Re: ARPACK library causing problem while compiling Octave-2.9.10

[Daniel Oberhoff]

Hi,

I am not sure if this is still important now, maybe if you want to  
install the arpack package from forge.

Your makefile looks pretty regular to me. But what really matters is  
that the corresponding settings are the same for the other fortran  
packages (blas, lapack, etc...), so you should check how those were  
compiled too. Or if you installed them with a binary installer (i.e.  
your flavour linux package installer) you should probably install  
arpack the same way.

Daniel

Am 20.04.2007 um 16:28 schrieb R S Ananda Murthy:

> Daniel Oberhoff wrote:
> > Hi,
> >
> > When I was preparing a 2.9.10 port for macports I ran into similar  
> > problems with arpack. The problem there was that the arpack port  
> > used different compiler directives/compilers for compiling the  
> > fortran files. The difference is in the way underscores are used.  
> > I have no overview which is used when, but I have seen __fun and  
> > _fun before, fun_ seems unusual to me.
> >
> > The compiler directives should be the same for all of your fortran  
> > libraries (arpack, blas, maybe also suitesparse?). And in your  
> > case they seem not to be.
> >
> > You could try to find out where those functions are usually  
> > defined (maybe lapack or blas) and then look at how the names are  
> > mangled inside that library (ldd on linux, otool on osx) and then  
> > compare to how they are mangled in arpack.
> >
> > It is a little weird in your case also though, because the  
> > undefined references seem to be inside arpack, so I wonder how you  
> > ever got arpack compiled. Or was it a binary install using rpms or  
> > debian packages? In that case the corresponding dependency manager  
> > is broken.
> >
> > Octave is usually happey when all fortran libs mangle names the  
> > same, detects the mangling and applies it everywhere, it just has  
> > to be consistent.
> >
> > Daniel
> >
> > Am 20.04.2007 um 13:23 schrieb R S Ananda Murthy:
> >
> > > Hello,
> > >
> > > I am trying to compile octave-2.9.10 on Zenwalk-4.4.1. I have  
> > > already
> > > arpack library installed. This is detected by configure. But  
> > > compiling
> > > proceeds for some time and then stops with the following error  
> > > message:
> > >
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slartg_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slahqr_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slarfg_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `cunm2r_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slapy2_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `zlanhs_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `claset_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `clahqr_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `strevc_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slarnv_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slanhs_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `ssteqr_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slanst_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slasrt_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `clacpy_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `strsen_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `sorm2r_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `ctrsen_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `sgeqr2_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slacpy_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `clascl_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `zlarnv_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slamch_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `clartg_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `dlanhs_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `clanhs_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slae2_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slascl_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `dlarnv_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slarf_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `cgeqr2_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slasr_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slabad_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slaev2_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slanv2_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `ctrevc_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `clarnv_'
> > > /usr/lib/gcc/i486-slackware-linux/3.4.6/../../../libarpack.so:  
> > > undefined
> > > reference to `slaset_'
> > > collect2: ld returned 1 exit status
> > > make[2]: *** [octave] Error 1
> > > make[2]: Leaving directory `/root/octave_new/octave-2.9.10/src'
> > > make[1]: *** [src] Error 2
> > > make[1]: Leaving directory `/root/octave_new/octave-2.9.10'
> > > make: *** [all] Error 2
> > >
> > > What may be the problem?
