HowToBuildR ForSolaris - Revision history

Admin: 18 revisions

2011-10-26T06:18:15Z

18 revisions

← Older revision	Revision as of 08:18, 26 October 2011
(No difference)

imported>StefanAlbaum at 09:28, 29 November 2010

2010-11-29T09:28:54Z

← Older revision		Revision as of 11:28, 29 November 2010
Line 254:		Line 254:

	see [[HowToInstallRSPerl]]		see [[HowToInstallRSPerl]]

			== Installing rJava ==

			see [[HowToInstallRJava]]

	== Other Packages ==		== Other Packages ==

imported>StefanAlbaum at 13:46, 31 May 2010

2010-05-31T13:46:00Z

← Older revision		Revision as of 15:46, 31 May 2010
Line 195:		Line 195:

	If something is wrong look into the file configure.log.		If something is wrong look into the file configure.log.

	~~The warning comes from:~~


	~~<pre><nowiki>~~
	~~configure:4037: checking for makeinfo~~
	~~configure:4055: found /vol/gnu/bin/makeinfo~~
	~~configure:4067: result: /vol/gnu/bin/makeinfo~~
	~~configure:4079: checking whether makeinfo version is at least 4.7~~
	~~configure:4099: result: no~~
	~~configure:4105: WARNING: you cannot build info or HTML versions of the R manuals~~
	~~</nowiki></pre>~~


	~~but we've got only 4.2 installed.~~

	== Make it ==		== Make it ==
	This will make the thing using 12 parallel processes, use less for small hosts		This will make the thing using 10 parallel processes, use less for small hosts
			and have a look at the current load of your chosen host!

	<pre><nowiki>		<pre><nowiki>
	azteca> make -~~j12~~		azteca> make -j10
	</nowiki></pre>		</nowiki></pre>

Line 235:		Line 221:

	== Again ==		== Again ==
	* Repeat ~~Configure~~, ~~Make~~, ~~Check~~, ~~Install~~ for each architecture		* Repeat configure, make, make check, make install for each architecture

	== Installing additional Packages ==		== Installing additional Packages ==
	* Note: each package must be installed for each architecture!		* Note: each package must be installed for each separately installed architecture (this is not needed in case r_arch is used!)
	* You can install add on packages from inside R using install.packages()		* You can install add on packages from inside R using install.packages()
	* This is for CRAN packages, Bioconductor packages are installed in a different way		* This is for CRAN packages, Bioconductor packages are installed in a different way

imported>StefanAlbaum at 13:12, 31 May 2010

2010-05-31T13:12:27Z

← Older revision		Revision as of 15:12, 31 May 2010
Line 144:		Line 144:
	# Use an architecture-dependent subdir to build both i386 and amd64 versions of R into the same directory.		# Use an architecture-dependent subdir to build both i386 and amd64 versions of R into the same directory.
	# Common files are shared between both versions, while architecture dependent files will be stored in a		# Common files are shared between both versions, while architecture dependent files will be stored in a
	# appropriate sub-directories		# appropriate sub-directories.
	r_arch="amd64"		# Uncomment the following two lines to build R on amd64.
	export r_arch		# Suggestion: Leave out the flag for one of the builds.
			# Note: The last build version will be the default, regardless of the architecture-dependent flag
			# Note: Packages are always build for all versions automatically.
			# r_arch="amd64"
			# export r_arch

	./configure --prefix=$PREFIX \		./configure --prefix=$PREFIX \

imported>StefanAlbaum at 13:08, 31 May 2010

2010-05-31T13:08:01Z

← Older revision		Revision as of 15:08, 31 May 2010
Line 97:		Line 97:

