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Get staging up to date #570

Merged
merged 151 commits into from
Oct 6, 2022
Merged

Get staging up to date #570

merged 151 commits into from
Oct 6, 2022

Commits on Sep 30, 2021

  1. Revert "updating templates_to_edit image" 

    This reverts commit f95a790.

forgot I was on main#
    @carriewright11
    carriewright11 committed Sep 30, 2021
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  2. Revert "updating issue pics" 

    This reverts commit fbc1c3e.

forgot I was on main
    @carriewright11
    carriewright11 committed Sep 30, 2021
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Commits on Oct 20, 2021

  1. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

pulling new changes
    @carriewright11
    carriewright11 committed Oct 20, 2021
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Commits on Nov 1, 2021

  1. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

getting remote changes
    @carriewright11
    carriewright11 committed Nov 1, 2021
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Commits on Nov 3, 2021

  1. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

merging in remote changes
    @carriewright11
    carriewright11 committed Nov 3, 2021
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Commits on Nov 16, 2021

  1. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

getting remote changes
    @carriewright11
    carriewright11 committed Nov 16, 2021
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Commits on Dec 7, 2021

  1. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

getting remote changes
    @carriewright11
    carriewright11 committed Dec 7, 2021
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Commits on Dec 13, 2021

  1. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

getting remote changes
    @carriewright11
    carriewright11 committed Dec 13, 2021
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Commits on Jan 12, 2022

  1. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

getting remote changes - conflicted with out-of-date style files
    @carriewright11
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  2. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

getting remote changes
    @carriewright11
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Commits on Jan 20, 2022

  1. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

getting remote changes
    @carriewright11
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Commits on Mar 2, 2022

  1. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

getting remote changes
    @carriewright11
    carriewright11 committed Mar 2, 2022
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Commits on Mar 21, 2022

  1. Add report-maker.yml here. (#512) 

    * delete report.maker.yml

* Add report-maker.yml here
    @cansavvy
    cansavvy authored Mar 21, 2022
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  2. Need to add + 1 because the column names don't count

    @cansavvy
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  3. change strategy for declaring error_min

    @cansavvy
    cansavvy committed Mar 21, 2022
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  4. Try to fix syntax around inputs.error_min

    @cansavvy
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  5. Try this

    @cansavvy
    cansavvy committed Mar 21, 2022
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  6. Update report-maker.yml

    @cansavvy
    cansavvy committed Mar 21, 2022
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  7. substract 1

    @cansavvy
    cansavvy committed Mar 21, 2022
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  8. Forgot to delete old attempt

    @cansavvy
    cansavvy committed Mar 21, 2022
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  9. Try to fix chk_results declarations

    @cansavvy
    cansavvy committed Mar 21, 2022
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  10. Get rid of straggling quote

    @cansavvy
    cansavvy committed Mar 21, 2022
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  11. Print out error number

    @cansavvy
    cansavvy committed Mar 21, 2022
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  12. Fix reports

    @cansavvy
    cansavvy committed Mar 21, 2022
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  13. Set version

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Commits on Mar 22, 2022

  1. specify git_path

    @cansavvy
    cansavvy committed Mar 22, 2022
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  2. Fix file path

    @cansavvy
    cansavvy committed Mar 22, 2022
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  3. Try copying over?

    @cansavvy
    cansavvy committed Mar 22, 2022
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  4. ls workspace

    @cansavvy
    cansavvy committed Mar 22, 2022
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  5. Nope that didn't work

    @cansavvy
    cansavvy committed Mar 22, 2022
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  6. Set version

    @cansavvy
    cansavvy committed Mar 22, 2022
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  7. Change version

    @cansavvy
    cansavvy committed Mar 22, 2022
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  8. Check all the urls

    @cansavvy
    cansavvy committed Mar 22, 2022
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  9. Don't need to specify git_path

    @cansavvy
    cansavvy committed Mar 22, 2022
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  10. force pass true

    @cansavvy
    cansavvy committed Mar 22, 2022
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  11. exclude docs and manuscript folder

    @cansavvy
    cansavvy committed Mar 22, 2022
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  12. exclude files

    @cansavvy
    cansavvy committed Mar 22, 2022
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  13. try to add Rmd

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  14. Write our own url-checking script and get away from using url-checker… 

    …-actions (#515)

* Add url-checker to docker image

* Add url-check.R adds!

