To load matplotlib on cygwin, I have:
Loaded pre-requisites using cygwin 64-bit setup: pkg-config, freetype2, libfreetype-devel, libpng-devel, gtk2.0, libgtk2.0-devel
Downloaded the matplotlib tar file (http://sourceforge.net/projects/matplotlib/files/matplotlib/matplotlib-1.3.1/matplotlib-1.3.1.tar.gz) and changed the source code to get around the "_tri" error as advised here:
matplotlib error while installing pyspeckit
Then built and installed matplotlib:
$ python setup.py build
$ python setup.py install
And am down to what looks like a matplotlib backend error. Does anyone know how to get around this:
/usr/lib/python2.7/site-packages/gtk-2.0/gtk/init.py:57: GtkWarning: could not open display
...
cursors.MOVE : gdk.Cursor(gdk.FLEUR),
et n RuntimeError: could not create GdkCursor object
EDIT: I just finally got it and matplotlib is finally working on cygwin. To do this, I did:
From cygwin setup, loaded the X-Server tools:
xorg-server xinit
From cygwin setup, I also loaded these so that use telnet or ssh connections to run remote X clients:
inetutils openssh
I set my display:
DISPLAY=":0.0"
export DISPLAY
From the cygwin shell, I did:
$ startxwin
Then I ran my python scripts which use matplotlib in the X-window
I had an issue with "python setup.py build" not finding the ft2build.h which comes from the the freetype2 package. I installed the freetype2 development package and I can find it in /usr/include/freetype2/ft2build.h but the error is still there.
After digging into the setupext.py at the function check_include_file(include_dirs, filename, package), I noticed that the package="freetype2" was not concatenated into to the search path. Hence it could not find "/usr/include/ft2build.h" when it should be "/usr/include/freetype2/ft2build.h
Fixing this line #134
if not has_include_file(include_dirs, "%s/%s"%(package,filename)):
Related
I have written a python script which depends on paramiko to work. The system that will run my script has the following limitations:
No internet connectivity (so it can't download dependencies on the fly).
Volumes are mounted with 'noexec' (so I cannot run my code as a binary file generated with something like 'pyInstaller')
End-user cannot be expected to install any dependencies.
Vanilla python is installed (without paramiko)
Python version is 2.7.5
Pip is not installed either and cannot be installed on the box
I however, have access to pip on my development box (if that helps in any way).
So, what is the way to deploy my script so that I am able to provide it to the end-user with the required dependencies, i.e paramiko (and sub-dependencies of paramiko), so that the user is able to run the script out-of-the-box?
I have already tried the pyinstaller 'one folder' approach but then faced the 'noexec' issue. I have also tried to directly copy paramiko (and sub-dependencies of paramiko) to a place from where my script is able to find it with no success.
pip is usually installed with python installation. You could use it to install the dependencies on the machine as follows:
import os, sys
def selfInstallParamiko():
# assuming paramiko tar-ball/wheel is under the current working directory
currentDir = os.path.abspath(os.path.dirname(__file__))
# paramikoFileName: name of the already downloaded paramiko tar-ball,
# which you'll have to ship with your scripts
paramikoPath = os.path.join(currentDir, paramikoFileName)
print("\nInstalling {} ...".format(paramikoPath))
# To check for which pip to use (pip for python2, pip3 for python3)
pipName = "pip"
if sys.version_info[0] >= 3:
pipName = "pip3"
p = subprocess.Popen("{} install --user {}".format(pipName, paramikoPath).split())
out, err= p.communicate("")
if err or p.returncode != 0:
print("Unable to self-install {}\n".format(paramikoFileName))
sys.exit(1)
# Needed, because sometimes windows command shell does not pick up changes so good
print("\n\nPython paramiko module installed successfully.\n"
"Please start the script again from a new command shell\n\n")
sys.exit()
You can invoke it when your script starts and an ImportError occurs:
# Try to self install on import failure:
try:
import paramiko
except ImportError:
selfInstallParamiko()
I'm trying to run a script that requires the datasets python package. I've tried installing this unsuccessfully using pip by calling:
pip install datasets
I know this hasn't worked because when I run the script I get the message:
Traceback (most recent call last):
File "lda.py", line 2, in <module>
import lda
File "/Users/deepthought/lda.py", line 3, in <module>
import datasets
ImportError: No module named datasets
I've installed python via homebrew.
