Differences

This shows you the differences between two versions of the page.

--- tools:ase [2015/07/01 15:57] – [Remote Usage over SSH] oschuett
+++ tools:ase [2021/01/19 11:49] (current) – oschuett
@@ Line 1: / Line 1: @@
 ====== Atomic Simulation Environment ======
-The Atomistic Simulation Environment (ASE) is a set of tools and Python modules for setting up, manipulating, running, visualizing and analyzing atomistic simulations. The code is freely available under the GNU LGPL license.
+The Atomistic Simulation Environment (ASE) is a set of tools and Python modules for setting up, manipulating, running, visualizing, and analyzing atomistic simulations. The code is freely available under the GNU LGPL license.
-The ASE comes with a plugin, a so-called calculator, for running simulations with CP2K. The source code of the calculator is in the file [[https://trac.fysik.dtu.dk/projects/ase/browser/trunk/ase/calculators/cp2k.py | ase/calculators/cp2k.py]]. It's documentation can be found [[https://wiki.fysik.dtu.dk/ase/ase/calculators/cp2k.html | here ]].
+The ASE comes with a plugin, a so-called calculator, for running simulations with CP2K. The source code of the calculator is in the file [[https://gitlab.com/ase/ase/blob/master/ase/calculators/cp2k.py | ase/calculators/cp2k.py]]. It's documentation can be found [[https://wiki.fysik.dtu.dk/ase/ase/calculators/cp2k.html | here ]].
 For more information about ASE in general visit their [[https://wiki.fysik.dtu.dk/ase/ | project page]]
 =====Appetizing Example=====
-The ASE provides a very convenient, high level interface to CP2K. It bring about the renown [[w>Python_(programming_language)|Pythonic]] productivity.Running a CP2K calculation can be as easy as this:
+The ASE provides a very convenient, high level interface to CP2K. It bring about the renown [[w>Python_(programming_language)|Pythonic]] productivity. Running a CP2K calculation can be as easy as this:
 <code bash>
 $ export ASE_CP2K_COMMAND="mpirun -n 2 cp2k_shell.popt"
 $ python
 >>> from ase.calculators.cp2k import CP2K
->>> from ase.structure import molecule
+>>> from ase.build import molecule
 >>> calc = CP2K()
 >>> atoms = molecule('H2O', calculator=calc)
@@ Line 20: / Line 20: @@
 </code>
-For more examples have a look at the test suite in [[ https://trac.fysik.dtu.dk/projects/ase/browser/trunk/ase/test/cp2k | ase/test/cp2k]].
+For more examples have a look at the test suite in [[ https://gitlab.com/ase/ase/tree/master/ase/test/calculator/cp2k | ase/test/calculator/cp2k]].
 <note warning>
-The environment variable ''$ASE_CP2K_COMMAND'' has point to the **CP2K-shell** binary.
+The environment variable ''$ASE_CP2K_COMMAND'' must point to the **CP2K-shell** binary.
 </note>
 =====Remote Usage over SSH=====
-The ASE calculator communicate with the CP2K-shell solely over stdin/stdout pipes. Therefore, one can launch the CP2K-shell on a remote host via ssh. For this environment variable ''$ASE_CP2K_COMMAND'' just has to be setup accordingly:
+The ASE calculator communicate with the CP2K-shell solely over stdin/stdout pipes. Therefore, one can launch the CP2K-shell on a remote host via ssh. For this the environment variable ''$ASE_CP2K_COMMAND'' has to be setup accordingly:
 <code bash>
-export ASE_CP2K_COMMAND="ssh your_compute_hosts \"mpiexec -np 2 /path/to/cp2k_shell.popt\""
+export ASE_CP2K_COMMAND="ssh your-compute-host.com \"mpirun -np 2 /path/to/cp2k_shell.popt\""
 </code>