* Revert "Add url-checker to docker image "

This reverts commit fe5c7ed.
    @cansavvy
    cansavvy authored Mar 22, 2022
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  15. Update report-maker.yml

    @cansavvy
    cansavvy authored Mar 22, 2022
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Commits on Mar 24, 2022

  1. Add course formats bullet point template (#516) 

    * Add course formats bullet points to template

* Also add ottrpal to dictionary.txt
    @cansavvy
    cansavvy authored Mar 24, 2022
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  2. Render bookdown

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    jhudsl-robot committed Mar 24, 2022
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Commits on Apr 1, 2022

  1. Update scripts so url check is fixed (#518) 

    * Update scripts

* try to fix url checker

* Add a broken url as a test

* rearrange steps

* get rid of -1

* get rid of extra stuff

* Fix results Thing

* Fix file path

* .csv -> .tsv

* Revert "Add a broken url as a test"

This reverts commit 973453f.
    @cansavvy
    cansavvy authored Apr 1, 2022
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  2. Add files via upload

    @cansavvy
    cansavvy authored Apr 1, 2022
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  3. Add ability to ignore a url in the url checker (#520) 

    * Try to ignore some urls

* If there's not a file, then download it

* Fix some things

* Test deleting the files

* Revert "Test deleting the files"

This reverts commit b8707f0.
    @cansavvy
    cansavvy authored Apr 1, 2022
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  4. Delete report-maker.yml

    @cansavvy
    cansavvy authored Apr 1, 2022
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  5. Fix false URL finds

    @cansavvy
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  6. Fix false URL finds (#521)

    @cansavvy
    cansavvy authored Apr 1, 2022
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  7. Update ignore-urls.txt

    @cansavvy
    cansavvy authored Apr 1, 2022
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  8. Update url-check.R

    @cansavvy
    cansavvy authored Apr 1, 2022
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  9. Try to fix url identifier

    @cansavvy
    cansavvy committed Apr 1, 2022
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  10. More polishing to url-check.R

    @cansavvy
    cansavvy committed Apr 1, 2022
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  11. Polishing polishing

    @cansavvy
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  12. Merge branch 'main' into cansavvy/minor-fix

    @cansavvy
    cansavvy authored Apr 1, 2022
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  13. A few more regex refinings

    @cansavvy
    cansavvy committed Apr 1, 2022
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  14. Update sync.yml (#522)

    @cansavvy
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Commits on Apr 4, 2022

  1. Polishing url-check.R (#523) 

    * Fix false URL finds

* Try to fix url identifier

* More polishing to url-check.R

* Polishing polishing

* A few more regex refinings
    @cansavvy
    cansavvy authored Apr 4, 2022
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  2. Update to stop url at }

    @cansavvy
    cansavvy committed Apr 4, 2022
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  3. Merge branch 'cansavvy/minor-fix' into main

    @cansavvy
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Commits on Apr 5, 2022

  1. Fix }

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  2. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

getting remote changes
    @carriewright11
    carriewright11 committed Apr 5, 2022
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  3. Boxes (#524) 

    * Revert "updating templates_to_edit image"

This reverts commit f95a790.

forgot I was on main#

* Revert "updating issue pics"

This reverts commit fbc1c3e.

forgot I was on main

* adding ITN style code for boxes

* adding images and general style code for boxes

* showing examples of style boxes
    @carriewright11
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  4. Render bookdown

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Commits on Apr 6, 2022

  1. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

getting remote changes
    @carriewright11
    carriewright11 committed Apr 6, 2022
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  2. Boxes (#525) 

    * Revert "updating templates_to_edit image"

This reverts commit f95a790.

forgot I was on main#

* Revert "updating issue pics"

This reverts commit fbc1c3e.