When I run pip install datasets I get the error:
Command "python setup.py egg_info" failed with error code 1 in /private/var/folders/ch/84cpkwc52zx0rsh4k5v4_7h40000gn/T/pip-build-gZWyT3/datasets/
I'm fairly new to scripting python or going under the hood of an OS X, so there's a risk I've missed something elementary.
I've been researching & trying to overcome this for about a week now including looking at similar questions on stackoverflow.com and haven't gotten past this stage for the duration. One of the tutorials I was working through told me to edit ~/.profile
This has been left like so:
# The orginal version is saved in .profile.pysave
#PATH="/Library/Frameworks/Python.framework/Versions/3.5/bin:${PATH}"
#export PATH
export PATH=/usr/local/bin:/usr/local/sbin:$PATH
/etc/paths contains:
/usr/local/bin
/usr/bin
/bin
/usr/sbin
/sbin
I'm running OS X El Capitan - 10.11.5 (15F34)
Python 2.7.11
Brew doctor flagged multiple items, but I've no idea whether it is worth fixing none/all of them:
Warning: Your XQuartz (2.7.7) is outdated
Please install XQuartz 2.7.9:
https://xquartz.macosforge.org
Warning: Python is installed at /Library/Frameworks/Python.framework
Homebrew only supports building against the System-provided Python or a
brewed Python. In particular, Pythons installed to /Library can interfere
with other software installs.
Warning: Unbrewed dylibs were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected dylibs:
/usr/local/lib/libtcl8.6.dylib
/usr/local/lib/libtk8.6.dylib
Warning: Unbrewed header files were found in /usr/local/include.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected header files:
/usr/local/include/fakemysql.h
/usr/local/include/fakepq.h
/usr/local/include/fakesql.h
/usr/local/include/itcl.h
/usr/local/include/itcl2TclOO.h
/usr/local/include/itclDecls.h
/usr/local/include/itclInt.h
/usr/local/include/itclIntDecls.h
/usr/local/include/itclMigrate2TclCore.h
/usr/local/include/itclTclIntStubsFcn.h
/usr/local/include/mysqlStubs.h
/usr/local/include/node/ares.h
/usr/local/include/node/ares_version.h
/usr/local/include/node/nameser.h
/usr/local/include/node/node.h
/usr/local/include/node/node_buffer.h
/usr/local/include/node/node_internals.h
/usr/local/include/node/node_object_wrap.h
/usr/local/include/node/node_version.h
/usr/local/include/node/openssl/opensslconf.h
/usr/local/include/node/uv-private/ngx-queue.h
/usr/local/include/node/uv-private/stdint-msvc2008.h
/usr/local/include/node/uv-private/tree.h
/usr/local/include/node/uv-private/uv-bsd.h
/usr/local/include/node/uv-private/uv-darwin.h
/usr/local/include/node/uv-private/uv-linux.h
/usr/local/include/node/uv-private/uv-sunos.h
/usr/local/include/node/uv-private/uv-unix.h
/usr/local/include/node/uv-private/uv-win.h
/usr/local/include/node/uv.h
/usr/local/include/node/v8-debug.h
/usr/local/include/node/v8-preparser.h
/usr/local/include/node/v8-profiler.h
/usr/local/include/node/v8-testing.h
/usr/local/include/node/v8.h
/usr/local/include/node/v8stdint.h
/usr/local/include/node/zconf.h
/usr/local/include/node/zlib.h
/usr/local/include/odbcStubs.h
/usr/local/include/pqStubs.h
/usr/local/include/tcl.h
/usr/local/include/tclDecls.h
/usr/local/include/tclOO.h
/usr/local/include/tclOODecls.h
/usr/local/include/tclPlatDecls.h
/usr/local/include/tclThread.h
/usr/local/include/tclTomMath.h
/usr/local/include/tclTomMathDecls.h
/usr/local/include/tdbc.h
/usr/local/include/tdbcDecls.h
/usr/local/include/tdbcInt.h
/usr/local/include/tk.h
/usr/local/include/tkDecls.h
/usr/local/include/tkPlatDecls.h
Warning: Unbrewed .pc files were found in /usr/local/lib/pkgconfig.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected .pc files:
/usr/local/lib/pkgconfig/tcl.pc
/usr/local/lib/pkgconfig/tk.pc
Warning: Unbrewed static libraries were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae, and may need to be deleted.
