpy.polynomial.laguerre', '_hashlib', 'zipimport', 'email.utils', '_functools', 'copyreg', 'sys', '_sre', 'matplotlib.cbook._backports', 'numpy.lib.arraysetops', 'random', 'email.parser', 'numpy.fft.helper', '_collections', 'difflib', 'numpy.lib.scimath', 'unittest', '_sysconfigdata', 'numpy', 'site', '_ast', 'json.scanner', 'os', 'http', 'functools', 'unittest.main', 'numpy.linalg.info <http://numpy.linalg.info/>', '_heapq', 'token', 'pathlib', 'tokenize', 'cycler', 'encodings.cp437', 'numpy.polynomial.polynomial', 'numpy.polynomial._polybase', 'numpy.lib.mixins', 'ctypes._endian', 'numpy.lib.arraypad', 'numpy.matrixlib.defmatrix', 'distutils.version', '_signal', 'marshal', 'stat', 'pprint', 'base64', 'logging', 'enum', 'selectors', 'numpy.core', 'json.encoder', 'operator', 'numpy.testing.nosetester', 'matplotlib._version', 'numpy.ctypeslib', 'numpy.add_newdocs', 'unittest.util', '_weakref', 'select', 'importlib._bootstrap_external', 'mtrand', 'importlib._bootstrap', 'matplotlib.rcsetup', 'matplotlib.colors', 'numpy.testing.decorators', 'json', 'numpy.core.machar', 'email.encoders', 'six.moves.urllib', 'matplotlib', 'keyword', 'errno', 'numpy.lib.stride_tricks', '_socket', 'email.quoprimime', 'numpy.ma.extras', 'numbers', 'numpy.version', '_bisect', '_string', 'numpy.lib.arrayterator', 'numpy.core.umath', 'numpy.lib', '_thread', 'time', '_frozen_importlib', 'numpy.core.info <http://numpy.core.info/>', 'numpy.core.multiarray', 'math', '_opcode', 'urllib.parse', 'distutils.sysconfig', 'ntpath', 'argparse', 'types', 'sre_compile', 'glob', '__main__', 'email._encoded_words', 'socket', '_struct', 'numpy.fft.info <http://numpy.fft.info/>', 'unittest.signals', 'numpy.lib.npyio', 'grp', 'urllib.error', '_io', 'numpy._globals', 'gettext', 'numpy.compat.py3k', 'distutils', 'email.charset', 'ast', 'numpy.lib.function_base', 'uu', 'encodings', 'urllib', 'numpy.lib.twodim_base', 'encodings.latin_1', 'tempfile', 'numpy.lib._version', 'numpy.polynomial.polyutils', 'quopri', 'os.path', '_imp', 'email.base64mime', 'email.message', 'email.header', 'opcode', 'encodings.utf_8', 'reprlib', '_stat', '_warnings', 'email.feedparser', 'numpy.testing.utils', 'numpy.lib.utils', 'genericpath', 'numpy.polynomial.hermite', '_compat_pickle', 'bz2', '_compression', 'subprocess', '_json', 'numpy.lib.nanfunctions', 'inspect', 'sysconfig', '_operator', 'shutil', 'pwd', 'warnings', '_ctypes', '_random', 'email.iterators', '_collections_abc', '__future__', 'email', 'numpy._distributor_init', 'unittest.loader', '_bootlocale', 'numpy.core.records', 'fnmatch', '_posixsubprocess', 'numpy._import_tools', 'numpy.lib.format', '_lzma', 'numpy.core.arrayprint', 'json.decoder', 'signal', 'gzip', 'posix', 'textwrap', 'numpy.fft.fftpack', 'importlib.machinery', 'lzma', 'struct', 'pickle', '_codecs', 'numpy.core.einsumfunc', 'itertools', 'numpy.core.shape_base', 'encodings.aliases', 'numpy.lib.index_tricks', 'numpy.random.info <http://numpy.random.info/>', 'numpy.linalg._umath_linalg', 'matplotlib.fontconfig_pattern', 'six.moves.urllib.request', '_weakrefset', 'distutils.errors', 'io', 'locale', 'email.errors', 'numpy.core.numerictypes', 'numpy.compat._inspect', 'zlib', 'numpy.polynomial.hermite_e', 'numpy.lib.type_check', 'mpl_toolkits', 'numpy.fft.fftpack_lite', 'bisect', 'dateutil', 'numpy.polynomial', 'collections.abc', '_bz2', 'weakref', 'numpy.lib.ufunclike', 'numpy.core.function_base', 'abc', 'six.moves', 'numpy.linalg', 'numpy.polynomial.legendre', 'numpy.core.defchararray', 'numpy.linalg.lapack_lite', 'numpy.core._internal', 'importlib', 'unittest.suite', 'unittest.case', 'numpy.core.memmap', 'email._parseaddr', '_pickle', '_ssl', 'matplotlib.compat.subprocess', 'numpy.random', 'datetime', 'email._policybase', 'sre_parse', 'numpy.linalg.linalg', 'copy', 'numpy.lib._datasource', 'numpy.core._methods', 'linecache', 'matplotlib.compat', 'numpy.testing', 'numpy.__config__', 'unittest.result', 're', 'http.client', 'numpy.lib.info <http://numpy.lib.info/>', 'numpy.core.fromnumeric', 'numpy.core.getlimits', 'matplotlib._color_data', 'urllib.response', 'pyparsing', 'numpy.lib.polynomial', 'threading', 'string', 'numpy.core.numeric', 'numpy.ma <http://numpy.ma/>', 'numpy.fft', 'ctypes', 'numpy.random.mtrand', 'matplotlib.cbook.deprecation', '_datetime', 'builtins']
CACHEDIR=/home/az/.cache/matplotlib
Using fontManager instance from /home/az/.cache/matplotlib/fontList.json
backend TkAgg version 8.6
imported
^C
Hangs at this point with CPU @ 100%

grep -v '#' /home/az/.local/lib/python3.5/site-packages/matplotlib/mpl-data/matplotlibrc

The only line is :
backend : TkAgg

[az at hp src]$ gcc --version
gcc (GCC) 6.3.1 20161221 (Red Hat 6.3.1-1)

