Terapix (archive) - Intranet - Specific software installation

pgplot: same as on clix, except for the environnement variables:

[root@clix softs]# cd /home/nis/root.nis/softs [root@clix softs]# wget ftp://ftp.astro.caltech.edu/pub/pgplot/pgplot5.2.tar.gz [root@clix softs]# tar xzvvf pgplot5.2.tar.gz [root@clix softs]# mv pgplot pgplot5.2 [root@clix softs]# cd pgplot5.2 [root@clix pgplot5.2]# mkdir /usr/local/pgplot [root@clix pgplot5.2]# cp drivers.list /usr/local/pgplot/ [root@clix pgplot5.2]# cd /usr/local/pgplot/ [root@clix pgplot]# vi drivers.list # Uncomment: GIDRIV 1 /GIF GIF-format file, landscape GIDRIV 2 /VGIF GIF-format file, portrait NUDRIV 0 /NULL Null device (no output) PNDRIV 1 /PNG Portable Network Graphics file C PNDRIV 2 /TPNG Portable Network Graphics file - transparent background C PPDRIV 1 /PPM Portable Pixel Map file, landscape PPDRIV 2 /VPPM Portable PIxel Map file, portrait PSDRIV 1 /PS PostScript printers, monochrome, landscape Std F77 PSDRIV 2 /VPS Postscript printers, monochrome, portrait Std F77 PSDRIV 3 /CPS PostScript printers, color, landscape Std F77 PSDRIV 4 /VCPS PostScript printers, color, portrait Std F77 TTDRIV 4 /GTERM GTERM Tektronix terminal emulator Std F77 TTDRIV 5 /XTERM XTERM Tektronix terminal emulator Std F77 XWDRIV 1 /XWINDOW Workstations running X Window System C XWDRIV 2 /XSERVE Persistent window on X Window System C [root@clix pgplot]# /home/nis/root.nis/softs/opteron/pgplot5.2/makemake /home/nis/root.nis/softs/opteron/pgplot5.2 linux g77_gcc [root@clix pgplot]# vi makefile # png dependencies problem: remove line 886 pndriv.o : ./png.h ./pngconf.h ./zlib.h ./zconf.h [root@clix pgplot]# make [root@clix pgplot]# make clean [root@clix pgplot]# make cpg [root@clix pgplot]# mkdir /usr/local/include [root@clix pgplot]# cd ../include/ [root@clix include]# ln -s ../pgplot/cpgplot.h . [root@clix include]# cd ../lib [root@clix lib]# for lib in libcpgplot.a libpgplot.a libpgplot.so; do ln -s ../pgplot/$lib .; done [root@clix lib]# cd ../bin/ [root@clix bin]# ln -s ../pgplot/pgxwin_server . [root@clix root]# ldconfig [root@clix root]# /usr/local/pgplot/pgdemo1

copy on nodes [root@clix local]# for i in `seq 9`; do rsync -e ssh -av pgplot root@pix${i}:/usr/local/; done [root@clix local]# rshp $NKA -- 'cd /usr/local/include; ln -s ../pgplot/cpgplot.h .; cd ../lib; for lib in libcpgplot.a libpgplot.a libpgplot.so; do ln -s ../pgplot/$lib .; done; cd ../bin/; ln -s ../pgplot/pgxwin_server .' [root@clix root]# mput $NKA -- /etc/profile.d/pgplot.csh /etc/profile.d/pgplot.csh [root@clix root]# mput $NKA -- /etc/profile.d/pgplot.sh /etc/profile.d/pgplot.sh [root@clix root]# gexec -n 0 ldconfig

mix1 pgplot # cat /etc/env.d/99pgplot PGPLOT_DIR=/usr/local/pgplot/ PGPLOT_DEV=/xs mix1 pgplot # env-update

cdsclient-2.7 cf. website

# wget http://vizier.u-strasbg.fr/viz-bin/ftp-index?/ftp/pub/sw/cdsclient.tar.gz # tar tvvf ftp-index\?%2Fftp%2Fpub%2Fsw%2Fcdsclient.tar.gz # mv ftp-index\?%2Fftp%2Fpub%2Fsw%2Fcdsclient.tar.gz cdsclient-2.84.tar # gzip cdsclient-2.84.tar # mv cdsclient-2.84.tar.gz cdsclient-2.84.tgz # tar xzvvf cdsclient-2.84.tgz # cd cdsclient-2.85/ # ./configure; make; make install

Manu's softs

Now use rpms from /home/nis/root.nis/softs/opteron/rpm/ with option --nodeps.

