The easiest install is on Ubuntu - feel free to follow the quickstart script I posted. I do not know of anyone who has gotten the software to work properly in cygwin.
I have since moved on to CentOS since that is what is used on our network. Running meep on multiple cores on one machine using the ctl interface works well. In running meep on a cluster of CentOS machines using the C++ interface I currently have 2 problems. 1. I am having mpd connection issues between machines when running meep and when running other programs the decision of where to send processes on a heterogeneous network are not sensical. 2. Though I have spent time learning about the makefiles I still cannot compile C++ files in a directory of my choosing instead of in meep-1.0.3/tests/ I will start by giving some information about our install process (0) and then follow up on the specifics of the above 2 problems. I have decided to post a response sooner rather than later since it may have information that may help others. This post is also prior to trying some solutions to number 1 in hopes that someone may have some solutions for number 2. I will post a follow-up regarding number 1. 0. Install process: when installing on a network with multiple users there are considerations of where to install the program, where to put the source, etc. The main concern is that the directories will not be writeable to by anybody but the sysadmin and the sysadmin is not the user of the program. For testing purposes after having read through the files mentioned here: http://www.linuxquestions.org/questions/linux-general-1/what-is-the-meaning- of-makefilemakefile.ammakefile.in-390380/ if I was starting again I would try installing differently (our network install is indeed modified) but what I did for testing is described by the following script: #!/bin/bash # \begin(README) # centosmeepinstaller version 0.3k (should be moved to a repository) # (prior to that please ++0.1 the version number prior to saving any changes # and append your initial to the version number, then save&email it to me) # 0.3k # This script helps install meep in the CentOS environment and # successfully opens a graphical simulation result on the below systems: # Computer used: # ASUS A7V333 1.6GHz 512 Mb 40Gb with XP on it # Ubuntu 9.04 Destop i386 install CD used to edit XP partition such # that it is 20Gb then CentOS 5.3 i386 DVD used to set up the following: # /dev/hda # hda1 19077 Mb ntfs (XP half of drive) # hda2 196 Mb ext3 (boot partition) # hda3 18889 Mb LVM # LVM 1024 Mb swap (double the physical memory) # LVM ~17000 Mb / (remaining space) # Computer used: # Acer Aspire E700 Intel Core 2 Q6600 Quad 64 Architecture 2.4GHz # Desktop Computer (ASE700-EQ662A) PSU 300W Lite-On # DDR2, PC2-5300 (333 MHz), 2048 MB memory # ATI X1650SE 256MB video card and a 500GB HDD # Booted existing Vista # Moved data from D: partition to a directory on C: # Booted CentOS 5.3 x86_64 DVD # Selected "Create Custom Layout" # Deleted /dev/sda3 # clicked "Back", selected "Review and modify partitioning layout" and "Use free space on selected drives and create default layout". # Doubled /boot providing: # /dev/sda # sda1 9993 Mb ntfs (Vista recovery?) # sda2 233609 Mb ntfs (Vista half of drive) # sda3 196 Mb ext3 (boot partition) # sda4 233138 Mb LVM # LVM 4000 Mb swap (double the physical memory) # LVM 229120 Mb / (remaining space) # Install "All" of CentOS, tedious task under custom install to # select all optional packages, except for all languages and KDE # Suggest making use of a kickstart file # There is an opportunity to modify the default: localhost.localdomain # After obtaining this file use the terminal to run # chmod +rx centosmeepinstaller # Switch to root user by typing: # su root # Run this file by typing # ./centosmeepinstaller # Exit root user by typing: # exit # Run this file again by typing # ./centosmeepinstaller # CURRENTLY DOES NOT ASK FOR CONFIRMATION, note for a future version: # If an unattended install is desired comment out the user feedback e.g. # read -n 1 yorn # \end(README) ROOT_UID=0 # Only users with $UID 0 have root privileges. yornroot="n" if [ ! "$UID" -ne "$ROOT_UID" ]; then yornroot="y" fi if [ $yornroot == y ]; then echo -n -e "Run Meep make check and related tests? (y/n) " yorntests="y" read -n 1 yorntests cd /opt #Extra repository like Ubuntu's universe with hdf5-1.6.9-2.el5 #consider configuring hdf5 with --enable-parallel #rpm -Uvh http://download.fedora.redhat.com/pub/epel/5/i386/epel-release-5-3.noarch.rp m rpm -Uvh http://download.fedora.redhat.com/pub/epel/5/x86_64/epel-release-5-3.noarch. rpm if [ "$(uname -m)" = "x86_64" ] ; then yum install -y guile-devel.x86_64 mpich2-devel.x86_64 \ mpich2-libs.x86_64 else yum install -y guile-devel