cool! this worked wonderfully:
(setq org-babel-python-command "python -m sandbox")
#+BEGIN_SRC python
print 'hello'
print 4 + 6
import sys
print >>sys.stderr, 'message to stderr'
raise Exception('baboom')
#+END_SRC
#+RESULTS:
#+begin_example
--------------------------------------------------------------
hello
10
--------------------------------------------------------------
stderr:
message to stderr
--------------------------------------------------------------
Traceback (most recent call last):
File "/home/jkitchin/Dropbox/pycse/pycse/sandbox/sandbox.py", line 19, in
<module>
exec(content, ns_globals, ns_locals)
File "<string>", line 10, in <module>
Exception: baboom
#+end_example
If anyone is interested, here is the sandbox module:
#!/usr/bin/env python
from cStringIO import StringIO
import os, sys
old_stdout = sys.stdout
old_stderr = sys.stderr
redirected_output = sys.stdout = StringIO()
redirected_error = sys.stderr = StringIO()
ns_globals = {}
ns_locals = {}
if __name__ == '__main__':
content = sys.stdin.read()
out, err, exc = None, None, None
try:
exec(content, ns_globals, ns_locals)
except:
import traceback
exc = traceback.format_exc()
out = redirected_output.getvalue()
err = redirected_error.getvalue()
sys.stdout = old_stdout
sys.stderr = old_stderr
s = '''
--------------------------------------------------------------
{0}
'''.format(out)
if err:
s += '''
--------------------------------------------------------------
stderr:
{0}
'''.format(err)
if exc:
s += '''
--------------------------------------------------------------
{0}
'''.format(exc)
print s
John
-----------------------------------
John Kitchin
Associate Professor
Doherty Hall A207F
Department of Chemical Engineering
Carnegie Mellon University
Pittsburgh, PA 15213
412-268-7803
http://kitchingroup.cheme.cmu.edu
On Wed, Sep 11, 2013 at 2:17 PM, Eric Schulte <schulte.e...@gmail.com>wrote:
> You could try setting org-babel-python-command to "python -m sandbox".
>
> If that doesn't work we could add a cmdline header argument to python
> code blocks pretty easily.
>
> Cheers,
>
> John Kitchin <jkitc...@andrew.cmu.edu> writes:
>
> > Hi,
> > I am looking at a new strategy to capture stderr and exceptions in python
> > code blocks. Right now exceptions are not captured in the output, and
> > neither is stderr.
> >
> > I made a little sandbox module that captures stdout, stderr, and
> exceptions
> > and then prints them all to stdout with some minor formatting. Here is an
> > example.
> >
> > Say test.py has this content
> >
> > #+BEGIN_SRC python
> > print 'hello'
> >
> > print 4 + 6
> >
> > import sys
> >
> > print >>sys.stderr, 'message to stderr'
> >
> >
> > raise Exception('baboom')
> > #+END_SRC
> >
> > When I use the sandbox, I get all the output on stdout like this.
> >
> > #+BEGIN_SRC sh
> > python -m sandbox < test.py
> > # or cat test.py | python -m sandbox
> > #+END_SRC
> >
> > #+RESULTS:
> > #+begin_example
> >
> > --------------------------------------------------------------
> > hello
> > 10
> >
> >
> > --------------------------------------------------------------
> > stderr:
> > message to stderr
> >
> >
> > --------------------------------------------------------------
> > Traceback (most recent call last):
> > File "/home/jkitchin/Dropbox/pycse/pycse/sandbox/sandbox.py", line 16,
> in
> > <module>
> > exec(content, ns_globals, ns_locals)
> > File "<string>", line 10, in <module>
> > Exception: baboom
> >
> >
> > #+end_example
> >
> >
> > So, I was wondering how to get this to happen in org-mode on a regular
> > python block. I think it could work if I could define a custom
> interpreter
> > for a particular block, e.g. python-sandbox that takes the codeblock on
> > stdin.
> >
> > Is there some other way that I could do this? Thanks!
> >
> > John
> >
> > -----------------------------------
> > John Kitchin
> > Associate Professor
> > Doherty Hall A207F
> > Department of Chemical Engineering
> > Carnegie Mellon University
> > Pittsburgh, PA 15213
> > 412-268-7803
> > http://kitchingroup.cheme.cmu.edu
>
> --
> Eric Schulte
> https://cs.unm.edu/~eschulte
> PGP: 0x614CA05D
>
