Anirudh Jayaraman
2015-Apr-30 19:20 UTC
[R] 'Installation of package <package> had non-zero exit status' on R-3.2.0 (RStudio Version 0.98.1103) on Ubuntu 12.04 OS
In that case, it seems that *libcurl* is not available for R-3.2.0 as I get
a message for
*>* *install.packages("libcurl")*
package ?libcurl? is not available (for R version 3.2.0)
Or if on Terminal I run
*sudo apt-get install libcurl4-openssl-dev*
Package libcurl4-openssl-dev is not available, but is referred to by
another package.
This may mean that the package is missing, has been obsoleted, or
is only available from another source
*________________________________________________________*
*Anirudh Jayaraman*
M.Sc Economics (2014-16)
Indira Gandhi Institute of Development Research (IGIDR), Mumbai
Ph No: +91 9560476729
On Fri, May 1, 2015 at 12:08 AM, Duncan Murdoch <murdoch.duncan at
gmail.com>
wrote:
> On 30/04/2015 2:12 PM, Anirudh Jayaraman wrote:
>
>> I recently upgraded to *R-3.2.0* from *R-2.14.1* on *Ubuntu 12.04 LTS.*
>>
>> I have been *trying to install some add-on packages* (that weren't
>> installed in the earlier version of R) to R-3.2.0. *but to no avail*,
>> getting repeated error messages. For example, *I tried installing
swirl*.
>> Here's my output. The problem areas are highlighted in yellow. Any
>> solution?
>>
>
> The error message looks pretty clear: the installer couldn't find
> curl-config. Just install whatever package is necessary to get libcurl,
> and make sure curl-config is on your path, and you should get past that
> error, and on to the next one.
>
> Duncan Murdoch
>
>
>>
>> *> install.packages("swirl")*
>>
>>
>> Installing package into
?/home/anirudh/R/x86_64-pc-linux-gnu-library/3.2?
>> (as ?lib? is unspecified)
>> also installing the dependencies ?testthat?, ?httr?, ?yaml?, ?RCurl?
>>
>> trying URL
'http://cran.rstudio.com/src/contrib/testthat_0.9.1.tar.gz'
>> Content type 'application/x-gzip' length 49533 bytes (48 KB)
>> =================================================>> downloaded 48
KB
>>
>> trying URL
'http://cran.rstudio.com/src/contrib/httr_0.6.1.tar.gz'
>> Content type 'application/x-gzip' length 247531 bytes (241 KB)
>> =================================================>> downloaded
241 KB
>>
>> trying URL
'http://cran.rstudio.com/src/contrib/yaml_2.1.13.tar.gz'
>> Content type 'application/x-gzip' length 81045 bytes (79 KB)
>> =================================================>> downloaded 79
KB
>>
>> trying URL
'http://cran.rstudio.com/src/contrib/RCurl_1.95-4.6.tar.gz'
>> Content type 'application/x-gzip' length 878616 bytes (858 KB)
>> =================================================>> downloaded
858 KB
>>
>> trying URL
'http://cran.rstudio.com/src/contrib/swirl_2.2.21.tar.gz'
>> Content type 'application/x-gzip' length 51037 bytes (49 KB)
>> =================================================>> downloaded 49
KB
>>
>> * installing *source* package ?testthat? ...
>> ** package ?testthat? successfully unpacked and MD5 sums checked
>> ** libs
>> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -fpic -g -O2
>> -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security
>> -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c reassign.c -o
>> reassign.o
>> gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions
>> -Wl,-z,relro -o testthat.so reassign.o -L/usr/lib/R/lib -lR
>> installing to
>> /home/anirudh/R/x86_64-pc-linux-gnu-library/3.2/testthat/libs
>> ** R
>> ** inst
>> ** preparing package for lazy loading
>> ** help
>> *** installing help indices
>> ** building package indices
>> ** testing if installed package can be loaded
>> * DONE (testthat)
>> * installing *source* package ?yaml? ...
