[R-SIG-Mac] Rstan compilation hangs misterisouly

[Ken Beath]

It is actually Makevars. If it is there it will be in the .R directory of your home folder.

Unless it has been set up for something else, like Rcpp, then it can probably be deleted. 

Ken

> On 9 Nov 2020, at 12:43 pm, Goncalo Ferraz <gfapple using mac.com> wrote:
> 
> Hi,
> 
> Yes, at some point there was a problem with schools.stan, it needed an extra (empty) line added to the end. But that didn’t solve the problem. I tried at least three different tests, with different models, and the same thing happens.
> 
> Tried to get rid of .MakeVars and as I remember it didn’t change anything. I wanted to try it again now, but I am not finding a .MakeVars file anywhere on my computer. Where should it be?
> 
> Thanks,
> 
> Gonçalo
> 
>> On Nov 8, 2020, at 8:04 PM, Ken Beath <ken using kjbeath.com.au> wrote:
>> 
>> Guessing here. Possibly schools.stan has a problem, that is what teh first error is suggesting. The remaining is a possible problem with .MakeVars which is no longer needed with R. I would also check that files aren’t being saved with a strange encoding.
>> 
>> Ken
>> 
>>> On 9 Nov 2020, at 7:25 am, Roy Mendelssohn - NOAA Federal via R-SIG-Mac <r-sig-mac using r-project.org> wrote:
>>> 
>>> Hi:
>>> 
>>> While it is possible you will get the help you seek here,  I think you would likely to get more help,  and more knowledgeable help, on this more specialized issue,  at the Stan Forum.  https://discourse.mc-stan.org.  I remember seeing in the summaries I get some issues with different combinations of versions of R,  Stan and compilers.
>>> 
>>> HTH,
>>> 
>>> -Roy
>>> 
>>>> On Nov 8, 2020, at 12:16 PM, Goncalo Ferraz via R-SIG-Mac <r-sig-mac using r-project.org> wrote:
>>>> 
>>>> Hi, 
>>>> 
>>>> I’ve been struggling with an rstan problem for weeks. I installed R stan following instructions in https://github.com/stan-dev/rstan/wiki/RStan-Getting-Started#how-to-use-rstan <https://github.com/stan-dev/rstan/wiki/RStan-Getting-Started#how-to-use-rstan> to the letter, but when I try to compile any model R leaves me hanging indefinitely (I’ve waited up to 30 minutes with ridiculously short models). When I press esc R says:
>>>> 
>>>> Warning messages:
>>>> 1: In readLines(file, warn = TRUE) :
>>>> incomplete final line found on '/Users/gferraz/Documents/MAF/R/schools.stan'
>>>> 2: In system(paste(CXX, ARGS), ignore.stdout = TRUE, ignore.stderr = TRUE) :
>>>> system call failed: Result too large
>>>> 3: In system(paste(CXX, ARGS), ignore.stdout = TRUE, ignore.stderr = TRUE) :
>>>> error in running command
>>>> 
>>>> And then, R won’t quit. I can only close it by force quitting the software itself and some R process that is set in motion and appears in the Activity Monitor.
>>>> 
>>>> I have tried everything that was suggested in the stan forum, including deleting all the contents of /usr/local, removing xcode, R and re-installing everything again.
>>>> 
>>>> The only thing that I can think of now is to do a clean install of Mac OS on my machine and really start from scratch.
>>>> 
>>>> Anyone has a less radical recommendation?
>>>> 
>>>> Thank you,
>>>> 
>>>> Gonçalo
>>>> 	[[alternative HTML version deleted]]
>>>> 
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>>> 
>>> **********************
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>>> **********************
>>> Roy Mendelssohn
>>> Supervisory Operations Research Analyst
>>> NOAA/NMFS
>>> Environmental Research Division
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>>> 
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>>> 
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>> 
>