[Rd] How do I bundle R with my Win32 Application?
Hi I have managed to link R with my VC++ Project by generating a lib file from R.dll using dumpbin. Reference: http://www.coderetard.com/2009/01/21/generate-a-lib-from-a-dll-with-visual-studio/ My Win32 front end works perfectly with R provided R, my package and the dependencies of my package are installed on the target system. Now I want to bundle R with my application. How do I go about doing this? Simply copying the R files and creating necessary registry entries from my installer seems to be a way to do it. But what if the user's system already has R installed? Then how do I ensure that my package and it's dependencies work without creating conflict with the version numbers? Regards Abhijit Bera [[alternative HTML version deleted]] __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] Surprising length() of POSIXlt vector (PR#14073)
m...@celos.net wrote:
Arrays of POSIXlt dates always return a length of 9. This
is correct (they're really lists of vectors of seconds,
hours, and so forth), but other methods disguise them as
flat vectors, giving superficially surprising behaviour:
strings <- paste('2009-1-', 1:31, sep='')
dates <- strptime(strings, format="%Y-%m-%d")
print(dates)
# [1] "2009-01-01" "2009-01-02" "2009-01-03" "2009-01-04" "2009-01-05"
# [6] "2009-01-06" "2009-01-07" "2009-01-08" "2009-01-09" "2009-01-10"
# [11] "2009-01-11" "2009-01-12" "2009-01-13" "2009-01-14" "2009-01-15"
# [16] "2009-01-16" "2009-01-17" "2009-01-18" "2009-01-19" "2009-01-20"
# [21] "2009-01-21" "2009-01-22" "2009-01-23" "2009-01-24" "2009-01-25"
# [26] "2009-01-26" "2009-01-27" "2009-01-28" "2009-01-29" "2009-01-30"
# [31] "2009-01-31"
print(length(dates))
# [1] 9
str(dates)
# POSIXlt[1:9], format: "2009-01-01" "2009-01-02" "2009-01-03" "2009-01-04"
...
print(dates[20])
# [1] "2009-01-20"
print(length(dates[20]))
# [1] 9
I've since realised that POSIXct makes date vectors easier,
but could we also have something like:
length.POSIXlt <- function(x) { length(x$sec) }
in datetime.R, to avoid breaking functions (like the
str.POSIXt method) which use length() in this way?
[You need "wishlist" in the title for this sort of stuff.]
I'd be wary of this. Just the other day we found that identical() broke
on some objects because a package had length() redefined as a class
method. I.e. the danger is that something wants to use length() with its
original low-level interpretation.
Thanks,
Mark <><
--
Version:
platform = i686-pc-linux-gnu
arch = i686
os = linux-gnu
system = i686, linux-gnu
status =
major = 2
minor = 10.0
year = 2009
month = 10
day = 26
svn rev = 50208
language = R
version.string = R version 2.10.0 (2009-10-26)
Locale:
C
Search Path:
.GlobalEnv, package:stats, package:graphics, package:grDevices, package:utils,
package:datasets, package:methods, Autoloads, package:base
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c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K
(*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918
~~ - (p.dalga...@biostat.ku.dk) FAX: (+45) 35327907
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Re: [Rd] Surprising length() of POSIXlt vector (PR#14073)
On 11/20/2009 09:54 AM, Peter Dalgaard wrote:
m...@celos.net wrote:
Arrays of POSIXlt dates always return a length of 9. This
is correct (they're really lists of vectors of seconds,
hours, and so forth), but other methods disguise them as
flat vectors, giving superficially surprising behaviour:
strings <- paste('2009-1-', 1:31, sep='')
dates <- strptime(strings, format="%Y-%m-%d")
print(dates)
# [1] "2009-01-01" "2009-01-02" "2009-01-03" "2009-01-04" "2009-01-05"
# [6] "2009-01-06" "2009-01-07" "2009-01-08" "2009-01-09" "2009-01-10"
# [11] "2009-01-11" "2009-01-12" "2009-01-13" "2009-01-14" "2009-01-15"
# [16] "2009-01-16" "2009-01-17" "2009-01-18" "2009-01-19" "2009-01-20"
# [21] "2009-01-21" "2009-01-22" "2009-01-23" "2009-01-24" "2009-01-25"
# [26] "2009-01-26" "2009-01-27" "2009-01-28" "2009-01-29" "2009-01-30"
# [31] "2009-01-31"
print(length(dates))
# [1] 9
str(dates)
# POSIXlt[1:9], format: "2009-01-01" "2009-01-02" "2009-01-03"
"2009-01-04" ...
