On 10 February 2016 at 11:52, Dimitar Vassilev wrote:
| Thanks Dirk,
| Tried today with gcc-4.8.2 and g++ - 4.8.2
|
| > install.packages("ggplot2");
| also installing the dependencies 'Rcpp', 'plyr', 'reshape2', 'scales'
|
| trying URL 'http://cran.uni-muenster.de/src/contrib/Rcpp_0.12.3.tar.gz'
| Content type 'application/x-gzip' length 2374320 bytes (2.3 MB)
| ==================================================
| downloaded 2.3 MB
|
| trying URL 'http://cran.uni-muenster.de/src/contrib/plyr_1.8.3.tar.gz'
| Content type 'application/x-gzip' length 392337 bytes (383 KB)
| ==================================================
| downloaded 383 KB
|
| trying URL 'http://cran.uni-muenster.de/src/contrib/reshape2_1.4.1.tar.gz'
| Content type 'application/x-gzip' length 34693 bytes (33 KB)
| ==================================================
| downloaded 33 KB
|
| trying URL 'http://cran.uni-muenster.de/src/contrib/scales_0.3.0.tar.gz'
| Content type 'application/x-gzip' length 57030 bytes (55 KB)
| ==================================================
| downloaded 55 KB
|
| trying URL 'http://cran.uni-muenster.de/src/contrib/ggplot2_2.0.0.tar.gz'
| Content type 'application/x-gzip' length 1546130 bytes (1.5 MB)
| ==================================================
| downloaded 1.5 MB
|
| * installing *source* package 'Rcpp' ...
| ** package 'Rcpp' successfully unpacked and MD5 sums checked
| ** libs
| g++ -I/usr/local/R/include -DNDEBUG -I../inst/include/ -KPIC -g -c
| Date.cpp -o Date.o
| g++: error: unrecognized command line option '-KPIC'
| gmake: *** [Date.o] Error 1
Rcpp does not add -KPIC to the compilation flags.
They may be on your system (check the file Makeconf in the etc/ directory of
your R installation) and you will need to override them -- either via
corresponding environment variables or by editing the file.
As the CRAN results page show, Rcpp can be very happy with gcc/g++ on Solaris.
Dirk
| ERROR: compilation failed for package 'Rcpp'
| * removing '/usr/local/R/library/Rcpp'
| ERROR: dependency 'Rcpp' is not available for package 'plyr'
| * removing '/usr/local/R/library/plyr'
| ERROR: dependencies 'plyr', 'Rcpp' are not available for package 'reshape2'
| * removing '/usr/local/R/library/reshape2'
| ERROR: dependencies 'plyr', 'Rcpp' are not available for package 'scales'
| * removing '/usr/local/R/library/scales'
| ERROR: dependencies 'plyr', 'reshape2', 'scales' are not available for package
| 'ggplot2'
| * removing '/usr/local/R/library/ggplot2'
|
| The downloaded source packages are in
| '/tmp/RtmpZmVEUH/downloaded_packages'
| Updating HTML index of packages in '.Library'
| Making 'packages.html' ... done
| Warning messages:
| 1: In install.packages("ggplot2") :
| installation of package 'Rcpp' had non-zero exit status
| 2: In install.packages("ggplot2") :
| installation of package 'plyr' had non-zero exit status
| 3: In install.packages("ggplot2") :
| installation of package 'reshape2' had non-zero exit status
| 4: In install.packages("ggplot2") :
| installation of package 'scales' had non-zero exit status
| 5: In install.packages("ggplot2") :
| installation of package 'ggplot2' had non-zero exit status
|
| -bash-4.1# /usr/bin/g
| Display all 349 possibilities? (y or n)
| -bash-4.1# /usr/bin/g++
| g++: fatal error: no input files
| compilation terminated.
| -bash-4.1# /usr/bin/g++ -v
| Using built-in specs.
