PyPlot.jl
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JuliaPy
`using PyPlot` fails
Something in the past few weeks has made PyPlot unusable. I'm on PyCall v0.4.5, PyPlot v1.2.5, and PySide v0.0.2.
in the julia terminal:
julia> using PyPlot
ERROR: PyError (PyImport_ImportModule)
in pyerr_check at /Users/joshua/.julia/PyCall/src/exception.jl:58
in pyimport at /Users/joshua/.julia/PyCall/src/PyCall.jl:85
in pyinitialize at /Users/joshua/.julia/PyCall/src/PyCall.jl:259
in pyinitialize at /Users/joshua/.julia/PyCall/src/PyCall.jl:447
in pyimport at /Users/joshua/.julia/PyCall/src/PyCall.jl:105
in reload_path at loading.jl:152
in _require at loading.jl:67
in require at loading.jl:51SYSTEM: show(lasterr) caused an error
in Ijulia:
In[*]: using PyPlot
KERNEL EXCEPTION
access to undefined reference
in convert at /Users/joshua/.julia/PyCall/src/conversions.jl:82
in pystring at /Users/joshua/.julia/PyCall/src/PyCall.jl:542
in show at /Users/joshua/.julia/PyCall/src/exception.jl:35
in showerror at replutil.jl:66
in showerror at replutil.jl:74 (repeats 2 times)
in showerror at replutil.jl:72
in sprint at io.jl:460
in pyerr_content at /Users/joshua/.julia/IJulia/src/execute_request.jl:66
_
_ _ ()_ | A fresh approach to technical computing () | () () | Documentation: http://docs.julialang.org _ _ | | __ _ | Type "help()" to list help topics | | | | | | |/ ` | | | | || | | | (| | | Version 0.3.0-prerelease+2570 (2014-04-09 19:29 UTC) / |_'|||__'| | Commit 4fc2a15 (34 days old master) |__/ | x86_64-apple-darwin13.1.0
Has something in your Python installation changed, e.g. from a system update?
It sounds like the error is in initializing PyCall, not in PyPlot per se. Try:
using PyCall
pyinitialize()
Thank you, we may be getting closer to the root of the problem.
julia> using PyCall
julia> pyinitialize()
ERROR: PyError (PyImport_ImportModule)
in pyerr_check at /Users/joshua/.julia/PyCall/src/exception.jl:58
in pyimport at /Users/joshua/.julia/PyCall/src/PyCall.jl:85
in pyinitialize at /Users/joshua/.julia/PyCall/src/PyCall.jl:259
in pyinitialize at /Users/joshua/.julia/PyCall/src/PyCall.jl:447
in pyinitialize at /Users/joshua/.julia/PyCall/src/PyCall.jl:452SYSTEM: show(lasterr) caused an error
What version of Python do you have? What is your operating system? What does versioninfo(true) report?
Have you tried running Python to see if Python is working?
Python 2.7.6 (v2.7.6:3a1db0d2747e, Nov 10 2013, 00:18:52) [GCC 4.0.1 (Apple Inc. build 5493)] on darwin
Operating System: OSX v10.9.2
julia> versioninfo(true)
Julia Version 0.3.0-prerelease+2570
Commit 4fc2a15 (2014-04-09 19:29 UTC)
Platform Info:
System: Darwin (x86_64-apple-darwin13.1.0)
CPU: Intel(R) Core(TM) i7-4850HQ CPU @ 2.30GHz
WORD_SIZE: 64
uname: Darwin 13.1.0 Darwin Kernel Version 13.1.0: Wed Apr 2 23:52:02 PDT 2014; root:xnu-2422.92.1~2/RELEASE_X86_64 x86_64 i386
Memory: 16.0 GB (11413.9921875 MB free)
Uptime: 6518.0 sec
Load Avg: 1.44384765625 1.39306640625 1.34423828125
Intel(R) Core(TM) i7-4850HQ CPU @ 2.30GHz:
speed user nice sys idle irq
#1 2300 MHz 2571 s 0 s 1698 s 60923 s 0 s
#2 2300 MHz 80 s 0 s 41 s 65069 s 0 s
#3 2300 MHz 1128 s 0 s 503 s 63559 s 0 s
#4 2300 MHz 79 s 0 s 38 s 65074 s 0 s
#5 2300 MHz 1173 s 0 s 494 s 63523 s 0 s
#6 2300 MHz 77 s 0 s 37 s 65076 s 0 s
#7 2300 MHz 1136 s 0 s 505 s 63549 s 0 s
#8 2300 MHz 74 s 0 s 38 s 65078 s 0 s
BLAS: libopenblas (USE64BITINT DYNAMIC_ARCH NO_AFFINITY)
LAPACK: libopenblas
LIBM: libopenlibm
Environment:
GEM_HOME = /Users/joshua/.rvm/gems/ruby-1.9.2-p290
TERM = xterm-256color
ARCS_PATH = /Users/joshua/Documents/Data
MY_RUBY_HOME = /Users/joshua/.rvm/rubies/ruby-1.9.2-p290
PATH = /Library/Frameworks/Python.framework/Versions/2.7/bin:/Library/Frameworks/Python.framework/Versions/2.7/bin:/Users/joshua/.rvm/gems/ruby-1.9.2-p290/bin:/Users/joshua/.rvm/gems/ruby-1.9.2-p290@global/bin:/Users/joshua/.rvm/rubies/ruby-1.9.2-p290/bin:/Users/joshua/cloudlab/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/opt/X11/bin:/Users/joshua/.rvm/bin
WORKSPACE_PATH = /Users/joshua/Documents/Workspaces
SANDBOX_PATH = /Users/joshua/Documents/GitDepot/cloudlab/src/sandbox/joshua
HOME = /Users/joshua
GEM_PATH = /Users/joshua/.rvm/gems/ruby-1.9.2-p290:/Users/joshua/.rvm/gems/ruby-1.9.2-p290@global
Package Directory: /Users/joshua/.julia
11 required packages:
- ArrayViews 0.4.4
- Color 0.2.9
- HDF5 0.2.23
- HTTPClient 0.1.4
- IJulia 0.1.9
- ImageView 0.0.16
- Images 0.2.36
- PyCall 0.4.5
- PyPlot 1.2.5
- PySide 0.0.2
- Winston 0.11.0
48 additional packages:
python is working.
Where did you get Python? On my 10.9.2 machine, the Python that comes with the system is 2.7.5.
I also have Python 2.7.5.
Python 2.7.5 (default, Sep 12 2013, 21:33:34) [GCC 4.2.1 Compatible Apple LLVM 5.0 (clang-500.0.68)] on darwin
When I use that as the default python, then PyCall.pyinitialize() works, but PyPlot still does not.
If you use the system Python 2.7.5, you should be able to plot in IJulia. Interactive plots won't work in the terminal because MacOS doesn't come with a supported backend for matplotlib. (See the README.)
How did you install Python 2.7.6?
You can use Miniconda via the Conda.jl package now. Just do:
ENV["PYTHON"]=""
Pkg.update()
Pkg.build("PyCall")
using PyPlot
and it should install and use matplotlib in the "private" Julia miniconda distribution set up by Conda.
Note that if you want to use the pyside backend, you will need to do
using Conda
Conda.add("pyside")