print(dates[20])
# [1] "2009-01-20"
print(length(dates[20]))
# [1] 9
I've since realised that POSIXct makes date vectors easier,
but could we also have something like:
length.POSIXlt <- function(x) { length(x$sec) }
in datetime.R, to avoid breaking functions (like the
str.POSIXt method) which use length() in this way?
[You need "wishlist" in the title for this sort of stuff.]
I'd be wary of this. Just the other day we found that identical() broke
on some objects because a package had length() redefined as a class
method. I.e. the danger is that something wants to use length() with its
original low-level interpretation.
str is another example
--
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Professional R Enthusiast
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[Rd] Suggestion: Clarification in Rd for utils::getAnywhere()
In order to clarify that getAnywhere(str) where str is a character
string object, will look for object with name "str" and not the value
of 'str', I suggest the following Rd updated for utils::getAnywhere():
Update the argument list:
\item{x}{a [literal] character string or name.}
The term 'literal character string' is used in library().
Add to the example code:
str <- "format.dist"
do.call("getAnywhere", list(str))
Alternatively, getAnywhere() should gain an argument 'character.only'
as in library().
/Henrik
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[Rd] ISOdate and strptime results are not interoperable (PR#14076)
Full_Name: Mario Frasca
Version: 2.9.2, 2.10.0, 2.8.1
OS: ubuntu 9.10, Debian sid, MacOSX 10.4
Submission from: (NULL) (194.151.158.193)
The objects being returned by the functions strptime and ISOdate look the same
(to me) but behave differently. The difference is influenced by the current
timezone of the system.
> epoch_strptime <- strptime("1970-01-01 00:00:00", "%Y-%m-%d %H:%M:%S",
tz="UTC")
> epoch_isodate <- ISOdate(1970,1,1,0,0,0, tz="UTC")
> epoch_strptime
[1] "1970-01-01 UTC"
> epoch_isodate
[1] "1970-01-01 UTC"
> mode(epoch_strptime)
[1] "list"
> mode(epoch_isodate)
[1] "numeric"
> # the system is currently in timezone CET (Europe/Rome)
> epoch_isodate - epoch_strptime
Time difference of 1 hours
> # using time-admin to move to timezone COT (America/Bogota)
> epoch_isodate - epoch_strptime
Time difference of -5 hours
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Re: [Rd] Surprising length() of POSIXlt vector (PR#14073)
Benilton Carvalho writes: > I'm no expert on this, but my understanding is that the choice was > to stick to the definition. > > The help file for length() [1] says: > > "For vectors (including lists) and factors the length is the number > of elements." > > The help file for POSIXlt [2] (for example) says: > > "Class ?"POSIXlt"? is a named list of vectors representing (...)" > > and then lists the 9 elements (sec / min / hour / mday / mon / year > / wday / yday / isdst). > > So, by [1] length of POSIXlt objects is 9, because it "is a named > list of vectors representing (...)". Thanks, all. Yes, I'd already read both, and it's obviously true that a length() of 9 is correct (as I said up-front). The difficulty is that some functions -- importantly including "[" -- already have methods which make POSIXlt behave like a vector. The documentation for POSIXlt just says it's a list of 9 elements: it mentions methods for addition etc, but AFAICT it doesn't say that subsetting won't behave is "["'s help says for a list-like object. In the end, "[" sees a different length to "[[" and "$" here, so a length.POSIXlt() just shuffles the issue around. Anyhow, I somehow missed there have been other PRs on this, including discussion on r-devel of "[" and logical vs physical length() under PR#10507. I'm sorry for being repetitive. Mark <>< __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] Surprising length() of POSIXlt vector (PR#14073)