I installed using pip3 into --user directory.
but i also remember that i used dnf to get tkInnter installed:
rpm -qa | grep tkin
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
tix-1:8.4.3-17.fc24.x86_64
if i were to compare "pip3 list" between system (root) and the user (az):
diff -u /tmp/root_pip /tmp/usr_pip
--- /tmp/root_pip 2017-11-04 15:26:09.612643559 -0400
+++ /tmp/usr_pip 2017-11-04 15:25:52.396473226 -0400
@@ -1,39 +1,65 @@
astroid (1.4.5)
beautifulsoup4 (4.6.0)
+bleach (2.1)
blivet (1.20.3)
chardet (2.2.1)
coverage (4.4.1)
cssselect (0.9.1)
cupshelpers (1.0)
+cx-Oracle (6.0.2)
cycler (0.10.0)
decorator (4.0.11)
distro (1.0.2)
dnf-langpacks (0.15.1)
+entrypoints (0.2.3)
fros (1.1)
-html5lib (0.999)
+html5lib (1.0b10)
humanize (0.5.1)
ib-insync (0.8.5)
+ibapi (9.73.2)
iniparse (0.4)
initial-setup (0.3.40)
IPy (0.81)
+ipykernel (4.6.1)
+ipython (6.2.0)
+ipython-genutils (0.2.0)
ipywidgets (7.0.0)
isc (1.0)
javapackages (4.6.0)
+jedi (0.11.0)
+Jinja2 (2.9.6)
+jsonschema (2.6.0)
jupyter (1.0.0)
+jupyter-client (5.1.0)
+jupyter-console (5.2.0)
+jupyter-core (4.3.0)
langtable (0.0.35)
lazy-object-proxy (1.2.1)
lxml (3.7.2)
+MarkupSafe (1.0)
+matplotlib (2.1.0)
+mistune (0.7.4)
+nbconvert (5.3.1)
+nbformat (4.4.0)
+notebook (5.1.0)
ntplib (0.3.3)
numpy (1.13.3)
ordered-set (2.0.0)
pandas (0.20.3)
+pandocfilters (1.4.2)
+parso (0.1.0)
+pexpect (4.2.1)
+pickleshare (0.7.4)
pid (2.0.1)
Pillow (3.2.0)
pip (9.0.1)
+prompt-toolkit (1.0.15)
+ptyprocess (0.5.2)
pwquality (1.3.0)
pycups (1.9.72)
pycurl (7.43.0)
pyenchant (1.6.8)
+Pygments (2.2.0)
pygobject (3.20.1)
pygpgme (0.3)
pyinotify (0.9.6)
@@ -42,6 +68,7 @@
pylint (1.5.6)
pyparsing (2.2.0)
pyparted (3.10.7)
+PyQt5 (5.9)
PySocks (1.5.6)
python-augeas (0.5.0)
python-dateutil (2.6.1)
@@ -50,6 +77,9 @@
pytz (2017.2)
pyudev (0.21.0)
pyxdg (0.25)
+pyzmq (16.0.2)
+qtconsole (4.3.1)
+Quamash (0.5.5)
requests (2.10.0)
requests-file (1.4)
requests-ftp (0.3.1)
@@ -60,11 +90,21 @@
sepolicy (1.1)
setroubleshoot (1.1)
setuptools (20.1.1)
+simplegeneric (0.8.1)
+sip (4.19.3)
six (1.11.0)
slip (0.6.4)
slip.dbus (0.6.4)
sos (3.2)
SSSDConfig (1.15.3)
systemd-python (232)
+terminado (0.6)
+testpath (0.3.1)
+tornado (4.5.2)
+traitlets (4.3.2)
+tws-async (0.5.5)
urllib3 (1.15.1)
+wcwidth (0.1.7)
+webencodings (0.5.1)
+widgetsnbextension (3.0.3)
wrapt (1.10.10)

I just removed html5lib from system(root) , but tha made no difference to the plotting..

On Sat, Nov 4, 2017 at 11:09 AM, Andrew Z <formisc at gmail.com <mailto:formisc at gmail.com>> wrote:
hello,
the issue i'm experiencing is local to my laptop ( the other machines i have run examples just fine).
I described it here https://www.mail-archive.com/python-list at python.org/msg432343.html <https://www.mail-archive.com/python-list at python.org/msg432343.html> in details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output to see what exactly is happening behind the scene?

Thank you.
AZ

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--
Jody Klymak
http://web.uvic.ca/~jklymak/

--
Jody Klymak
http://web.uvic.ca/~jklymak/

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i'll take a look @ conda. Thank you.

Meanwhile. i resolved the problem with "missing" plot, backend packages
from matplot in pycharm - the /usr/lib64/python3.5 was absent from the
pycharm's config.
now i don't have any warnings from from pycharm - "what a charm!" (sorry,
couldn't resists) . But the example still won't work.

// another Tito's shot maybe due...

···

On Wed, Nov 8, 2017 at 5:00 PM, Jody Klymak <jklymak at uvic.ca> wrote:

https://conda.io/docs/index.html

On 8 Nov 2017, at 13:53 PM, Andrew Z <formisc at gmail.com> wrote:

Jody,
what do i need to use ? i've been using either dnf or pip3 depending on
the situation ( if i want to install in to user's env - > pip3 ir system
wide - dnf ).

On Wed, Nov 8, 2017 at 4:50 PM, Jody Klymak <jklymak at uvic.ca> wrote:

Andrew,

Can I *strongly* suggest you just use anaconda, unless you have some
compelling reason not to?

It takes care of most of these packaging headaches. I guess I?m ignorant
about pycharm, but I?m pretty sure people use it w/ pycharm.

