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[Feat/macs3/memory consumption] To address the memory usage issue of hmmratac #640

Merged
merged 19 commits into from
Apr 26, 2024
Merged

[Feat/macs3/memory consumption] To address the memory usage issue of hmmratac #640

merged 19 commits into from
Apr 26, 2024

Commits on Apr 10, 2024

  1. clean misc vars

    @philippadoherty
    philippadoherty committed Apr 10, 2024
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Commits on Apr 11, 2024

  1. include debugging comments, write vars then stop

    @philippadoherty
    philippadoherty committed Apr 11, 2024
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  2. try save_proba_to_bedGraph

    @philippadoherty
    philippadoherty committed Apr 11, 2024
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Commits on Apr 12, 2024

  1. read bytes

    @philippadoherty
    philippadoherty committed Apr 12, 2024
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  2. try saving to bedgraph

    @philippadoherty
    philippadoherty committed Apr 12, 2024
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  3. fix generate_states_path function

    @philippadoherty
    philippadoherty committed Apr 12, 2024
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  4. try again

    @philippadoherty
    philippadoherty committed Apr 12, 2024
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  5. change generate_states_path logic

    @philippadoherty
    philippadoherty committed Apr 12, 2024
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Commits on Apr 25, 2024

  1. fix bug while generating/saving stat path

    @taoliu
    taoliu committed Apr 25, 2024
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  2. fix bug while generating/saving stat path

    @taoliu
    taoliu committed Apr 25, 2024
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  3. fix bug at chromosome start

    @taoliu
    taoliu committed Apr 25, 2024
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Commits on Apr 26, 2024

  1. use a single tempfile to save/load the temporary data in binary mode

    @taoliu
    taoliu committed Apr 26, 2024
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  2. update standard output from hmmratac since prev results miss end-of-c… 

    …hromosome peaks
    @taoliu
    taoliu committed Apr 26, 2024
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  3. temp change predicted_proba_file def

    @philippadoherty
    philippadoherty committed Apr 26, 2024
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  4. correct chromosome name output in states.bed file

    @taoliu
    taoliu committed Apr 26, 2024
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  5. suppress debug info

    @taoliu
    taoliu committed Apr 26, 2024
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  6. output the correct number of candidate regions before decoding

    @taoliu
    taoliu committed Apr 26, 2024
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  7. Merge branch 'feat/macs3/memory_consumption' of https://github.com/ma… 

    …cs3-project/MACS into feat/macs3/memory_consumption
    @philippadoherty
    philippadoherty committed Apr 26, 2024
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  8. revert predicted_proba_file

    @philippadoherty
    philippadoherty committed Apr 26, 2024
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