Unexpected static libraries:
/usr/local/lib/libtclstub8.6.a
/usr/local/lib/libtkstub8.6.a
Warning: You have unlinked kegs in your Cellar
Leaving kegs unlinked can lead to build-trouble and cause brews that depend on
those kegs to fail to run properly once built. Run `brew link` on these:
git
python3
Warning: Broken symlinks were found. Remove them with `brew prune`:
/usr/local/bin/github
/usr/local/lib/perl5/site_perl/Git/I18N.pm
/usr/local/lib/perl5/site_perl/Git/IndexInfo.pm
/usr/local/lib/perl5/site_perl/Git/SVN/Editor.pm
/usr/local/lib/perl5/site_perl/Git/SVN/Fetcher.pm
/usr/local/lib/perl5/site_perl/Git/SVN/GlobSpec.pm
/usr/local/lib/perl5/site_perl/Git/SVN/Log.pm
/usr/local/lib/perl5/site_perl/Git/SVN/Memoize/YAML.pm
/usr/local/lib/perl5/site_perl/Git/SVN/Migration.pm
/usr/local/lib/perl5/site_perl/Git/SVN/Prompt.pm
/usr/local/lib/perl5/site_perl/Git/SVN/Ra.pm
/usr/local/lib/perl5/site_perl/Git/SVN/Utils.pm
/usr/local/lib/perl5/site_perl/Git/SVN.pm
/usr/local/lib/perl5/site_perl/Git.pm
/usr/local/share/git-core/templates/description
/usr/local/share/git-core/templates/hooks/applypatch-msg.sample
/usr/local/share/git-core/templates/hooks/commit-msg.sample
/usr/local/share/git-core/templates/hooks/post-update.sample
/usr/local/share/git-core/templates/hooks/pre-applypatch.sample
/usr/local/share/git-core/templates/hooks/pre-commit.sample
/usr/local/share/git-core/templates/hooks/pre-push.sample
/usr/local/share/git-core/templates/hooks/pre-rebase.sample
/usr/local/share/git-core/templates/hooks/prepare-commit-msg.sample
/usr/local/share/git-core/templates/hooks/update.sample
/usr/local/share/git-core/templates/info/exclude
/usr/local/share/man/man1/git-add.1
/usr/local/share/man/man1/git-am.1
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/usr/local/share/man/man1/git-cat-file.1
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/usr/local/share/man/man1/git-cherry-pick.1
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/usr/local/share/man/man1/git-clone.1
/usr/local/share/man/man1/git-column.1
/usr/local/share/man/man1/git-commit-tree.1
/usr/local/share/man/man1/git-commit.1
/usr/local/share/man/man1/git-config.1
/usr/local/share/man/man1/git-count-objects.1
/usr/local/share/man/man1/git-credential-cache--daemon.1
/usr/local/share/man/man1/git-credential-cache.1
/usr/local/share/man/man1/git-credential-store.1
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/usr/local/share/man/man1/git-cvsexportcommit.1
/usr/local/share/man/man1/git-cvsimport.1
/usr/local/share/man/man1/git-cvsserver.1
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/usr/local/share/man/man1/git-describe.1
/usr/local/share/man/man1/git-diff-files.1
/usr/local/share/man/man1/git-diff-index.1
/usr/local/share/man/man1/git-diff-tree.1
/usr/local/share/man/man1/git-diff.1
/usr/local/share/man/man1/git-difftool.1
/usr/local/share/man/man1/git-fast-export.1
/usr/local/share/man/man1/git-fast-import.1
/usr/local/share/man/man1/git-fetch-pack.1
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/usr/local/share/man/man1/git-filter-branch.1
/usr/local/share/man/man1/git-fmt-merge-msg.1
/usr/local/share/man/man1/git-for-each-ref.1
/usr/local/share/man/man1/git-format-patch.1
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/usr/local/share/man/man1/git-fsck.1
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/usr/local/share/man/man1/git-get-tar-commit-id.1
/usr/local/share/man/man1/git-grep.1