Cheers, Jody

On 8 Nov 2017, at 13:41 PM, Andrew Z <formisc at gmail.com> wrote:

I tried PyQT5 with the same unhappy results:

First, i verified that pyqt5 works -

PyQt5 (5.9.1) - Python bindings for the Qt cross
platform UI and application toolkit
  INSTALLED: 5.9
  LATEST: 5.9.1

ran http://www.thehackeruniversity.com/2014/01/23/pyqt5-
beginner-tutorial/ - exampled worked with no issues. Everything got
resolved in pycharm.

next installed the matplot backend:
   python3-matplotlib-qt5.x86_64

ran examples from here https://pythonspot.com/en/pyqt5-matplotlib/ - and
it hanged.
pycharm is complaining about :

from matplotlib.backends.backend_qt5agg import FigureCanvasQTAgg as FigureCanvas
from matplotlib.figure import Figure
import matplotlib.pyplot as plt

"can not find reference 'backends' in __init__.py'
' unresolved reference backend_qt5agg'
'cant reference 'figure' '
'no module named pyplot'

On Mon, Nov 6, 2017 at 6:33 PM, Andrew Z <formisc at gmail.com> wrote:

this is what i have installed:
[az at hp src]$ rpm -qa | grep tkint
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
[az at hp src]$

[az at hp src]$ pip3 list | grep tk
DEPRECATION: The default format will switch to columns in the future.
You can use --format=(legacy|columns) (or define a format=(legacy|columns)
in your pip.conf under the [list] section) to disable this warning.

rpm -qa | grep matplot
python-matplotlib-data-fonts-1.5.2-0.1.rc2.fc24.noarch
python3-matplotlib-1.5.2-0.1.rc2.fc24.x86_64
python3-matplotlib-tk-1.5.2-0.1.rc2.fc24.x86_64
python-matplotlib-data-1.5.2-0.1.rc2.fc24.noarch

basically i removed the pip3 installed matplot and felt back to rpm
provided in hope to have that config working.

Copy/paste from https://matplotlib.org/gallery
/pyplots/pyplot_simple.html#sphx-glr-gallery-pyplots-pyplot-simple-py
[az at hp src]$ which python3.5
/usr/bin/python3.5
[az at hp src]$ file /usr/bin/python3.5
/usr/bin/python3.5: ELF 64-bit LSB shared object, x86-64, version 1
(SYSV), dynamically linked, interpreter /lib64/ld-linux-x86-64.so.2, for
GNU/Linux 2.6.32, BuildID[sha1]=cc90b759ab34ba1043b3a96779f17eba4c0baf7a,
stripped
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,2,3,4])
<hangs with one core 100% busy>
Terminated
[az at hp src]$
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> import matplotlib
>>> matplotlib.get_backend()
'TkAgg'
>>> exit
Use exit() or Ctrl-D (i.e. EOF) to exit

removing TKagg from config:
[az at hp src]$ find / -name matplotlibrc* 2>>/dev/null
/etc/matplotlibrc
[az at hp src]$ grep -v ^# /etc/matplotlibrc
backend : TkAgg

changing to Agg and running the same code:

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.get_backend()
'agg'
>>> import matplotlib.pyplot as plt
>>> plt.ylabel('some numbers')
^C^Z
[1]+ Stopped python3.5

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,2,3,4])
<Hangs>

I'll stop making any changes to the env now, since i don't want to bring
any confusion into the matter.
thank you for helping out!

On Mon, Nov 6, 2017 at 4:48 PM, Andrew Z <formisc at gmail.com> wrote:

>backend in your matplotlibrc file to "agg" and it still hung on you?

Yes. I can confirm that

>Some possibilities are
>...."matplotlib.py" or "pylab.py" or some such, and then start to
wonder why their code doesn't work properly.

I used pycharms "scratch files" and typed directly in the interpreter-
always same result. I saw this naming issue whileresearching my problem. My
file is plot.py and works perfectly fine on any other machine but
this.(drives me mad, honestly). Directory is /home/az/work/nja/src. Also
consistent across machines (minus username)

>Have you looked to see if there are other programs that are running
during the import stage?

Im not sure what do you mean?
I have a xwindow terminal , nothing but Firefox is up.(well a tons of
regular background processes).

On Nov 6, 2017 16:18, "Benjamin Root" <ben.v.root at gmail.com> wrote:

Just to make absolutely clear, you set the default backend in your
matplotlibrc file to "agg" and it still hung on you? If that is the case,
then the problem isn't tkinter.

Some possibilities are

1) a massive font database that matplotlib is trying to build a cache
for
2) import of matplotlib from somewhere else unexpected (which would
explain pycharm's behavior), and that file/module is misbehaving. We have
seen instances in the past where users would name their plotting porting of
their code "matplotlib.py" or "pylab.py" or some such, and then start to
wonder why their code doesn't work properly.

Have you looked to see if there are other programs that are running
during the import stage? One thing matplotlib does for the first import is
to create a font cache, and it does this by using some fc-list program,
iirc. This can take a long time on some machines that have adobe's font
collection installed, for example, but that is usually a Windows thing....

Ben Root

On Mon, Nov 6, 2017 at 4:09 PM, Andrew Z <formisc at gmail.com> wrote:

Tkinter was most likely installed as part of rpm install.
Backends - not really. I do know that with mpld3and agg the scripts
hang.
Ihave reinstalled matplot using rpm ( rpm comes only in 1.5 version)
and with pip3.
Today i tried on the office machine (fedora 25). Rpm brings only
matplot1.5.

maybe 2 installed locally using pip3 messes with 1.5 leftover or
libraries.
Not sure how to validate this idea though..
Probably unrelated:
In pycharm pyplot is not been recognized as part of matplotlib when i
"import matplotlib.pyplot. yet the script doesnt crash on import
statement...

On Nov 6, 2017 15:13, "Benjamin Root" <ben.v.root at gmail.com> wrote:

How did you install Tkinter? Have you tested any other backends? Does
this happen for just the head-less "Agg" backend set as default?

On Sat, Nov 4, 2017 at 3:35 PM, Andrew Z <formisc at gmail.com> wrote:

more relevant information:
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more
information.
>>> import matplotlib
>>> matplotlib.__file__
'/home/az/.local/lib/python3.5/site-packages/matplotlib/__init__.py'
>>> matplotlib.get_configdir()
'/home/az/.config/matplotlib'
>>> print(matplotlib.__version__)
2.1.0

now if i get the simplest plot :

[az at hp src]$ more ./main1.py
import matplotlib.pyplot as plt
print("imported")
plt.plot([1,2,4,1])
print("plot is done")
plt.show()
print("show is done")