	# To build a 64 bit version of R (amd64) use the following options:		# To build a 64 bit version of R (amd64) use the following options:
	# Suggestion: Add an architecture dependent flag to the configure arguments, both ~~version~~ can afterwards be installed into the same directory.		# Suggestion: Add an architecture dependent flag to the configure arguments, both versions can afterwards be installed into the same directory.
	# See below for further details...		# See below for further details...
	#CC="cc -xc99 -m64"		#CC="cc -xc99 -m64"
Line 137:		Line 137:

	# For optimal performance, the Sun Performance library (libsunperf) as part of the Studio compiler suite should be used.		# For optimal performance, the Sun Performance library (libsunperf) as part of the Studio compiler suite should be used.
	# But - although compilation succeeded on both ~~x86~~ and amd64 - tests failed on amd64.		# But - although compilation succeeded on both i386 and amd64 - tests failed on amd64.
	# Maybe this is fixed in a newer version of the Sun compiler? To try out append the following two configure flags:		# Maybe this is fixed in a newer version of the Sun compiler? To try out append the following two configure flags:
	# --with-blas=-lsunperf		# --with-blas=-lsunperf
	# --with-lapack=-lsunperf		# --with-lapack=-lsunperf

	# ~~Architecture~~ dependent ~~directory~~ to build both i386 and amd64 versions of R into the same directory.		# Use an architecture-dependent subdir to build both i386 and amd64 versions of R into the same directory.
	# Common files are shared between both versions, while architecture dependent files will be stored in a		# Common files are shared between both versions, while architecture dependent files will be stored in a
	# appropriate sub-directories		# appropriate sub-directories
	r_arch="amd64"		r_arch="amd64"
Line 170:		Line 170:

	Source directory: .		Source directory: .
	Installation directory: /vol/r-2.11.1		Installation directory: /vol/r-2.11

	C compiler: cc -xc99 -g		C compiler: cc -xc99 -O -xlibmieee
	Fortran 77 compiler: f95 -g		Fortran 77 compiler: f95 -O4

	C++ compiler: CC -g		C++ compiler: CC -O
	Fortran 90/95 compiler: f95 -~~xO2 -g~~		Fortran 90/95 compiler: f95 -O4
	Obj-C compiler: cc		Obj-C compiler: gcc -g -O2

	Interfaces supported: X11, tcltk		Interfaces supported: X11, tcltk
	External libraries: readline, BLAS(SunPerf), LAPACK(SunPerf)		External libraries: readline # Removed due to test errors (see R-documentation): BLAS(SunPerf), LAPACK(SunPerf)
	Additional capabilities: PNG, JPEG, TIFF, ~~iconv~~, ~~MBCS, NLS~~		Additional capabilities: PNG, JPEG, TIFF, NLS, cairo
	Options enabled: shared R library, R profiling, Java		Options enabled: shared R library, shared BLAS (see above), R profiling, Java

	Recommended packages: yes		Recommended packages: yes

imported>StefanAlbaum at 13:00, 31 May 2010

2010-05-31T13:00:40Z

Show changes

imported>StefanAlbaum at 12:32, 31 May 2010

2010-05-31T12:32:22Z

← Older revision		Revision as of 14:32, 31 May 2010
Line 1:		Line 1:
	__NOTOC__		__NOTOC__
	= Tips how to build R and Bioconductor using the [[SunPro]] 12 Compiler Suite =		= Tips how to build R and Bioconductor using the [[SunPro]] 12.1 Compiler Suite =

	== Synopsis ==		== Synopsis ==
Line 20:		Line 20:

