Closed stonebig closed 8 years ago
If i tweak a little bit the source of init.py
"""Julia/IPython bridge."""
from .core import Julia
i get that
`()
19 import os
20 import sys
---> 21 import commands
22
23 #-----------------------------------------------------------------------------
ImportError: No module named 'commands'
what is this "commands module" ? (I'm python3.4)
Haaaaaaaaaaaaaaaaarg https://docs.python.org/2/library/commands.html
Deprecated since version 2.6: The commands module has been removed in Python 3. Use the subprocess module instead.
Has anyone a guess on how to pythonize-3 this part ?
We've been hoping to move the magics stuff over to @jakebolewski's pyjulia project, but right now it needs some loving care. The basic problem is that no one seems to be using it except for demos. People working in Julia want to call Python from Julia, but have no need for the reverse.
ah ... if it's final decision, wouldn't it be better to just leave a Readme.txt re-orienting adventurous people to the 'better' project ? and it seems there is no 'magic' in this other project.
fixing the python3 part, I fell there, so I suppose this is the end of the road for my attempt.
D:\result_tests\WinPython-32bit-3.4.1.1_build05c\python-3.4.1\lib\site-packages\IPython\core\magic.py in register(self, *magic_objects)
389 if type(m) in (type, MetaHasTraits):
390 # If we're given an uninstantiated class
--> 391 m = m(shell=self.shell)
392
393 # Now that we have an instance, we can register it and update the
D:\result_tests\WinPython-32bit-3.4.1.1_build05c\python-3.4.1\lib\site-packages\julia\magic.py in __init__(self, shell)
47 # Flush, otherwise the Julia startup will keep stdout buffered
48 sys.stdout.flush()
---> 49 self.julia = Julia(init_julia=True)
50 print()
51
D:\result_tests\WinPython-32bit-3.4.1.1_build05c\python-3.4.1\lib\site-packages\julia\core.py in __init__(self, init_julia)
87 raise ValueError("Julia release library not found\n"
88 " searched %s\n and %s"
---> 89 % (jpath_so, jpath_dylib))
90
91 j = ctypes.PyDLL(jpath, ctypes.RTLD_GLOBAL)
ValueError: Julia release library not found
searched D:\result_tests\WinPython-32bit-3.4.1.1_build05c\tools\Julia\lib\libjulia.so
and D:\result_tests\WinPython-32bit-3.4.1.1_build05c\tools\Julia\lib\libjulia.dylib
It's not clear that pyjulia is read for prime-time either, so things are in an unfortunate state of flux. (See also jakebolewski/pyjulia#1) Once pyjulia seems usable, I definitely would like to delete the code from IJulia and direct people there.
What was the Python 3 fix?
Regarding finding the shared library, I think pyjulia fixed this on Windows.
All the pieces are there, we just really need someone who is motivated to work on this.
Well, I'm not sure it's a right fix, but I did that in _init__.py , replace "core" per ".core"
from .core import Julia
in core.py, I did that
import sys
try: # python 2.6
import commands
except: # python 3.3
import subprocess as commands
then i have the issue I described, that may be my fault, but I don't guess what my next fix should be. (ok looking what pyjulia did now)
if I replace core.py of ijulia per core.py of pyjulia, I go one inch further
System image file "D\../lib/julia/sys.ji" not found
Do i need to have %JULIA_HOME%..\lib\julia in the path ? (\bin alone is not sufficient ?) this "D\" is wrong under windows (i don't catch what program did invent that)
posting my path and 'set' for anyone having a clue on next fix
!echo %path%
