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test coverage 100% #13

Merged
merged 37 commits into from
Aug 21, 2020
Merged

test coverage 100% #13

merged 37 commits into from
Aug 21, 2020

Commits on Jul 20, 2020

  1. ref allele of "?" shouldn't validate

    @afrubin
    afrubin committed Jul 20, 2020
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  2. use abstract base classes

    @afrubin
    afrubin committed Jul 20, 2020
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Commits on Jul 21, 2020

  1. fix # pragma statements

    @afrubin
    afrubin committed Jul 21, 2020
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  2. test additional exceptions

    @afrubin
    afrubin committed Jul 21, 2020
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  3. remove deleted test cases

    @afrubin
    afrubin committed Jul 21, 2020
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  4. disable logging output for tests

    @afrubin
    afrubin committed Jul 21, 2020
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  5. couldn't figure out how to raise this in tests

    @afrubin
    afrubin committed Jul 21, 2020
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  6. add permission error mocks

    @afrubin
    afrubin committed Jul 21, 2020
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Commits on Jul 22, 2020

  1. black formatting

    @afrubin
    afrubin committed Jul 22, 2020
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  2. use base class temp directory

    @afrubin
    afrubin committed Jul 22, 2020
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  3. fix up imports

    @afrubin
    afrubin committed Jul 22, 2020
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  4. use fqfa sequence validation

    @afrubin
    afrubin committed Jul 22, 2020
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  5. parsers don't need to know variant format

    @afrubin
    afrubin committed Jul 22, 2020
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  6. check for support of noncoding datasets

    @afrubin
    afrubin committed Jul 22, 2020
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  7. remove unused import

    @afrubin
    afrubin committed Jul 22, 2020
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  8. always drop na inplace

    @afrubin
    afrubin committed Jul 22, 2020
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  9. remove self.bin from tests

    @afrubin
    afrubin committed Jul 22, 2020
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  10. black formatting

    @afrubin
    afrubin committed Jul 22, 2020
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  11. move tests out of module

    @afrubin
    afrubin committed Jul 22, 2020
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  12. use default temp location

    @afrubin
    afrubin committed Jul 22, 2020
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Commits on Jul 27, 2020

  1. drop removed modules

    @afrubin
    afrubin committed Jul 27, 2020
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  2. unused import

    @afrubin
    afrubin committed Jul 27, 2020
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Commits on Aug 19, 2020

  1. wrote generic hgvs uniqueness check

    @afrubin
    afrubin committed Aug 19, 2020
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Commits on Aug 21, 2020

  1. remove tests for zero-based protein variants 

    These variants were not being generated by any module code, since utilities.ProteinSubstitutionEvent generates one-based positions.
    @afrubin
    afrubin committed Aug 21, 2020
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  2. add coverage config file

    @afrubin
    afrubin committed Aug 21, 2020
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  3. update tests for hgvs uniqueness

    @afrubin
    afrubin committed Aug 21, 2020
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  4. fix typo

    @afrubin
    afrubin committed Aug 21, 2020
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  5. remove unnecessary check for special variants

    @afrubin
    afrubin committed Aug 21, 2020
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  6. unknown wild-type amino acid shouldn't validate

    @afrubin
    afrubin committed Aug 21, 2020
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  7. more test cleanup

    @afrubin
    afrubin committed Aug 21, 2020
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  8. linting and dead code removal

    @afrubin
    afrubin committed Aug 21, 2020
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  9. test using convert() method

    @afrubin
    afrubin committed Aug 21, 2020
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  10. full test coverage for enrich and empiric

    @afrubin
    afrubin committed Aug 21, 2020
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  11. add tests and fix edge case with special variants

    @afrubin
    afrubin committed Aug 21, 2020
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  12. split huge parsing test into a new file

    @afrubin
    afrubin committed Aug 21, 2020
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  13. full test coverage but enrich2 tsv needs work

    @afrubin
    afrubin committed Aug 21, 2020
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  14. Merge branch 'main' into test-coverage

    @afrubin
    afrubin committed Aug 21, 2020
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