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Co-authored-by: Jacob Wilkins <46597752+oerc0122@users.noreply.github.com> Signed-off-by: Maciej Bartkowiak <108934199+MBartkowiakSTFC@users.noreply.github.com>
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Doc/pages/H_cluster.rst

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We expect that you will be running your MDANSE analysis on a cluster
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using Python scripts which can be run from the shell. These will be
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called within a batch script which you submit to the clusters queuing system.
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called within a batch script which you submit to the cluster's queuing system.
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If you installed MDANSE yourself, just activate the MDANSE Python virtual environment
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in your batch scripts. On clusters using
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Progress bar
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~~~~~~~~~~~~
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Normally, when you are running a Python script with an MDANSE analysis, it will
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display a progress bar. As cluster jobs are not interactive, the progress bar
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Normally, when you are running a Python script with an MDANSE analysis
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and `tqdm` is available (possibly through installing the `cli` extra),
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it will attempt to display a progress bar.
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As cluster jobs are not interactive, the progress bar
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will be repeatedly written into the standard output and most likely saved
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in your log file. Depending on your preference, you may decide just to disable
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the progress bar in the run method:

Doc/pages/H_start.rst

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a specific computer, but should instead contain all the
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information needed to run a specific analysis type.
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Alternately, you can create the scripts using the CLI.
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Alternatively, you can create the scripts using the CLI.
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Examples of valid commands include
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.. code-block:: bash

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