forgot I was on main

* adding ITN style code for boxes

* adding images and general style code for boxes

* showing examples of style boxes

* moving images from assets to subdir called box_images to allow for easy sync of these images

* forgot about dictionary image

* updating paths for style.css file for general template use

* updating paths for itn style doc

* adding asset box image dir to sync

* add boxes to GDSCN css code

* adding boxes to AnVIL css code

* adding boxes to DataTrail css
    @carriewright11
    carriewright11 authored Apr 6, 2022
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  3. Render bookdown

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    jhudsl-robot committed Apr 6, 2022
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Commits on Apr 7, 2022

  1. make AnVIL_Template group in sync.yml

    @KatherineCox
    KatherineCox committed Apr 7, 2022
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  2. Revert "make AnVIL_Template group in sync.yml" 

    This reverts commit 4490781.
    @KatherineCox
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Commits on Apr 11, 2022

  1. make an AnVIL_Template group in sync.yml (#527)

    @KatherineCox
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Commits on Apr 12, 2022

  1. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

getting remote changes
    @carriewright11
    carriewright11 committed Apr 12, 2022
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Commits on Apr 13, 2022

  1. Boxes (#529) 

    * Revert "updating templates_to_edit image"

This reverts commit f95a790.

forgot I was on main#

* Revert "updating issue pics"

This reverts commit fbc1c3e.

forgot I was on main

* adding ITN style code for boxes

* adding images and general style code for boxes

* showing examples of style boxes

* moving images from assets to subdir called box_images to allow for easy sync of these images

* forgot about dictionary image

* updating paths for style.css file for general template use

* updating paths for itn style doc

* adding asset box image dir to sync

* add boxes to GDSCN css code

* adding boxes to AnVIL css code

* adding boxes to DataTrail css

* adding initial version of reflection box

* adding reflection box to other style sets
    @carriewright11
    carriewright11 authored Apr 13, 2022
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  2. Update sync.yml (#526) 

    * Update sync.yml

* Edit Credits section
    @cansavvy
    cansavvy authored Apr 13, 2022
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  3. Render bookdown

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  4. Merge branch 'main' of https://github.com/jhudsl/OTTR_Template into main

    @jhudsl-robot
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  5. Render bookdown

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  6. Merge branch 'main' of https://github.com/jhudsl/OTTR_Template into main

    @jhudsl-robot
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Commits on Apr 14, 2022

  1. Update sync.yml (#530)

    @cansavvy
    cansavvy authored Apr 14, 2022
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Commits on May 11, 2022

  1. Update sync list for AnVIL_Template (#538) 

    Subscribing to `style.css` so we can get updates like those nice new style boxes!
    @KatherineCox
    KatherineCox authored May 11, 2022
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Commits on May 16, 2022

  1. Branches sometimes overwrite each other - trying to fix (#537) 

    * Try to update the git push

* Add broken urls and spelling errors

* This appears to work better

* Revert "Add broken urls and spelling errors"

This reverts commit b4b49e6.
    @cansavvy
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  2. clean and consolidate styling for callout boxes (#541) 

    * clean and consolidate styling for callout boxes

* remove old style boxes entirely
    @KatherineCox
    KatherineCox authored May 16, 2022
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  3. Render bookdown

    @jhudsl-robot
    jhudsl-robot committed May 16, 2022
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  4. Update transfer-rendered-files.yml - specify docker image (#542) 

    * Try to update the git push

* Add broken urls and spelling errors

* This appears to work better

* Update transfer-rendered-files.yml

* Revert "Add broken urls and spelling errors"

This reverts commit b4b49e6.