	<pre><nowiki>		<pre><nowiki>
	~~dizzy~~~> which cc		azteca~> which cc
	/~~opt~~/~~SUNWspro~~/bin/cc		/vol/studio-12.1/bin/cc
	~~dizzy~~:~> cc -V		azteca:~> cc -V
	cc: Sun C 5.8 Patch ~~121015~~-~~06 2007~~/10/03		cc: Sun C 5.10 SunOS_i386 Patch 142363-02 2009/09/21
	~~dizzy~~:~> which CC		azteca:~> which CC
	/~~opt~~/~~SUNWspro~~/bin/CC		/vol/studio-12.1/bin/CC
	~~dizzy~~:~> CC -V		azteca:~> CC -V
	CC: Sun C++ 5.~~8 Patch 121017~~-~~17 2008~~/11/12		CC: Sun C++ 5.10 SunOS_i386 128229-02 2009/09/21
	~~dizzy~~:~> which f95		azteca:~> which f95
	/~~opt~~/~~SUNWspro~~/bin/f95		/vol/studio-12.1/bin/f95
	~~dizzy~~:~> f95 -V		azteca:~> f95 -V
	~~f95~~: Sun ~~Fortran 95 8~~.~~2 Patch 121019~~-~~10 2008~~/04/16		CC: Sun C++ 5.10 SunOS_i386 128229-02 2009/09/21
	~~dizzy~~:~> uname -a		azteca:~> uname -a
	SunOS ~~dizzy~~ 5.10 ~~Generic_118833~~-03 ~~sun4u sparc SUNW,Sun-Fire-V440~~ Solaris		SunOS azteca 5.10 Generic_142901-03 i86pc i386 i86pc Solaris
	</nowiki></pre>		</nowiki></pre>

Line 149:		Line 149:
	--with-tcl-config=$TCL_PREFIX/lib/tclConfig.sh \		--with-tcl-config=$TCL_PREFIX/lib/tclConfig.sh \
	--with-tk-config=$TCL_PREFIX/lib/tkConfig.sh		--with-tk-config=$TCL_PREFIX/lib/tkConfig.sh

imported>MichaelDondrup at 12:53, 9 April 2009

2009-04-09T12:53:03Z

← Older revision		Revision as of 14:53, 9 April 2009
Line 52:		Line 52:
	* http://cran.r-project.org/mirrors.html and choose a mirror		* http://cran.r-project.org/mirrors.html and choose a mirror
	* if having problems with building, use R-patched: ftp://ftp.stat.math.ethz.ch/Software/R/		* if having problems with building, use R-patched: ftp://ftp.stat.math.ethz.ch/Software/R/
	* check the md5 sums to verify package integrity <code><nowiki> </nowiki></code>		* check the md5 sums to verify package integrity <code><nowiki> Nope! Would be neat but no checksums provided! </nowiki></code> ;-)
	* unpack the sources to your build directory: <code><nowiki> tar xvzf R-<rversion>.tar.gz </nowiki></code>		* unpack the sources to your build directory: <code><nowiki> tar xvzf R-<rversion>.tar.gz </nowiki></code>
	* for multiple architectures it's best to have a build dir for each platform		* for multiple architectures it's best to have a build dir for each platform
Line 149:		Line 149:
	--with-tcl-config=$TCL_PREFIX/lib/tclConfig.sh \		--with-tcl-config=$TCL_PREFIX/lib/tclConfig.sh \
	--with-tk-config=$TCL_PREFIX/lib/tkConfig.sh		--with-tk-config=$TCL_PREFIX/lib/tkConfig.sh

imported>MichaelDondrup at 12:47, 9 April 2009

2009-04-09T12:47:40Z

← Older revision		Revision as of 14:47, 9 April 2009
Line 256:		Line 256:
	== Installing RSPerl ==		== Installing RSPerl ==

	see HowToInstallRSPerl		see [[HowToInstallRSPerl]]

	== Other Packages ==		== Other Packages ==

imported>MichaelDondrup at 12:38, 9 April 2009

2009-04-09T12:38:11Z

← Older revision		Revision as of 14:38, 9 April 2009
Line 130:		Line 130:

	echo $CC		echo $CC

	echo $CXX		echo $CXX
	echo $F77		echo $F77
Line 257:		Line 256:
	== Installing RSPerl ==		== Installing RSPerl ==

	see ~~the RSPerl installation page~~		see HowToInstallRSPerl

	== Other Packages ==		== Other Packages ==