{"id":3008,"date":"2016-05-12T08:18:57","date_gmt":"2016-05-12T08:18:57","guid":{"rendered":"http:\/\/ri.itservices.manchester.ac.uk\/csf-apps\/?page_id=3008"},"modified":"2018-03-16T09:19:15","modified_gmt":"2018-03-16T09:19:15","slug":"molpro","status":"publish","type":"page","link":"https:\/\/ri.itservices.manchester.ac.uk\/csf-apps\/software\/applications\/molpro\/","title":{"rendered":"Molpro"},"content":{"rendered":"

Overview<\/h2>\n

Molpro<\/a> is a comprehensive system of ab initio programs for advanced molecular electronic structure calculations<\/p>\n

Versions 2015.1.0, 2015.1.5_OpenMP 2015.1.27 OpenMP are installed on the CSF. All versions support multi-node parallelism using MPI.<\/p>\n

Restrictions on use<\/h2>\n

This software is restricted to a specific research group. Please cite<\/a> the software when used in your research.<\/p>\n

Set up procedure<\/h2>\n

To access the software you must first load one of the following modulefiles:<\/p>\n

\r\nmodule load apps\/binapps\/molpro\/2015.1.0\r\nmodule load apps\/binapps\/molpro\/2015.1.5_omp\r\nmodule load apps\/binapps\/molpro\/2015.27_omp\r\n<\/pre>\n
Running the application<\/h2>\n
Please do not run molpro on the login node. Jobs should be submitted to the compute nodes via batch. Molpro is supplied with a script named molpro<\/code> which will run the actual molpro binary molpro.exe<\/code> with the requested number of cores. To see the available options run<\/p>\n
\r\nmolpro -h\r\n<\/pre>\n
on the login node. But please do NOT run simulations on the login node.<\/p>\n
Serial batch job submission<\/h3>\n
Make sure you have the modulefile loaded then create a batch submission script, for example:<\/p>\n
\r\n#!\/bin\/bash\r\n#$ -S \/bin\/bash\r\n#$ -cwd             # Job will run from the current directory\r\n#$ -V               # Job will inherit current environment settings\r\n\r\nmolpro args<\/em>\r\n<\/pre>\n
Submit the jobscript using: <\/p>\n
qsub scriptname<\/em><\/pre>\n
where scriptname<\/em> is the name of your jobscript.<\/p>\n
Single-node Parallel batch job submission<\/h3>\n
Single-node parallel jobs can be run using MPI (multiple molpro processes are started) or with OpenMP (a single molpro processes is started that runs multiple threads). The results and efficiency of these two methods may be different. OpenMP parallelism requires the molpro 2015.1.5_omp<\/code> modulefile to be loaded.<\/p>\n
Make sure you have the modulefile loaded then create a batch submission script, for example:<\/p>\n
\r\n#!\/bin\/bash\r\n#$ -S \/bin\/bash\r\n#$ -cwd             # Job will run from the current directory\r\n#$ -V               # Job will inherit current environment settings\r\n#$ -pe smp.pe 8     # Number of cores (max 24)\r\n\r\n# $NSLOTS is automatically set to the number of cores set above\r\n\r\n# Run molpro with multiple MPI processes on a single node\r\nmolpro -n $NSLOTS args<\/em>\r\n\r\n### OR ###\r\n\r\n# Run molpro.exe with multiple threads (using OpenMP) on a single node.\r\n# Note, running the molpro helper script always tries to start MPI\r\n# processes.\r\nmolpro.exe -t $NSLOTS args<\/em>\r\n<\/pre>\n
Submit the jobscript using: <\/p>\n
qsub scriptname<\/em><\/pre>\n
Multi-node Parallel batch job submission<\/h3>\n
A multi-node parallel job must use the MPI method of starting molpro.<\/p>\n
Make sure you have the modulefile loaded then create a batch submission script, for example:<\/p>\n
\r\n#!\/bin\/bash\r\n#$ -S \/bin\/bash\r\n#$ -cwd                   # Job will run from the current directory\r\n#$ -V                     # Job will inherit current environment settings\r\n#$ -pe orte-24-ib.pe 48   # Minimum of 48 cores, must be a multiple of 24\r\n\r\nmolpro -n $NSLOTS args<\/em>\r\n<\/pre>\n
Submit the jobscript using: <\/p>\n
qsub scriptname<\/em><\/pre>\n
Experimental Multi-node Parallel Job<\/h3>\n
It is also possible to start the molpro.exe<\/code> directly with mpirun<\/code> as we do with other MPI applications. In this case you must load an MPI module file. For example:<\/p>\n
\r\n# This is suitable for fully-populated nodes (where you are using all cores on the node)\r\nmodule load mpi\/intel-14.0\/openmpi\/1.8.3m-ib\r\nmodule load apps\/binapps\/molpro\/2015.1.0\r\n<\/pre>\n
Then submit a batch job containing:<\/p>\n
\r\n#!\/bin\/bash\r\n#$ -S \/bin\/bash\r\n#$ -cwd                   # Job will run from the current directory\r\n#$ -V                     # Job will inherit current environment settings\r\n#### See previous example for other PEs\r\n#$ -pe orte-24-ib.pe 48   # Minimum of 48 cores, must be a multiple of 24\r\n\r\n# We start the molpro.exe with mpirun:\r\n\r\nmpirun -n $NSLOTS molpro.exe args<\/em>\r\n<\/pre>\n
Further info<\/h2>\n