# cd /home/nis/root.nis/softs/opteron/rpms # rpm -i --nodeps scamp-1.3.0-1mp.x86_64.rpm or # rpm -U --nodeps scamp-1.3.0-1mp.x86_64.rpm

Mesa, gsl (OK, now is standard distribution), fftw2 (needed for PDL)

# ll /usr/portage/sci-libs/fftw/ # emerge -va =fftw-2.1.5-r1

plplot

# wget http://belnet.dl.sourceforge.net/sourceforge/plplot/plplot-5.3.0.tar.gz ({{mix3}}: # wget http://ovh.dl.sourceforge.net/sourceforge/plplot/plplot-5.3.1.tar.gz) # tar xzvvf plplot-5.3.1.tar.gz # cd plplot-5.3.1 # patch -p1 < ../plplot-5.3.1_tpx2.patch # ./configure --disable-python --disable-java --disable-octave --disable-tcl --disable-itcl --disable-cxx --disable-f77 --disable-drivers --enable-png --enable-jpeg --enable-mem --enable-null --enable-pbm --enable-ps --enable-psc --enable-xfig --enable-xwin --disable-cgm --disable-dg300 --disable-gnome --disable-hp7470 --disable-hp7580 --disable-lj_hpgl --disable-imp --disable-linuxvga --disable-ljii --disable-ljiip --disable-ntk --disable-tek4010 --disable-tek4107 --disable-mskermit --with-pthreads --disable-dynamic --disable-dyndrivers # make # make install

cfitsio

[root@clix softs]# wget ftp://heasarc.gsfc.nasa.gov/software/fitsio/c/cfitsio2490.tar.gz [root@clix softs]# tar xzvvf cfitsio2490.tar.gz [root@clix softs]# mv cfitsio cfitsio2490 [root@clix softs]# cd cfitsio2490 [root@clix cfitsio2490]# vi fitsio2.h #define DBUFFSIZE 288000 /* size of data buffer in bytes */ [root@clix cfitsio2490]# ./configure --prefix=/usr/local [root@clix cfitsio2490]# make [root@clix cfitsio2490]# make shared [root@clix cfitsio2490]# /bin/cp libcfitsio.a libcfitsio.so /usr/local/lib/ [root@clix cfitsio2490]# /bin/cp fitsio.h fitsio2.h longnam.h drvrsmem.h /usr/local/include/ [root@clix lib]# ldconfig [root@clix cfitsio2490]# make imcopy fitscopy [root@clix cfitsio2490]# /bin/cp imcopy fitscopy /usr/local/bin/

copy on nodes:

[root@clix cfitsio2490]# rshp $NKA -- 'cd /home/nis/root.nis/softs/cfitsio2490; /bin/cp libcfitsio.a /usr/local/lib/libcfitsio_2490.a; /bin/cp libcfitsio.so /usr/local/lib/libcfitsio_2490.so; /bin/cp imcopy /usr/local/bin/imcopy2490; /bin/cp fitsio.h fitsio2.h longnam.h drvrsmem.h /usr/local/include/; cd /usr/local/lib/; ln -s libcfitsio_2490.so libcfitsio.so; ln -s libcfitsio_2490.a libcfitsio.a, cd ../bin; rm -f imcopy; ln -s imcopy2490 imcopy' [root@clix root]# gexec -n 0 ldconfig

wcslib

# wget ftp://ftp.atnf.csiro.au/pub/software/wcslib/wcslib.tar.gz # tar xzvvf wcslib.tar.gz # cd wcslib-3.6/C # vi Makefile .PRECIOUS : %.o CFLAGS := -O -fPIC # for opteron only ! # FLAVOUR=Linux make # gcc -shared -o libwcs.so *.o # mkdir /usr/local/include/wcs; cp *.h /usr/local/include/wcs; cp -p libwcs.a libwcs.so /usr/local/lib # rshp $NKA -- 'cd /home/nis/root.nis/softs/wcslib-3.6/C; mkdir /usr/local/include/wcs; cp *.h /usr/local/include/wcs; cp -p libwcs.a libwcs.so /usr/local/lib;'