Benilton Carvalho writes: > I'm no expert on this, but my understanding is that the choice was > to stick to the definition. > > The help file for length() [1] says: > > "For vectors (including lists) and factors the length is the number > of elements." > > The help file for POSIXlt [2] (for example) says: > > "Class ?"POSIXlt"? is a named list of vectors representing (...)" > > and then lists the 9 elements (sec / min / hour / mday / mon / year > / wday / yday / isdst). > > So, by [1] length of POSIXlt objects is 9, because it "is a named > list of vectors representing (...)". Thanks, all. Yes, I'd already read both, and it's obviously true that a length() of 9 is correct (as I said up-front). The difficulty is that some functions -- importantly including "[" -- already have methods which make POSIXlt behave like a vector. The documentation for POSIXlt just says it's a list of 9 elements: it mentions methods for addition etc, but AFAICT it doesn't say that subsetting won't behave is "["'s help says for a list-like object. In the end, "[" sees a different length to "[[" and "$" here, so a length.POSIXlt() just shuffles the issue around. Anyhow, I somehow missed there have been other PRs on this, including discussion on r-devel of "[" and logical vs physical length() under PR#10507. I'm sorry for being repetitive. Mark <>< __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
[Rd] make fails on R r50499 ( openSuSE 11.0 x86-64)
Dear all, I encountered a problem when compiling the source of R patched 2.10.0 r50499 (19-11-2009) linked to ACML single threaded (4.2.0 or 4.3.0) OS: openSuSE 11.0 x86-64 make fails when it comes to installing mgcv with the following [snip] ** R ** inst ** preparing package for lazy loading Error in loadNamespace(i[[1L]], c(lib.loc, .libPaths())) : non esiste un pacchetto chiamato 'Matrix' package 'Matrix' does not exist ## TRANSLATED BY ME ERROR: lazy loading failed for package ‘mgcv’ * removing ‘/home/giannerini/Desktop/R-patched/library/mgcv’ make[2]: *** [mgcv.ts] Error 1 make[2]: Leaving directory `/home/giannerini/Desktop/R-patched/src/library/Recommended' make[1]: *** [recommended-packages] Error 2 make[1]: Leaving directory `/home/giannerini/Desktop/R-patched/src/library/Recommended' make: *** [stamp-recommended] Error 2 I think that the source of package Matrix is where it is supposed to be so that I have no clues. Compilation and installation on the same machine with both the latest R devel (2.11.0) and the following version were successful > R.version _ platform x86_64-unknown-linux-gnu arch x86_64 os linux-gnu system x86_64, linux-gnu status major 2 minor 10.0 year 2009 month 10 day26 svn rev50208 language R version.string R version 2.10.0 (2009-10-26) > Sys.getlocale() [1] "LC_CTYPE=it_IT.UTF-8;LC_NUMERIC=C;LC_TIME=it_IT.UTF-8;LC_COLLATE=it_IT.UTF-8;LC_MONETARY=C;LC_MESSAGES=it_IT.UTF-8;LC_PAPER=it_IT.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=it_IT.UTF-8;LC_IDENTIFICATION=C" for the moment we stay with r50208, any hints appreciated, thanks regards Simone -- __ Simone Giannerini Dipartimento di Scienze Statistiche "Paolo Fortunati" Universita' di Bologna Via delle belle arti 41 - 40126 Bologna, ITALY Tel: +39 051 2098262 Fax: +39 051 232153 http://www2.stat.unibo.it/giannerini/ __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] make fails on R r50499 ( openSuSE 11.0 x86-64)