D:\result_tests\WinPython-32bit-3.4.1.1_build05c\python-3.4.1\lib\site-packages\numpy\core;D:\result_tests\WinPython-32bit-3.4.1.1_build05c\scripts\..\python-3.4.1\..\tools\Julia\bin\;D:\result_tests\WinPython-32bit-3.4.1.1_build05c\scripts\..\python-3.4.1\..\tools\Julia\bin\..\lib\julia;D:\result_tests\WinPython-32bit-3.4.1.1_build05c\scripts\..\python-3.4.1\Lib\site-packages\PyQt4;D:\result_tests\WinPython-32bit-3.4.1.1_build05c\scripts\..\python-3.4.1\;D:\result_tests\WinPython-32bit-3.4.1.1_build05c\scripts\..\python-3.4.1\DLLs;D:\result_tests\WinPython-32bit-3.4.1.1_build05c\scripts\..\python-3.4.1\Scripts;D:\result_tests\WinPython-32bit-3.4.1.1_build05c\scripts\..\python-3.4.1\..\tools;D:\result_tests\WinPython-32bit-3.4.1.1_build05c\scripts\..\python-3.4.1\..\tools\gnuwin32\bin;D:\result_tests\WinPython-32bit-3.4.1.1_build05c\scripts\..\python-3.4.1\..\tools\mingw32\bin;C:\Python34\;C:\Python34\Scripts;C:\Program Files\Common Files\Microsoft Shared\Windows Live;C:\Program Files (x86)\Common Files\Microsoft Shared\Windows Live;C:\Users\Lauriane\Downloads\ruby-Scite\bin;C:\Windows\system32;C:\Windows;C:\Windows\System32\Wbem;C:\Windows\System32\WindowsPowerShell\v1.0\;c:\Program Files (x86)\Common Files\Ulead Systems\MPEG;C:\Program Files (x86)\ATI Technologies\ATI.ACE\Core-Static;C:\Program Files\WIDCOMM\Bluetooth Software\;C:\Program Files\WIDCOMM\Bluetooth Software\syswow64;C:\Program Files (x86)\Windows Live\Shared;C:\Users\Lauriane\Downloads\Install\android-sdk-windows\tools;C:\Program Files (x86)\Microsoft SQL Server\100\Tools\Binn\;C:\Program Files\Microsoft SQL Server\100\Tools\Binn\;C:\Program Files\Microsoft SQL Server\100\DTS\Binn\;C:\Program Files\Common Files\Microsoft Shared\Windows Live;C:\Program Files (x86)\Common Files\Microsoft Shared\Windows Live;C:\Users\Lauriane\Downloads\ruby-Scite\bin;C:\Windows\system32;C:\Windows;C:\Windows\System32\Wbem;C:\Windows\System32\WindowsPowerShell\v1.0\;c:\Program Files (x86)\Common Files\Ulead Systems\MPEG;C:\Program Files (x86)\ATI Technologies\ATI.ACE\Core-Static;C:\Program Files\WIDCOMM\Bluetooth Software\;C:\Program Files\WIDCOMM\Bluetooth Software\syswow64;C:\Program Files (x86)\Windows Live\Shared;C:\Users\Lauriane\Downloads\Install\android-sdk-windows\tools;C:\Program Files (x86)\Microsoft SQL Server\100\Tools\Binn\;C:\Program Files\Microsoft SQL Server\100\Tools\Binn\;C:\Program Files\Microsoft SQL Server\100\DTS\Binn\;C:\Users\famille\AppData\Local\Programs\Git\cmd;D:\result_tests\WinPython-32bit-3.4.1.1_build05c\scripts\..\python-3.4.1\..\tools\TortoiseHg
!set
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pyjulia was mostly created to demo to someone using julia from python. At one point I was using a hybrid of python and julia so I thought I would have a stake in pushing this forward. Now I just use Julia so I have less incentive to work on this :-).
I do think that better python -> Julia support is important, but julia moves fast so I feel that support for this should come from someone who would be invested in actively maintaining it. Thoughts on better Python integration have been hashed out pretty thoroughly on the mailing list so searching there is probably the best place to look anyone is interested in this.
With regards to just getting something working for moment. The relative path to the system image used to be hard coded, now it looks like you can pass it in as a parameter: https://github.com/JuliaLang/julia/blob/master/src/jlapi.c#L53. You may have to play around with setting up the paths correctly on windows as I don't have any real knowledge of windows and windows support in pyjulia was contributed by someone else.
when I try
api.jl_init_with_image(jl_init_path, os.path.join(jl_init_path, "..\lib\julia\sys.ji"))
the error changes, which is good news in itself, but message is unexpected
System image file "D\D" not found
Could there be a Python3 "string" handling issue ?
