[Rd] New behavior when running script in package directory?

[Dominick Samperi]

Thanks, there is no ~/.Rprofile, and I have no idea where ss() is defined.

On Wed, Jun 21, 2023 at 12:01 PM Bill Dunlap <williamwdunlap using gmail.com>
wrote:

> If ./Rprofile is not present and ~/.Rprofile is present then R will run
> the latter at startup.  Do you have a ~/.Rprofile that defines a ss()
> function?
>
> -Bill
>
> On Wed, Jun 21, 2023 at 8:50 AM Dominick Samperi <djsamperi using gmail.com>
> wrote:
>
>> Thanks, I checked for .Rprofile and .RData files. They are not present.
>> I also tried renaming my .emacs.d file in case the problem is due to
>> my Emacs configuration, but this didn't change anything.
>>
>> If I go to package/R, start R, and use source('foo.R'), there is no
>> problem.
>>
>> But if I use Emacs/ESS to run the script foo.R (with no .emacs.d) I get
>> an error referring to a temp file /tmp/foo.R!djSwRn, namely
>>
>> Error in ss(file, echo = visibly, local = local, print.eval = output,  :
>>   /tmp/foo.R!djSwRn:2:0: unexpected end of input
>> 1: foo <- function(secs) {
>>
>> Here are the contents of foo.R:
>> foo <- function(secs) {
>>   return(secs)
>> }
>>
>> What seems to be happening is this. After reading the script into Emacs
>> and
>> using Ctrl-n to start emacs, R starts, setwd(<path to packageA/R>) is run,
>> and then the signal package is attached (a dependency of packageA), and
>> I get the error message. There is no problem when Emacs is used to run
>> the script in my home directory.
>>
>> This raises a couple of questions:
>> 1. Why does Emacs/ESS behave differently depending on the
>> current working directory?
>> 2. Why is the signal package loaded automatically?
>> 3. Why is that temporary file /tmp/foo.R!djSwRn created?
>> 4. What is that function ss() in the error message referring to?
>> 5. Could this be a virus? Under Ubuntu?
>>
>> Thanks,
>> Dominick
>>
>>
>>
>>
>> On Wed, Jun 21, 2023 at 2:17 AM Jan van der Laan <rhelp using eoos.dds.nl>
>> wrote:
>>
>> >
>> > Could there be a .Rprofile or .RData file in the directory where you
>> > start R? These are run/loaded when you start R when present (with the
>> > default arguments when starting R).
>> >
>> > HTH,
>> > Jan
>> >
>> >
>> >
>> > On 20-06-2023 23:38, Dominick Samperi wrote:
>> > > When I run a script foo.R containing some trivial code in my home
>> > > directory, via Emacs/ESS, everything works as expected: R
>> > > starts, and a setwd() command to set the working directory is
>> > > run automatically before the code in the script is run.
>> > >
>> > > But if I copy foo.R to some package/R directory strange
>> > > things happen. When I use Emacs/ESS to run the script
>> > > in its new location, R starts, and setwd() is called to set
>> > > the working directory, but then one or more libraries that the
>> > > package depends on are loaded, even though I am using no
>> > > libraries in foo.R.
>> > >
>> > > Now consider foo.R that contains the following trivial code:
>> > > secsToRDateTime <- function(secs) {
>> > >    day2sec <- 60*60*24
>> > >    days <- secs/day2sec
>> > > }
>> > >
>> > > When I try to run this from package/R I get...
>> > >
>> > > Error in ss(file, echo = visibly, local = local, print.eval =
>> output,  :
>> > >    /tmp/gpstime.R!CuSewT:2:0: unexpected end of input
>> > > 1: secsToRDateTime <- function(secs) {
>> > >     ^
>> > >
>> > > As I said, there are no problems when the script is run from my
>> > > home directory. This suggests that test scripts can no longer be
>> > > tested in a package's R directory?
>> > >
>> > > Is this true?
>> > >
>> > > Thanks,
>> > > Dominick
>> > >
>> > >       [[alternative HTML version deleted]]
>> > >
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