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Added dependency chapter #2

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merged 3 commits into from Jul 3, 2021
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Added dependency chapter #2

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Update examples.rst
DavideTisi Jul 2, 2021
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Update examples.rst
DavideTisi Jul 2, 2021
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Update examples.rst
DavideTisi Jul 2, 2021
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31 changes: 30 additions & 1 deletion doc/source/examples.rst
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Expand Up @@ -288,4 +288,33 @@ Serial Job Array
Dependencies
------------

.. warning:: **WORK IN PROGRESS!**
SLURM allows the jobs dependency adding a simple flag to the `sbatch` command
.. code-block:: console
sbatch --dependency=<type:jobid[:jobid][,type:jobid[:jobid]]> ...

.. table::
:align: center
:widths: 1 3

+----------------------------------------------+-----------------------------------------------------------------------------------------------------------------------------+
| Command | Meaning |
+==============================================+=============================================================================================================================+
| ``after:jobid`` | job can begin after the specified jobs have started |
+----------------------------------------------+-----------------------------------------------------------------------------------------------------------------------------+
| ``afterany:jobid`` | job can begin after the specified jobs have terminated |
+----------------------------------------------+-----------------------------------------------------------------------------------------------------------------------------+
| ``afternotok:jobid`` | job can begin after the specified jobs have failed |
+----------------------------------------------+-----------------------------------------------------------------------------------------------------------------------------+
| ``afterok:jobid`` | job can begin after the specified jobs have run to completion with an exit code of zero (see the user guide for caveats). |
+----------------------------------------------+-----------------------------------------------------------------------------------------------------------------------------+
| ``singleton`` | jobs can begin execution after all previously launched jobs with the same name and user have ended. |
+----------------------------------------------+-----------------------------------------------------------------------------------------------------------------------------+

A command that I found usefull suppose you have ``n`` jobs that are dependent and for each ``i-th`` job you have a script called job_i.sh, then you can use the following command:

.. code-block:: console

ID=($(sbatch job_1.sh ))
for i in $(seq 2 n ); do
ID=($(sbatch --dependency=type:${ID[3]} job_$i.sh ))
done