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Issue151 use json for genome status file #157

Merged
merged 15 commits into from
Jul 6, 2023
Merged

Issue151 use json for genome status file #157

merged 15 commits into from
Jul 6, 2023

Commits on Jul 4, 2023

  1. re-format code

    @CunliangGeng
    CunliangGeng committed Jul 4, 2023
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  2. remove deprecated methods and unused varaibles

    @CunliangGeng
    CunliangGeng committed Jul 4, 2023
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  3. refactor class GenomeStatus

    @CunliangGeng
    CunliangGeng committed Jul 4, 2023
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  4. remove private method _get_genome_status_log 

    instead you can use GenomeStatus.load_from_json.
    @CunliangGeng
    CunliangGeng committed Jul 4, 2023
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  5. update GenomeStatus usage in podp antismash downloader

    @CunliangGeng
    CunliangGeng committed Jul 4, 2023
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  6. Update __init__.py

    @CunliangGeng
    CunliangGeng committed Jul 4, 2023
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  7. update GenomeStatus attribute names in tests

    @CunliangGeng
    CunliangGeng committed Jul 4, 2023
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  8. remove tests for old GenomeStatus class

    @CunliangGeng
    CunliangGeng committed Jul 4, 2023
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  9. fix GenomeUsage usage in tests

    @CunliangGeng
    CunliangGeng committed Jul 4, 2023
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  10. add unit tests for GenomeStatus class

    @CunliangGeng
    CunliangGeng committed Jul 4, 2023
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Commits on Jul 5, 2023

  1. rename method load_from_json to read_json

    @CunliangGeng
    CunliangGeng committed Jul 5, 2023
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  2. rename method save_to_json to to_json

    @CunliangGeng
    CunliangGeng committed Jul 5, 2023
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  3. change parameter output_dir to file for to_json method

    @CunliangGeng
    CunliangGeng committed Jul 5, 2023
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  4. enable to_json return string when output file is None

    @CunliangGeng
    CunliangGeng committed Jul 5, 2023
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Commits on Jul 6, 2023

  1. fix refseq id None

    @CunliangGeng
    CunliangGeng committed Jul 6, 2023
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