Starting at version 4.2, additionnal modifications:

# vi config.status s,@CFLAGS@,-g -O2 -fPIC,;t t # vi GNUmakefile ./configure --no-create # vi C/GNUmakefile .PRECIOUS : %.o cd .. && ./config.status # for file in *.l; do mv -vi ${file%l}c ${file%l}c.OLD; done # for file in *.l; do flex -o${file%l}c -P${file%.l} $file; done # make # gcc -shared -o libwcs.so *.o # mkdir /usr/local/include/wcs; cp *.h /usr/local/include/wcs; # cp -p libwcs.so /usr/local/lib; cp -p libwcs-4.2.a /usr/local/lib/libwcs.a

wcstools

The -fPIC is for opterons only (needed to compile LibWCS).

# wget http://tdc-www.harvard.edu/software/wcstools/wcstools-3.6.2.tar.gz # tar xzvvf wcstools-3.6.2.tar.gz # cd wcstools-3.6.2 # vi libwcs/Makefile CFLAGS= -g -fPIC # make all # cp -pvi $PWD/wcstools $PWD/bin/* /usr/local/bin/

perl modules: list to install

gentoo packages:

XML-NamespaceSupport
XML-SAX
XML-Simple
SOAP
SOAP-Lite
DBI
dev-perl/DBD-mysql

hors gentoo:

Astro-WCS-LibWCS
wcstools
PGPLOT
SOAP-MIME
CFITSIO
Term-ReadLine-Gnu

Astro-WCS-LibWCS

By giving the 'LDDLFLAGS' flag to MakeMaker, this removes -L/usr/local/lib, thus will not see the more recent and incompatible wcslib. If the files already exist, make install does not overwrite them.... So better remove them before installation.

# wget http://search.cpan.org/CPAN/authors/id/P/PR/PRATZLAFF/Astro-WCS-LibWCS-0.90.tar.gz # tar xzvvf Astro-WCS-LibWCS-0.90.tar.gz # cd Astro-WCS-LibWCS-0.90 # export WCSTOOLS=/home/nis/root.nis/softs/x86/wcstools-3.6.2 # export WCSTOOLS=/home/nis/root.nis/softs/opteron/wcstools-3.6.2 # vi Makefile.PL 'LDDLFLAGS' => '-shared', # find /usr/lib/perl5/ -name LibWCS.bs -or -name LibWCS.so -or -name LibWCS.pm -exec rm -v {} \; # perl Makefile.PL; make; make install # rshp $NKA -- 'cd /home/nis/pipeline/wcs/Astro-WCS-LibWCS-0.90; make install'

Astro-FITS-Header (for PDL)

# wget http://www.cpan.org/authors/id/A/AA/AALLAN/Astro-FITS-Header-2.8.1.tar.gz # tar xzvvf Astro-FITS-Header-2.8.1.tar.gz # cd Astro-FITS-Header-2.8.1 # perl Makefile.PL; make; make test # make install

Astro-FITS-CFITSIO

# wget http://search.cpan.org/CPAN/authors/id/P/PR/PRATZLAFF/Astro-FITS-CFITSIO-1.03.tar.gz # tar xzvvf Astro-FITS-CFITSIO-1.03.tar.gz # cd Astro-FITS-CFITSIO-1.03 # perl Makefile.PL; make; make test # make install

PGPERL

For (PGPLOT-2.18): edit Makefile.PL, and add -lz -lpng to LIBS: line 36:

'-L/usr/openwin/lib -L/usr/X11/lib -L/usr/X11R6/lib -lX11 -lz -lpng '.

For (PGPLOT-2.19): edit Makefile.PL, and add -lz -lpng to LIBS: line 65:

qw/ pgplot cpgplot z png /,

# perl Makefile.PL; make; make test; make install # rshp $NKA -- 'cd /home/nis/root.nis/softs/PGPLOT-2.18; make install'

Term-ReadLine-Gnu (for PDL)

# wget http://search.cpan.org/CPAN/authors/id/H/HA/HAYASHI/Term-ReadLine-Gnu-1.16.tar.gz # perl Makefile.PL; make; make test # make install

PDL: require: plplot, pgplot, Astro-FITS-Header

use perldl.conf with the following additions (to be put in /usr/portage/dev-perl/PDL/files/perldl.conf):