| COLLECT_GCC=/usr/bin/g++
| COLLECT_LTO_WRAPPER=/usr/gcc/4.8/lib/gcc/sparc-sun-solaris2.11/4.8.2/
| lto-wrapper
| Target: sparc-sun-solaris2.11
| Configured with: /export/home/hudson/workspace/nightly-update/build/sparc/
| components/gcc48/gcc-4.8.2/configure CC=/usr/gcc/4.7/bin/gcc CXX=/usr/gcc/4.7/
| bin/g++ --prefix=/usr/gcc/4.8 --mandir=/usr/gcc/4.8/share/man
--bindir=/usr/gcc
| /4.8/bin --libdir=/usr/gcc/4.8/lib --sbindir=/usr/gcc/4.8/sbin --infodir=/usr/
| gcc/4.8/share/info --libexecdir=/usr/gcc/4.8/lib --enable-languages=
| c,c++,fortran,objc --enable-shared --with-gmp-include=/usr/include/gmp
| --with-mpfr-include=/usr/include/mpfr --without-gnu-ld --with-ld=/usr/bin/ld
| --without-gnu-as --with-as=/usr/bin/as CFLAGS='-g -O2 -mtune=ultrasparc
-mcpu=
| ultrasparc -mno-unaligned-doubles' CXXFLAGS='-g -O2 -mtune=ultrasparc -mcpu=
| ultrasparc -mno-unaligned-doubles'
| Thread model: posix
| gcc version 4.8.2 (GCC)
|
| Barfing at KPIC. Any idea how to go further?
| Regards,
| Dimitar
|
| 2016-02-09 13:54 GMT+01:00 Dirk Eddelbuettel <e...@debian.org>:
|
|
| On 9 February 2016 at 13:41, Dimitar Vassilev wrote:
| | Thanks gents,
| | I will use gcc for the future. Got version 4.8 in the official
| repository. What
| | I'm afraid of that I may hit a nice dependency hell/soup when you have
| things
| | compiled in Sun Studio ( Oracle R community edition) and on top you're
| | compiling things with gcc.
|
| I am wondering about that too ... but it could just work (as everything is
| behind 'export "C"' layers making it a more portable C interface). Very
| worst case just drop the 'community R' from your "friendly neighbourhood
| database seller" and install R from source. It will still talk to the db
| backends.
|
| Cheers, Dirk
|
| | Best,
| | Dimitar
| |
| | 2016-02-09 13:31 GMT+01:00 JJ Allaire <jj.alla...@gmail.com>:
| |
| | Yes, all the checks pass on CRAN because they use the gcc toolchain
| for
| | Rcpp and all packages that depend on it:
| |
| | https://cran.r-project.org/web/checks/check_results_Rcpp.html
| |
| |
| | On Tue, Feb 9, 2016 at 7:28 AM, Dirk Eddelbuettel <e...@debian.org>
| wrote:
| |
| |
| | Hi Dimitar,
| |
| | On 9 February 2016 at 12:08, Dimitar Vassilev wrote:
| | | Hello,
| | | I’m building on top of Oracle R Community edition 3.2, Sun
| Studio
| | 12.4 and
| | | Solaris 11.2 some packages for internal use.
| |
| | The problem is likely the Sun Studio compiler. 'Nobody here'
uses
| that
| | anymore, and even CRAN / Oxford which tests on Solaris
| (x86,sparc) uses
| | gcc
| | per the tests page:
| |
| |
https://cloud.r-project.org/web/checks/check_results_Rcpp.html
| |
| | | The error I get when trying to install Rcpp is:
| | | > install.packages("dplyr");
| | | also installing the dependency 'Rcpp'
| | |
| | | trying URL 'http://cran.uni-muenster.de/src/contrib/
| | Rcpp_0.12.3.tar.gz'
| | | Content type 'application/x-gzip' length 2374320 bytes (2.3
MB)
| | | ==================================================
| | | downloaded 2.3 MB
| | |
| | | trying URL 'http://cran.uni-muenster.de/src/contrib/
| | dplyr_0.4.3.tar.gz'
| | | Content type 'application/x-gzip' length 655997 bytes (640 KB)
| | | ==================================================
| | | downloaded 640 KB
| | |
| | | * installing *source* package 'Rcpp' ...
| | | ** package 'Rcpp' successfully unpacked and MD5 sums checked
| | | ** libs
| | | /opt/SunProd/studio12u3/solarisstudio12.3/bin/CC -m64 -I/usr/
| local/R/
| | include
| | | -DNDEBUG -I../inst/include/ -KPIC -g -c Date.cpp -o
| Date.o
| | | "../inst/include/Rcpp/Interrupt.h", line 60: Warning
| (Anachronism):
| | Using void
| | | (*)(void*) to initialize extern "C" void(*)(void*).
| | | "../inst/include/Rcpp/vector/MatrixRow.h", line 43: Error:
| | iterator_traits is
| | | not a member of std.
| |
| | We are doing things in C++ which are standard now, but for which
| Sun
| | Studio
| | does not seem to have caught up.
