Backup of IT memo/linuxmemo2 (No. 6)

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  • 1 (2010-04-01 (Thu) 06:15:20)
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  • 3 (2010-04-01 (Thu) 09:38:20)
  • 4 (2010-04-02 (Fri) 01:24:38)
  • 5 (2010-08-18 (Wed) 11:33:31)
  • 6 (2010-11-15 (Mon) 16:59:30)
  • 7 (2010-11-26 (Fri) 15:36:06)
  • 8 (2011-02-25 (Fri) 23:06:05)
  • 9 (2011-04-19 (Tue) 19:01:50)
  • 10 (2011-04-26 (Tue) 10:29:10)

IT memo

Setting up isotope.ccsr.u-tokyo.ac.jp †

specification †

Name: isotope
IP: 157.82.233.153
Body: HP Z600
CPU: Xeon E5520 (2.26GHz, quad core) x2
RAM: 6GB
HDD: 1TB x2
OS: RedHat Enterprise Linux 5 (Server)

RHEL 5.4 †

Multi languages and Developer's tools can be installed later by "Applications" -> "Add/Remove Software" -> "Languages" or "Development".

softwares †

Intel compilers (11.1) †

http://software.intel.com/en-us/articles/non-commercial-software-download/ からIntel® Compiler Suite Professional Edition for Linuxを選び、ダウンロード。解凍後 、install.shを起動する。

MPICH1.2.7 †

./configure --enable-debug --prefix=/usr/local/mpich -rsh=/usr/bin/ssh
make
su
make install

• $MPICHDIR/exampleのhello++.ccのコンパイルでなぜか止まるが、実用上は問題なし。
• $HOME/.ssh/authorized_keysに$HOME/.ssh/id_rsa.pubもしくはid_dsa.pubを追加しておくことが必要。

NetCDF4.0.1 †

$ setenv FC ifort
$ setenv CC icc
$ setenv CXX icc
$ setenv CPPFLAGS -DpgiFortran
$ ./configure --prefix=/usr/local/netcdf
$ make
$ su
# make install

DCL-5.3.3 †

$ wget http://www.gfd-dennou.org/arch/dcl/dcl-5.3.3.tar.gz
$ tar xvfz dcl-5.3.3.tar.gz
$ cd dcl-5.3.3
$ setenv FC ifort
$ setenv CC gcc
$ setenv DCLDIR-/usr/local/dcl-5.3.3
$ ./configure --prefix=/usr/local/dcl-5.3.3 --disable-gtk --disable-gtk2
$ make
$ su
# make install ; exit
$ cd demo
$ make
$ cd gokuraku/hop ; hop

gtool3.5 †

See http://meteora.ucsd.edu/~kyoshimura/?IT%20memo%2Flinuxmemo#i646c739

udunits-1.12.11 -> /usr/local †

needed for GT-GrADS

wget ftp://ftp.unidata.ucar.edu/pub/udunits/udunits-1.12.11.tar.gz
tar xvfz udunits-1.12.11.tar.gz
cd udunits-1.12.11/src
setenv PERL
./configure
make
make install

udunits-2.1.19 -> /usr/local †

wget ftp://ftp.unidata.ucar.edu/pub/udunits/udunits-2.1.19.tar.gz
cd udunits-2.1.19
configure
make 
make install

netcdf-3.6.3 -> /usr/local †

needed for GT-GrADS

wget ftp://ftp.unidata.ucar.edu/pub/netcdf/netcdf-3.6.3.tar.gz
tar xvfz netcdf-3.6.3.tar.gz
cd netcdf-3.6.3
./configure
make
make check
make install

libgtool3-0.15.3 -> /usr/local †

needed for GT-GrADS

Obtain from kmt server (or shui)
configure
make
make install

GT-GrADS -> /home/kei/GT-GrADS †

Obtain from kmt server (or shui)
./configure --prefix=/home/kei/GT-GrADS GRADS_DATADIR=/home/kei/GrADS/data configure 
make 
make install