[R] FW: R

Mon May 21 15:03:06 CEST 2007

Ricky Rankin wrote:
> AJ,
>
> Can you test and let us know if this is OK
>   
Erm, I think you might want to keep me and a few thousand readers of
r-help out of the loop at this stage...

    -pd

> Ricky
> ______________________
> Principal Analyst
> Information Services
> Queen's University Belfast
>  
> tel: 02890 974824
> fax: 02890 976586
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>
>
> -----Original Message-----
> From: Da.McPhee at Queens-Belfast.AC.UK [mailto:Da.McPhee at Queens-Belfast.AC.UK] 
> Sent: 21 May 2007 12:41
> To: Peter Dalgaard
> Cc: Da.McPhee at Queens-Belfast.AC.UK; Dr. A. J. McKnight; r-help at stat.math.ethz.ch; Ricky Rankin
> Subject: Re: [R] FW: R
>
> Hi All
>
>
> I think I've now got this working on XC cluster. Latest version 2.5.0.
>
> Just type R.
>
> man R for man pages.
>
> Cheers
>
> Derek
>
>
>
>
> On Dec 11 2006, Peter Dalgaard wrote:
>
>   
>> Da.McPhee at Queens-Belfast.AC.UK wrote:
>>     
>>> Hi Ricky / AJ
>>>
>>> Progress of sorts. I got passed the last problem by looking at the 
>>> makefiles but run in to the next one, see below.
>>>
>>> It has created files in /contrib/R-2.4.0. there is an " R " under 
>>> /contrib/R-2.4.0/bin/R.
>>>
>>> Running it gives :-
>>>
>>>
>>> /contrib/R-2.4.0/bin/R
>>>
>>> R version 2.4.0 (2006-10-03)
>>> Copyright (C) 2006 The R Foundation for Statistical Computing
>>> ISBN 3-900051-07-0
>>>
>>> R is free software and comes with ABSOLUTELY NO WARRANTY.
>>> You are welcome to redistribute it under certain conditions.
>>> Type 'license()' or 'licence()' for distribution details.
>>>
>>> R is a collaborative project with many contributors.
>>> Type 'contributors()' for more information and
>>> 'citation()' on how to cite R or R packages in publications.
>>>
>>> Type 'demo()' for some demos, 'help()' for on-line help, or
>>> 'help.start()' for an HTML browser interface to help.
>>> Type 'q()' to quit R.
>>>
>>>
>>>  *** caught segfault ***
>>> address 40b843f0, cause 'memory not mapped'
>>>
>>> Traceback:
>>>  1: .Call("La_dgesv", a, b, tol, PACKAGE = "base")
>>>  2: solve.default(rgb)
>>>  3: solve(rgb)
>>>  4: drop(whitexyz %*% solve(rgb))
>>>  5: make.rgb(red = c(0.625, 0.34), green = c(0.28, 0.595), blue = 
>>> c(0.155, 0.07), gamma = 1.8, white = "D65", name = "Apple RGB")
>>>  6: eval(expr, envir, enclos)
>>>  7: eval(i, envir)
>>>  8: sys.source(codeFile, env, keep.source = keep.source)
>>>  9: try(sys.source(codeFile, env, keep.source = keep.source)) 10: 
>>> loadNamespace(package, c(which.lib.loc, lib.loc), keep.source = 
>>> keep.source) 11: try({ ns <- loadNamespace(package, c(which.lib.loc, 
>>> lib.loc), keep.source = keep.source) dataPath <- 
>>> file.path(which.lib.loc, package, "data") env <- attachNamespace(ns, 
>>> pos = pos, dataPath = dataPath)}) 12: library(package, lib.loc = 
>>> lib.loc, character.only = TRUE, logical = TRUE, warn.conflicts = 
>>> warn.conflicts, keep.source = keep.source, version = version) 13: 
>>> require(pkg, quietly = TRUE, warn.conflicts = FALSE, character.only = 
>>> TRUE, save = FALSE) 14: .First.sys()
>>>
>>> Possible actions:
>>> 1: abort (with core dump)
>>> 2: normal R exit
>>> 3: exit R without saving workspace
>>> 4: exit R saving workspace
>>> Selection: 14
>>> aborting ...
>>> Segmentation fault (core dumped)
>>>
>>> The make command fails with :-
>>>
>>> make[4]: Leaving directory `/contrib/R-2.4.0/src/library/grDevices/src'
>>>
>>>  *** caught segfault ***
>>> address 4084b2f0, cause 'memory not mapped'
>>>
>>> Traceback:
>>>  1: .Call("La_dgesv", a, b, tol, PACKAGE = "base")
>>>  2: solve.default(rgb)
>>>  3: solve(rgb)
>>>  4: drop(whitexyz %*% solve(rgb))
>>>  5: make.rgb(red = c(0.625, 0.34), green = c(0.28, 0.595), blue = 
>>> c(0.155, 0.07), gamma = 1.8, white = "D65", name = "Apple RGB")
>>>  6: eval(expr, envir, enclos)
>>>  7: eval(i, envir)
>>>  8: sys.source(codeFile, env, keep.source = keep.source)
>>>  9: try(sys.source(codeFile, env, keep.source = keep.source)) 10: 
>>> loadNamespace(package, lib.loc, keep.source, TRUE, TRUE) 11: 
>>> code2LazyLoadDB(package, lib.loc = lib.loc, keep.source = keep.source, 
>>> compress = compress) 12: tools:::makeLazyLoading("grDevices") aborting 
>>> ... /bin/sh: 18508 Memory fault(coredump) make[3]: *** [all] Error 139 
>>> make[3]: Leaving directory `/contrib/R-2.4.0/src/library/grDevices' 
>>> make[2]: *** [R] Error 1 make[2]: Leaving directory 
>>> `/contrib/R-2.4.0/src/library' make[1]: *** [R] Error 1 make[1]: 
>>> Leaving directory `/contrib/R-2.4.0/src' make: *** [R] Error 1
>>>
>>> Do not hold out much hope from mailing list, as they did not answer my 
>>> last email, but have included it anyway.
>>>
>>>   
>>>       
>> "They" might not have had enough information to go on (and r-devel had 
>> been a better target). Things like OS and computer versions. (I can't 
>> seem to find the earlier report though).
>>
>> Looks like you have broken lapack libraries, so you may want to upgrade 
>> them or override the selection made during the configure phase.
>>
>> Make sure to read
>> http://cran.r-project.org/doc/manuals/R-admin.html
>> and in particular Appendix A3 which discusses some of these issues.
>>
>>     
>>> Cheers
>>>
>>> Derek
>>>
>>>
>>> ================================
>>>
>>> Derek McPhee
>>> Information Services
>>> Queen's University Belfast
>>> e-mail da.mcphee at qub.ac.uk
>>> Tel 028 90973840
>>> Fax 028 90975066
>>>
>>> ______________________________________________ 
>>> R-help at stat.math.ethz.ch mailing list 
>>> https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting 
>>> guide http://www.R-project.org/posting-guide.html and provide 
>>> commented, minimal, self-contained, reproducible code.
>>>   
>>>       
>>     
>
>   


-- 
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