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/usr/local/share/man/man1/git-merge.1
/usr/local/share/man/man1/git-mergetool--lib.1
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/usr/local/share/man/man1/git-notes.1
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/usr/local/share/man/man1/git-patch-id.1
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/usr/local/share/man/man1/git-prune.1
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/usr/local/share/man/man1/git-quiltimport.1
/usr/local/share/man/man1/git-read-tree.1
/usr/local/share/man/man1/git-rebase.1
/usr/local/share/man/man1/git-receive-pack.1
/usr/local/share/man/man1/git-reflog.1
/usr/local/share/man/man1/git-relink.1
/usr/local/share/man/man1/git-remote-ext.1
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/usr/local/share/man/man1/git-remote-testgit.1
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/usr/local/share/man/man1/git-rev-parse.1
/usr/local/share/man/man1/git-revert.1
/usr/local/share/man/man1/git-rm.1
/usr/local/share/man/man1/git-send-email.1
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/usr/local/share/man/man7/gitcvs-migration.7
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/usr/local/share/man/man7/gitrevisions.7
/usr/local/share/man/man7/gittutorial-2.7
/usr/local/share/man/man7/gittutorial.7
/usr/local/share/man/man7/gitworkflows.7
Warning: Your Homebrew is outdated.
You haven't updated for at least 24 hours. This is a long time in brewland!
To update Homebrew, run `brew update`.
How do I make progress in diagnosing the issue with the installation of the datasets package?
Update
Here is the script I'm trying to run:
import sys
egg_path = '/usr/local/lib/python2.7/site-packages/datasets-0.0.9-py2.7.egg'
sys.path.append(egg_path)
import numpy as np
import lda
import datasets
X = lda.datasets.load_reuters()
vocab = lda.datasets.load_reuters_vocab()
titles = lda.datasets.load_reuters_titles()
X.shape
(395, 4258)
X.sum()
84010
model = lda.LDA(n_topics=20, n_iter=1500, random_state=1)
model.fit(X) # model.fit_transform(X) is also available
topic_word = model.topic_word_ # model.components_ also works
n_top_words = 8
for i, topic_dist in enumerate(topic_word):
topic_words = np.array(vocab)[np.argsort(topic_dist)][:-(n_top_words+1):-1]
print('Topic {}: {}'.format(i, ' '.join(topic_words)))
Using pip install datasets I was also not able to properly install this package. It seems like there is a bug in this particular package.
The DESCRIBE.rst file is simply missing. To fix this just download the plain package from PyPi. https://pypi.python.org/pypi/datasets/0.0.9
Then adjust the setup.py file (remove the description).
Afterwards you need to install using python setup.py install. Don't forget to add the installed package to your Python path!
To do so, I would recommend that you add the following to your script.
import sys
egg_path = '__MODULE_PATH__/datasets-0.0.9-py3.5.egg'
sys.path.append(egg_path)
import datasets
Otherwise, you can also add your module using:
export PATH=__MODULE_PATH__:$PATH
Alternatively, you could also simply pull the source code from the Github repository and just include it in your project. https://github.com/realtimeweb/datasets
Hope this was kind of helpful to your problem. If you got any further questions just let me know.
I just hit the same issue on a rapsberry pi, just found out this had been fixed but the error comes from the lack of ram to extract properly the package.