>> ** package ?yaml? successfully unpacked and MD5 sums checked
>> ** libs
>> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG -fpic
-g
>> -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Wformat-security
>> -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c api.c -o api.o
>> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG -fpic
-g
>> -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Wformat-security
>> -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c dumper.c -o dumper.o
>> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG -fpic
-g
>> -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Wformat-security
>> -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c emitter.c -o
emitter.o
>> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG -fpic
-g
>> -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Wformat-security
>> -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c implicit.c -o
>> implicit.o
>> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG -fpic
-g
>> -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Wformat-security
>> -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c loader.c -o loader.o
>> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG -fpic
-g
>> -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Wformat-security
>> -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c parser.c -o parser.o
>> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG -fpic
-g
>> -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Wformat-security
>> -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c r-ext.c -o r-ext.o
>> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG -fpic
-g
>> -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Wformat-security
>> -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c reader.c -o reader.o
>> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG -fpic
-g
>> -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Wformat-security
>> -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c scanner.c -o
scanner.o
>> gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG -fpic
-g
>> -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Wformat-security
>> -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c writer.c -o writer.o
>> gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions
>> -Wl,-z,relro -o yaml.so api.o dumper.o emitter.o implicit.o loader.o
>> parser.o r-ext.o reader.o scanner.o writer.o -L/usr/lib/R/lib -lR
>> installing to /home/anirudh/R/x86_64-pc-linux-gnu-library/3.2/yaml/libs
>> ** R
>> ** inst
>> ** preparing package for lazy loading
>> ** help
>> *** installing help indices
>> ** building package indices
>> ** testing if installed package can be loaded
>> * DONE (yaml)
>> * installing *source* package ?RCurl? ...
>> ** package ?RCurl? successfully unpacked and MD5 sums checked
>> checking for curl-config... no
>> Cannot find curl-config
>> ERROR: configuration failed for package ?RCurl?
>> * removing ?/home/anirudh/R/x86_64-pc-linux-gnu-library/3.2/RCurl?
>> Warning in install.packages :
>> installation of package ?RCurl? had non-zero exit status
>> ERROR: dependency ?RCurl? is not available for package ?httr?
>> * removing ?/home/anirudh/R/x86_64-pc-linux-gnu-library/3.2/httr?
>> Warning in install.packages :
>> installation of package ?httr? had non-zero exit status
>> ERROR: dependencies ?httr?, ?RCurl? are not available for package
?swirl?
>> * removing ?/home/anirudh/R/x86_64-pc-linux-gnu-library/3.2/swirl?
>> Warning in install.packages :
>> installation of package ?swirl? had non-zero exit status
>>
>> The downloaded source packages are in
>> ?/tmp/RtmpmKycFY/downloaded_packages?
>> *________________________________________________________*
>> *Anirudh Jayaraman*
>> M.Sc Economics (2014-16)
>> Indira Gandhi Institute of Development Research (IGIDR), Mumbai
>> Ph No: +91 9560476729
>>
>> [[alternative HTML version deleted]]
>>
>> ______________________________________________
>> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
>> 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.