WITH_PLPLOT => 1, # Build PLPLOT interface WHERE_PLPLOT_LIBS => '/usr/local/lib', # here is the PLplot lib dir WHERE_PLPLOT_INCLUDE => '/usr/local/include/plplot', # here is the PLplot include dir WITH_GSL => undef, # Leave it up to PDL to decide GSL_LIBS => undef, GSL_INC => undef, WITH_FFTW => undef, # Leave it up to PDL to decide FFTW_LIBS => ['/usr/lib'], FFTW_INC => ['/usr/include'], FFTW_TYPE => 'double', WITH_IO_BROWSER => 1,

CCfits

Cf. CCfits homepage.

# wget http://heasarc.gsfc.nasa.gov/docs/software/fitsio/ccfits/CCfits-1.3.tar.gz # tar xzvvf CCfits-1.3.tar.gz # mv CCfits CCfits-1.3 # ln -s CCfits-1.3 CCfits ### badly needed !! # cd CCfits-1.3 # ./configure # make # make install # ar rv libCCfits.a .libs/*.o # cp libCCfits.a /usr/local/lib/libCCfits.a

fitsverify

# wget http://heasarc.gsfc.nasa.gov/docs/software/ftools/fitsverify/fitsverify.tar # export FITSVERIFY_VERSION="4.12" # mv fitsverify.tar fitsverify-${FITSVERIFY_VERSION}.tar # tar xvvf fitsverify-${FITSVERIFY_VERSION}.tar # mv fitsverify fitsverify-${FITSVERIFY_VERSION} # cd fitsverify-${FITSVERIFY_VERSION} # gcc -o fitsverify ftverify.c fvrf_data.c fvrf_file.c fvrf_head.c fvrf_key.c fvrf_misc.c -DSTANDALONE -L. -lcfitsio -lm -lnsl # cp fitsverify /usr/local/bin/

WIFIX (old and probably obsolete)

needed for WIFIX:

cfitsio (+ make fitscopy + install in /usr/local/bin)

mix2 cfitsio2490 # make fitscopy; cp fitscopy /usr/local/bin/

pgplot

# pgperl: # perl -MCPAN -e shell # install PGPLOT # install Astro::FITS::Header # install Astro::FITS::CFITSIO # install String::Approx

cdsclient

# emerge -v Tie-IxHash TermReadKey

WIFIX_Distrib_1.1a/ExtLibs/MyCode/vfitscopy.c :

mix2 MyCode # gcc -o /usr/local/bin/vfitscopy vfitscopy.c -I/usr/local/include -lcfitsio -lm

toFITS2d.c : not present in distrib...
WIFIX itself:

# cd WIFIX_Distrib_1.1a/Pipe/PP

in Pfit/Makefile.PL nFtrans/Makefile.PL Astrom/Makefile.PL, add -fPIC in compilation options in sub MY::postamble

# perl Makefile.PL; make; make install # vi Astrom/astrom : removes PATH using $bin ($bin/../cds/bin/findpmm2 ...) 191c191 < my $findpmm="findpmm2 "; --- > my $findpmm="$bin/../cds/bin/findpmm2 "; 309c309 < if (uc($refcoor) eq 'USNO1') {$findpmm="findpmm1 ";} --- > if (uc($refcoor) eq 'USNO1') {$findpmm="$bin/../cds/bin/findpmm1 ";} # export PERL_DIR=/usr/lib/perl5/vendor_perl/5.8.2/x86_64-linux/ (or 5.8.4 on mix3) # cp -pr Astrom Photom Swarp Prered $PERL_DIR # cd $PERL_DIR

Replace /usr/local/bin/perl by /usr/bin/perl:

# find Astrom Photom Prered Swarp -type f | xargs egrep -l /usr/local/bin/perl | xargs perl -i -p -e 's,/usr/local/bin/perl,/usr/bin/perl,g'

make .pm files visible

# for file in `find Astrom Photom/ Swarp/ -type f -name "*.pm"`; do ln -s $file .; done # cd /usr/local/bin/ # ln -s $PERL_DIR/Astrom/astrom . # for p in c2g cmpfits getRMS getUSNO mapfwhm mklist mkrcat; do ln -s $PERL_DIR/Astrom/Tools/$p .; done # ln -s $PERL_DIR/Swarp/mkswarp.pl . # for p in photcal photgui photom; do ln -s $PERL_DIR/Photom/$p .; done