If I try
api.jl_init_with_image(jl_init_path.encode('ascii'), "..\\lib\\julia\\sys.ji".encode('ascii'))
I get , in the notebook this time
D:\result_tests\WinPython-32bit-3.4.1.1_build05c\python-3.4.1\lib\site-packages\julia\core.py in __init__(self, init_julia, jl_init_path)
366 self.call('using PyCall')
367 except:
--> 368 raise JuliaError("Julia does not have package PyCall")
369 try:
370 self.call('pyinitialize(C_NULL)')
JuliaError: Julia does not have package PyCall
... progress , so
julia> Pkg.add("PyCall")
julia> Pkg.update()
but then Load_magic does nothing but lock my notebook,
If I try
import julia
j = julia.Julia()
I get a
D:\result_tests\WinPython-32bit-3.4.1.1_build05c\python-3.4.1\lib\site-packages\julia\core.py in __init__(self, init_julia, jl_init_path)
370 self.call('pyinitialize(C_NULL)')
371 except:
--> 372 raise JuliaError("Failed to initialize PyCall package")
373
374 # Whether we initialized Julia or not, we MUST create at least one
JuliaError: Failed to initialize PyCall package
and in the dos window
symbol could not be found Py_IsInitialized (-1): no error
so, 2 inches further, but no clue after that.
Is this relevant for my problem ? https://groups.google.com/forum/#!topic/julia-users/lDM7-YXT2LU
To make PyCall work with python3, the following environment variable needs to be set:
julia> ENV["PYTHON"]="python3"
If that doesn't work, try:
julia> ENV["PYTHON"]="/usr/bin/python3"
(seems not, and setting %PYTHONHOME% neither)
No, that shouldn't be relevant. When you call Julia from Python, the Python library is already loaded in memory, and so it doesn't need to know the name of the Python executable. Here, it's not even getting to the point where Python 2 vs. Python 3 should matter .... it's just trying to look up the symbol Py_IsInitialized
(part of libpython
) in the default/global namespace (which is where libpython is on other systems when you are running from python
) and failing.
do you mean I need to install this on my windows python ?
http://www.lfd.uci.edu/~gohlke/pythonlibs/#libpython
Libpython installs the libpython??.a and libmsvcr??.a libraries to Python\libs. For use with MinGW64/Rtools.
(I see only a 64 bit version on Christoph Gohlke site..) does it mean it can only work with a python 64 bits ?
Can use use pycall from julia to talk to python? Getting that to work is a necessary first step towards calling julia from python.
D:\result_tests\WinPython-32bit-3.4.1.1_build05c\scripts>julia
_
_ _ _(_)_ | A fresh approach to technical computing
(_) | (_) (_) | Documentation: http://docs.julialang.org
_ _ _| |_ __ _ | Type "help()" to list help topics
| | | | | | |/ _` | |
| | |_| | | | (_| | | Version 0.3.0-rc1+61 (2014-07-17 20:55 UTC)
_/ |\__'_|_|_|\__'_| | Commit c4547e6 (1 day old master)
|__/ | i686-w64-mingw32
julia> using PyCall
julia> @pyimport math
julia> math.sin(math.pi / 4) - sin(pi / 4)
0.0
julia> @pyimport numpy.random as nr
julia> nr.rand(3,4)
3x4 Array{Float64,2}:
0.832927 0.0302319 0.349613 0.111176
0.374895 0.221529 0.999916 0.510089
0.621628 0.21596 0.530169 0.00968739
julia>
I assume that, maybe, the test "self.call('pyinitialize(C_NULL)')" is irrelevant in Windows 32bit mode, so I put this line in comment, and try something that ... seems to work, so the 'assumation' seems not impossible to me... ''''
print(" Julia error ? Failed to initialize PyCall package")
''''
To get there, I had to do a dir(j) and discover that 'j.run("2+2")' must be replaced by 'j.eval("2+2")'
so, the magic error seems to be just the same problem
%load_ext julia.magic
%%julia
println("Hello from Julia!\n")
[1:10]
gives
D:\result_tests\WinPython-32bit-3.4.1.1_build05c\python-3.4.1\lib\site-packages\julia\magic.py in julia(self, line, cell)
57 """
58 src = str(line if cell is None else cell)
---> 59 return self.julia.run(src)
60
61
D:\result_tests\WinPython-32bit-3.4.1.1_build05c\python-3.4.1\lib\site-packages\julia\core.py in __getattr__(self, name)
419
420 def __getattr__(self, name):
--> 421 bases = object.__getattribute__(self, 'bases')
422 if not name in bases:
423 raise AttributeError("Name {} not found".format(name))
AttributeError: 'Julia' object has no attribute 'bases'
so replacing 'run' per 'eval' in julia\magic.py
#return self.julia.run(src)
return self.julia.eval(src)
I get .....