What has happened is that mgcv now depends on Matrix, but the author hasn't told us that. Add to the line in src/library/Recommended/Makefile.in so it becomes mgcv.ts: nlme.ts MASS.ts Matrix.ts and it should work. The tarballs will catch up in due course. On Fri, 20 Nov 2009, Simone Giannerini wrote: Dear all, I encountered a problem when compiling the source of R patched 2.10.0 r50499 (19-11-2009) linked to ACML single threaded (4.2.0 or 4.3.0) OS: openSuSE 11.0 x86-64 make fails when it comes to installing mgcv with the following [snip] ** R ** inst ** preparing package for lazy loading Error in loadNamespace(i[[1L]], c(lib.loc, .libPaths())) : non esiste un pacchetto chiamato 'Matrix' package 'Matrix' does not exist ## TRANSLATED BY ME ERROR: lazy loading failed for package ‘mgcv’ * removing ‘/home/giannerini/Desktop/R-patched/library/mgcv’ make[2]: *** [mgcv.ts] Error 1 make[2]: Leaving directory `/home/giannerini/Desktop/R-patched/src/library/Recommended' make[1]: *** [recommended-packages] Error 2 make[1]: Leaving directory `/home/giannerini/Desktop/R-patched/src/library/Recommended' make: *** [stamp-recommended] Error 2 I think that the source of package Matrix is where it is supposed to be so that I have no clues. Compilation and installation on the same machine with both the latest R devel (2.11.0) and the following version were successful R.version _ platform x86_64-unknown-linux-gnu arch x86_64 os linux-gnu system x86_64, linux-gnu status major 2 minor 10.0 year 2009 month 10 day26 svn rev50208 language R version.string R version 2.10.0 (2009-10-26) Sys.getlocale() [1] "LC_CTYPE=it_IT.UTF-8;LC_NUMERIC=C;LC_TIME=it_IT.UTF-8;LC_COLLATE=it_IT.UTF-8;LC_MONETARY=C;LC_MESSAGES=it_IT.UTF-8;LC_PAPER=it_IT.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=it_IT.UTF-8;LC_IDENTIFICATION=C" for the moment we stay with r50208, any hints appreciated, thanks regards Simone -- __ Simone Giannerini Dipartimento di Scienze Statistiche "Paolo Fortunati" Universita' di Bologna Via delle belle arti 41 - 40126 Bologna, ITALY Tel: +39 051 2098262 Fax: +39 051 232153 http://www2.stat.unibo.it/giannerini/ __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Brian D. Ripley, rip...@stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595__ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] make fails on R r50499 ( openSuSE 11.0 x86-64)
Thank you, now it works kind regards, Simone 2009/11/20 Prof Brian Ripley : > What has happened is that mgcv now depends on Matrix, but the author hasn't > told us that. Add to the line in src/library/Recommended/Makefile.in so it > becomes > > mgcv.ts: nlme.ts MASS.ts Matrix.ts > > and it should work. > > The tarballs will catch up in due course. > > On Fri, 20 Nov 2009, Simone Giannerini wrote: > >> Dear all, >> >> I encountered a problem when compiling the source of R patched 2.10.0 >> r50499 (19-11-2009) >> linked to ACML single threaded (4.2.0 or 4.3.0) >> OS: openSuSE 11.0 x86-64 >> >> make fails when it comes to installing mgcv with the following >> >> [snip] >> ** R >> ** inst >> ** preparing package for lazy loading >> Error in loadNamespace(i[[1L]], c(lib.loc, .libPaths())) : >> non esiste un pacchetto chiamato 'Matrix' >> package 'Matrix' does not exist ## TRANSLATED BY ME >> ERROR: lazy loading failed for package ‘mgcv’ >> * removing ‘/home/giannerini/Desktop/R-patched/library/mgcv’ >> make[2]: *** [mgcv.ts] Error 1 >> make[2]: Leaving directory >> `/home/giannerini/Desktop/R-patched/src/library/Recommended' >> make[1]: *** [recommended-packages] Error 2 >> make[1]: Leaving directory >> `/home/giannerini/Desktop/R-patched/src/library/Recommended' >> make: *** [stamp-recommended] Error 2 >> >> I think that the source of package Matrix is where it is supposed to >> be so that I have no clues. >> Compilation and installation on the same machine with both the latest >> R devel (2.11.0) and the following version were successful >>> >>> R.version >> >> _ >> platform x86_64-unknown-linux-gnu >> arch x86_64 >> os linux-gnu >> system x86_64, linux-gnu >> status >> major 2 >> minor 10.0 >> year 2009 >> month 10 >> day 26 >> svn rev 50208 >> language R >> version.string R version 2.10.0 (2009-10-26) >> >>> Sys.getlocale() >> >> [1] >> "LC_CTYPE=it_IT.UTF-8;LC_NUMERIC=C;LC_TIME=it_IT.UTF-8;LC_COLLATE=it_IT.UTF-8;LC_MONETARY=C;LC_MESSAGES=it_IT.UTF-8;LC_PAPER=it_IT.