[az at hp src]$ python3.5 main1.py --verbose-debug
$HOME=/home/az
matplotlib data path /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data
loaded rc file /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc
matplotlib version 2.1.0
verbose.level debug
interactive is False
platform is linux
loaded modules: ['_locale', 'urllib.request',
'numpy.lib.shape_base', 'numpy.matrixlib', 'ipaddress', 'hashlib',
'collections', 'numpy.lib.financial', 'atexit', 'numpy.lib._iotools',
'_frozen_importlib_external', 'numpy.polynomial.chebyshev', 'six',
'unittest.runner', '_sitebuiltins', 'numpy.compat', 'numpy.ma.core',
'abrt_exception_handler3', 'codecs', 'sre_constants', 'calendar',
'matplotlib.cbook', 'contextlib', 'heapq', 'ssl', 'dis', 'binascii',
'posixpath', 'cython_runtime', 'traceback', 'numpy.polynomial.laguerre',
'_hashlib', 'zipimport', 'email.utils', '_functools', 'copyreg', 'sys',
'_sre', 'matplotlib.cbook._backports', 'numpy.lib.arraysetops', 'random',
'email.parser', 'numpy.fft.helper', '_collections', 'difflib',
'numpy.lib.scimath', 'unittest', '_sysconfigdata', 'numpy', 'site', '_ast',
'json.scanner', 'os', 'http', 'functools', 'unittest.main', '
numpy.linalg.info', '_heapq', 'token', 'pathlib', 'tokenize',
'cycler', 'encodings.cp437', 'numpy.polynomial.polynomial',
'numpy.polynomial._polybase', 'numpy.lib.mixins', 'ctypes._endian',
'numpy.lib.arraypad', 'numpy.matrixlib.defmatrix', 'distutils.version',
'_signal', 'marshal', 'stat', 'pprint', 'base64', 'logging', 'enum',
'selectors', 'numpy.core', 'json.encoder', 'operator',
'numpy.testing.nosetester', 'matplotlib._version', 'numpy.ctypeslib',
'numpy.add_newdocs', 'unittest.util', '_weakref', 'select',
'importlib._bootstrap_external', 'mtrand', 'importlib._bootstrap',
'matplotlib.rcsetup', 'matplotlib.colors', 'numpy.testing.decorators',
'json', 'numpy.core.machar', 'email.encoders', 'six.moves.urllib',
'matplotlib', 'keyword', 'errno', 'numpy.lib.stride_tricks', '_socket',
'email.quoprimime', 'numpy.ma.extras', 'numbers', 'numpy.version',
'_bisect', '_string', 'numpy.lib.arrayterator', 'numpy.core.umath',
'numpy.lib', '_thread', 'time', '_frozen_importlib', '
numpy.core.info', 'numpy.core.multiarray', 'math', '_opcode',
'urllib.parse', 'distutils.sysconfig', 'ntpath', 'argparse', 'types',
'sre_compile', 'glob', '__main__', 'email._encoded_words', 'socket',
'_struct', 'numpy.fft.info', 'unittest.signals', 'numpy.lib.npyio',
'grp', 'urllib.error', '_io', 'numpy._globals', 'gettext',
'numpy.compat.py3k', 'distutils', 'email.charset', 'ast',
'numpy.lib.function_base', 'uu', 'encodings', 'urllib',
'numpy.lib.twodim_base', 'encodings.latin_1', 'tempfile',
'numpy.lib._version', 'numpy.polynomial.polyutils', 'quopri', 'os.path',
'_imp', 'email.base64mime', 'email.message', 'email.header', 'opcode',
'encodings.utf_8', 'reprlib', '_stat', '_warnings', 'email.feedparser',
'numpy.testing.utils', 'numpy.lib.utils', 'genericpath',
'numpy.polynomial.hermite', '_compat_pickle', 'bz2', '_compression',
'subprocess', '_json', 'numpy.lib.nanfunctions', 'inspect', 'sysconfig',
'_operator', 'shutil', 'pwd', 'warnings', '_ctypes', '_random',
'email.iterators', '_collections_abc', '__future__', 'email',
'numpy._distributor_init', 'unittest.loader', '_bootlocale',
'numpy.core.records', 'fnmatch', '_posixsubprocess', 'numpy._import_tools',
'numpy.lib.format', '_lzma', 'numpy.core.arrayprint', 'json.decoder',
'signal', 'gzip', 'posix', 'textwrap', 'numpy.fft.fftpack',
'importlib.machinery', 'lzma', 'struct', 'pickle', '_codecs',
'numpy.core.einsumfunc', 'itertools', 'numpy.core.shape_base',
'encodings.aliases', 'numpy.lib.index_tricks', 'numpy.random.info',
'numpy.linalg._umath_linalg', 'matplotlib.fontconfig_pattern',
'six.moves.urllib.request', '_weakrefset', 'distutils.errors', 'io',
'locale', 'email.errors', 'numpy.core.numerictypes',
'numpy.compat._inspect', 'zlib', 'numpy.polynomial.hermite_e',
'numpy.lib.type_check', 'mpl_toolkits', 'numpy.fft.fftpack_lite', 'bisect',
'dateutil', 'numpy.polynomial', 'collections.abc', '_bz2', 'weakref',
'numpy.lib.ufunclike', 'numpy.core.function_base', 'abc', 'six.moves',
'numpy.linalg', 'numpy.polynomial.legendre', 'numpy.core.defchararray',
'numpy.linalg.lapack_lite', 'numpy.core._internal', 'importlib',
'unittest.suite', 'unittest.case', 'numpy.core.memmap', 'email._parseaddr',
'_pickle', '_ssl', 'matplotlib.compat.subprocess', 'numpy.random',
'datetime', 'email._policybase', 'sre_parse', 'numpy.linalg.linalg',
'copy', 'numpy.lib._datasource', 'numpy.core._methods', 'linecache',
'matplotlib.compat', 'numpy.testing', 'numpy.__config__',
'unittest.result', 're', 'http.client', 'numpy.lib.info',
'numpy.core.fromnumeric', 'numpy.core.getlimits', 'matplotlib._color_data',
'urllib.response', 'pyparsing', 'numpy.lib.polynomial', 'threading',
'string', 'numpy.core.numeric', 'numpy.ma', 'numpy.fft', 'ctypes',
'numpy.random.mtrand', 'matplotlib.cbook.deprecation', '_datetime',
'builtins']
CACHEDIR=/home/az/.cache/matplotlib
Using fontManager instance from /home/az/.cache/matplotlib/fon
tList.json
backend TkAgg version 8.6
imported
^C
Hangs at this point with CPU @ 100%

grep -v '#' /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc

The only line is :
backend : TkAgg

[az at hp src]$ gcc --version
gcc (GCC) 6.3.1 20161221 (Red Hat 6.3.1-1)

