Hi everyone,
I am trying to install the contra package on my Ubuntu server.
Ich bekomme aber die folgende Fehlermeldung:
But I keep getting this error:
Installing contfrac
'/usr/lib/R/bin/R' --no-site-file --no-environ --no-save --no-restore
--quiet \
CMD INSTALL '/tmp/Rtmp0ZStmN/devtools84a45d407429/contfrac' \
--library='/home/yeroslaviz/R/x86_64-pc-linux-gnu-library/3.3' \
--install-tests
* installing *source* package ?contfrac? ...
** package ?contfrac? successfully unpacked and MD5 sums checked
** libs
gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG -fpic -g -O2
-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
-D_FORTIFY_SOURCE=2 -g -c contfrac.c -o contfrac.o
gcc: error: unrecognized command line option ?-fstack-protector-strong?
gcc: error: unrecognized command line option ?-Wdate-time?
/usr/lib/R/etc/Makeconf:132: recipe for target 'contfrac.o' failed
make: *** [contfrac.o] Error 1
ERROR: compilation failed for package ?contfrac?
* removing ?/home/yeroslaviz/R/x86_64-pc-linux-gnu-library/3.3/contfrac?
Error: Command failed (1)
is this a known problem?
my server has the following gcc version installed- 5.4.0.
BUT when typing which gcc I get the following path -
/home/yeroslaviz/anaconda_ete/bin/gcc
the version of this gcc is though - 4.8.5.
the gcc version of /usr/bin/gcc -v is
Using built-in specs.
COLLECT_GCC=/usr/bin/gcc
COLLECT_LTO_WRAPPER=/usr/lib/gcc/x86_64-linux-gnu/5/lto-wrapper
Target: x86_64-linux-gnu
Configured with: ../src/configure -v --with-pkgversion='Ubuntu
5.4.0-6ubuntu1~16.04.4'
--with-bugurl=file:///usr/share/doc/gcc-5/README.Bugs
--enable-languages=c,ada,c++,java,go,d,fortran,objc,obj-c++ --prefix=/usr
--program-suffix=-5 --enable-shared --enable-linker-build-id
--libexecdir=/usr/lib --without-included-gettext --enable-threads=posix
--libdir=/usr/lib --enable-nls --with-sysroot=/ --enable-clocale=gnu
--enable-libstdcxx-debug --enable-libstdcxx-time=yes
--with-default-libstdcxx-abi=new --enable-gnu-unique-object
--disable-vtable-verify --enable-libmpx --enable-plugin --with-system-zlib
--disable-browser-plugin --enable-java-awt=gtk --enable-gtk-cairo
--with-java-home=/usr/lib/jvm/java-1.5.0-gcj-5-amd64/jre --enable-java-home
--with-jvm-root-dir=/usr/lib/jvm/java-1.5.0-gcj-5-amd64
--with-jvm-jar-dir=/usr/lib/jvm-exports/java-1.5.0-gcj-5-amd64
--with-arch-directory=amd64 --with-ecj-jar=/usr/share/java/eclipse-ecj.jar
--enable-objc-gc --enable-multiarch --disable-werror --with-arch-32=i686
--with-abi=m64 --with-multilib-list=m32,m64,mx32 --enable-multilib
--with-tune=generic --enable-checking=release --build=x86_64-linux-gnu
--host=x86_64-linux-gnu --target=x86_64-linux-gnu
Thread model: posix
gcc version 5.4.0 20160609 (Ubuntu 5.4.0-6ubuntu1~16.04.4)
I will appreciate any help.
danke
Assa
> sessionInfo()
R version 3.3.2 (2016-10-31)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 16.04.1 LTS
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] tools_3.3.2 tcltk_3.3.2
??
Assa Yeroslaviz, PhD
Application service, Bioinformatics group
Max Planck Institute for Biochemistry
Am Klopferspitz 18, 82152 Martinsried
Germany
Tel: +49 89 8578 2427
Email: yeroslaviz at biochem.mpg.de<mailto:yeroslaviz at biochem.mpg.de>
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