> > >
> > > Thanks for your help,
> > >
> > > Anand
> > > _______________________________________________
> > > Help-octave mailing list
> > > address@hidden
> > > https://www.cae.wisc.edu/mailman/listinfo/help-octave
> I compiled ARPACK from source. I have BLAS and LAPACK already  
> installed. This is my ARmake.inc:
>
> ###################################################################### 
> #####
> #
> #  Program:         ARPACK
> #
> #  Module:          ARmake.inc
> #
> #  Purpose:         Top-level Definitions
> #
> #  Creation date:   February 22, 1996
> #
> #  Modified:
> #
> #  Send bug reports, comments or suggestions to address@hidden
> #
> ###################################################################### 
> ######
> #
> # %---------------------------------%
> # |  SECTION 1: PATHS AND LIBRARIES |
> # %---------------------------------%
> #
> #
> # %--------------------------------------%
> # | You should change the definition of  |
> # | home if ARPACK is built some place   |
> # | other than your home directory.      |
> # %--------------------------------------%
> #
> home = $(PWD)/.
> #
> #  %--------------------------------------%
> #  | The platform identifier to suffix to |
> #  | the end of library names             |
> #  %--------------------------------------%
> #
> PLAT = PIV
> #
> #  %------------------------------------------------------%
> #  | The directories to find the various pieces of ARPACK |
> #  %------------------------------------------------------%
> #
> BLASdir      = $(home)/BLAS
> LAPACKdir    = $(home)/LAPACK
> UTILdir      = $(home)/UTIL
> SRCdir       = $(home)/SRC
> #
> #DIRS        = $(BLASdir) $(LAPACKdir) $(UTILdir) $(SRCdir)
> #
> #  
> %-------------------------------------------------------------------%
> # | Comment out the previous line and uncomment the  
> following         |
> # | if you already have the BLAS and LAPACK installed on your  
> system. |
> # | NOTE: ARPACK assumes the use of LAPACK version 2  
> codes.           |
> #  
> %-------------------------------------------------------------------%
> #
> DIRS         = $(UTILdir) $(SRCdir)
> #
> # %---------------------------------------------------%
> # | The name of the libraries to be created/linked to |
> # %---------------------------------------------------%
> #
> ARPACKLIB  = $(home)/libarpack.a
> LAPACKLIB =
> BLASLIB =
> #
> ALIBS =  $(ARPACKLIB) $(LAPACKLIB) $(BLASLIB)
> #
> #
> # %---------------------------------------------------------%
> # |                  SECTION 2: COMPILERS                   |
> # |                                                         |
> # | The following macros specify compilers, linker/loaders, |
> # | the archiver, and their options.  You need to make sure |
> # | these are correct for your system.                      |
> # %---------------------------------------------------------%
> #
> #
> # %------------------------------%
> # | Make our own suffixes' list. |
> # %------------------------------%
> #
> .SUFFIXES:
> .SUFFIXES:    .f    .o
> #
> # %------------------%
> # | Default command. |
> # %------------------%
> #
> .DEFAULT:
>    @$(ECHO) "Unknown target $@, try:  make help"
> #
> # %-------------------------------------------%
> # |  Command to build .o files from .f files. |
> # %-------------------------------------------%
> #
> .f.o:
>    @$(ECHO) Making $@ from $<
>    @$(FC) -c $(FFLAGS) $<
> #
> # %-----------------------------------------%
> # | Various compilation programs and flags. |
> # | You need to make sure these are correct |
> # | for your system.                        |
> # %-----------------------------------------%
> #
> FC      = f77
> FFLAGS    = -O -fPIC
>
> LDFLAGS =
> CD      = cd
>
> ECHO    = echo
>
> LN      = ln
> LNFLAGS = -s
>
> MAKE    = make
>
> RM      = rm
> RMFLAGS = -f
>
> SHELL   = /bin/sh
> #
> #  %----------------------------------------------------------------%
> #  | The archiver and the flag(s) to use when building an archive   |
> #  | (library).  Also the ranlib routine.  If your system has no    |
> #  | ranlib, set RANLIB = touch.                                    |
> #  %----------------------------------------------------------------%
> #
> AR = ar
> ARFLAGS = rv
> #RANLIB  = touch
> RANLIB   = ranlib
> #
> # %----------------------------------%
> # | This is the general help target. |
> # %----------------------------------%
> #
> help:
>    @$(ECHO) "usage: make ?"
>
>
> This is my build script for ARPACK:
>
>
> #!/bin/bash
>
> #---( Zenwalk Build Script
> #---( Build Script written for ARPACK
> #---( Home Page: http://www.caam.rice.edu/software/ARPACK/
> #---( Source1 URL: http://www.caam.rice.edu/software/ARPACK/SRC/ 
> arpack96.tar.gz
> #---( Source2 URL: http://www.caam.rice.edu/software/ARPACK/SRC/ 
> patch.tar.gz
> #---( Source3 URL: http://www.caam.rice.edu/software/ARPACK/ 
> RiceBSD.doc
> #---( Build script by R S Ananda Murthy (address@hidden)
