https://github.com/jborrow/run-from-spreadsheet

Generate a set of SWIFT parameter files and submission scripts from a spreadsheet
https://github.com/jborrow/run-from-spreadsheet

Last synced: 3 months ago
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Generate a set of SWIFT parameter files and submission scripts from a spreadsheet

• Host: GitHub
• URL: https://github.com/jborrow/run-from-spreadsheet
• Owner: JBorrow
• Created: 2020-06-04T09:00:13.000Z (almost 5 years ago)
• Default Branch: master
• Last Pushed: 2020-06-06T09:02:29.000Z (almost 5 years ago)
• Last Synced: 2024-12-27T06:41:30.289Z (5 months ago)
• Language: Python
• Size: 16.6 KB
• Stars: 0
• Watchers: 3
• Forks: 1
• Open Issues: 0
• Metadata Files:
  • Readme: README.md

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README

        
Generates runs based on a spreadshseet provided, with

individual directories.

The spreadsheet should be organised as follows:

Run ID | EagleSection:Param | EagleSection:Param2 | ... | Comment

-------|--------------------|---------------------|-----|----------

Hello  |        0.1         |          0.2        | ... | Good run!

...    |        ...         |          ...        | ... |   ...

This will then generate directories for each of the Run IDs,

changing the selected parameters to the new values based on a

'base' parameter file.

You can also generate submission scripts, with a template

that uses the following special parameters

+ `$SWIFT_PATH` - the path to the SWIFT executable

+ `$RUN_ID` - ID for the run

+ `$PARAMETER_FILE` - the parameter file name

Don't forget to change the directory paths in your

parameter file to include a relative change to one directory

higher (e.g. `../output_list.txt`).

Finally, you can create a submission script to run VELOCIraptor on your

outputs in postprocessing by using the `create_vr_slurm_scripts.py` file.

Note that this assumes that you run it from the same directory as the others

(i.e. one above the `Run ID` directories that `create_parameter_files.py`

created).