Chewbbaca

Latest version: v3.3.10

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2.5.6

- Fixed BLAST version detection. BLAST versions greater than 2.9 (e.g.: 2.10) were not correctly detected. Thanks to [Eric DEVEAUD](https://github.com/EricDeveaud) for creating a pull request with a fix for this issue!
- Fixed issue that would lead to error when users provided a file with the list of genes to the AlleleCall process
- Added function that uses the subprocess module to run BLAST and capture warnings raised during normal execution of BLAST >= 2.10.

2.5.5

- Removed Bio.Alphabet imports and generic_dna mentions. New version of the BioPython package was not compatible with the way chewBBACA was using those features.

2.5.4

- Corrected problem related with versioning inconsistencies that would lead to errors during validation steps.

2.5.3

- Organized argparsing for several processes and fixed argparsing issues introduced in version 2.5.0 for the `TestGenomeQuality`, `SchemaEvaluator` and `UniprotFinder` processes.

2.5.2

- Removed overconservative constraints leading to compatibility issues between different chewBBACA versions.
- Implemented check to verify if Users have authorization to submit novel alleles during the SyncSchema process.
- Corrected argparsing for the `RemoveGenes` process.
- Corrected issue that would not let Users properly Sync Tutorial schemas.

2.5.1

- Chewie verifies if Chewie-NS instance is available before starting processes.
- SyncSchema gets Chewie-NS base URL from configuration file.
- Schemas can be created without a Prodigal training file and without a size threshold value.
- LoadSchema and SyncSchema processes display info about loci and allele insertion progress.
- Corrected bug leading to errors during the AlleleCall process. Schema adaptation during the SyncSchema process may change loci representatives and pre-computed BSR values would become outdated.
- Corrected bug leading to error during the update of allelic profiles if new allele identifiers contained '*'.

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