Mario's patches: before to copy new versions of files to $PERL_DIR/ : # vi Astrom/astrom : removes PATH using $bin ($bin/../cds/bin/findpmm2 ...)

after update of perl:

# /usr/portage/dev-lang/perl/files/libperl_rebuilder

and re-install "a la mano" packages

# cd /usr/local/ # wget ftp://heasarc.gsfc.nasa.gov/software/lheasoft/fv/fv42_pc_linux.tar.gz # tar xzvvf fv42_pc_linux.tar.gz # cd bin # ln -s ../fv4.2/fv . # cat > /etc/env.d/99fv FV_HELPDIR=/usr/local/fv4.2/doc # env-update

skycat

# wget ftp://ftp.eso.org/pub/archive/skycat/skycat-2.7.3-Linux-2.4.9-21.tar.gz # tar xzvvf skycat-2.7.3-Linux-2.4.9-21.tar.gz # cp skycat-Linux-2.4.9-21 /usr/local/bin/skycat

with version 3.0:

# emerge -uva dev-tcltk/iwidgets dev-tcltk/itcl blt

ds9

# wget ftp://sao-ftp.harvard.edu/pub/rd/ds9/linux64/ds9.linux64.4.0b2.tar.gz # tar xzvvf ds9.linux64.4.0b2.tar.gz # mv ds9 /usr/local/bin/

sm (SuperMongo)

sm2_4_27 # ./set_opts sm2_4_27 # for i in copyright.h options.h fonts.h sm_declare.h devices.h tty.h stdgraph.h raster.h dummies.h; do ln -s src/$i .; done sm2_4_27 # vi options.h sm2_4_27 # make sm2_4_27 # make install

For terminal compatibility: copy the file termcap (available in the sm distribution) in /usr/local/lib/sm/termcap and add to /usr/local/lib/sm/.sm the line termcap /usr/local/lib/sm/termcap

gaia

Get archive file from http://www.starlink.rl.ac.uk/cgi-store/storeform2?GAIA, and rename it with its version number. Installation is really not straightforward !!

# mv storeform2ahdlr gaia_archive-v2.8-0 # sh ./gaia_archive-v2.8-0 source dir: /home/nis/root.nis/softs/opterons/gaia-2.8-0 stop at "Do you want to continue with the build/installation now?" # cd /home/nis/root.nis/softs/opteron/gaia-2.8-0 # for dir in esp extractor gaia htx init kappa photom polpack; do cd $dir; tar xzvvf *; cd -; done # echo x86_64_Linux > .BUILT # for dir in esp extractor gaia htx init kappa photom polpack; do cp .BUILT $dir/; done # find . -name mk | xargs perl -i -pe 's/ix86_Linux/x86_64_Linux/' # ./star_build gaia install dir: /usr/local/gaia # vi /etc/env.d/99gaia PATH="/usr/local/gaia/bin/esp:/usr/local/gaia/bin/extractor:/usr/local/gaia/bin/gaia:/usr/local/gaia/bin/photom:/usr/local/gaia/bin/polpack" LDPATH=/usr/local/gaia/lib GAIA_DIR=/usr/local/gaia/bin/gaia # env-update

topcat

# wget http://www.star.bris.ac.uk/~mbt/topcat/topcat-full.jar # wget http://www.star.bris.ac.uk/~mbt/topcat/topcat # chmod 755 topcat # mv topcat-full.jar topcat-full.jar-v2.2 # mkdir /usr/local/lib/topcat # cp topcat-full.jar-v2.2 /usr/local/lib/topcat/topcat.jar # cp topcat /usr/local/bin/

JC /usr/local/bin/aclientTerapix.pl for scamp

JC: /var/spool/pbs/sched_priv/sched_config J'ai mis load_balancing a TRUE

Lolo: Pour autoriser les machines externes a se connecter sur dbterapix, il faut modifier le fichier de config de mysql /etc/mysql/my.cnf Il faut commenter cette ligne :