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=it_IT.UTF-8;LC_IDENTIFICATION=C" >> >> for the moment we stay with r50208, >> any hints appreciated, thanks >> >> regards >> >> Simone >> >> -- >> __ >> >> Simone Giannerini >> Dipartimento di Scienze Statistiche "Paolo Fortunati" >> Universita' di Bologna >> Via delle belle arti 41 - 40126 Bologna, ITALY >> Tel: +39 051 2098262 Fax: +39 051 232153 >> http://www2.stat.unibo.it/giannerini/ >> >> __ >> R-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/r-devel >> > > -- > Brian D. Ripley, rip...@stats.ox.ac.uk > Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ > University of Oxford, Tel: +44 1865 272861 (self) > 1 South Parks Road, +44 1865 272866 (PA) > Oxford OX1 3TG, UK Fax: +44 1865 272595 -- __ Simone Giannerini Dipartimento di Scienze Statistiche "Paolo Fortunati" Universita' di Bologna Via delle belle arti 41 - 40126 Bologna, ITALY Tel: +39 051 2098262 Fax: +39 051 232153 http://www2.stat.unibo.it/giannerini/ __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] R Usage Statistics
At 18:47 19/11/2009, Kevin R. Coombes wrote: Hi, I got the following comment from the reviewer of a paper (describing an algorithm implemented in R) that I submitted to BMC Bioinformatics: "Finally, which useful for exploratory work and some prototyping, neither R nor S-Plus are appropriate environments for deploying user applications that would receive much use." I can certainly respond by pointing out that CRAN contains more than 2000 packages and Bioconductor contains more than 350. However, does anyone have statistics on how often R (and possibly some R packages) are downloaded, or on how many people actually use R? Another point you could make is that BMC supports open access publishing so that anyone in the world with an Internet connection can download the results of research free gratis and for nothing, something especially valuable to residents of resource poor countries. Consistent with that would be support for the use of methods which anyone can reproduce without having to buy a licence. Thanks, Kevin __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel Michael Dewey http://www.aghmed.fsnet.co.uk __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] Surprising length() of POSIXlt vector (PR#14073)
> "PD" == Peter Dalgaard
> on Fri, 20 Nov 2009 09:54:34 +0100 writes:
PD> m...@celos.net wrote:
>> Arrays of POSIXlt dates always return a length of 9. This
>> is correct (they're really lists of vectors of seconds,
>> hours, and so forth), but other methods disguise them as
>> flat vectors, giving superficially surprising behaviour:
>>
>> strings <- paste('2009-1-', 1:31, sep='')
>> dates <- strptime(strings, format="%Y-%m-%d")
>>
>> print(dates)
>> # [1] "2009-01-01" "2009-01-02" "2009-01-03" "2009-01-04" "2009-01-05"
>> # [6] "2009-01-06" "2009-01-07" "2009-01-08" "2009-01-09" "2009-01-10"
>> # [11] "2009-01-11" "2009-01-12" "2009-01-13" "2009-01-14" "2009-01-15"
>> # [16] "2009-01-16" "2009-01-17" "2009-01-18" "2009-01-19" "2009-01-20"
>> # [21] "2009-01-21" "2009-01-22" "2009-01-23" "2009-01-24" "2009-01-25"
>> # [26] "2009-01-26" "2009-01-27" "2009-01-28" "2009-01-29" "2009-01-30"
>> # [31] "2009-01-31"
>>
>> print(length(dates))
>> # [1] 9
>>
>> str(dates)
>> # POSIXlt[1:9], format: "2009-01-01" "2009-01-02" "2009-01-03"
"2009-01-04" ...
>>
>> print(dates[20])
>> # [1] "2009-01-20"
>>
>> print(length(dates[20]))
>> # [1] 9
>>
>> I've since realised that POSIXct makes date vectors easier,
>> but could we also have something like:
>>
>> length.POSIXlt <- function(x) { length(x$sec) }
>>
>> in datetime.R, to avoid breaking functions (like the
>> str.POSIXt method) which use length() in this way?