mpich2-devel \ mpich2-libs fi yum install -y mpich2 #check bad links to mp32 #find . -type l | (while read FN ; do test -e "$FN" || ls -ld "$FN" \ # || ls -ld "$FN"; done) if [! -e /etc/alternatives/mpif90 ] ; then if [ -e /usr/bin/mp64-mpif90 ] ; then rm /etc/alternatives/mpif90 ln -s /usr/bin/mp64-mpif90 /etc/alternatives/mpif90 fi fi if [! -e /etc/alternatives/mpicc ] ; then if [ -e /usr/bin/mp64-mpicc ] ; then rm /etc/alternatives/mpicc ln -s /usr/bin/mp64-mpicc /etc/alternatives/mpicc fi fi if [! -e /etc/alternatives/mpif77 ] ; then if [ -e /usr/bin/mp64-mpif77 ] ; then rm /etc/alternatives/mpif77 ln -s /usr/bin/mp64-mpif77 /etc/alternatives/mpif77 fi fi if [! -e /etc/alternatives/mpicxx ] ; then if [ -e /usr/bin/mp64-mpicxx ] ; then rm /etc/alternatives/mpicxx ln -s /usr/bin/mp64-mpicxx /etc/alternatives/mpicxx fi fi if [ "$(uname -m)" = "x86_64" ] ; then yum install -y hdf5.x86_64 hdf5-devel.x86_64 \ blas-devel.x86_64 lapack-devel.x86_64 else yum install -y hdf5 hdf5-devel \ blas-devel lapack-devel fi cd /opt if [ ! -e harminv-1.3.1 ] ; then wget http://ab-initio.mit.edu/harminv/harminv-1.3.1.tar.gz tar xfz harminv-1.3.1.tar.gz fi cd harminv-1.3.1 ./configure make make install cd /opt if [ ! -e libctl-3.1 ] ; then wget http://ab-initio.mit.edu/libctl/libctl-3.1.tar.gz tar xfz libctl-3.1.tar.gz fi cd libctl-3.1 ./configure make make install cd /opt if [ ! -e h5utils-1.12.1 ] ; then wget http://ab-initio.mit.edu/h5utils/h5utils-1.12.1.tar.gz tar xfz h5utils-1.12.1.tar.gz fi cd h5utils-1.12.1 ./configure make make install cd /opt if [ ! -e meep-1.0.3 ] ; then wget http://ab-initio.mit.edu/meep/meep-1.0.3.tar.gz tar xfz meep-1.0.3.tar.gz fi cd meep-1.0.3 ./configure #"make" takes a while make make install if [ $yorntests == y ]; then #"make check" takes a while make check fi ./configure --with-mpi #"make" takes a while make make install if [ $yorntests == y ]; then #"make check" takes a while make check fi fi if [ $yornroot == n ]; then cd $HOME if [ ! -e .mpd.conf ] ; then touch .mpd.conf #echo "MPD_SECRETWORD=mr45-j9z" > .mpd.conf chmod 600 .mpd.conf fi if [ ! -e meep-mpi ] ; then mkdir meep-mpi fi cd meep-mpi #if [ ! -e /tmp/mpd2.console_lab ] ; then if [ $(ps | grep -c python2.4) = 0 ] ; then mpd & fi mpirun -np 1 meep-mpi fcen=0.118 df=0.01 \ /opt/meep-1.0.3/examples/ring.ctl h5topng -RZc /opt/h5utils-1.12.1/colormaps/dkbluered -C \ ring-eps-000000.00.h5 ring-ez-*.h5 convert ring-ez-*.png ring-ez-0.118.gif firefox file:///home/lab/meep-mpi/ring-ez-0.118.gif fi exit 1. As far as mpd is concerned I will follow up on this. In the meantime I can note that it helps to set up the machine's IP as whatever was chosen as localhost.localdomain in a dns entry. 2. In order to make flux.dac in a user's work directory of choosing the following attempt at recreating the meep-1.0.3/tests/ environment was made by iteratively resolving errors reported at the command line produced by the below script. #cd #mkdir meep-mpi cd ~/meep-mpi #wget http://ab-initio.mit.edu/~meep/meep/Makefile #wget http://ab-initio.mit.edu/~meep/meep/Makefile.am #wget http://ab-initio.mit.edu/~meep/meep/Makefile.in #wget http://ab-initio.mit.edu/~meep/meep/configure.ac #mkdir tests cd tests #wget http://ab-initio.mit.edu/~meep/meep/tests/Makefile #wget http://ab-initio.mit.edu/~meep/meep/tests/Makefile.am #wget http://ab-initio.mit.edu/~meep/meep/tests/Makefile.in #wget http://ab-initio.mit.edu/~meep/meep/tests/flux.cpp #mkdir .deps #for network install the content was temporarily here: #cp /tmp/meep/meep-1.0.3/tests/.deps/* .deps/ #for above script install #cp /opt/meep-1.0.3/tests/.deps/* .deps/ make flux.dac #on network install results in: #make: *** No rule to make target `../configure.ac', needed by #`Makefile.in'. Stop. #on above script install results in: #cd .. && \ # /bin/sh /home/meep/meep/missing --run automake-1.7 --gnu #tests/Makefile #/bin/sh: /home/meep/meep/missing: No such file or directory #make: *** [Makefile.in] Error 127 #./flux.dac -----Original Message----- From: [email protected] [mailto:[email protected]] On Behalf Of Flyhigher Sent: September 4, 2009 4:15 AM To: [email protected] Subject: [Meep-discuss] About installation Dear Steven and Meep users, I have a 64-bit and 8 processors machine. Does anyone know if meep is compatible with this machine. Which linux system is the best choice? Ubuntu or Debian? What is problem that I should know in the processing of meep installation ? Thanks. best, Flyhigher _______________________________________________ meep-discuss mailing list [email protected] http://ab-initio.mit.edu/cgi-bin/mailman/listinfo/meep-discuss _______________________________________________ meep-discuss mailing list [email protected] http://ab-initio.mit.edu/cgi-bin/mailman/listinfo/meep-discuss
