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Update GitHub code to ensure everything is working #21

Merged
merged 79 commits into from
Nov 17, 2023
Merged

Update GitHub code to ensure everything is working #21

merged 79 commits into from
Nov 17, 2023

Commits on Aug 17, 2023

  1. Test commit

    @Jennit07
    Jennit07 committed Aug 17, 2023
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Commits on Sep 13, 2023

  1. Update simd file

    @Jennit07
    Jennit07 committed Sep 13, 2023
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Commits on Sep 21, 2023

  1. Update reporting period date

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  2. Update PHS methods function

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  3. Create a function for setting up the directory

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  4. Update phs methods function

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  5. Update PHS methods functions

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  6. Update PHS methods functions

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  7. Merge branch 'master' into Jen_T

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  8. Simplify function

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  9. Use mi_data_path function for writing files

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  10. New function for final data directory

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  11. Use function final_data_path

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  12. Set up function for collated file

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  13. Use collated_file_path() function

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  14. Remove whitespace

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  15. New function for outputting MI report

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  16. Remove old folder structure

    @Jennit07
    Jennit07 committed Sep 21, 2023
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  17. Use mi_output_path function

    @Jennit07
    Jennit07 committed Sep 21, 2023
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Commits on Sep 22, 2023

  1. Move directory functions to functions folder

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  2. remove unused code

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  3. Add option for including ijb table

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  4. update ifelse statement

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  5. update styles

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  6. update spacing

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  7. Add columns to table

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  8. Update notes/Add additional notes section

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  9. Update note for estimated diagnosis rates

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  10. Update date for latest finalised year

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  11. remove 'of' in text

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  12. Add additional notes in HB tabs

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  13. Update latest final year

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  14. Add additional notes - scotland tab

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  15. remove 'of' in text

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  16. Add IJB table in scotland tab 

    - Addition was by the advice of Jill Carson
    @Jennit07
    Jennit07 committed Sep 22, 2023
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  17. Update flextable_style function

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  18. Update Yaml and links

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  19. Update aberdeen city statement

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  20. update commentary text

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  21. Add calc variable for sorting descending

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  22. Add covid commentary text

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  23. Update dates

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  24. Add captioner to library

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  25. Update phs methods function

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  26. Update directory

    @Jennit07
    Jennit07 committed Sep 22, 2023
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  27. Include code for Aberdeen city

    @Jennit07
    Jennit07 committed Sep 22, 2023
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Commits on Sep 28, 2023

  1. Update styling

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  2. rename mi_output_path for publication directory

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  3. Use output_path

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  4. split out directory into new function

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  5. Rename mi_data_path to data_path

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  6. Use parameter names

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  7. Update basefile to use data_path

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  8. Use collated_file_path

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  9. Use data_path for writing basefile

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  10. Update set up functions

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  11. Create publication figures folder function

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  12. Create function for ac lookup

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  13. Use ac_lookup_path function

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  14. Use AC lookup for publication figures

    @Jennit07
    Jennit07 committed Sep 28, 2023
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  15. Use new function pub_figures_path

    @Jennit07
    Jennit07 committed Sep 28, 2023
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Commits on Nov 16, 2023

  1. remove test file

    @Jennit07
    Jennit07 committed Nov 16, 2023
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  2. Update last day in reporting period(30-09-23)

    @Jennit07
    Jennit07 committed Nov 16, 2023
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  3. Remove function create_report 

    This is not needed as this will be done in the YAML in phstemplates
    @Jennit07
    Jennit07 committed Nov 16, 2023
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  4. Update code to knit RMD file

    @Jennit07
    Jennit07 committed Nov 16, 2023
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Commits on Nov 17, 2023

  1. Add pub date to setup script

    @Jennit07
    Jennit07 committed Nov 17, 2023
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  2. Add notes and re-structure script

    @Jennit07
    Jennit07 committed Nov 17, 2023
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  3. Update exp diagnoses path

    @Jennit07
    Jennit07 committed Nov 17, 2023
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  4. Use updated file path functions

    @Jennit07
    Jennit07 committed Nov 17, 2023
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  5. Update footnotes - aberdeen city

    @Jennit07
    Jennit07 committed Nov 17, 2023
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  6. Update report rmd file for 2023 publication 

    The changes in this commit are working for the publication and are as close to what was published. Where necessary, manual adjustments were made.
    @Jennit07
    Jennit07 committed Nov 17, 2023
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  7. Update summary rmd file for 2023 publication 

    This version has been updated to use phs templates and works for producing the 2023 publication
    @Jennit07
    Jennit07 committed Nov 17, 2023
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  8. Remove reference files - on stats drive 

    The most updated version of this can be found in the outputs folder
    @Jennit07
    Jennit07 committed Nov 17, 2023
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  9. Update final file function

    @Jennit07
    Jennit07 committed Nov 17, 2023
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  10. Use exp_diagnoses_path

    @Jennit07
    Jennit07 committed Nov 17, 2023
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  11. Add package realxl to library

    @Jennit07
    Jennit07 committed Nov 17, 2023
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  12. Update file paths to point to new directory

    @Jennit07
    Jennit07 committed Nov 17, 2023
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  13. Remove missed comment

    @Jennit07
    Jennit07 committed Nov 17, 2023
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  14. Merge branch 'master' into Jen_T

    @Jennit07
    Jennit07 committed Nov 17, 2023
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