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Refactoring code and storing configs #15

Merged
merged 12 commits into from
Oct 10, 2023
Merged

Refactoring code and storing configs #15

merged 12 commits into from
Oct 10, 2023

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GavinHuttley
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[NEW] provide sequences already compressed to this method
[CHANGED] renamed _to_bytes() to _str_to_bytes() and renamed
    _from_bytes() to _bytes_to_str()

[CHANGED] _compress and _decompress to public names compress_it,
    decompress_it

[CHANGED] the CompressedGenome.add_records() now calls the new
    add_compressed_records() method.
[CHANGED] now use the CompressedGenome class
[NEW] added _config.DOWNLOADED_CONFIG_NAME constant

[NEW] add Config.to_dict(), Config.write() methods. The latter
    uses the to_dict() method, and writes an ini file to
    self.staging_path / DOWNLOADED_CONFIG_NAME
[CHANGED] all modules containing db classes have db at end
    of filename and names start with _
@GavinHuttley GavinHuttley merged commit aa1cd71 into cogent3:develop Oct 10, 2023
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