.. I'm not sure where the patches should be done, and don't feel expert enough in julia to propose them, If I register my steps well
api.jl_init(jl_init_path)
should be replaced by
api.jl_init_with_image(jl_init_path.encode('ascii'), "..\\lib\\julia\\sys.ji".encode('ascii'))
self.call('pyinitialize(C_NULL)')
#return self.julia.run(src)
return self.julia.eval(src)
No, you definitely need to call pyinitialize
, or PyCall will not work. If PyCall can't find Py_IsInitialized
that means it is unable to call functions in libpython, and nothing will work.
so my call is failing, but still doing something usefull ? catching the error and getting over it in win32 is ok ?
@stonebig, I have to admit that I'm pretty confused by why Py_IsInitialized
would not exist but that anything else would work.
WinRPM includes "i686-w64-mingw32\sys-root\mingw\binlibgcc_s_sjlj-1.dll" The initial mingw I used (for cython), includes "libgcc_s_dw2-1.dll" After reading the site http://tdm-gcc.tdragon.net/quirks, it may be an explanation. Does WinRPM rely on the "MinGW-w64" project for its 32 bit binary, in i686-w64-mingw32 , or on "Mingw" project ? (I took the most popular by downloads)
I can't read through this discussion right now, but my concern would be that those DLLs have different exception models - sjlj vs dwarf. Not sure why that would be relevant to missing symbol though if that is the problem. You may want to check the libpythpn exports with sysinternals dep explorer On Jul 24, 2014 1:09 PM, "stonebig" notifications@github.com wrote:
WinRPM includes "i686-w64-mingw32\sys-root\mingw\binlibgcc_s_sjlj-1.dll" The initial mingw I used (for cython), includes "libgcc_s_dw2-1.dll" After reading the site http://tdm-gcc.tdragon.net/quirks, it may be an explanation. Does WinRPM rely on the "MinGW-w64" project for its 32 bit binary, in i686-w64-mingw32 , or on "Mingw" project ?
— Reply to this email directly or view it on GitHub https://github.com/JuliaLang/IJulia.jl/issues/206#issuecomment-50047949.
It's still written "Do not install Python 3" on the windows readme, so my troubles may be just that
https://github.com/JuliaLang/julia/blob/master/README.windows.md
That is referring to building Julia from source.
You will probably need to try to isolate things step by step.
julia> h = dlopen("/path/to/libpython.dll")
julia> dlsym(h, "Py_IsInitialized")
hi, Thing are getting sorted on windows
To replace the use of the commands
module, which is gone in Python 3, you can do this:
try:
JULIA_HOME = subprocess.check_output(
['julia', '-e', "print(JULIA_HOME)"],
universal_newlines=True)
except subprocess.CalledProcessError:
raise JuliaMagicError('error starting up the Julia process')
I can't test much beyond that point because of issue #220.
Closing as is now purely a pyjulia thing.
Over a Ipython installation (winpython, windows7 32 bits,julia-0.3.0-rc1-c4547e6-win32.exe, Ijulia), I'm trying to have "%load_ext julia.magic" working, but I get the following error. As anyone a suggestion ?
installation process was
i my python-3.4.1\Lib\site-packages\julia, I have init.py core.py magic.py