From m.cowley at garvan.org.au  Mon Jan 30 00:23:52 2012
From: m.cowley at garvan.org.au (Mark Cowley)
Date: Mon, 30 Jan 2012 10:23:52 +1100
Subject: [Rd] Unable to reload Rdoc
In-Reply-To: <CAFDcVCQOGSFD0ZHPo6g+2Yx-JEFZVxFh0cf2Gi_Aj4N7OWeShQ@mail.gmail.com>
References: <5E2DFDD7-D68B-4B8B-915F-2ACFC08C4D94@garvan.org.au>
	<CABdHhvHYxxAuxpxEQJb5ztrbUs7pwWZZvBPACO3MTzidjwEy0g@mail.gmail.com>
	<CAFDcVCQOGSFD0ZHPo6g+2Yx-JEFZVxFh0cf2Gi_Aj4N7OWeShQ@mail.gmail.com>
Message-ID: <9AC21AED-E3A6-4EB3-A2A5-151A9819D31B@garvan.org.au>

Gentlemen,
Thanks for your insights, all 3 hints are very useful.

Mark
On 28/01/2012, at 8:29 AM, Henrik Bengtsson wrote:

> Related: To simplify reloading a help page after restarting R, I do
> have the following in my ~/.Rprofile:
> 
> # Always only the HTML help on the same port
> local({
>  port <- sum(c(1e3,10)*as.double(R.Version()[c("major", "minor")]));
>  ports <- 10*port + 0:9;
>  options(help.ports=ports);
> });
> 
> # Try to start HTML help server
> tryCatch({
>  if (interactive()) {
>    tools::startDynamicHelp();
>  }
> }, error = function(ex) {
>  print(ex);
> })
> 
> That way the URL for the help page remain the same (as long as you
> only run one R session) and the internal web server is up and running
> (no need for help.start()).
> 
> My $.02
> 
> /Henrik
> 
> On Fri, Jan 27, 2012 at 6:15 AM, Hadley Wickham <hadley at rice.edu> wrote:
>> On Fri, Jan 27, 2012 at 3:47 AM, Mark Cowley <m.cowley at garvan.org.au> wrote:
>>> Dear list,
>>> I'm hoping the R guru's can help with an error i've been getting for at least a year during active package development.
>>> 
>>> I have a package loaded & spot a documentation bug, so I:
>>> edit the Rd file (or in the roxygen header + roxygenize); then
>>> R CMD BUILD,
>>> R CMD INSTALL
>>> then in the same R session, reload the library & lookup a man page, I always get this error:
>>> Error in fetch(key) : internal error -3 in R_decompress1
>>> 
>>> I've tried all ways of reloading the package that i'm aware of:
>>> detach then library
>>> unloadNamespace then library
>>> devtools::install
>>> devtools::reload
>>> 
>>> all lead to the error.
>>> 
>>> I see from ?detach:
>>> ... So detaching and re-attaching a package may
>>> not refresh some or all components of the package, and is
>>> inadvisable.
>>> 
>>> restarting the R session results in loading the updated man file, but do you have any ideas how to word around this & continue within the same R session?
>>> 
>>> cheers,
>>> Mark
>>> 
>>> # 1) using Hadley's devtools
>>>> library(devtools)
>>>> library(updateR) # my package under development
>>>> install("~/src/R/updateR")
>> 
>> To avoid this problem, the latest version of devtools has show_rd(),
>> which allows you to preview an Rd file in R without having to
>> reinstall the package.  This was actually really simple to implement,
>> and I don't know why I didn't think of it ages ago - it's certainly
>> made my workflow much smoother.
>> 
>> Hadley
>> 
>> --
>> Assistant Professor / Dobelman Family Junior Chair
>> Department of Statistics / Rice University
>> http://had.co.nz/
>> 
>> ______________________________________________
>> R-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-devel



[Rd] Unable to reload Rdoc
Mark Cowley