PD> [You need "wishlist" in the title for this sort of stuff.]
PD> I'd be wary of this. Just the other day we found that identical() broke
PD> on some objects because a package had length() redefined as a class
PD> method. I.e. the danger is that something wants to use length() with
its
PD> original low-level interpretation.
Yes, of course.
and Romain mentioned str(). Note that we have needed to define
a "POSIXt" method for str(), partly just *because* of the
current anomaly:
As Tony Plate, e.g., has argued, entirely correctly in my view,
the anomaly is thatlength() and "[" are not compatible;
and while I think no R language definition says that they should
be, I still believe that you need very good reasons for them to
be incompatible, as they are for POSIXlt.
In the current case, for me the only good reason is backwards
compatibility.
My personal taste would be to change it and see what happens.
I would be willing to clean up after that change within R 'base'
and all packages I am coauthoring (quite a few), but of course
there are still a thousand more R packages..
My strong bet would be that less than 1% would be affected,
and my point guess for the percentage affected would be
rather in the order of 1/1000.
The question is if we (you too!), the R community, are willing to
bear the load of cleanup, after such a change which would really
*improve* consistency of that small corner of R.
For me, as I indicated above, I am willing to bear my share
(and actually have got it ready for R-devel)
Martin Maechler, ETH Zurich (and R Core Team)
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[Rd] Suggestion for the reproducibility of R home page figure
Dear R-devel, googling for the single letter R yields R-home page as the firt hit, which is extremly nice. By clicking on the figure you get the code of the "Winner of the R Homepage graphics competition 2004." By copy/pasting in your R console it doesn't work because it is impossible to install the mva package. This is my point. As documented in ONEWS the reason is simple: since R 1.9.0 the package mva as been merged into the package stats. My suggestion is just to change the begining of the code as follows to neutralize the requirement for the mva package: ### Code by Eric Lecoutre, Universite catholique de Louvain, Belgium ### Winner of the R Homepage graphics competition 2004 ### Works in R 1.8.1 ... ### Still works in R 2.10.0 (2009-10-26) by deleting the requirement for the mva package ... require(ade4) #require(mva) no more needed since R version 1.9.0 as mva was merged in the standard stats package. require(RColorBrewer) require(pixmap) etc. so that reproducibility of the graph is straightforward (at least for someone who is able to install an R package). This is a minor change. I consider this is important because it may help people wanting to test quickly the long term reproducibility of R results. For them installing a package is not a problem, but do not expect them to have time to dig in old ONEWS Please take this as a constructive comment, I was amazed how it was easy for me to run this "old" R code. Just want to share. Very Best, Jean -- Jean R. Lobry(lo...@biomserv.univ-lyon1.fr) Laboratoire BBE-CNRS-UMR-5558, Univ. C. Bernard - LYON I, 43 Bd 11/11/1918, F-69622 VILLEURBANNE CEDEX, FRANCE allo : +33 472 43 27 56 fax: +33 472 43 13 88 http://pbil.univ-lyon1.fr/members/lobry/ __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
[Rd] Including local dynamic libraries
Hi All,
I am trying to install the package rjags into a local library on a
machine for which I do not have root permissions.
Using the command: R CMD INSTALL --configure-args="--with-jags-include=
${JAGSBIN}/include/JAGS --with-jags-lib=${JAGSBIN}/lib/ --with-jags-
modules=${JAGSBIN}/lib/JAGS/modules" CMD INSTALL -l ${JAGSBIN}/lib/ ../
rjags_1.0.3-12.tar.gz
Where ${JAGSBIN} is defined as a local directory, the installation
seems to be working fine. Then, I go into R and type the following
commands:
> .libPaths("${JAGSBIN}/lib/")
> library("rjags")
I get the following error
Loading required package: coda
Loading required package: lattice
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared library '${JAGSBIN}/lib/rjags/libs/rjags.so':
libjags.so.1: cannot open shared object file: No such file or
directory
Error : .onLoad failed in 'loadNamespace' for 'rjags'
Error: package/namespace load failed for 'rjags'
Ideally, I would fix this problem by adding the appropriate libraries
to /user/local/lib64 . However, since I do not have root permissions
I am not able to make this addition. How can I have R recognize c++
libraries from my local path?