I installed using pip3 into --user directory.
but i also remember that i used dnf to get tkInnter installed:
rpm -qa | grep tkin
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
tix-1:8.4.3-17.fc24.x86_64
if i were to compare "pip3 list" between system (root) and the user
(az):
diff -u /tmp/root_pip /tmp/usr_pip
--- /tmp/root_pip 2017-11-04 15:26:09.612643559 -0400
+++ /tmp/usr_pip 2017-11-04 15:25:52.396473226 -0400
@@ -1,39 +1,65 @@
astroid (1.4.5)
beautifulsoup4 (4.6.0)
+bleach (2.1)
blivet (1.20.3)
chardet (2.2.1)
coverage (4.4.1)
cssselect (0.9.1)
cupshelpers (1.0)
+cx-Oracle (6.0.2)
cycler (0.10.0)
decorator (4.0.11)
distro (1.0.2)
dnf-langpacks (0.15.1)
+entrypoints (0.2.3)
fros (1.1)
-html5lib (0.999)
+html5lib (1.0b10)
humanize (0.5.1)
ib-insync (0.8.5)
+ibapi (9.73.2)
iniparse (0.4)
initial-setup (0.3.40)
IPy (0.81)
+ipykernel (4.6.1)
+ipython (6.2.0)
+ipython-genutils (0.2.0)
ipywidgets (7.0.0)
isc (1.0)
javapackages (4.6.0)
+jedi (0.11.0)
+Jinja2 (2.9.6)
+jsonschema (2.6.0)
jupyter (1.0.0)
+jupyter-client (5.1.0)
+jupyter-console (5.2.0)
+jupyter-core (4.3.0)
langtable (0.0.35)
lazy-object-proxy (1.2.1)
lxml (3.7.2)
+MarkupSafe (1.0)
+matplotlib (2.1.0)
+mistune (0.7.4)
+nbconvert (5.3.1)
+nbformat (4.4.0)
+notebook (5.1.0)
ntplib (0.3.3)
numpy (1.13.3)
ordered-set (2.0.0)
pandas (0.20.3)
+pandocfilters (1.4.2)
+parso (0.1.0)
+pexpect (4.2.1)
+pickleshare (0.7.4)
pid (2.0.1)
Pillow (3.2.0)
pip (9.0.1)
+prompt-toolkit (1.0.15)
+ptyprocess (0.5.2)
pwquality (1.3.0)
pycups (1.9.72)
pycurl (7.43.0)
pyenchant (1.6.8)
+Pygments (2.2.0)
pygobject (3.20.1)
pygpgme (0.3)
pyinotify (0.9.6)
@@ -42,6 +68,7 @@
pylint (1.5.6)
pyparsing (2.2.0)
pyparted (3.10.7)
+PyQt5 (5.9)
PySocks (1.5.6)
python-augeas (0.5.0)
python-dateutil (2.6.1)
@@ -50,6 +77,9 @@
pytz (2017.2)
pyudev (0.21.0)
pyxdg (0.25)
+pyzmq (16.0.2)
+qtconsole (4.3.1)
+Quamash (0.5.5)
requests (2.10.0)
requests-file (1.4)
requests-ftp (0.3.1)
@@ -60,11 +90,21 @@
sepolicy (1.1)
setroubleshoot (1.1)
setuptools (20.1.1)
+simplegeneric (0.8.1)
+sip (4.19.3)
six (1.11.0)
slip (0.6.4)
slip.dbus (0.6.4)
sos (3.2)
SSSDConfig (1.15.3)
systemd-python (232)
+terminado (0.6)
+testpath (0.3.1)
+tornado (4.5.2)
+traitlets (4.3.2)
+tws-async (0.5.5)
urllib3 (1.15.1)
+wcwidth (0.1.7)
+webencodings (0.5.1)
+widgetsnbextension (3.0.3)
wrapt (1.10.10)

I just removed html5lib from system(root) , but tha made no
difference to the plotting..

On Sat, Nov 4, 2017 at 11:09 AM, Andrew Z <formisc at gmail.com> wrote:

hello,
the issue i'm experiencing is local to my laptop ( the other
machines i have run examples just fine).
I described it here https://www.mail-archive.com/p
ython-list at python.org/msg432343.html in details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output
to see what exactly is happening behind the scene?

Thank you.
AZ

_______________________________________________
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_______________________________________________
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Matplotlib-users at python.org
https://mail.python.org/mailman/listinfo/matplotlib-users

--
Jody Klymak
http://web.uvic.ca/~jklymak/

--
Jody Klymak
http://web.uvic.ca/~jklymak/

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another take:

rebuild of the font cache -
recreated ~/.cache/matplotlib
ran :
more ./main.py
import matplotlib
import matplotlib.pyplot as plt

print(matplotlib.rcParams['backend'])

plt.plot([1,2,3],[5,7,4])
plt.show(block=False)
# plt.show()
[az at hp src]$
[az at hp src]$
[az at hp src]$ python3.5 main.py
/usr/lib64/python3.5/site-packages/matplotlib/font_manager.py:273:
UserWarning: Matplotlib is building the font cache using fc-list. This may
take a moment.
  warnings.warn('Matplotlib is building the font cache using fc-list. This
may take a moment.')
/usr/lib64/python3.5/site-packages/matplotlib/font_manager.py:273:
UserWarning: Matplotlib is building the font cache using fc-list. This may
take a moment.
  warnings.warn('Matplotlib is building the font cache using fc-list. This
may take a moment.')
TkAgg

<hanging>

the content of the ~/.cache/matplotlib:
[az at hp matplotlib]$ pwd
/home/az/.cache/matplotlib
[az at hp matplotlib]$ ls -l
total 44
-rw-rw-r--. 1 az az 39870 Nov 8 18:00 fontList.py3k.cache
drwxrwxr-x. 2 az az 4096 Nov 8 18:00 tex.cache

btw, when i run "fc-list" i see fonts only from /usr/share. Is this
expected ?

···

On Wed, Nov 8, 2017 at 5:43 PM, Andrew Z <formisc at gmail.com> wrote:

i'll take a look @ conda. Thank you.

Meanwhile. i resolved the problem with "missing" plot, backend packages
from matplot in pycharm - the /usr/lib64/python3.5 was absent from the
pycharm's config.
now i don't have any warnings from from pycharm - "what a charm!" (sorry,
couldn't resists) . But the example still won't work.

// another Tito's shot maybe due...