* Update to ottrpal:latest to test

* temporarily turn on leanpub

* forgot the jhudsl/ part

* Don't specify latest

* Fix spec

* Switch to main
    @cansavvy
    cansavvy authored May 16, 2022
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  5. restore default options

    @cansavvy
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  6. Merge branch 'main' of https://github.com/jhudsl/DaSL_Course_Template… 

    …_Bookdown into main

getting remote changes
    @carriewright11
    carriewright11 committed May 16, 2022
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  7. fixing rendering of rest of ch 2

    @carriewright11
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  8. adding more inform about header sytax and syntax in general, as well … 

    …as more about stylized boxes.
    @carriewright11
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  9. adding back the borders to the boxes that got removed

    @carriewright11
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  10. trying to add back doc file

    @carriewright11
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  11. trying to add back doc file

    @carriewright11
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  12. trying to add back doc files

    @carriewright11
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  13. trying to add back doc files for docs/coursera

    @carriewright11
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  14. trying to add back doc files for docs/no_toc

    @carriewright11
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  15. trying to add back doc files for docs/404.html

    @carriewright11
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  16. trying to add back doc files for docs/

    @carriewright11
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  17. trying to add back doc files for Course_Name.rds

    @carriewright11
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  18. trying to add back doc files for book.bib

    @carriewright11
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  19. updating spelling

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  20. adding more structure for subheadings and more information

    @carriewright11
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  21. adding more documentation and updating pdf example

    @carriewright11
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  22. updating readme to include rendered version

    @carriewright11
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  23. adding rendered link

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Commits on May 26, 2022

  1. Merge pull request #544 from jhudsl/style_doc 

    Style documentation update for boxes
    @carriewright11
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  2. Render bookdown

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Commits on Jun 9, 2022

  1. Add styler to render all workflow

    @avahoffman
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Commits on Jun 10, 2022

  1. Revert "Add styler to render all workflow" 

    This reverts commit e24bf2d.
    @avahoffman
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Commits on Jun 13, 2022

  1. Update ignore-urls.txt

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Commits on Jun 14, 2022

  1. Add git config to address no commit

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  2. Add ugly code to test

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  3. Add explicit git checkout

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  4. Add branch name for origin

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Commits on Jun 15, 2022

  1. Try this

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  2. Fix branch declaration

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  3. Fix that

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  4. Try REF_NAME

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  5. head_ref

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  6. Style Rmds

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  7. Add styler to render all workflow (#546)

    @avahoffman
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Commits on Jul 18, 2022

  1. Add notes to one figure

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  2. Update README.md

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  3. Add ottr-fy.R script

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  4. Update README.md

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  5. Update README.md

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  6. Add latest ottr-fy.R script

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  7. Merge remote-tracking branch 'origin/main' into main

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Commits on Jul 19, 2022

  1. Update with bookdown option

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Commits on Aug 9, 2022

  1. Bump create-issue-from-file action (#552)

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Commits on Aug 13, 2022

  1. Delete style-sets/AnVIL directory (#553)

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  2. Render bookdown

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Commits on Aug 15, 2022

  1. Remove AnVIL repos from sync

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Commits on Aug 16, 2022

  1. Merge pull request #555 from jhudsl/ava/update-anvil-repo-sync 

    Remove AnVIL repos from sync
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Commits on Aug 17, 2022

  1. Update sync.yml (#554)

    @KatherineCox
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Commits on Aug 19, 2022

  1. Create super bare bones theme for fhdasl stuff

    @avahoffman
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  2. Remove fhdasl_style from path

    @avahoffman
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Commits on Aug 24, 2022

  1. Add things to dictionary

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Commits on Aug 31, 2022

  1. remove GDSCN style-set

    @KatherineCox
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Commits on Sep 1, 2022

  1. Merge pull request #560 from jhudsl/remove-GDSCN-style 

    remove GDSCN style-set
    @KatherineCox
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  2. Render bookdown

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Commits on Sep 7, 2022

  1. Merge pull request #556 from jhudsl/fhdsl-theme

    @avahoffman
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  2. Render bookdown

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Commits on Sep 8, 2022

  1. Get rid of archive of spelling results

    @cansavvy
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Commits on Sep 9, 2022

  1. Add docker-test here

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  2. Delete the docker files here 

    because they are managed in ottr-docker
    @cansavvy
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Commits on Sep 26, 2022

  1. Get 404s properly (#564) 

    * Get 404s

* Restore to failed/success so downstream works

* Need some more logic

* Minor fix

* SHouldn't have https://jhudatascience.org/{Course_Name} anymore anyway
    @cansavvy
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Commits on Oct 4, 2022

  1. Add pull-request.yml to use report-maker.yml here (#513) 

    * Update Staging branch with what's in main (#438)

* Return to pre-gist method of spell check (#409)

* Return to pre-gist method of spell check

* Get rid of gist stuff on delete-preview too

* Temporarily add spelling errors to test

* Commit before testing

* Switch to use -z

* Fix git diff step

* Just look at the local main since it should be up to date

* make it simple

* Get rid of double bracket

* No brackets?

