From mboxrd@z Thu Jan  1 00:00:00 1970
From: "Cook, Malcolm" <MEC@stowers.org>
Subject: Re: BUG: emacs orgmode ob-R.el function org-babel-R-evaluate-session
 over aggressively performs "; ; cleanup extra prompts left in output" and a
 possible workaround
Date: Thu, 8 Oct 2015 20:41:04 +0000
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To: "'Charles C. Berry'" <ccberry@ucsd.edu>
Cc: "emacs-orgmode@gnu.org" <emacs-orgmode@gnu.org>

> On Thu, 1 Oct 2015, Cook, Malcolm wrote:
 >=20
 > >>> I am not sure what the best solution is, but, in my hands using
 > > > > Org-mode version 8.3.2-elpa org-20150929 the reg-expt used to
 > > > > "cleanup extra prompts left in output" is over-aggressive and will
 > > > > trim session :output at lines consisting exclusively of blanks and
 > > > > periods such as produced when printing a BioConductor 'Views'
 > > > > object which wants to appear as
 > > >
 >=20
 > [snip]
 >=20
 > >>> I offer as a possible workaround the following:
 > > > >
 > > > > So far, I have had good success having removed provision for
 > > > > allowing
 > > > leading whitespace by changing the regexp
 > > > org-babel-R-evaluate-session from
 > > > >      "^\\([ ]*[>+\\.][ ]?\\)+\\([[0-9]+\\|[ ]\\)"
 > > > > to
 > > > >      "^\\([>+\\.][ ]?\\)+\\([[0-9]+\\|[ ]\\)"
 > > > >
 > > > > But I don't know all the test cases so, YMMV....
 >=20
 > I have traced this back to its source, and the culprit appears to be me.
 >=20
 > See
 >    commit dc92eaa08d89e4bc9556f868ae65633196157a8d
 >    Author: Eric Schulte <schulte.eric@gmail.com>
 >    Date:   Wed Jul 28 08:05:30 2010 -0600
 > and subsequent modifications.
 >=20
 > I believe the leading blank(s) in the regex were copied from ess, but no=
wadays
 > I only see this in code in ess-traceback.el that is commented out.
 >=20
 > So I guess there would be no harm in pushing the latter regex.


Hi Chuck.  Thanks for the history lesson, and taking this on in the first p=
lace.  Yay!    ~Malcolm

 >=20
 > Chuck