Thanks so much in advance for your help.
__
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Re: [Rd] Including local dynamic libraries
On 11/20/2009 08:43 PM, Elana Fertig wrote:
Hi All,
I am trying to install the package rjags into a local library on a
machine for which I do not have root permissions.
Using the command: R CMD INSTALL
--configure-args="--with-jags-include=${JAGSBIN}/include/JAGS
--with-jags-lib=${JAGSBIN}/lib/
--with-jags-modules=${JAGSBIN}/lib/JAGS/modules" CMD INSTALL -l
${JAGSBIN}/lib/ ../rjags_1.0.3-12.tar.gz
Where ${JAGSBIN} is defined as a local directory, the installation seems
to be working fine. Then, I go into R and type the following commands:
> .libPaths("${JAGSBIN}/lib/")
Maybe this :
.libPaths( file.path( Sys.getenv("JAGSBIN", "lib" ) ) )
> library("rjags")
I get the following error
Loading required package: coda
Loading required package: lattice
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared library '${JAGSBIN}/lib/rjags/libs/rjags.so':
libjags.so.1: cannot open shared object file: No such file or directory
Error : .onLoad failed in 'loadNamespace' for 'rjags'
Error: package/namespace load failed for 'rjags'
Ideally, I would fix this problem by adding the appropriate libraries to
/user/local/lib64 . However, since I do not have root permissions I am
not able to make this addition. How can I have R recognize c++ libraries
from my local path?
Thanks so much in advance for your help.
--
Romain Francois
Professional R Enthusiast
+33(0) 6 28 91 30 30
http://romainfrancois.blog.free.fr
|- http://tr.im/EAD5 : LondonR slides
|- http://tr.im/BcPw : celebrating R commit #5
`- http://tr.im/ztCu : RGG #158:161: examples of package IDPmisc
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Re: [Rd] Including local dynamic libraries
On Nov 20, 2009, at 3:07 PM, Romain Francois wrote:
On 11/20/2009 08:43 PM, Elana Fertig wrote:
Hi All,
I am trying to install the package rjags into a local library on a
machine for which I do not have root permissions.
Using the command: R CMD INSTALL
--configure-args="--with-jags-include=${JAGSBIN}/include/JAGS
--with-jags-lib=${JAGSBIN}/lib/
--with-jags-modules=${JAGSBIN}/lib/JAGS/modules" CMD INSTALL -l
${JAGSBIN}/lib/ ../rjags_1.0.3-12.tar.gz
Where ${JAGSBIN} is defined as a local directory, the installation
seems
to be working fine. Then, I go into R and type the following
commands:
> .libPaths("${JAGSBIN}/lib/")
Maybe this :
.libPaths( file.path( Sys.getenv("JAGSBIN", "lib" ) ) )
Unlikely - it's probably just a matter of setting LD_LIBRARY_PATH
correctly .. not really an R issue at all ...
Cheers,
S
> library("rjags")
I get the following error
Loading required package: coda
Loading required package: lattice
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared library '${JAGSBIN}/lib/rjags/libs/rjags.so':
libjags.so.1: cannot open shared object file: No such file or
directory
Error : .onLoad failed in 'loadNamespace' for 'rjags'
Error: package/namespace load failed for 'rjags'
Ideally, I would fix this problem by adding the appropriate
libraries to
/user/local/lib64 . However, since I do not have root permissions I
am
not able to make this addition. How can I have R recognize c++
libraries
from my local path?
Thanks so much in advance for your help.
--
Romain Francois
Professional R Enthusiast
+33(0) 6 28 91 30 30
http://romainfrancois.blog.free.fr
|- http://tr.im/EAD5 : LondonR slides
|- http://tr.im/BcPw : celebrating R commit #5
`- http://tr.im/ztCu : RGG #158:161: examples of package IDPmisc
__
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__
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