You can fix this by disabling the creation of a cache dir in ram adding the parameter
--no-cache-dir
for example
pip2 install --user --no-cache-dir datasets
MAC OSX 10.9, Python 3.5, sip-4.17, PyQt-gpl-5.5.1, Qt5.5.1
Hi,
trying to build PyQt on my system I did the following steps:
download/install Qt5.5.1 libraries
download/unpack SIP
download/unpack PyQt
install SIP:
python3 configure.py -d /Library/Python/3.5/site-packages --arch x86_64
make
sudo make install
tried to install PyQt:
python3 configure.py -d /Library/Python/3.5/site-packages
--qmake /.../Qt5.5.1/5.5/clang_64/bin/qmake
Configuration stopped with:
/Users/werner/OpenSource/PyQt/sip/QtPositioning/qgeolocation.sip:28:10:
fatal >error: 'qgeolocation.h' file not found
#include <qgeolocation.h>
^
1 error generated.
make[1]: *** [sipQtPositioningcmodule.o] Error 1
make: *** [sub-QtPositioning-make_first-ordered] Error 2
I tried to finish installation doing
make
sudo make install
anyway. But the installation doesn't seem to be complete (e.g. uic, pyuic5 are missing). Here is what my installation directory looks like:
>ls /Library/Python/3.5/site-packages/PyQt5
QtBluetooth.so QtSensors.so
QtCore.so QtSerialPort.so
QtDBus.so QtSql.so
QtDesigner.so QtSvg.so
QtGui.so QtTest.so
QtHelp.so QtWebKit.so
QtMacExtras.so QtWebKitWidgets.so
QtMultimedia.so QtWidgets.so
QtMultimediaWidgets.so QtXml.so
QtNetwork.so QtXmlPatterns.so
QtOpenGL.so _QOpenGLFunctions_2_0.so
QtPrintSupport.so _QOpenGLFunctions_2_1.so
QtQml.so _QOpenGLFunctions_4_1_Core.so
QtQuick.so
I couldn't find any useful information when searching for other discussions, so I hope someone can give me a hint on what I'm (maybe stupidly) doing wrong. Thank you for taking the time to read this.
If you don't need this module, the better way to solve that is disabling it on configure.
python configure.py --disable=QtPositioning
Just yesterday, I also met such a problem. And this is what I do to solve it:
Create a header file qgeolocation.h in /PyQt-gpl-5.5.1/QtPositioning, and copy the content into it from this website. Then I go sudo make and sudo make install successfully.
Though I do not know whether it is right to solve this problem, fortunately, I installed the PyQt and entered eric6. Hope you make successfully, too.
Adding the location.h header file for me on OSX 10.11.1.
I had the problem in both PyQt-gpl-5.5.1 and PyQt-gpl-5.5.2, but after adding the
file, was able to build.
The way of creating a qgeolocation.h in /PyQt-gpl-5.5.1/QtPositioning worked for me. The QtPositioning.so was created.
You can also take the header file from your qt source folder (you have installed the source files together with binaries, right?), it is located here:
/Src/qtlocation/src/positioning/qgeolocation.h
and then just copy it into:
/PyQt-gpl-X.X.X/QtPositioning/qgeolocation.h
as follows. It should solve the problem in 99.9% cases.
I want to compile my python code to binary by using pyinstaller, but the hidden import block me. For example, the following code import psutil and print the CPU count:
# example.py
import psutil
print psutil.cpu_count()
And I compile the code:
$ pyinstaller -F example.py --hidden-import=psutil
When I run the output under dist:
ImportError: cannot import name _psutil_linux
Then I tried:
$ pyinstaller -F example.py --hidden-import=_psutil_linux
Still the same error. I have read the pyinstall manual, but I still don't know how to use the hidden import. Is there a detailed example for this? Or at least a example to compile and run my example.py?
ENVs:
OS: Ubuntu 14.04
Python: 2.7.6
pyinstaller: 2.1
Hi hope you're still looking for an answer. Here is how I solved it:
add a file called hook-psutil.py
from PyInstaller.hooks.hookutils import (collect_data_files, collect_submodules)
datas = [('./venv/lib/python2.7/site-packages/psutil/_psutil_linux.so', 'psutil'),
('./venv/lib/python2.7/site-packages/psutil/_psutil_posix.so', 'psutil')]
hiddenimports = collect_submodules('psutil')
And then call pyinstaller --additional-hooks-dir=(the dir contain the above script) script.py
pyinstall is hard to configure, the cx_freeze maybe better, both support windows (you can download the exe directly) and linux. Provide the example.py, In windows, suppose you have install python in the default path (C:\\Python27):
$ python c:\\Python27\\Scripts\\cxfreeze example.py -s --target-dir some_path
the cxfreeze is a python script, you should run it with python, then the build files are under some_path (with a lot of xxx.pyd and xxx.dll).