#bind-address = 127.0.0.1

/etc/php/apache2-php4/php.ini :

register_globals = On max_execution_time = 1800 max_input_time = 60

JC: Voici les modifs que j'ai fait pour que pbs fonctionne :
- ajout de commentaires pour ne prendre que les pix de 1 a 5 more /var/spool/pbs/server_priv/nodes pix1.clic.iap.fr np=2 pix2.clic.iap.fr np=2 pix3.clic.iap.fr np=2 pix4.clic.iap.fr np=2 pix5.clic.iap.fr np=2 #pix6.clic.iap.fr np=2 #pix7.clic.iap.fr np=2 #pix8.clic.iap.fr np=2 #pix9.clic.iap.fr np=2 #pix10.clic.iap.fr np=1

Ensuite sur chaque noeud, changement de la valeur pour le clienthost : pix1:(17:12)~> more /var/spool/pbs/mom_priv/config # MOM server configuration file # if more than one value, separate it by comma. ## rule is defined by the name # $ideal_load 2.0 # $max_load 3.5 ## host allowed to connect to Mom server on unprivileged port #$restricted pix1.clic.iap.fr ## log event : # 0x1ff log all events + debug events # 0x0ff just all events $logevent 0x0ff ## host allowed to connect to mom server on privileged port $clienthost clix ## alarm if the script hang or take very long time to execute (sec) $prologalarm 30

JC: modif du fichier sudoers pour snooppix : pipeline,pipeline ALL=NOPASSWD:/usr/local/etc/snooppix/init.d/snooppixd stop,/us r/local/etc/snooppix/init.d/snooppixd start,/usr/local/etc/snooppix/init.d/snoop pixd status

iraf

# cd /home/nis/root.nis/softs/opterons/iraf # wget ftp://iraf.noao.edu/pub/xgterm.fedora # chmod 755 xgterm.fedora # cp xgterm.fedora /usr/local/bin/xgterm

adduserNIS iraf su - iraf ls -l distrib.files total 153048 -rw-r--r-- 1 root root 21681093 Feb 5 2004 as.pcix.gen.tgz -rw-r--r-- 1 root root 20280568 Feb 3 2004 db.rhux.x86.gz -rw-r--r-- 1 root root 73516671 Jun 13 2003 guiapps.tar.Z -rw-r--r-- 1 root root 13544131 Feb 4 2004 ib.rhux.x86.gz -rw-r--r-- 1 root root 19103763 Feb 3 2004 nb.rhux.x86.gz drwxr-xr-x 20 359 112 4096 Sep 29 16:14 x11iraf -rw-r--r-- 1 root root 3790042 Aug 16 2002 x11iraf-v1.3.1-src.tar.gz -rwxr-xr-x 1 root root 4783618 Jul 27 21:45 xgterm.fedora mkdir iraf cd iraf tar xzvvf ../distrib.files/as.pcix.gen.tgz cd .. mkdir -p irafbin/bin.linux cd irafbin/bin.linux

cosmix2 installation ifc, icc and mkl

wget ...
put licences files in right place (/opt/intel/licenses): # scp -pr cosmix2:/opt/intel/licenses /opt/intel/
vi install_cc.sh install_fc.sh s/-U/-U --nodeps/
licence files:
- ifc: /opt/intel/licenses/l_N136-11859343.lic
- icc: /opt/intel/licenses/l_N116-88545181.lic
# ./install.sh ((deprecated) answer: 1, 1, enter, accept, enter, accept, enter(default), -U --nodeps, 2, enter(default), -U --nodeps, enter, x)
make binaries, libraries and man pages visible # vi /etc/env.d/99ic LDPATH=/opt/intel/cc/9.0/lib/:/opt/intel/fc/9.0/lib:/opt/intel/mkl72/lib PATH=/opt/intel/cc/9.0/bin:/opt/intel/fc/9.0/bin:/opt/intel/idb/9.0/bin ROOTPATH=/opt/intel/cc/9.0/bin:/opt/intel/fc/9.0/bin:/opt/intel/idb/9.0/bin INCLUDE=/opt/intel/cc/9.0/include:/opt/intel/fc/9.0/include:/opt/intel/mkl72/include # vi /etc/man.conf MANPATH /opt/intel/cc/9.0/man MANPATH /opt/intel/fc/9.0/man MANPATH /opt/intel/idb/9.0/man # vi /etc/portage/profile/package.provided dev-lang/ifc-9.0.026 dev-lang/icc-9.0.025 # env-update

