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In this exercise you will learn how to run your first calculation.
As mentioned in the lecture, you absolutely need
optionally you may want:
sftp:tcopt3.chem.uzh.chas the address in your file browser and you should be able to login and browser your home directory
emacsvia SSH. Please note: It is important that your editor supports Unix line endings. If in doubt, use one of the mentioned editors on the server or an advanced plain text editor like Atom (plus the line-ending-selector-unix plugin) or Notepad++ on your local machine.
Since there are numerous applications with different and possibly conflicting requirements, the module system is used. This means that only basic commands are available until explicitly loaded.
To list all available modules:
$ module avail
$ module list
gives the list of loaded moules.
To load the CP2K module used in this course, use:
$ module load cp2k/r17408_2016_09_19
When you list the loaded modules again at this point (see command above), you will notice that the list has changed.
Now run the following command to verify that the CP2K executable is available:
$ cp2k.popt --help
Which should give you the output
cp2k.popt [-c|--check] [-e|--echo] [-h|--help] [--html-manual] [-i] <input_file> [-mpi-mapping|--mpi-mapping] <method> [-o] <output_file> [-r|-run] [--xml] starts the CP2K program, see <https://www.cp2k.org/> The easiest way is cp2k.popt <input_file> The following options can be used: -i <input_file> : provides an input file name, if it is the last argument, the -i flag is not needed -o <output_file> : provides an output file name [default: screen] These switches skip the simulation, unless [-r|-run] is specified: --check, -c : performs a syntax check of the <input_file> --echo, -e : echos the <input_file>, and make all defaults explicit The input is also checked, but only a failure is reported --help, -h : writes this message --html-manual : writes a HTML reference manual of the CP2K input in the current directory. The file index.html is a good starting point for browsing --license : prints the CP2K license --mpi-mapping : applies a given MPI reordering to CP2K --run, -r : forces a CP2K run regardless of other specified flags --version, -v : prints the CP2K version and the SVN revision number --xml : dumps the whole CP2K input structure as a XML file xml2htm generates a HTML manual from this XML file