consider adding/testing simple way to create an `args` object for use with `sourmash.commands` etc. #2684

ctb · 2023-07-24T13:53:50Z

ctb · 2023-07-25T21:48:52Z

code!

import sourmash
args = sourmash.cli.get_parser().parse_args(['plot', 'cmp'])

import sourmash.commands
sourmash.commands.plot(args)

so I guess the only simplification would be to provide a shorter version of sourmash.cli.get_parser().parse_args(...).

Fixes #2684 This PR adds a function that creates an `args` object for a particular sourmash command - so that you can do something like this: ```python import sourmash.commands, sourmash.cli # create args object: args = sourmash.cli.parse_args(['plot', 'cmp']) # run 'sourmash plot' sourmash.commands.plot(args) ``` For convenience, this PR also makes all of the `sourmash sig` functions available in Python via `sourmash.sig.<fn>`.

ctb mentioned this issue Jul 26, 2023

MRG: add a sourmash.cli.parse_args([...]) function #2691

Merged

luizirber closed this as completed in #2691 Aug 12, 2023

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consider adding/testing simple way to create an `args` object for use with `sourmash.commands` etc. #2684

consider adding/testing simple way to create an `args` object for use with `sourmash.commands` etc. #2684

ctb commented Jul 24, 2023

ctb commented Jul 25, 2023 •

edited

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consider adding/testing simple way to create an args object for use with sourmash.commands etc. #2684

consider adding/testing simple way to create an args object for use with sourmash.commands etc. #2684

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ctb commented Jul 24, 2023

ctb commented Jul 25, 2023 • edited Loading

consider adding/testing simple way to create an `args` object for use with `sourmash.commands` etc. #2684

consider adding/testing simple way to create an `args` object for use with `sourmash.commands` etc. #2684

ctb commented Jul 25, 2023 •

edited

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