forked from mirrors/org-mode
Bug report: example of failure of python session evaluation
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@ -2782,7 +2782,47 @@ dot("$(2a,0)$",(2,0),N+E);
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*** DONE sh
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* Bugs [32/40]
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* Bugs [32/41]
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** TODO Python session evaluation bug
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The following block evaluates correctly with :session none
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(set :results to output), but fails with session-based evaluation
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(with :results value, as below, you see the error message)
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I edebug'ed it and it seems fine until [[file:lisp/langs/org-babel-python.el::comint%20session%20evaluation%20org%20babel%20comint%20in%20buffer%20buffer%20let%20full%20body][we go to comint]].
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#+begin_src python :session pysession :results value
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import os
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from subprocess import *
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chunk = 10000
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format = '.gen.gz'
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cc = [('58C','NBS'),
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('58C','POBI'),
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('NBS','POBI')]
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for outdir in ['none', 'noscots', 'lax', 'strict']:
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outdir = os.path.join('exclusion-study', outdir)
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for case, control in cc:
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outfile = os.path.join(outdir, '%s-vs-%s-direct' % (case, control))
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cmd = 'snptest %s -frequentist 1 -hwe ' % ('-gen_gz' if format == '.gen.gz' else '')
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cmd += '-cases %s %s ' % (case + format, case + '.sample')
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cmd += '-controls %s %s ' % (control + format, control + '.sample')
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cmd += '-exclude_samples %s ' % os.path.join(outdir, 'exclusions')
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cmd += '-o %s ' % outfile
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cmd += '-chunk %d ' % chunk
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cmd += '> %s' % outfile + '.log'
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# os.system(cmd)
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print(cmd)
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#+end_src
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#+resname:
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: File "<stdin>", line 14
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: _
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: ^
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: SyntaxError: invalid syntax
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** PROPOSED require users to explicitly turn on each language
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As we continue to add more languages to org-babel, many of which will
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require new major-modes we need to re-think how languages are added to
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