On Mandriva (e.g. lensing): use install.sh, then

# echo /opt/intel/fortran91/lib >> /etc/ld.so.conf # ldconfig # vi /etc/profile.d/ifc.csh setenv IA32ROOT /opt/intel/fc/9.1.036/ setenv INTEL_FLEXLM_LICENSE /opt/intel/fortran91/licenses setenv ROOTPATH $IA32ROOT/bin setenv PATH $IA32ROOT/bin:$PATH if ($?MANPATH) then setenv MANPATH ${IA32ROOT}/man:${IA32ROOT}/man:${IA32ROOT}/man:$MANPATH else setenv MANPATH ${IA32ROOT}/man:${IA32ROOT}/man:${IA32ROOT}/man endif if ($?INCLUDE) then setenv INCLUDE $IA32ROOT/include:$INCLUDE else setenv INCLUDE $IA32ROOT/include endif # vi /etc/profile.d/ifc.sh export IA32ROOT=/opt/intel/fc/9.1.036/ export INTEL_FLEXLM_LICENSE=/opt/intel/fortran91/licenses export ROOTPATH=$IA32ROOT/bin export PATH=$IA32ROOT/bin:$PATH if [ "x$MANPATH" = "x" ]; then export MANPATH=${IA32ROOT}/man:${IA32ROOT}/man:${IA32ROOT}/man:$MANPATH else export MANPATH=${IA32ROOT}/man:${IA32ROOT}/man:${IA32ROOT}/man fi if [ "x$INCLUDE" = "x" ]; then export INCLUDE=$IA32ROOT/include:$INCLUDE else export INCLUDE=$IA32ROOT/include fi

mkl: the default install.sh does not use --nodeps # ./install -> extract intel-mkl-7.2p-8.i386.rpm in /tmp/mkl # rpm -U --nodeps intel-mkl-7.2p-8.i386.rpm

ldacpipeline

Modify scripts/pipe_install/install.sh # needed directories PD=/usr/local/soft/ldacpipeline #STANDARDSTARCAT=/data6/terapix2/waerbeke/thomas/USNO-A2/ STANDARDSTARCAT=/nowhere/ #IRAFDIR=/evsix2/erben/iraf/ IRAFDIR=/nowhere/ # needed programs/scripts not included in the # pipeline distribution P_BASH=/bin/bash P_GAWK=/usr/bin/gawk #P_CL=/scisoft/bin/cl P_CL=/nowhere/cl #S_ASTROMETRIX=/aibn85_b/terben/software/programs/astrometrix/PipeLibs/Astrom/astrom_test.pl S_ASTROMETRIX=/nowhere/astrom_test.pl P_SM=/usr/local/bin/sm

Upgrade scripts/Makefiles and environment variables: # scripts/pipe_install/install.sh # source scripts/pipe_install/pipe_env.bash

Remove all former binaries: find . -type d -name obj_Linux | xargs rm -rf

Compile: for dir in library libcpp fitsutil ldactools/common ldactools/tools associate/new astrom/new flips/common flips/tools imageheader imcatutils lensing/imcat lensing/psfcorrection make_ssc/new photom/new select_overlap sets/new sex/fitslimits utilities ; do cd $dir; make clean make done

cd scripts for file in ./lensing/kaiser_ldac.sh ./others/astrometrix2ldac.sh ./others/context.sh ./others/astrometrix2imageheader.sh; do perl -i -pe 's/\/freeware//'; done find . -name "*.sh" -exec ln -s {} . \;