| |
| | Maybe you need to look into installing the gcc toolchain.
| |
| | Maybe another list reader has a better idea but I fear that is
| all we
| | can say
| | here.
| |
| | Greetings, Dirk
| |
| | | "../inst/include/Rcpp/vector/MatrixRow.h", line 43: Error: A
| | declaration does
| | | not specify a tag or an identifier.
| | | "../inst/include/Rcpp/vector/MatrixRow.h", line 43: Error: Use
| ";" to
| | terminate
| | | declarations.
| | | "../inst/include/Rcpp/vector/MatrixRow.h", line 43: Error: "}"
| | expected instead
| | | of "<".
| | | "../inst/include/Rcpp/vector/MatrixRow.h", line 188: Error:
| | iterator_traits is
| | | not a member of std.
| | | "../inst/include/Rcpp/vector/MatrixRow.h", line 188: Error: A
| | declaration does
| | | not specify a tag or an identifier.
| | | "../inst/include/Rcpp/vector/MatrixRow.h", line 188: Error:
Use
| ";"
| | to
| | | terminate declarations.
| | | "../inst/include/Rcpp/vector/MatrixRow.h", line 188: Error:
"}"
| | expected
| | | instead of "<".
| | | "../inst/include/Rcpp/String.h", line 67: Warning: enc hides
| | Rcpp::String::enc.
| | | "../inst/include/Rcpp/String.h", line 81: Warning: enc hides
| | Rcpp::String::enc.
| | | "../inst/include/Rcpp/String.h", line 95: Warning: enc hides
| | Rcpp::String::enc.
| | | "../inst/include/Rcpp/String.h", line 107: Warning: enc hides
| | | Rcpp::String::enc.
| | | "../inst/include/Rcpp/String.h", line 378: Error: Could not
| find a
| | match for
| | | std::wstring::basic_string(const char*, const char*) needed in
| | | Rcpp::String::operator std::wstring () const.
| | | 9 Error(s) and 5 Warning(s) detected.
| | | *** Error code 2
| | | make: Fatal error: Command failed for target `Date.o'
| | | ERROR: compilation failed for package 'Rcpp'
| | | * removing '/usr/local/R/library/Rcpp'
| | | ERROR: dependency 'Rcpp' is not available for package 'dplyr'
| | | * removing '/usr/local/R/library/dplyr'
| | |
| | | The downloaded source packages are in
| | | '/tmp/RtmpPbHqdD/downloaded_packages'
| | | Updating HTML index of packages in '.Library'
| | | Making 'packages.html' ... done
| | | Warning messages:
| | | 1: In install.packages("dplyr") :
| | | installation of package 'Rcpp' had non-zero exit status
| | | 2: In install.packages("dplyr") :
| | | installation of package 'dplyr' had non-zero exit status
| | | > q();
| | |
| | | Can you point me what should I do further?
| | | My .Renviron is as follows
| | | TZ=CET
| | | TERM=vt220
| | | TAR=/usr/bin/tar
| | | R_UNZIPCMD=/usr/bin/unzip
| | | R_ZIPCMD=/usr/bin/zip
| | | MAKE=/usr/bin/make
| | | LD_LIBRARY_PATH=/usr/lib:/usr/local/R/lib:/lib:/usr/local/lib
| | | PAGER=/usr/bin/less
| | | R_BZIPCMD=/usr/bin/bzip2
| | | R_GZIPCMD=/usr/bin/gzip
| | | I made a symlink so that the compilation works. Unfortunately
| the R
| | modules
| | | have hard-coded the path to the compiler.
| | | -bash-4.1# ls -la /opt/SunProd/studio12u3/solarisstudio12.3/
| bin
| | | lrwxrwxrwx 1 root root 26 Feb 4 15:22 /opt/
| SunProd/
| | studio12u3/
| | | solarisstudio12.3/bin -> /opt/solarisstudio12.4/bin
| | |
| | | Can someone point me which compiler options/configure
arguments
| are
| | needed so
| | | that the conversion and compilation is successful?
| | | Thanks!
| | |
| | | _______________________________________________
| | | Rcpp-devel mailing list
| | | Rcpp-devel@lists.r-forge.r-project.org
| | | https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/
| | rcpp-devel
| |
| | --
| | http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org
| | _______________________________________________
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| rcpp-devel
| |
| |
| |
| |
|
| --
| http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org
|
|
--
http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org
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