On Wed, Nov 8, 2017 at 5:00 PM, Jody Klymak <jklymak at uvic.ca> wrote:

https://conda.io/docs/index.html

On 8 Nov 2017, at 13:53 PM, Andrew Z <formisc at gmail.com> wrote:

Jody,
what do i need to use ? i've been using either dnf or pip3 depending on
the situation ( if i want to install in to user's env - > pip3 ir system
wide - dnf ).

On Wed, Nov 8, 2017 at 4:50 PM, Jody Klymak <jklymak at uvic.ca> wrote:

Andrew,

Can I *strongly* suggest you just use anaconda, unless you have some
compelling reason not to?

It takes care of most of these packaging headaches. I guess I?m
ignorant about pycharm, but I?m pretty sure people use it w/ pycharm.

Cheers, Jody

On 8 Nov 2017, at 13:41 PM, Andrew Z <formisc at gmail.com> wrote:

I tried PyQT5 with the same unhappy results:

First, i verified that pyqt5 works -

PyQt5 (5.9.1) - Python bindings for the Qt cross
platform UI and application toolkit
  INSTALLED: 5.9
  LATEST: 5.9.1

ran http://www.thehackeruniversity.com/2014/01/23/pyqt5-beginner
-tutorial/ - exampled worked with no issues. Everything got resolved
in pycharm.

next installed the matplot backend:
   python3-matplotlib-qt5.x86_64

ran examples from here https://pythonspot.com/en/pyqt5-matplotlib/ -
and it hanged.
pycharm is complaining about :

from matplotlib.backends.backend_qt5agg import FigureCanvasQTAgg as FigureCanvas
from matplotlib.figure import Figure
import matplotlib.pyplot as plt

"can not find reference 'backends' in __init__.py'
' unresolved reference backend_qt5agg'
'cant reference 'figure' '
'no module named pyplot'

On Mon, Nov 6, 2017 at 6:33 PM, Andrew Z <formisc at gmail.com> wrote:

this is what i have installed:
[az at hp src]$ rpm -qa | grep tkint
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
[az at hp src]$

[az at hp src]$ pip3 list | grep tk
DEPRECATION: The default format will switch to columns in the future.
You can use --format=(legacy|columns) (or define a format=(legacy|columns)
in your pip.conf under the [list] section) to disable this warning.

rpm -qa | grep matplot
python-matplotlib-data-fonts-1.5.2-0.1.rc2.fc24.noarch
python3-matplotlib-1.5.2-0.1.rc2.fc24.x86_64
python3-matplotlib-tk-1.5.2-0.1.rc2.fc24.x86_64
python-matplotlib-data-1.5.2-0.1.rc2.fc24.noarch

basically i removed the pip3 installed matplot and felt back to rpm
provided in hope to have that config working.

Copy/paste from https://matplotlib.org/gallery
/pyplots/pyplot_simple.html#sphx-glr-gallery-pyplots-pyplot-simple-py
[az at hp src]$ which python3.5
/usr/bin/python3.5
[az at hp src]$ file /usr/bin/python3.5
/usr/bin/python3.5: ELF 64-bit LSB shared object, x86-64, version 1
(SYSV), dynamically linked, interpreter /lib64/ld-linux-x86-64.so.2, for
GNU/Linux 2.6.32, BuildID[sha1]=cc90b759ab34ba1043b3a96779f17eba4c0baf7a,
stripped
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,2,3,4])
<hangs with one core 100% busy>
Terminated
[az at hp src]$
[az at hp src]$
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> import matplotlib
>>> matplotlib.get_backend()
'TkAgg'
>>> exit
Use exit() or Ctrl-D (i.e. EOF) to exit

removing TKagg from config:
[az at hp src]$ find / -name matplotlibrc* 2>>/dev/null
/etc/matplotlibrc
[az at hp src]$ grep -v ^# /etc/matplotlibrc
backend : TkAgg

changing to Agg and running the same code:

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib
>>> matplotlib.get_backend()
'agg'
>>> import matplotlib.pyplot as plt
>>> plt.ylabel('some numbers')
^C^Z
[1]+ Stopped python3.5

[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import matplotlib.pyplot as plt
>>> plt.plot([1,2,3,4])
<Hangs>

I'll stop making any changes to the env now, since i don't want to
bring any confusion into the matter.
thank you for helping out!

On Mon, Nov 6, 2017 at 4:48 PM, Andrew Z <formisc at gmail.com> wrote:

>backend in your matplotlibrc file to "agg" and it still hung on you?

Yes. I can confirm that

>Some possibilities are
>...."matplotlib.py" or "pylab.py" or some such, and then start to
wonder why their code doesn't work properly.

I used pycharms "scratch files" and typed directly in the interpreter-
always same result. I saw this naming issue whileresearching my problem. My
file is plot.py and works perfectly fine on any other machine but
this.(drives me mad, honestly). Directory is /home/az/work/nja/src. Also
consistent across machines (minus username)

>Have you looked to see if there are other programs that are running
during the import stage?

Im not sure what do you mean?
I have a xwindow terminal , nothing but Firefox is up.(well a tons of
regular background processes).

On Nov 6, 2017 16:18, "Benjamin Root" <ben.v.root at gmail.com> wrote:

Just to make absolutely clear, you set the default backend in your
matplotlibrc file to "agg" and it still hung on you? If that is the case,
then the problem isn't tkinter.

Some possibilities are

1) a massive font database that matplotlib is trying to build a cache
for
2) import of matplotlib from somewhere else unexpected (which would
explain pycharm's behavior), and that file/module is misbehaving. We have
seen instances in the past where users would name their plotting porting of
their code "matplotlib.py" or "pylab.py" or some such, and then start to
wonder why their code doesn't work properly.

Have you looked to see if there are other programs that are running
during the import stage? One thing matplotlib does for the first import is
to create a font cache, and it does this by using some fc-list program,
iirc. This can take a long time on some machines that have adobe's font
collection installed, for example, but that is usually a Windows thing....

Ben Root

On Mon, Nov 6, 2017 at 4:09 PM, Andrew Z <formisc at gmail.com> wrote:

Tkinter was most likely installed as part of rpm install.
Backends - not really. I do know that with mpld3and agg the scripts
hang.
Ihave reinstalled matplot using rpm ( rpm comes only in 1.5 version)
and with pip3.
Today i tried on the office machine (fedora 25). Rpm brings only
matplot1.5.

maybe 2 installed locally using pip3 messes with 1.5 leftover or
libraries.
Not sure how to validate this idea though..
Probably unrelated:
In pycharm pyplot is not been recognized as part of matplotlib when
i "import matplotlib.pyplot. yet the script doesnt crash on import
statement...

