Re: install ggplot2 on Linux failed

[Winston Chang]

It might be that you need a newer version of gcc:

http://stackoverflow.com/questions/14865976/r-packages-fail-to-compile-with-gcc

-Winston

On Tue, Mar 12, 2013 at 8:14 AM, Yasutaka Hirasawa <dank...@gmail.com> wrote:

Hello,

I am trying to isntall ggplot2 on RHEL5 but failing with the following message.  Appreciate your help.

> install.packages('ggplot2', dep = TRUE)

Installing package(s) into â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15â

(as âlibâ is unspecified)

also installing the dependencies âcolorspaceâ, âmunsellâ, âSparseMâ, âspâ, âmvtnormâ, âdigestâ, âscalesâ, âquantregâ, âHmiscâ, âmapprojâ, âmapsâ, âhexbinâ, âmaptoolsâ, âmultcompâ, âtestthatâ

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/colorspace_1.2-1.tar.gz'

Content type 'application/x-gzip' length 240581 bytes (234 Kb)

opened URL

==================================================

downloaded 234 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/munsell_0.4.tar.gz'

Content type 'application/x-gzip' length 87713 bytes (85 Kb)

opened URL

==================================================

downloaded 85 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/SparseM_0.96.tar.gz'

Content type 'application/x-gzip' length 749740 bytes (732 Kb)

opened URL

==================================================

downloaded 732 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/sp_1.0-5.tar.gz'

Content type 'application/x-gzip' length 706629 bytes (690 Kb)

opened URL

==================================================

downloaded 690 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/mvtnorm_0.9-9994.tar.gz'

Content type 'application/x-gzip' length 322279 bytes (314 Kb)

opened URL

==================================================

downloaded 314 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/digest_0.6.3.tar.gz'

Content type 'application/x-gzip' length 80083 bytes (78 Kb)

opened URL

==================================================

downloaded 78 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/scales_0.2.3.tar.gz'

Content type 'application/x-gzip' length 39429 bytes (38 Kb)

opened URL

==================================================

downloaded 38 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/quantreg_4.96.tar.gz'

Content type 'application/x-gzip' length 2347423 bytes (2.2 Mb)

opened URL

==================================================

downloaded 2.2 Mb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/Hmisc_3.10-1.tar.gz'

Content type 'application/x-gzip' length 578451 bytes (564 Kb)

opened URL

==================================================

downloaded 564 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/mapproj_1.2-0.tar.gz'

Content type 'application/x-gzip' length 25325 bytes (24 Kb)

opened URL

==================================================

downloaded 24 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/maps_2.3-0.tar.gz'

Content type 'application/x-gzip' length 1427826 bytes (1.4 Mb)

opened URL

==================================================

downloaded 1.4 Mb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/hexbin_1.26.1.tar.gz'

Content type 'application/x-gzip' length 576852 bytes (563 Kb)

opened URL

==================================================

downloaded 563 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/maptools_0.8-23.tar.gz'

Content type 'application/x-gzip' length 856146 bytes (836 Kb)

opened URL

==================================================

downloaded 836 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/multcomp_1.2-15.tar.gz'

Content type 'application/x-gzip' length 562540 bytes (549 Kb)

opened URL

==================================================

downloaded 549 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/testthat_0.7.tar.gz'

Content type 'application/x-gzip' length 25685 bytes (25 Kb)

opened URL

==================================================

downloaded 25 Kb

trying URL 'http://ftp.ussg.iu.edu/CRAN/src/contrib/ggplot2_0.9.3.1.tar.gz'

Content type 'application/x-gzip' length 2330942 bytes (2.2 Mb)

opened URL

==================================================

downloaded 2.2 Mb

* installing *source* package âcolorspaceâ ...

** package âcolorspaceâ successfully unpacked and MD5 sums checked

** libs

gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c colorspace.c -o colorspace.o

colorspace.c:1: error: bad value (generic) for -mtune= switch

make: *** [colorspace.o] Error 1

ERROR: compilation failed for package âcolorspaceâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/colorspaceâ

* installing *source* package âSparseMâ ...

** package âSparseMâ successfully unpacked and MD5 sums checked

** libs

gfortran -m64   -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c bckslv.f -o bckslv.o

bckslv.f:0: error: bad value (generic) for -mtune= switch

make: *** [bckslv.o] Error 1

ERROR: compilation failed for package âSparseMâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/SparseMâ

* installing *source* package âspâ ...

** package âspâ successfully unpacked and MD5 sums checked

** libs

gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c Rcentroid.c -o Rcentroid.o

Rcentroid.c:1: error: bad value (generic) for -mtune= switch

make: *** [Rcentroid.o] Error 1

ERROR: compilation failed for package âspâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/spâ

* installing *source* package âmvtnormâ ...

** package âmvtnormâ successfully unpacked and MD5 sums checked

** libs

gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c miwa.c -o miwa.o

miwa.c:1: error: bad value (generic) for -mtune= switch

make: *** [miwa.o] Error 1

ERROR: compilation failed for package âmvtnormâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/mvtnormâ

* installing *source* package âdigestâ ...

** package âdigestâ successfully unpacked and MD5 sums checked

** libs

gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c aes.c -o aes.o

aes.c:1: error: bad value (generic) for -mtune= switch

make: *** [aes.o] Error 1

ERROR: compilation failed for package âdigestâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/digestâ

* installing *source* package âHmiscâ ...

** package âHmiscâ successfully unpacked and MD5 sums checked

** libs

gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c Hmisc.c -o Hmisc.o

Hmisc.c:1: error: bad value (generic) for -mtune= switch

make: *** [Hmisc.o] Error 1

ERROR: compilation failed for package âHmiscâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/Hmiscâ

* installing *source* package âmapsâ ...

** package âmapsâ successfully unpacked and MD5 sums checked

** libs

** arch -

gcc -m64 -std=gnu99 -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -I/usr/local/include -L/usr/local/lib64  Gmake.c   -o Gmake

Gmake.c:1: error: bad value (generic) for -mtune= switch

make: *** [Gmake] Error 1

ERROR: compilation failed for package âmapsâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/mapsâ

* installing *source* package âhexbinâ ...

** package âhexbinâ successfully unpacked and MD5 sums checked

** libs

gfortran -m64   -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c hbin.f -o hbin.o

hbin.f:0: error: bad value (generic) for -mtune= switch

make: *** [hbin.o] Error 1

ERROR: compilation failed for package âhexbinâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/hexbinâ

ERROR: dependency âcolorspaceâ is not available for package âmunsellâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/munsellâ

ERROR: dependency âSparseMâ is not available for package âquantregâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/quantregâ

ERROR: dependency âmapsâ is not available for package âmapprojâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/mapprojâ

ERROR: dependency âspâ is not available for package âmaptoolsâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/maptoolsâ

ERROR: dependency âmvtnormâ is not available for package âmultcompâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/multcompâ

ERROR: dependency âdigestâ is not available for package âtestthatâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/testthatâ

ERROR: dependency âmunsellâ is not available for package âscalesâ

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/scalesâ

ERROR: dependencies âdigestâ, âscalesâ are not available for package âggplot2â

* removing â/u/yasutaka/R/x86_64-redhat-linux-gnu-library/2.15/ggplot2â

The downloaded source packages are in

        â/tmp/RtmpD6M8QR/downloaded_packagesâ

There were 16 warnings (use warnings() to see them)

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