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Healthchecks to datachecks #218

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merged 18 commits into from
Apr 8, 2020

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vinay-ebi
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Added new datachecks:

  • GeneDescription
  • XrefCigarLines
  • XrefVersion

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coveralls commented Mar 23, 2020

Pull Request Test Coverage Report for Build 1081

  • 0 of 0 changed or added relevant lines in 0 files are covered.
  • No unchanged relevant lines lost coverage.
  • Overall coverage remained the same at 98.017%

Totals Coverage Status
Change from base Build 1077: 0.0%
Covered Lines: 1829
Relevant Lines: 1866

💛 - Coveralls

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@james-monkeyshines james-monkeyshines left a comment

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This PR also includes the code from #216, so I haven't commented on those bits.

lib/Bio/EnsEMBL/DataCheck/Checks/GeneDescriptions.pm Outdated Show resolved Hide resolved
lib/Bio/EnsEMBL/DataCheck/Checks/HGNCTypes.pm Outdated Show resolved Hide resolved
lib/Bio/EnsEMBL/DataCheck/Checks/HGNCTypes.pm Outdated Show resolved Hide resolved
lib/Bio/EnsEMBL/DataCheck/Checks/HGNCTypes.pm Outdated Show resolved Hide resolved
lib/Bio/EnsEMBL/DataCheck/Checks/IdentityXrefCigarLines.pm Outdated Show resolved Hide resolved
lib/Bio/EnsEMBL/DataCheck/Checks/XrefVersions.pm Outdated Show resolved Hide resolved
lib/Bio/EnsEMBL/DataCheck/Checks/HGNCNumeric.pm Outdated Show resolved Hide resolved
lib/Bio/EnsEMBL/DataCheck/Checks/HGNCNumeric.pm Outdated Show resolved Hide resolved
@vinay-ebi vinay-ebi changed the base branch from master to release/101 April 2, 2020 10:22
James Allen added 4 commits April 8, 2020 12:51
…bles in metadata, datacheck description, and reformatted SQL for clarity.
…necessary query involves the object_xref table, which is species-centric. Updated set of tables in metadata, datacheck description, and reformatted SQL for clarity.
…e the same result with API calls, which is a lot clearer and easier to maintain. It takes longer, but we're talking seconds rather than milliseconds, so an acceptable price to pay for clarity.
@james-monkeyshines james-monkeyshines merged commit 79a8775 into release/101 Apr 8, 2020
@james-monkeyshines james-monkeyshines deleted the healthchecks_to_datachecks branch April 8, 2020 15:10
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3 participants