On Nov 6, 2017 15:13, "Benjamin Root" <ben.v.root at gmail.com> wrote:

How did you install Tkinter? Have you tested any other backends?
Does this happen for just the head-less "Agg" backend set as default?

On Sat, Nov 4, 2017 at 3:35 PM, Andrew Z <formisc at gmail.com> wrote:

more relevant information:
[az at hp src]$ python3.5
Python 3.5.3 (default, May 11 2017, 09:10:41)
[GCC 6.3.1 20161221 (Red Hat 6.3.1-1)] on linux
Type "help", "copyright", "credits" or "license" for more
information.
>>> import matplotlib
>>> matplotlib.__file__
'/home/az/.local/lib/python3.5/site-packages/matplotlib/__in
it__.py'
>>> matplotlib.get_configdir()
'/home/az/.config/matplotlib'
>>> print(matplotlib.__version__)
2.1.0

now if i get the simplest plot :

[az at hp src]$ more ./main1.py
import matplotlib.pyplot as plt
print("imported")
plt.plot([1,2,4,1])
print("plot is done")
plt.show()
print("show is done")

[az at hp src]$ python3.5 main1.py --verbose-debug
$HOME=/home/az
matplotlib data path /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data
loaded rc file /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc
matplotlib version 2.1.0
verbose.level debug
interactive is False
platform is linux
loaded modules: ['_locale', 'urllib.request',
'numpy.lib.shape_base', 'numpy.matrixlib', 'ipaddress', 'hashlib',
'collections', 'numpy.lib.financial', 'atexit', 'numpy.lib._iotools',
'_frozen_importlib_external', 'numpy.polynomial.chebyshev', 'six',
'unittest.runner', '_sitebuiltins', 'numpy.compat', 'numpy.ma.core',
'abrt_exception_handler3', 'codecs', 'sre_constants', 'calendar',
'matplotlib.cbook', 'contextlib', 'heapq', 'ssl', 'dis', 'binascii',
'posixpath', 'cython_runtime', 'traceback', 'numpy.polynomial.laguerre',
'_hashlib', 'zipimport', 'email.utils', '_functools', 'copyreg', 'sys',
'_sre', 'matplotlib.cbook._backports', 'numpy.lib.arraysetops', 'random',
'email.parser', 'numpy.fft.helper', '_collections', 'difflib',
'numpy.lib.scimath', 'unittest', '_sysconfigdata', 'numpy', 'site', '_ast',
'json.scanner', 'os', 'http', 'functools', 'unittest.main', '
numpy.linalg.info', '_heapq', 'token', 'pathlib', 'tokenize',
'cycler', 'encodings.cp437', 'numpy.polynomial.polynomial',
'numpy.polynomial._polybase', 'numpy.lib.mixins', 'ctypes._endian',
'numpy.lib.arraypad', 'numpy.matrixlib.defmatrix', 'distutils.version',
'_signal', 'marshal', 'stat', 'pprint', 'base64', 'logging', 'enum',
'selectors', 'numpy.core', 'json.encoder', 'operator',
'numpy.testing.nosetester', 'matplotlib._version', 'numpy.ctypeslib',
'numpy.add_newdocs', 'unittest.util', '_weakref', 'select',
'importlib._bootstrap_external', 'mtrand', 'importlib._bootstrap',
'matplotlib.rcsetup', 'matplotlib.colors', 'numpy.testing.decorators',
'json', 'numpy.core.machar', 'email.encoders', 'six.moves.urllib',
'matplotlib', 'keyword', 'errno', 'numpy.lib.stride_tricks', '_socket',
'email.quoprimime', 'numpy.ma.extras', 'numbers', 'numpy.version',
'_bisect', '_string', 'numpy.lib.arrayterator', 'numpy.core.umath',
'numpy.lib', '_thread', 'time', '_frozen_importlib', '
numpy.core.info', 'numpy.core.multiarray', 'math', '_opcode',
'urllib.parse', 'distutils.sysconfig', 'ntpath', 'argparse', 'types',
'sre_compile', 'glob', '__main__', 'email._encoded_words', 'socket',
'_struct', 'numpy.fft.info', 'unittest.signals',
'numpy.lib.npyio', 'grp', 'urllib.error', '_io', 'numpy._globals',
'gettext', 'numpy.compat.py3k', 'distutils', 'email.charset', 'ast',
'numpy.lib.function_base', 'uu', 'encodings', 'urllib',
'numpy.lib.twodim_base', 'encodings.latin_1', 'tempfile',
'numpy.lib._version', 'numpy.polynomial.polyutils', 'quopri', 'os.path',
'_imp', 'email.base64mime', 'email.message', 'email.header', 'opcode',
'encodings.utf_8', 'reprlib', '_stat', '_warnings', 'email.feedparser',
'numpy.testing.utils', 'numpy.lib.utils', 'genericpath',
'numpy.polynomial.hermite', '_compat_pickle', 'bz2', '_compression',
'subprocess', '_json', 'numpy.lib.nanfunctions', 'inspect', 'sysconfig',
'_operator', 'shutil', 'pwd', 'warnings', '_ctypes', '_random',
'email.iterators', '_collections_abc', '__future__', 'email',
'numpy._distributor_init', 'unittest.loader', '_bootlocale',
'numpy.core.records', 'fnmatch', '_posixsubprocess', 'numpy._import_tools',
'numpy.lib.format', '_lzma', 'numpy.core.arrayprint', 'json.decoder',
'signal', 'gzip', 'posix', 'textwrap', 'numpy.fft.fftpack',
'importlib.machinery', 'lzma', 'struct', 'pickle', '_codecs',
'numpy.core.einsumfunc', 'itertools', 'numpy.core.shape_base',
'encodings.aliases', 'numpy.lib.index_tricks', 'numpy.random.info',
'numpy.linalg._umath_linalg', 'matplotlib.fontconfig_pattern',
'six.moves.urllib.request', '_weakrefset', 'distutils.errors', 'io',
'locale', 'email.errors', 'numpy.core.numerictypes',
'numpy.compat._inspect', 'zlib', 'numpy.polynomial.hermite_e',
'numpy.lib.type_check', 'mpl_toolkits', 'numpy.fft.fftpack_lite', 'bisect',
'dateutil', 'numpy.polynomial', 'collections.abc', '_bz2', 'weakref',
'numpy.lib.ufunclike', 'numpy.core.function_base', 'abc', 'six.moves',
'numpy.linalg', 'numpy.polynomial.legendre', 'numpy.core.defchararray',
'numpy.linalg.lapack_lite', 'numpy.core._internal', 'importlib',
'unittest.suite', 'unittest.case', 'numpy.core.memmap', 'email._parseaddr',
'_pickle', '_ssl', 'matplotlib.compat.subprocess', 'numpy.random',
'datetime', 'email._policybase', 'sre_parse', 'numpy.linalg.linalg',
'copy', 'numpy.lib._datasource', 'numpy.core._methods', 'linecache',
'matplotlib.compat', 'numpy.testing', 'numpy.__config__',
'unittest.result', 're', 'http.client', 'numpy.lib.info',
'numpy.core.fromnumeric', 'numpy.core.getlimits', 'matplotlib._color_data',
'urllib.response', 'pyparsing', 'numpy.lib.polynomial', 'threading',
'string', 'numpy.core.numeric', 'numpy.ma', 'numpy.fft', 'ctypes',
'numpy.random.mtrand', 'matplotlib.cbook.deprecation',
'_datetime', 'builtins']
CACHEDIR=/home/az/.cache/matplotlib
Using fontManager instance from /home/az/.cache/matplotlib/fon
tList.json
backend TkAgg version 8.6
imported
^C
Hangs at this point with CPU @ 100%

