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base repository: Java-CDS-club/java-4
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head repository: ncgr/java
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  • 17 commits
  • 27 files changed
  • 2 contributors

Commits on Jul 11, 2023

  1. Hand-rolled pinecone package because of change at Pinecone.

    Sam Hokin committed Jul 11, 2023
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Commits on Jul 17, 2023

  1. More diagnostic messages.

    Sam Hokin committed Jul 17, 2023
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Commits on Jul 19, 2023

  1. Show parsed attributes in error message.

    Sam Hokin committed Jul 19, 2023
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  2. Merge branch 'main' of https://github.com/ncgr/java

    Sam Hokin committed Jul 19, 2023
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Commits on Jul 31, 2023

  1. Added accession_group.

    Sam Hokin committed Jul 31, 2023
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Commits on Sep 6, 2023

  1. Tweakage.

    Sam Hokin committed Sep 6, 2023
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  2. Switch to individual vector upserts to catch errors.

    Sam Hokin committed Sep 6, 2023
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Commits on Sep 7, 2023

  1. Empty so remove.

    Sam Hokin committed Sep 7, 2023
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Commits on Oct 9, 2023

  1. Improved gene record Note and GO term logic. Yanked pathways.

    Sam Hokin committed Oct 9, 2023
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Commits on Nov 22, 2023

  1. Just a handy-dandy routine to get XML for a path query.

    Sam Hokin committed Nov 22, 2023
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  2. Warn, not error, on genes without notes up to 100 records.

    Sam Hokin committed Nov 22, 2023
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  3. Check that obo and trait file trait names are present in result file.

    Sam Hokin committed Nov 22, 2023
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  4. Some package updates.

    Sam Hokin committed Nov 22, 2023
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  5. Just a little minor rearrangement.

    Sam Hokin committed Nov 22, 2023
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Commits on Aug 15, 2024

  1. Delete temporary files after validation

    @svengato
    svengato committed Aug 15, 2024
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Commits on Aug 16, 2024

  1. Correctly delete temporary files after validation 

    (fixes syntax error in previous commit)
    @svengato
    svengato committed Aug 16, 2024
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Commits on Aug 25, 2024

  1. Add ability to set maxGenesWithoutNotes (default value = 100) on th… 

    …e command line

Example:
`./gradlew integrate --stacktrace -DmaxGenesWithoutNotes=42`

To specify no limit, use a negative value:
`./gradlew integrate --stacktrace -DmaxGenesWithoutNotes=-1`
    @svengato
    svengato committed Aug 25, 2024
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