|Subject:||Re: [O] [Orgmode] Unable to capture the file name generated using matplotlib|
|Date:||Mon, 25 May 2015 19:25:15 +0200|
I am still helpless here. Any idea how to debug the problem? I would be happy to provide any kind of help, but I just cannot do it myself.Further findings:1) I don't think that matplotlib changes Python's '_', since the tmp file that contains the content of '_' is correct.2) Somehow, emacs/orgmode fails to extract the filename.3) It doesn't work also when using emacs 24.5 and orgmode 8.2.10.Following is an org file that tries to summarize the issue:#+TITLE: Integrate matplotlib figures in an org mode buffer* GoalThe ultimate goal is to use org-babel as a replacement of IPython. Thefirst motivation is to enable an easier version controling of thedocument. The first challenge I faced is integration of plots returnedby ~matplotlib~ in the org buffer.* Capturing filenameI would like to use (babel) orgmode as an interactive pythonnotebook. Therefore, in order to allow the various code blocks to"know" each other, it is important to use the ~:session~option. However, once ~:session~ is used, together with ~matplotlib~the desired behavior is no longer in place.* Clean testing, no MatplotlibFor the sake of testing, the following merely suppose to return the filename#+BEGIN_SRC python :session no_matplotlib :results file :exports bothx = 'hello 'y = 'world'z = x + y'foo.bar'#+END_SRC#+RESULTS:[[file:foo.bar]]*Passed* Indeed, the ~RESULTS~ block contains a link to the filenameindicated by the last string.* Importing MatplotlibThe following minimal example should generate a simple figure,~myfig.png~, and orgmode should capture it and interpret it as afilename to be used by the following ~RESULTS~ block.#+BEGIN_SRC python :session with_matplotlib :results file :exports bothimport matplotlibmatplotlib.use('Agg')import matplotlib.pyplot as pltfig=plt.figure(figsize=(3,2))plt.plot([1,3,2])plt.savefig('myfig.png')'myfig.png'#+END_SRC#+RESULTS:[[file:]]*Failed!* This time, it doesn't work anymore. The file ~myfig.png~ isproperly generated, but the last string is not captured by~matplotlib~. Following is the content of the correspondinginteractive python session:#+BEGIN_SRCProcess with_matplotlib finishedPython 3.4.3 (default, Mar 10 2015, 14:53:35)[GCC 4.2.1 Compatible Apple LLVM 6.0 (clang-600.0.56)] on darwinType "help", "copyright", "credits" or "license" for more information.>>> >>> >>> , '''/var/folders/kz/1c2cxn1x60n_t5p2j1p02b180000gn/T/py32771xVI''', 'exec'));import matplotlib>>> import matplotlibmatplotlib.use('Agg')matplotlib.use('Agg')import matplotlib.pyplot as pltimport matplotlib.pyplot as pltfig=plt.figure(figsize=(3,2))fig=plt.figure(figsize=(3,2))plt.plot([1,3,2])plt.plot([1,3,2])plt.savefig('myfig.png')plt.savefig('myfig.png')'myfig.png''myfig.png'open('/var/folders/kz/1c2cxn1x60n_t5p2j1p02b180000gn/T/babel-32771x4j/python-32771-fO', 'w').write(str(_))open('/var/folders/kz/1c2cxn1x60n_t5p2j1p02b180000gn/T/babel-32771x4j/python-32771-fO', 'w').write(str(_))'org_babel_python_eoe''org_babel_python_eoe'>>> [<matplotlib.lines.Line2D object at 0x108e01828>]>>> 'myfig.png'>>> >>> 9>>> >>> >>> 'org_babel_python_eoe'>>>#+END_SRC* Some background** Python Version#+BEGIN_SRC python :session background :results rawimport syssys.version#+END_SRC#+RESULTS:3.4.3 (default, Mar 10 2015, 14:53:35)[GCC 4.2.1 Compatible Apple LLVM 6.0 (clang-600.0.56)]** Matplotlib version#+BEGIN_SRC python :session background :results rawimport matplotlibmatplotlib.__version__#+END_SRC#+RESULTS:1.4.3** SystemI am running Emacs version ~GNU Emacs 24.5.1 (x86_64-apple-darwin14.1.0, NS apple-appkit-1344.72) of 2015-04-19 on tenten-slave.macports.org~The orgmode version is: ~Org-mode version 8.2.10 (8.2.10-40-gc763fa-elpaplus @ /Users/drorata/.emacs.d/elpa/org-plus-contrib-20150518/)~** Stackoverflow referenceI also posted a question in the SE network:[[http://emacs.stackexchange.com/questions/11075/org-mode-python-session-does-not-return-a-file-name]]* QuestionSo, my question is how to tackle/debug this issue? Can someone give mea hand here? That would be really great! Thanks!
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