grep -v '#' /home/az/.local/lib/python3.5/
site-packages/matplotlib/mpl-data/matplotlibrc

The only line is :
backend : TkAgg

[az at hp src]$ gcc --version
gcc (GCC) 6.3.1 20161221 (Red Hat 6.3.1-1)

I installed using pip3 into --user directory.
but i also remember that i used dnf to get tkInnter installed:
rpm -qa | grep tkin
python3-tkinter-3.5.3-6.fc24.x86_64
tkinter-2.7.13-2.fc24.x86_64
tix-1:8.4.3-17.fc24.x86_64
if i were to compare "pip3 list" between system (root) and the user
(az):
diff -u /tmp/root_pip /tmp/usr_pip
--- /tmp/root_pip 2017-11-04 15:26:09.612643559 -0400
+++ /tmp/usr_pip 2017-11-04 15:25:52.396473226 -0400
@@ -1,39 +1,65 @@
astroid (1.4.5)
beautifulsoup4 (4.6.0)
+bleach (2.1)
blivet (1.20.3)
chardet (2.2.1)
coverage (4.4.1)
cssselect (0.9.1)
cupshelpers (1.0)
+cx-Oracle (6.0.2)
cycler (0.10.0)
decorator (4.0.11)
distro (1.0.2)
dnf-langpacks (0.15.1)
+entrypoints (0.2.3)
fros (1.1)
-html5lib (0.999)
+html5lib (1.0b10)
humanize (0.5.1)
ib-insync (0.8.5)
+ibapi (9.73.2)
iniparse (0.4)
initial-setup (0.3.40)
IPy (0.81)
+ipykernel (4.6.1)
+ipython (6.2.0)
+ipython-genutils (0.2.0)
ipywidgets (7.0.0)
isc (1.0)
javapackages (4.6.0)
+jedi (0.11.0)
+Jinja2 (2.9.6)
+jsonschema (2.6.0)
jupyter (1.0.0)
+jupyter-client (5.1.0)
+jupyter-console (5.2.0)
+jupyter-core (4.3.0)
langtable (0.0.35)
lazy-object-proxy (1.2.1)
lxml (3.7.2)
+MarkupSafe (1.0)
+matplotlib (2.1.0)
+mistune (0.7.4)
+nbconvert (5.3.1)
+nbformat (4.4.0)
+notebook (5.1.0)
ntplib (0.3.3)
numpy (1.13.3)
ordered-set (2.0.0)
pandas (0.20.3)
+pandocfilters (1.4.2)
+parso (0.1.0)
+pexpect (4.2.1)
+pickleshare (0.7.4)
pid (2.0.1)
Pillow (3.2.0)
pip (9.0.1)
+prompt-toolkit (1.0.15)
+ptyprocess (0.5.2)
pwquality (1.3.0)
pycups (1.9.72)
pycurl (7.43.0)
pyenchant (1.6.8)
+Pygments (2.2.0)
pygobject (3.20.1)
pygpgme (0.3)
pyinotify (0.9.6)
@@ -42,6 +68,7 @@
pylint (1.5.6)
pyparsing (2.2.0)
pyparted (3.10.7)
+PyQt5 (5.9)
PySocks (1.5.6)
python-augeas (0.5.0)
python-dateutil (2.6.1)
@@ -50,6 +77,9 @@
pytz (2017.2)
pyudev (0.21.0)
pyxdg (0.25)
+pyzmq (16.0.2)
+qtconsole (4.3.1)
+Quamash (0.5.5)
requests (2.10.0)
requests-file (1.4)
requests-ftp (0.3.1)
@@ -60,11 +90,21 @@
sepolicy (1.1)
setroubleshoot (1.1)
setuptools (20.1.1)
+simplegeneric (0.8.1)
+sip (4.19.3)
six (1.11.0)
slip (0.6.4)
slip.dbus (0.6.4)
sos (3.2)
SSSDConfig (1.15.3)
systemd-python (232)
+terminado (0.6)
+testpath (0.3.1)
+tornado (4.5.2)
+traitlets (4.3.2)
+tws-async (0.5.5)
urllib3 (1.15.1)
+wcwidth (0.1.7)
+webencodings (0.5.1)
+widgetsnbextension (3.0.3)
wrapt (1.10.10)

I just removed html5lib from system(root) , but tha made no
difference to the plotting..

On Sat, Nov 4, 2017 at 11:09 AM, Andrew Z <formisc at gmail.com> >>>>>>>> wrote:

hello,
the issue i'm experiencing is local to my laptop ( the other
machines i have run examples just fine).
I described it here https://www.mail-archive.com/p
ython-list at python.org/msg432343.html in details.
i searched around, but none of the proposed workarounds helped.

Is there a way to enable some-kind of debugging or verbose output
to see what exactly is happening behind the scene?

Thank you.
AZ

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--
Jody Klymak
http://web.uvic.ca/~jklymak/

--
Jody Klymak
http://web.uvic.ca/~jklymak/

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