Problem installing XPS
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@dhwanidholakia-7550
Last seen 2.9 years ago
INDIA

>       biocLite("xps", type="source")
BioC_mirror: http://bioconductor.org
Using Bioconductor version 2.12 (BiocInstaller 1.10.4), R version 3.1.3.
Installing package(s) 'xps'
trying URL 'http://bioconductor.org/packages/2.12/bioc/src/contrib/xps_1.20.3.tar.gz'
Content type 'application/x-gzip' length 6622799 bytes (6.3 MB)
opened URL
==================================================
downloaded 6.3 MB

* installing *source* package ‘xps’ ...
checking for gcc... gcc -m64 -std=gnu99
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc -m64 -std=gnu99 accepts -g... yes
checking for gcc -m64 -std=gnu99 option to accept ANSI C... none needed
checking how to run the C preprocessor... gcc -m64 -std=gnu99 -E
checking for gcc... (cached) gcc -m64 -std=gnu99
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc -m64 -std=gnu99 accepts -g... (cached) yes
checking for gcc -m64 -std=gnu99 option to accept ANSI C... (cached) none needed
found ROOT version 6.02/05 in directory /home/dhwani/Desktop/root/root-6.02.05
** libs
** arch -
Unknown argument "--dicttype"!
Usage: root-config [--prefix[=DIR]] [--exec-prefix[=DIR]] [--version] [--cflags] [--auxcflags] [--ldflags] [--new] [--nonew] [--libs] [--glibs] [--evelibs] [--bindir] [--libdir] [--incdir] [--etcdir] [--noauxcflags] [--noauxlibs] [--noldflags] [--has-<feature>] [--arch] [--platform] [--config] [--features] [--ncpu] [--git-revision] [--python-version] [--cc] [--cxx] [--f77] [--ld ] [--help]
g++ -I/home/dhwani/Desktop/root/root-6.02.05/include -O2 -Wall -fPIC -pthread -std=c++11 -Wno-deprecated-declarations -m64 -I/home/dhwani/Desktop/root/root-6.02.05/include -c TMLMath.cxx
TMLMath.cxx:1109:0: warning: "xmax" redefined [enabled by default]
 #define xmax  2.5327372760800758e+305
 ^
TMLMath.cxx:1060:0: note: this is the location of the previous definition
 # define xmax  3.745194030963158e306
 ^
TMLMath.cxx: In static member function ‘static Double_t TMLMath::Expm1(Double_t)’:
TMLMath.cxx:123:13: error: ‘cout’ was not declared in this scope
    if(kCSa) cout << "------TMLMath::Expm1------" << endl;
             ^
TMLMath.cxx:123:13: note: suggested alternative:
In file included from /home/dhwani/Desktop/root/root-6.02.05/include/Riostream.h:25:0,
                 from TMLMath.h:52,
                 from TMLMath.cxx:58:
/opt/rh/devtoolset-2/root/usr/include/c++/4.8.2/iostream:61:18: note:   ‘std::cout’
   extern ostream cout;  /// Linked to standard output
                            ^
TMLMath.cxx:1434:57: error: ‘endl’ was not declared in this scope
    if(kCSa) cout << "------TMLMath::PNormBoth------" << endl;
                                                         ^
TMLMath.cxx:1434:57: note: suggested alternative:
In file included from /opt/rh/devtoolset-2/root/usr/include/c++/4.8.2/iterator:64:0,
                 from /home/dhwani/Desktop/root/root-6.02.05/include/TList.h:32,
                 from TMLMath.cxx:53:
/opt/rh/devtoolset-2/root/usr/include/c++/4.8.2/ostream:564:5: note:   ‘std::endl’
     endl(basic_ostream<_CharT, _Traits>& __os)
     ^
make: *** [TMLMath.o] Error 1
ERROR: compilation failed for package ‘xps’
* removing ‘/usr/lib64/R/library/xps’

The downloaded source packages are in
    ‘/tmp/RtmpB90UjX/downloaded_packages’
Updating HTML index of packages in '.Library'
Making 'packages.html' ... done

sessioninfo

R version 3.1.3 (2015-03-09)
Platform: x86_64-redhat-linux-gnu (64-bit)
Running under: CentOS release 6.6 (Final)

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     

other attached packages:
[1] BiocInstaller_1.10.4

loaded via a namespace (and not attached):
[1] tools_3.1.3

 

xps r • 1.3k views
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The error was huge and couldn't upload the whole

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cstrato ★ 3.9k
@cstrato-908
Last seen 3.9 years ago
Austria

Please do NOT use ROOT 6.0.x, it is in my opinion still under development, and I do not intend to use it for xps.

Please try version root_v5.34.24 from 12/03/14:
ftp://root.cern.ch/root/root_v5.34.24.source.tar.gz

If you do not succeed to compile it, maybe you could use one of the linux binaries:
ftp://root.cern.ch/root/root_v5.34.24.Linux-slc6-gcc4.7.tar.gz
ftp://root.cern.ch/root/root_v5.34.24.Linux-slc6-gcc4.8.tar.gz
ftp://root.cern.ch/root/root_v5.34.24.Linux-slc6_amd64-gcc4.7.tar.gz
ftp://root.cern.ch/root/root_v5.34.24.Linux-slc6_amd64-gcc4.8.tar.gz
ftp://root.cern.ch/root/root_v5.34.24.Linux-slc6_amd64-gcc4.9.tar.gz
 

Regards,

Christian

 

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Thank you so much sir

i installed version 5 and It worked !!!

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