From: "Charles C. Berry" <ccberry@ucsd.edu>
To: William Denton <wtd@pobox.com>
Cc: Xebar Saram <zeltakc@gmail.com>, org mode <emacs-orgmode@gnu.org>
Subject: Re: Emacs/ESS/org freezes/hangs on big data/ RAM(~256GB) processes when run in org/babel
Date: Wed, 17 Jun 2015 20:17:42 -0700 [thread overview]
Message-ID: <alpine.OSX.2.11.1506171920250.537@charles-berrys-macbook.local> (raw)
In-Reply-To: <alpine.DEB.2.02.1506171518001.17579@shell.miskatonic.org>
On Wed, 17 Jun 2015, William Denton wrote:
> On 17 June 2015, Xebar Saram wrote:
>
>> I do alot of modeling work that involves using huge datasets and run
>> process intensive R processes (such as complex mixed models, Gamms etc). in
>> R studio all works well yet when i use the orgmode eval on R code blocks it
>> works well for small simple process but 90% of the time when dealing with
>> complex models and bug data (up to 256GB) it will just freeze emacs/ess.
>> sometimes i can C-c or C-g it and other times i need to physically kill
>> emacs.
>
> I've been having the same problem for a while, but wasn't able to isolate it
> any more than large data sets, lack of memory, and heavy CPU usage.
> Sometimes everything hangs and I need to power cycle the computer. :(
>
And you (both) have `ess-eval-visibly' set to nil, right?
I do statistical genomics, which can be compute intensive. Sometimes
processes need to run for a while, and I get impatient having to wait.
I wrote (and use) ox-ravel[1] to speed up my write-run-revise cycle in
org-mode.
Basically, ravel will export Org mode to a format that knitr (and the
like) can run - turning src blocks into `code chunks'. That allows me to
set the cache=TRUE chunk option, etc. I run knitr on the exported document
to initialize objects for long running computations or to produce a
finished report.
When I start a session, I run knitr in the R session, then all the cached
objects are loaded in and ready to use.
If I write a src block I know will take a long time to export, I export
from org mode to update the knitr document and re-knit it to refresh the
cache.
Mostly, I work in org-mode adding src blocks, revising existing ones, or
editing text and graphics.
If you decide to try ravel I recommend the `ravel-lang' branch[2] as that
will soon replace master.
HTH,
Chuck
[1] https://github.com/chasberry/orgmode-accessories
[2] https://github.com/chasberry/orgmode-accessories/tree/ravel-lang
next prev parent reply other threads:[~2015-06-18 3:17 UTC|newest]
Thread overview: 13+ messages / expand[flat|nested] mbox.gz Atom feed top
2015-06-17 19:09 Emacs/ESS/org freezes/hangs on big data/ RAM(~256GB) processes when run in org/babel Xebar Saram
2015-06-17 19:19 ` William Denton
2015-06-18 3:17 ` Charles C. Berry [this message]
2015-06-18 11:39 ` Xebar Saram
2015-06-18 18:45 ` Charles C. Berry
2015-06-18 12:34 ` Rainer M Krug
2015-06-18 20:20 ` Charles C. Berry
2015-06-18 21:20 ` Andreas Leha
2015-06-19 22:13 ` Charles C. Berry
2015-06-19 22:25 ` Andreas Leha
2015-06-19 22:31 ` Andreas Leha
2015-06-20 15:05 ` Rainer M Krug
2015-06-20 21:20 ` Andreas Leha
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