* Revert "Temporarily add spelling errors to test"

This reverts commit 9e9a932.

* Update screenshot for new repo (#410)

* Update template button screenshot (#411)

* Update screenshot for new repo

* Update template button too

* See if `fetch-depth: 0` fixes the shallow problem (#412)

* Update screenshot for new repo

* Update template button too

* fetch it all

* Switch to devtools::session_info()

* Render bookdown

* Update screenshot for git-secret.png (#414)

* Update screenshot for git-secret.png

* Crop off irrelevant git secrets

* syntax updates

* Needed a semicolon

* Fix branch handling

* Update spell check set up

* Update main

* add brackets

* set shell intentionally

* fix if statements

* Create PR if it can't push directly

* Make sure it merges

* Alter branch test

* quote the 0?

* switch to -z

* Delete extra then

* This should work

* Change to preview- again whoops

* Add a push step

* Update starting course

* set upstream

* Set to bash intentionally (#419)

* set to bash

* Update

* no workflow dispatch

* Test leanpub from here (#420)

* Test leanpub from here

* Update comments

* Add check quizzes too

* Couple edits

* Shut them off for now

* Update comments

* Render leanpub

* Minor polishing of steps (#421)

* Test leanpub from here

* Update comments

* Add check quizzes too

* Couple edits

* Shut them off for now

* Update comments

* Note which places needed to be uncommented

* Just making the step clearer

* Add a git fetch

* Add quizzes to spell check

* Update README.md

* Render leanpub

* Add new repository to sync

* Polish Examples in Rmds (#426)

* Echo false in examples

* Updating wiki

* Render bookdown

* Render bookdown (#427)

* Prep for ottr rename (#428)

* Render bookdown

* Make docker unfail (#431)

* Make docker not fail

* Add Dockerfile example

* Get rid of extra line

* Skip build for this test

* comment out push part too for this test

* undo test Dockerfile

* Render bookdown

* Try out screenshot creator as a part of the new Leanpub set up  (#422)

* Try out screenshot creator

* Fix spacing

* Get rid of typo

* fix argument spec

* Fix git pat handling

* Add copy over assets step

* Try this

* Try installing just the packages we need

* Add install of remotes

* Try using devtools instead

* try set environ

* Try to install R first

* Add prereqs

* Try rocker r-base

* Put installations in script

* Try different strategy

* Switch to tidyverse

* Make directory in bash

* I guess I'm making this its own docker image

* This isn't working but I want it in case I come back to it

* Switch to wkhtmltopdf

* Lets' try it

* Trying leanbuild steps on their own dockerfile

* Test build of leanbuild docker image

* Try out webshot r package

* fix file path to script

* Oh. Actually fix it

* Try installing webshot::install_phantomjs

* Try installing phantomjs on its own first

* Set this up

* Build from jhudsl/course_template

* Switch back to main dockerfile

* assets problem

* It works!

* Revert "assets problem"

This reverts commit 2aada9b.

* Add markdown maker basics

* Push this version before I delete things

* Clean up

* Delete the pdfs

* Reconfig with latest ottr package changes

* Turn on render again

* Add PR instead

* Move copying step

* Add an :: that was missing

* Fix arguments for getting pages url

* misplaced quotes

* Add make_book_txt = TRUE

* It's working! Undo the commenting part

* Set base to main

* Revert "It's working! Undo the commenting part"

This reverts commit 92e5081.