# cat /etc/env.d/99ldacpipeline PATH=/usr/local/soft/ldacpipeline/bin/Linux:/usr/local/soft/ldacpipeline/scripts

ganglia

# vi /etc/conf.d/net # for ganglia packets: do command `route add -host 239.2.11.71 dev eth1` routes_eth1=( "-host 239.2.11.71 dev eth1" ) # vi get_context.php line 117 if (!$sort) $sort = "by hostname"; * file get_context.php line 100, add: case "hour": $start = -3600; break; case "3hours": $start = -10800; break; case "6hours": $start = -21600; break; case "12hours": $start = -43200; break; case "day": $start = -86400; break; case "3days": $start = -259200; break; case "week": $start = -604800; break; case "month": $start = -2419200; break; case "3months": $start = -11138400; break; case "year": $start = -31557600; break; case "3years": $start = -94672800; break; * file get_context.php line 126, add: # default graph size $size = "small"; * file header.php line 244, add: $context_ranges[]="hour"; $context_ranges[]="3hours"; $context_ranges[]="6hours"; $context_ranges[]="12hours"; $context_ranges[]="day"; $context_ranges[]="3days"; $context_ranges[]="week"; $context_ranges[]="month"; $context_ranges[]="3months"; $context_ranges[]="year"; $context_ranges[]="3years"; * file cluster_view.php line 211: remove height=112 width=225 to have: "alt=\"$host\" border=0></a></td>"; * file cluster_view.php line 195: change small to $size: $graphargs .= "z=$size&c=$cluster_url&h=$host_url" * file templates/default/header.tpl line 8, add: <link rel="icon" href="favicon.png" type="image/png">

gexec

# wget http://ovh.dl.sourceforge.net/sourceforge/ganglia/libe-0.2.2.tar.gz # wget http://ovh.dl.sourceforge.net/sourceforge/ganglia/authd-0.2.1.tar.gz # wget http://ovh.dl.sourceforge.net/sourceforge/ganglia/gexec-0.3.4.tar.gz # tar xzvvf libe-0.2.2.tar.gz # tar xzvvf authd-0.2.1.tar.gz # tar xzvvf gexec-0.3.4.tar.gz # cd libe-0.2.2 # ./configure; make; make install -> /usr/local/lib/libe.a -> /usr/local/include/e/* cd ../authd-0.2.1 # ./configure; make; make install -> /usr/local/lib/libauth.a -> /usr/local/sbin/authd -> /usr/local/include/auth.h # cd ../gexec-0.3.4/ # ./configure; make; make install -> /usr/local/bin/gexec -> /usr/local/lib/libgexec.a -> /usr/local/sbin/gexecd -> /usr/local/include/gexec_lib.h -> /etc/xinetd.d/gexec # vi /etc/init.d/authd #!/sbin/runscript # Copyright 1999-2005 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 # $Header: $ depend() { need net } gen_keys() { if [ ! -f /etc/auth_priv.pem ] ; then openssl genrsa -rand 15000 -out /etc/auth_priv.pem >&/dev/null chmod 600 /etc/auth_priv.pem openssl rsa -in /etc/auth_priv.pem -pubout -out /etc/auth_pub.pem >&/dev/null fi } start() { ebegin "Starting authd: " gen_keys || return 1 start-stop-daemon --start --quiet --exec /usr/local/sbin/authd -- -d eend $? "Failed to start authd" } stop() { ebegin "Stopping authd: " start-stop-daemon --stop --quiet --exec /usr/local/sbin/authd eend $? "Failed to stop authd" } # chmod 755 /etc/init.d/authd # rc-update add authd default #/etc/init.d/authd start # echo "gexec 2875/tcp # Caltech gexec" >> /etc/services # /etc/init.d/xinetd restart # # for m in mix1 mix2 mix3 mix4 mix5 mix6 dbterapix ftpix fcix; do echo $m; scp -p /etc/auth_p*.pem $m:/etc/; done # for m in mix1 mix2 mix3 mix4 mix5 mix6 dbterapix ftpix fcix; do echo $m; ssh $m 'echo "gexec 2875/tcp # Caltech gexec" >> /etc/services'; done # for m in mix1 mix2 mix3 mix4 mix5 mix6 dbterapix ftpix fcix; do echo $m; ssh $m /etc/init.d/xinetd restart; done # for m in mix1 mix2 mix3 mix4 mix5 mix6 dbterapix ftpix fcix; do echo $m; ssh $m 'cd /home/nis/root.nis/softs/opterons/ganglia/libe-0.2.2; make install; cd ../authd-0.2.1/; make install; cd ../gexec-0.3.4/; make install; cp /home/nis/root.nis/fred/opterons.config/etc/init.d/authd /etc/init.d/authd; rc-update add authd default; /etc/init.d/authd start; '; done

PBS pro

clix:

1. Server, execution and commands
host id: 39c228dd
licence: L-00002-05279-5690-AkXhL8kNcJ-W3V-agt-TerapixTeam

# rc-update add pbs default # vi /etc/env.d/99pbspro PATH=/usr/pbs/bin:/usr/pbs/sbin # vi /etc/man.conf MANPATH /usr/pbs/man