In Linux, just run:
$ cxfreeze example.py -s --target-dir some_path
and also output a lot of files(xxx.so) under some_path.
The defect of cx_freeze is it would not wrap all libraries to target dir, this means you have to test your build under different environments. If any library missing, just copy them to target dir. A exception case is, for example, if your build your python under Centos 6, but when running under Centos 7, the missing of libc.so.6 will throw, you should compile your python both under Centos 7 and Centos 6.
What worked for me is as follows:
Install python-psutil: sudo apt-get install python-psutil. If you
have a previous installation of the psutil module from other
method, for example through source or easy_install, remove it first.
Run pyinstaller as you do, without the hidden-import option.
still facing the error
Implementation:
1.python program with modules like platform , os , shutil and psutil
when i run the script directly using python its working fine.
2.if i build a binary using pyinstaller. The binary is build successfully. But if i run the binary iam getting the No module named psutil found.I had tried several methods like adding the hidden import and other things. None is working. I trying it almost 2 to 3 days.
Error:
ModuleNotFoundError: No module named 'psutil'
Command used for the creating binary
pyinstaller --hidden-import=['_psutil_linux'] --onefile --clean serverHW.py
i tried --additional-hooks-dir= also not working. When i run the binary im getting module not found error.
I've tried to resolve this prolem for about 3days, and I'd finally felt that I need to ask for help by creating my own question.
I have Windows 7x64 and Qt4.8.6 installed.
I need Python with PyQt and Qscintilla2 to be installed and working.
Now I wil describe my last actions. I did everything like included packages instructions said.
1) Installed Python2.7.9 32bit from official website.
2) Downloaded SIP from here (dev snapshot), then:
configure.py —platform win32-g++
mingw32-make
mingw32-make install
3) Downloaded PyQt from here (not the installer but dev snapshot, cause I need to build with MinGW and istaller producec MSVC version), then:
configure-ng.py -spec win32-g++
mingw32-make
mingw32-make install
Ater these steps I tested PyQt on my project - everything works fine.
Then I starded trying to install Qsnitilla2.
4) Downloaded Qsnitilla2 from here (dev snapshot), then:
a) in Qt4Qt5 folder:
qmake qscintilla.pro -spec win32-g++
mingw32-make
mingw32-make install
This had installed Qsnitilla2 in Qt4.8.6 as I saw;
b) in Python folder( F..ing Python bindngs, excuse my french):
config.py —spec win32-g++
mingw32-make
after this I got ld.exe error (linking error):
Then, afted doing some research, I manually edited my Makefile.Release (by adding -lpython27 to LIBS parameter):
LIBS = -L"c:\Qt-mingw\4.8.6\lib" -LC:\Python27\libs -LC:\Qt-mingw\4.8.6\lib -lqscintilla2 -lQtGui4 -lQtCore4 -lpython27
After this, my mingw32-make completed succesfully. So:
mingw32-make install
This had installed Qscintilla2 Python bindings.
Now I can see Qsci autocomlplete in Eclipse.
So i've tried this:
from PyQt4.Qsci import QsciScintilla
And i've got this in traceback:
from PyQt4.Qsci import QsciScintilla
ImportError: DLL load failed: Не найден указанный модуль
(Translation: The specified module could not be found)
I've tried this with both dev snapshot and src packages from Riverbank website. And also with MinGW 4.8.1 and MinGW-w64 4.8.4. I can't use MinGW-w64 over 4.8 version cause I need boost-1.55 and it only supports MinGW 4.8.
I don't know what to do now, but I really want to use Scintilla in my project. So i'll be very gratefull for any suggestions.
Have you ever tried to load the QsciScintilla right from the console? I mean you need to enter the directory where the QScintilla located( this means current folder is the default folder), then try run the command "from PyQt4.Qsci import QsciScintilla", if this load module failure still happens, this possibly means you need extra dynamic which QScintilla depends, you need to use dll dependency to find out if some other libraries were missing, then put the missing libraries into the same folder of QsciScintilla.