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Refactor Strategus module approach #145

Merged
merged 40 commits into from
Jul 31, 2024
Merged

Refactor Strategus module approach #145

merged 40 commits into from
Jul 31, 2024

Commits on Jun 11, 2024

  1. burn it all down

    @anthonysena
    anthonysena committed Jun 11, 2024
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Commits on Jun 12, 2024

  1. Prelim interface and test harness

    @anthonysena
    anthonysena committed Jun 12, 2024
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Commits on Jun 28, 2024

  1. Use pre-release of CG

    @anthonysena
    anthonysena committed Jun 28, 2024
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  2. Seperate settings function into own class

    @anthonysena
    anthonysena committed Jun 28, 2024
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  3. Adding settings functions for CG

    @anthonysena
    anthonysena committed Jun 28, 2024
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Commits on Jul 1, 2024

  1. Modifying properties; adding results data model creation

    @anthonysena
    anthonysena committed Jul 1, 2024
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  2. Add CI module; remove tests

    @anthonysena
    anthonysena committed Jul 1, 2024
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Commits on Jul 2, 2024

  1. refactoring again

    @anthonysena
    anthonysena committed Jul 2, 2024
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  2. Adding basic logging; continue to remove other code

    @anthonysena
    anthonysena committed Jul 2, 2024
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  3. Basic upload and results viewing

    @anthonysena
    anthonysena committed Jul 2, 2024
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  4. Cleanup

    @anthonysena
    anthonysena committed Jul 2, 2024
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  5. Adding CohortMethod module

    @anthonysena
    anthonysena committed Jul 2, 2024
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  6. Handle DatabaseMetaData table creation and upload

    @anthonysena
    anthonysena committed Jul 2, 2024
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Commits on Jul 3, 2024

  1. Separate modules into own R files

    @anthonysena
    anthonysena committed Jul 3, 2024
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  2. Add CD Module

    @anthonysena
    anthonysena committed Jul 3, 2024
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  3. Add Characterization module (not working)

    @anthonysena
    anthonysena committed Jul 3, 2024
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  4. Add PLP Module (not working)

    @anthonysena
    anthonysena committed Jul 3, 2024
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  5. Add SCCS Module (working)

    @anthonysena
    anthonysena committed Jul 3, 2024
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  6. Adding EvidenceSynthesis module (not working)

    @anthonysena
    anthonysena committed Jul 3, 2024
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Commits on Jul 8, 2024

  1. Re-enable module-level logging

    @anthonysena
    anthonysena committed Jul 8, 2024
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  2. Add ES rdms to project; move database meta rdms

    @anthonysena
    anthonysena committed Jul 8, 2024
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  3. PLP Module fixes

    @anthonysena
    anthonysena committed Jul 8, 2024
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Commits on Jul 9, 2024

  1. Remove clearLoggers from Execution.R

    @anthonysena
    anthonysena committed Jul 9, 2024
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  2. Add context specific module settings functions

    @anthonysena
    anthonysena committed Jul 9, 2024
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  3. Settings for results data model creation

    @anthonysena
    anthonysena committed Jul 9, 2024
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Commits on Jul 10, 2024

  1. Add uploadResultsSettings and refactor

    @anthonysena
    anthonysena committed Jul 10, 2024
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  2. Update function documentation and address R CMD checks

    @anthonysena
    anthonysena committed Jul 10, 2024
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  3. Add Characterization module (working); fix bugs

    @anthonysena
    anthonysena committed Jul 10, 2024
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  4. # This is a combination of 5 commits. 

    # This is the 1st commit message:

Debugging

# This is the commit message #2:

Change CG declaration; remove 4.2.3 specific tests

# This is the commit message #3:

Fix typo

# This is the commit message #4:

Mod linux setup

# This is the commit message #5:

Remove branch identifier for CG
    @anthonysena
    anthonysena committed Jul 10, 2024
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  5. Change CG declaration; remove 4.2.3 specific tests 

    Fix ES upload bug
    @anthonysena
    anthonysena committed Jul 10, 2024
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Commits on Jul 12, 2024

  1. Add back unit tests; fix bugs

    @anthonysena
    anthonysena committed Jul 12, 2024
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  2. Removing stale documentation

    @anthonysena
    anthonysena committed Jul 12, 2024
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  3. Fix missing deps

    @anthonysena
    anthonysena committed Jul 12, 2024
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  4. Add CirceR

    @anthonysena
    anthonysena committed Jul 12, 2024
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Commits on Jul 15, 2024

  1. Remove logging from within modules

    @anthonysena
    anthonysena committed Jul 15, 2024
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  2. Revise to use pre-release shiny viewer

    @anthonysena
    anthonysena committed Jul 15, 2024
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  3. Refactor settings for results management

    @anthonysena
    anthonysena committed Jul 15, 2024
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Commits on Jul 18, 2024

  1. Fix upload bug with Char module

    @anthonysena
    anthonysena committed Jul 18, 2024
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Commits on Jul 26, 2024

  1. Implementation of CohortIncidence module. (#147) 

    * Implementation of CohortIncidence module.
Fixed param typo in ResultDataModel.R

* Set runCheckAndFixCommands = TRUE to upload database_id properly.

* Added target_outcome_xref to results model.

* runCheckAndFixCommands = TRUE in DatabaseMetaData.R.
    @chrisknoll
    chrisknoll authored Jul 26, 2024
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  2. Adjustments from testing

    @anthonysena
    anthonysena committed Jul 26, 2024
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