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base repository: FDA-ARGOS/data.argosdb
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base: v1.4
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head repository: FDA-ARGOS/data.argosdb
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compare: v1.5
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  • 20 commits
  • 52 files changed
  • 9 contributors

Commits on Jul 26, 2023

  1. Refactor to resolve #297, #322 to merge somne values from ngs qc file

    @kerchner
    kerchner committed Jul 26, 2023
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  2. fix code typo

    @kerchner
    kerchner committed Jul 26, 2023
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Commits on Jul 27, 2023

  1. Select only the first result when matching biosample id

    @kerchner
    kerchner committed Jul 27, 2023
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  2. Fixes #322, #297

    @kerchner
    kerchner committed Jul 27, 2023
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Commits on Jul 30, 2023

  1. Added infraspecific_name column, value from ngsQC_HIVE. Ref #322

    @kerchner
    kerchner committed Jul 30, 2023
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Commits on Jul 31, 2023

  1. Adds calculation of biosample_score. Fixes #322

    @kerchner
    kerchner committed Jul 31, 2023
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Commits on Aug 4, 2023

  1. Merge pull request #337 from FDA-ARGOS/t322-cols-from-ngsqc_HIVE 

    T322 cols from ngsqc hive - self-merging after discussion with @Jgergely11
    @kerchner
    kerchner authored Aug 4, 2023
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  2. Added Python requirements file for sra_sample_parser.txt

    @kerchner
    kerchner committed Aug 4, 2023
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Commits on Aug 7, 2023

  1. Add sra_sample.py 

    sra_sample.py was modified to become sra_sample_parser.py. The original utility of sra_sample.py is required to populate biosampleMeta_ncbi.tsv
    @Jgergely11 @HadleyKing
    Jgergely11 authored and HadleyKing committed Aug 7, 2023
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Commits on Aug 17, 2023

  1. Delete esummary_assembly.dtd

    @steph-sing
    steph-sing authored Aug 17, 2023
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Commits on Sep 22, 2023

  1. Resolves #296 - adds debug flag; when not set, cleans up files

    @kerchner @HadleyKing
    kerchner authored and HadleyKing committed Sep 22, 2023
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Commits on Oct 3, 2023

  1. Update DRM-scraper.py

    @penningtonea @HadleyKing
    penningtonea authored and HadleyKing committed Oct 3, 2023
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  2. Update sra_sample.py

    @Jgergely11 @HadleyKing
    Jgergely11 authored and HadleyKing committed Oct 3, 2023
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  3. building script to pipe data to HIVE3

    @HadleyKing
    keeneyjg authored and HadleyKing committed Oct 3, 2023
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  4. Create argosPuller.sh 

    Script to pull all of the data sets from data.argosdb.org (usage: ./argosPuller.sh <ver> where <ver> is the version to pull the data from (e.g. 1.51).
    @kee007ney @HadleyKing
    kee007ney authored and HadleyKing committed Oct 3, 2023
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  5. Finished second half of argosPuller.sh (push data to HIVE 3).

    @kee007ney @HadleyKing
    kee007ney authored and HadleyKing committed Oct 3, 2023
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  6. changing permissions

    @kee007ney @HadleyKing
    kee007ney authored and HadleyKing committed Oct 3, 2023
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  7. Finished script to pull data automatically from argosdb API and push … 

    …to HIVE 3 as part of data push process.
    @kee007ney @HadleyKing
    kee007ney authored and HadleyKing committed Oct 3, 2023
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  8. Add v1.5 test_files

    @HadleyKing
    HadleyKing committed Oct 3, 2023
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Commits on Nov 9, 2023

  1. Merge pull request #399 from FDA-ARGOS/v1.5 

    Add v1.5
    @cwoodside1278
    cwoodside1278 authored Nov 9, 2023
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