[gmx-users] Gromacs installed , but no directory /bin under it
aiqunhuang at knights.ucf.edu
aiqunhuang at knights.ucf.edu
Wed May 23 19:55:37 CEST 2012
Hi everybody,
I am installing Gromacs, in the shell it is said that Gromacs has been installed :
GROMACS is installed under /home/Program/gromacs-4.5.
but I couldn't find the directory bin under /gromacs-4.5, I don't know I have installed successfully or not, any one could help?
Here is the commands which I used to install Gromacs, my system is Ubuntu 11.10, gcc complier.
There are some errors in config.log saying: gcc: fatal error no imput files.
I don't know if this matters or not, i tried to fix the fatal errors in log file, but I didn't get anywhere.
In the last part of showing up in the shell it says something like this:
/usr/bin/install -c -m 644 'xpm2ps.1' '/home/Program/gromacs-4.5/share/man/man1/xpm2ps_mpi.1'
but I couldn't find man/man1 under /gromacs-4.5/share/, anyone could help?installation commands:1) tar -zxvf fftw-3.3.1.tar.gz tar ¨Czxvf gromacs-4.5.tar.gz tar -zxvf lam-7.1.4.tar.gz (2) cd lam-7.1.3 ./configure --prefix=/home/Program/lam-7.1.4 --with-rsh="ssh-x" make sudo make install (3) export PATH=$PATH:/home/Program/lam-7.1.4/bin(4) cd fftw-3.3.1 ./configure --enable-float --enable-mpi --prefix=/home/Program/fftw-3.3.1 make make install (3) export CPPFLAGS=-I/home/Program/fftw-3.3.1/include export LDFLAGS=-L/home/Program/fftw-3.3.1/lib (4) cd gromacs-4.5 ./configure --prefix=/home/Program/gromacs-4.5 --enable-mpi --program-suffix=_mpi make sudo make install Here below are the last part of output in the shell after I run "sudo make install" /usr/bin/install -c -m 644 'trjorder.1' '/home/Program/gromacs-4.5/share/man/man1/trjorder_mpi.1' /usr/bin/install -c -m 644 'xpm2ps.1' '/home/Program/gromacs-4.5/sha
re/man/man1/xpm2ps_mpi.1'make[3]: Leaving directory `/home/qunzi/Program/gromacs-4.5/man/man1'make[2]: Leaving directory `/home/qunzi/Program/gromacs-4.5/man/man1'Making install in man7make[2]: Entering directory `/home/qunzi/Program/gromacs-4.5/man/man7'make[3]: Entering directory `/home/qunzi/Program/gromacs-4.5/man/man7'make[3]: Nothing to be done for `install-exec-am'.test -z "/home/Program/gromacs-4.5/share/man/man7" || /bin/mkdir -p "/home/Program/gromacs-4.5/share/man/man7" /usr/bin/install -c -m 644 'gromacs.7' '/home/Program/gromacs-4.5/share/man/man7/gromacs_mpi.7'make[3]: Leaving directory `/home/qunzi/Program/gromacs-4.5/man/man7'make[2]: Leaving directory `/home/qunzi/Program/gromacs-4.5/man/man7'make[2]: Entering directory `/home/qunzi/Program/gromacs-4.5/man'make[3]: Entering directory `/home/qunzi/Program/gromacs-4.5/man'make[3]: Nothing to be done for `install-exec-am'.make[3]: Nothing to be done for `install-data-am'.make[3]: Leaving directory `/home/qunzi/
Program/gromacs-4.5/man'make[2]: Leaving directory `/home/qunzi/Program/gromacs-4.5/man'make[1]: Leaving directory `/home/qunzi/Program/gromacs-4.5/man'make[1]: Entering directory `/home/qunzi/Program/gromacs-4.5'make[2]: Entering directory `/home/qunzi/Program/gromacs-4.5'make install-exec-hookmake[3]: Entering directory `/home/qunzi/Program/gromacs-4.5'
GROMACS is installed under /home/Program/gromacs-4.5.Make sure to update your PATH and MANPATH to find theprograms and unix manual pages, and possibly LD_LIBRARY_PATHor /etc/ld.so.conf if you are using dynamic libraries.
Please run "make tests" now to verify your installation.
If you want links to the executables in /usr/local/bin,you can issue "make links" now.make[3]: Leaving directory `/home/qunzi/Program/gromacs-4.5'make[2]: Nothing to be done for `install-data-am'.make[2]: Leaving directory `/home/qunzi/Program/gromacs-4.5'make[1]: Leaving directory `/home/qunzi/Program/gromacs-4.5'qunzi at qunzi-AO722:~/Program/gromacs-4.5$ lsacinclude.m4 AUTHORS config configure COPYING-GPU include Makefile man shareaclocal.m4 cmake config.log configure.ac Doxyfile INSTALL-GPU Makefile.am README srcadmin CMakeLists.txt config.status COPYING Doxyfile.in libtool Makefile.in scripts testsqunzi at qunzi-AO722:~/Program/gromacs-4.5$ echo $PATH/opt/intel/bin:/opt/intel/bin:/usr/lib/lightdm/lightdm:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/home/Program/lam-7.1.4/binqunzi at qunzi-AO722:~/Program/gromacs-4.5$ make testsmake: `tests' is up to date.qunzi at qunzi-A
O722:~/Program/gromacs-4.5$ make testsmake: `tests' is up to date.qunzi at qunzi-AO722:~/Program/gromacs-4.5$ man mdrun_mpiNo manual entry for mdrun_mpiSee 'man 7 undocumented' for help when manual pages are not available.qunzi at qunzi-AO722:~/Program/gromacs-4.5$ man mdrun_mpi.1No manual entry for mdrun_mpi.1qunzi at qunzi-AO722:~/Program/gromacs-4.5$
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