Code

Add octave and matlab to run module#45

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SarahAlidoost merged 47 commits intomainEcoExtreML/STEMMUS_SCOPE_Processing:mainfrom add_octaveEcoExtreML/STEMMUS_SCOPE_Processing:add_octaveCopy head branch name to clipboardNov 14, 2022

+649-738

Commits

Commits on Oct 26, 2022

• add octave and matlab to run module

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Commits on Oct 27, 2022

• refactor the code, remove env from subprocess because it overrides the os env

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• add matlab and octave to the notebook

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• fix matlab command line

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• fix paths in the nb

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Commits on Oct 28, 2022

• fix octave command line

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• use oct2py instead of subprocess for octave

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• refactor command lines in run function

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• replace _configs with _config

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• change path to str for octave

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• run notebook with octave on crib

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• remove run_model_in_notebook_dev

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• run isort

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• fix pylint error

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• capture log from octave, fix pylint error

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• fix broken tests

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• add some tests for init function

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• fix tests of mocked_run_subprocess

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• add a test for matlab run

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• add draft test for octave

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Commits on Oct 31, 2022

• use subprocess instead of oct2py, use popen instead of run, add test for octave

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• remove unused import

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• disable pylint consider using with for popen

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• add python 3 m before pip install

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• add markdown to doc config

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• move credits to fisrt page of doc

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• update docs

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• merge two snellius bash script

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• fix check links

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• don't split long lines in docs for link checker

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• remove env file with python 3.8

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Commits on Nov 3, 2022

• replace double backslash for windows

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• replace eval_code with eval_command

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  6e32c89

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• refactor octave commands

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• replace _octave with _exe in tests

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• add decode to stdout

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• add a comment: use python instead of python3 for windows

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Commits on Nov 4, 2022

• fix octave commands

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• refactor matlab command

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• fix doc

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• join args using shlex for linux

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  4e5fa93

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• fix tests for new args

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• replace sub_process with interpreter

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• fix docstring

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• remove some of todo, add docstring and links to doc

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Commits on Nov 7, 2022

• Version pin netcdf4 to <=1.5.8

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• Update tests to account for Win FileNotFoundError

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