>>
>
>
[[alternative HTML version deleted]]
Duncan Murdoch
2015-Apr-30 20:32 UTC
[R] 'Installation of package <package> had non-zero exit status' on R-3.2.0 (RStudio Version 0.98.1103) on Ubuntu 12.04 OS
On 30/04/2015 3:20 PM, Anirudh Jayaraman wrote:> In that case, it seems that *libcurl* is not available for R-3.2.0 as I > get a message for > > *>* *install.packages("libcurl")*It's not an R package, it's a library that you'll need on your system.> > package ?libcurl? is not available (for R version 3.2.0) > > Or if on Terminal I run > > *sudo apt-get install libcurl4-openssl-dev* > > Package libcurl4-openssl-dev is not available, but is referred to by > another package. > This may mean that the package is missing, has been obsoleted, or > is only available from another sourceThat sounds like a problem you'll need to ask about on an Ubuntu forum, not R-help. Once you get the library installed so that the curl-config command works for you (outside of R), you should be able to install the RCurl package in R. Duncan Murdoch> > > *________________________________________________________* > *Anirudh Jayaraman* > M.Sc Economics (2014-16) > Indira Gandhi Institute of Development Research (IGIDR), Mumbai > Ph No: +91 9560476729 > > > > > On Fri, May 1, 2015 at 12:08 AM, Duncan Murdoch > <murdoch.duncan at gmail.com <mailto:murdoch.duncan at gmail.com>> wrote: > > On 30/04/2015 2:12 PM, Anirudh Jayaraman wrote: > > I recently upgraded to *R-3.2.0* from *R-2.14.1* on *Ubuntu > 12.04 LTS.* > > I have been *trying to install some add-on packages* (that weren't > installed in the earlier version of R) to R-3.2.0. *but to no > avail*, > getting repeated error messages. For example, *I tried > installing swirl*. > Here's my output. The problem areas are highlighted in yellow. > Any solution? > > > The error message looks pretty clear: the installer couldn't find > curl-config. Just install whatever package is necessary to get > libcurl, and make sure curl-config is on your path, and you should > get past that error, and on to the next one. > > Duncan Murdoch > > > > *> install.packages("swirl")* > > > Installing package into > ?/home/anirudh/R/x86_64-pc-linux-gnu-library/3.2? > (as ?lib? is unspecified) > also installing the dependencies ?testthat?, ?httr?, ?yaml?, ?RCurl? > > trying URL > 'http://cran.rstudio.com/src/contrib/testthat_0.9.1.tar.gz' > Content type 'application/x-gzip' length 49533 bytes (48 KB) > =================================================> downloaded 48 KB > > trying URL 'http://cran.rstudio.com/src/contrib/httr_0.6.1.tar.gz' > Content type 'application/x-gzip' length 247531 bytes (241 KB) > =================================================> downloaded 241 KB > > trying URL 'http://cran.rstudio.com/src/contrib/yaml_2.1.13.tar.gz' > Content type 'application/x-gzip' length 81045 bytes (79 KB) > =================================================> downloaded 79 KB > > trying URL > 'http://cran.rstudio.com/src/contrib/RCurl_1.95-4.6.tar.gz' > Content type 'application/x-gzip' length 878616 bytes (858 KB) > =================================================> downloaded 858 KB > > trying URL 'http://cran.rstudio.com/src/contrib/swirl_2.2.21.tar.gz' > Content type 'application/x-gzip' length 51037 bytes (49 KB) > =================================================> downloaded 49 KB > > * installing *source* package ?testthat? ... > ** package ?testthat? successfully unpacked and MD5 sums checked > ** libs > gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -fpic -g -O2 > -fstack-protector --param=ssp-buffer-size=4 -Wformat > -Wformat-security > -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c reassign.c -o > reassign.o > gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions > -Wl,-z,relro -o testthat.so reassign.o -L/usr/lib/R/lib -lR > installing to > /home/anirudh/R/x86_64-pc-linux-gnu-library/3.2/testthat/libs > ** R > ** inst > ** preparing package for lazy loading > ** help > *** installing help indices > ** building package indices > ** testing if installed package can be loaded > * DONE (testthat) > * installing *source* package ?yaml? ... > ** package ?yaml? successfully unpacked and MD5 sums checked > ** libs > gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG > -fpic -g > -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat > -Wformat-security > -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c api.c -o api.o > gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG > -fpic -g > -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat > -Wformat-security > -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c dumper.c -o > dumper.o > gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG > -fpic -g > -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat > -Wformat-security > -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c emitter.c -o > emitter.o > gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG > -fpic -g > -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat > -Wformat-security > -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c implicit.c -o > implicit.o > gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG > -fpic -g > -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat > -Wformat-security > -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c loader.c -o > loader.o > gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG > -fpic -g > -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat > -Wformat-security > -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c parser.c -o > parser.o > gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG > -fpic -g > -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat > -Wformat-security > -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c r-ext.c -o > r-ext.o > gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG > -fpic -g > -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat > -Wformat-security > -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c reader.c -o > reader.o > gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG > -fpic -g > -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat > -Wformat-security > -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c scanner.c -o > scanner.o > gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -I. -DNDEBUG > -fpic -g > -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat > -Wformat-security > -Werror=format-security -D_FORTIFY_SOURCE=2 -g -c writer.c -o > writer.o > gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions > -Wl,-z,relro -o yaml.so api.o dumper.o emitter.o implicit.o loader.o > parser.o r-ext.o reader.o scanner.o writer.o -L/usr/lib/R/lib -lR > installing to > /home/anirudh/R/x86_64-pc-linux-gnu-library/3.2/yaml/libs > ** R > ** inst > ** preparing package for lazy loading > ** help > *** installing help indices > ** building package indices > ** testing if installed package can be loaded > * DONE (yaml) > * installing *source* package ?RCurl? ... > ** package ?RCurl? successfully unpacked and MD5 sums checked > checking for curl-config... no > Cannot find curl-config > ERROR: configuration failed for package ?RCurl? > * removing ?/home/anirudh/R/x86_64-pc-linux-gnu-library/3.2/RCurl? > Warning in install.packages : > installation of package ?RCurl? had non-zero exit status > ERROR: dependency ?RCurl? is not available for package ?httr? > * removing ?/home/anirudh/R/x86_64-pc-linux-gnu-library/3.2/httr? > Warning in install.packages : > installation of package ?httr? had non-zero exit status > ERROR: dependencies ?httr?, ?RCurl? are not available for > package ?swirl? > * removing ?/home/anirudh/R/x86_64-pc-linux-gnu-library/3.2/swirl? > Warning in install.packages : > installation of package ?swirl? had non-zero exit status > > The downloaded source packages are in > ?/tmp/RtmpmKycFY/downloaded_packages? > *________________________________________________________* > *Anirudh Jayaraman* > M.Sc Economics (2014-16) > Indira Gandhi Institute of Development Research (IGIDR), Mumbai > Ph No: +91 9560476729 > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help at r-project.org <mailto:R-help at r-project.org> mailing list > -- To UNSUBSCRIBE and more, see > 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. > > >
Nordlund, Dan (DSHS/RDA)
2015-Apr-30 21:31 UTC
[R] 'Installation of package <package> had non-zero exit status' on R-3.2.0 (RStudio Version 0.98.1103) on Ubuntu 12.04 OS
> -----Original Message----- > From: R-help [mailto:r-help-bounces at r-project.org] On Behalf Of Duncan > Murdoch > Sent: Thursday, April 30, 2015 1:33 PM > To: Anirudh Jayaraman > Cc: r-help at r-project.org > Subject: Re: [R] 'Installation of package <package> had non-zero exit > status' on R-3.2.0 (RStudio Version 0.98.1103) on Ubuntu 12.04 OS > > On 30/04/2015 3:20 PM, Anirudh Jayaraman wrote: > > In that case, it seems that *libcurl* is not available for R-3.2.0 as > I > > get a message for > > > > *>* *install.packages("libcurl")* > > It's not an R package, it's a library that you'll need on your system. > > > > > package ?libcurl? is not available (for R version 3.2.0) > > > > Or if on Terminal I run > > > > *sudo apt-get install libcurl4-openssl-dev* > > > > Package libcurl4-openssl-dev is not available, but is referred to by > > another package. > > This may mean that the package is missing, has been obsoleted, or > > is only available from another source > > That sounds like a problem you'll need to ask about on an Ubuntu forum, > not R-help. Once you get the library installed so that the curl-config > command works for you (outside of R), you should be able to install the > RCurl package in R. > > Duncan Murdoch ><<<snip>>> Or maybe even better, the r-sig-debian list. They are very helpful with R and Ubuntu issues. https://stat.ethz.ch/mailman/listinfo/r-sig-debian Hope this is helpful, Dan Daniel J. Nordlund Research and Data Analysis Division Services & Enterprise Support Administration Washington State Department of Social and Health Services