> #---( Date build script was last modified: Friday, April, 20, 2007.
>
>
> #------------------( Set Package Name & Version )
>
> soft='arpack'
> softversion='2.1'
> packageversion='46.1'
>
>
> #------------------( Check for source files )
>
>
> if [ -f arpack96.tar.gz  ]; then
>   echo "Source1 file .. ok"
> else
>   echo "Source1 file does not exit. Downloading it ..."
>   wget -c http://www.caam.rice.edu/software/ARPACK/SRC/arpack96.tar.gz
> fi
>
>
> if [ -f patch.tar.gz ]; then
>   echo "Source2 file .. ok"
> else
>   echo "Source2 file does not exit. Downloading it ..."
>   wget -c http://www.caam.rice.edu/software/ARPACK/SRC/patch.tar.gz
> fi
>
> if [ -f RiceBSD.doc ]; then
>   echo "Source3 file .. ok"
> else
>   echo "Source3 file does not exit. Downloading it ..."
>   wget -c http://www.caam.rice.edu/software/ARPACK/RiceBSD.doc
> fi
>
>
> #------------------( Set Package CPU Architecture Optimizations )
>
>
> arch='i486'
> cpu='i686'
>
>
> #------------------( Set Build Location Variables )
>
>
> buildir=$(pwd)
> srcpkg="$buildir/arpack96.tar.gz"
> src="$buildir/ARPACK"
> package="$soft-$softversion-$arch-$packageversion"
> dest="$buildir/$package"
>
>
> #------------------( Clean, prepare the work area and extract the  
> source code )
>
>
> cd $buildir
> rm -rf $src
> tar -xvf $srcpkg
> tar -xvf patch.tar.gz
> rm -f $dest.tgz
> rm -rf $dest
> mkdir -p $dest
>
>
> #------------------( Set Build Ownerships and CFLAGS and CXXFLAGS )
>
>
> chown -R root:root .
>
> find . -perm 666 -exec chmod 644 {} \;
> find . -perm 664 -exec chmod 644 {} \;
> find . -perm 600 -exec chmod 644 {} \;
> find . -perm 444 -exec chmod 644 {} \;
> find . -perm 400 -exec chmod 644 {} \;
> find . -perm 440 -exec chmod 644 {} \;
> find . -perm 777 -exec chmod 755 {} \;
> find . -perm 775 -exec chmod 755 {} \;
> find . -perm 511 -exec chmod 755 {} \;
> find . -perm 711 -exec chmod 755 {} \;
> find . -perm 555 -exec chmod 755 {} \;
>
> export CFLAGS="-O2 -march=$arch -mtune=$cpu"
> export CXXFLAGS="-O2 -march=$arch -mtune=$cpu"
>
>
> #------------------( Configure, Make And Install The Software )
>
>
> rm -f $src/ARmake.inc
> cp $buildir/ARmake.inc.custom $src/ARmake.inc
>
> cd $src
> mkdir static shared
>
> cd shared
>
> for dir in ../SRC ../UTIL; do
>    make -f $dir/Makefile VPATH=$dir srcdir=$dir FC=g77 FFLAGS="- 
> fPIC" \
>       single double complex complex16
>  done
>  gcc -shared -Wl,-soname,libarpack.so.2 -o libarpack.so.2.1 *.o
>
> cd ..
>
> cd static
>  for dir in ../SRC ../UTIL; do
>    make -f $dir/Makefile VPATH=$dir srcdir=$dir FC=g77  
> FFLAGS="$RPM_OPT_FLAGS" LDFLAGS="-s" all
>  done
>
> ar rv libarpack.a *.o
> ranlib libarpack.a
>
>
> #------------------( Move Library To Correct Location )
>
>
> install -d $dest/usr/lib
> install -p -m644 $buildir/ARPACK/static/libarpack.a $buildir/ARPACK/ 
> shared/libarpack.so.2.1 $dest/usr/lib
> ln -s libarpack.so.2.1 $dest/usr/lib/libarpack.so.2
> ln -s libarpack.so.2 $dest/usr/lib/libarpack.so
>
>
> #------------------( Move Documentation and License To Correct  
> Location )
>
>
>
> mkdir -p $dest/usr/doc/$soft-$softversion
> cp -a $buildir/ARPACK/README $dest/usr/doc/$soft-$softversion
> cp -a $buildir/ARPACK/DOCUMENTS/*.doc $dest/usr/doc/$soft-$softversion
> cp -a $buildir/RiceBSD.doc $dest/usr/doc/$soft-$softversion
>
>
>
> #------------------( Copy Build The Script )
>
>
> mkdir -p $dest/usr/src/$soft-$softversion
> cp $buildir/build-$soft.sh $dest/usr/src/$soft-$softversion/build- 
> $soft.sh
>
>
> #------------------( Create The Slackdesc )
>
>
>
> mkdir -p $dest/install
> cat <<EOF > $dest/install/slack-desc
>      |-----handy- 
> ruler------------------------------------------------------|
> arpack: ARPACK (A collection of F77 routines to solve eigen value  
> problems)
> arpack:
> arpack: The package is designed to compute a few eigenvalues and  
> corresponding
> arpack: eigenvectors of a general n by n matrix A. It is most  
> appropriate for
> arpack: large sparse or structured matrices A where structured  
> means that a
> arpack: matrix-vector product w <- Av requires order n rather than  
> the usual
> arpack: order n**2 floating point operations. This software is  
> based upon an
> arpack: algorithmic variant of the Arnoldi process called the  
> Implicitly
> arpack: Restarted Arnoldi Method (IRAM).
> arpack:
> arpack: Packaged on a Zenwalk-4.4.1 system.
> EOF
>
>
>
> #------------------( Create The doinst.sh )
>
>
> cat <<EOF > $dest/install/doinst.sh
> ldconfig
> EOF
>
>
>
> #------------------( Compress The Package And Clean Up The Work Area )
>
>
> cd $dest
> makepkg -l y -c n $package.tgz
> mv $package.tgz ../$package.tgz
> rm -rf $src
> rm -rf $dest
>
>
> #------------------( Generate the MD5 Check Sum )
>
>
> cd $buildir
> md5sum $package.tgz > $package.md5
> zen_pkgcheck_new.pl $package.tgz
>
> This buildscript is working fine and creating the ARPACK package.
>
> Should octave-2.9.10 be compiled without installing ARPACK as  
> suggested by David Bateman?
>
>
> --- Anand