* rm manuscript folder

* Just commit to main

* Delete old manuscript files

* Copy over assets

* Render bookdown

* Remove manuscript if it is there

* Set group and user id to get rid of permissions probs

* Forgot \ 's

* Render bookdown

* Make it force push

* only force manuscript dir

* Render Leanpub

* Render Leanpub

* Render Leanpub

* Add to transfer PRs

* Delete manuscript folder

* Add to sync.yml

* Render Leanpub

* Remove _Template bit

* Add coursera bit and _Quizzes

* Clean out manuscript folder when starting new course

* Make transfers go to the right folder

* add /

* Update sync.yml with OTTR_Template_Website (#437)

Co-authored-by: jhudsl-robot <itcrtrainingnetwork@gmail.com>

Co-authored-by: GitHub Actions <actions@github.com>
Co-authored-by: jhudsl-robot <97678365+jhudsl-robot@users.noreply.github.com>
Co-authored-by: Tiffany Miller <tiffanym@broadinstitute.org>
Co-authored-by: jhudsl-robot <itcrtrainingnetwork@gmail.com>

* Delete packages.bib

* Minor edits to index.Rmd

* Delete extraneous files

* Consolidate and config a pull request GHA  (#448)

* Create config_automation.yml

* Update style-and-sp-check.yml

* Update the filename 😑

* Checking dependency

* Update style-and-sp-check.yml

* Testing that file is carried over

* Add toggle to second check

* Change config to test

* Test removal of some extra text

* Change config to test (again)

* Update config_automation.yml

* What does the output look like with more checks added?

* Fix spacing

* Forgot "steps:"

* BIG YAML

* Get rid of other ones

* Fix names

* Add needs

* Try adding docker to it

* Fix syntax

* Gotta check it out first

* Extra "if" lying around

* Set logically differently

* Testing change

* Add Ava's suggestions!

Co-authored-by: AM Hoffman <avamariehoffman@gmail.com>

* Consolidate and config a rendering GHA  (#449)

* Create config_automation.yml

* Update style-and-sp-check.yml

* Update the filename 😑

* Checking dependency

* Update style-and-sp-check.yml

* Testing that file is carried over

* Add toggle to second check

* Change config to test

* Test removal of some extra text

* Change config to test (again)

* Update config_automation.yml

* What does the output look like with more checks added?

* Fix spacing

* Forgot "steps:"

* BIG YAML

* Get rid of other ones

* Fix names

* Add needs

* Try adding docker to it

* Make a render-all yaml

* Fix syntax

* Gotta check it out first

* Extra "if" lying around

* Set logically differently

* Echo no branch to delete if there is none to delete

* Update sync.yml

* fix syntax

* Fix name of render-all

* Add names

Co-authored-by: AM Hoffman <avamariehoffman@gmail.com>

* Update pull-request.yml to use report-maker.yml

* Need to add + 1 because the column names don't count

* Turn on quiz check for testing

* Add comment

* Try out different syntax for + 1

* Add errors to test

* Add a quiz error

* Add url error

* Make quiz error

* Add question error

* Add URL

* Switch version of url-checker

* Add url-checker to docker image

* Add url-check.R adds!

* Update report-maker.yml

* fix script

* Get rid of fake errors

* Revert "Add question error"

This reverts commit dc411cb.

* Fix quiz

* Add a correct answer

* Stop checking quizzes

* Try out new github action

* Fix indents

* Try this out?

* Fix comments

* git force --add

* Updates

* Get rid of secrets:

* Try ottr-reports set up

* Get rid of secrets.

* Test secrets.GH_PAT

* Ignore checks for testing purposes

* Try secrets.GH_PAT again

* Try supplying secret through environment

* Switch order of steps

* Try somewhere else

* use ls- R again

* Try again

* Re-run without script directory perl thing

* Try $GITHUB_WORKSPACE

* Maybe we need to check out files in report_maker

* Use basename

* Try to fix syntax

* Name output variable in earlier step

* Declare report name

* Add error URL

* Fix error url

* Drop quotes and {}

* echo it maybe

* add more explicit variable declaration

* Drop brackets

* no quotes

* Try to fix quotes

* Try quotes

* Try `contains()`

* Commit reports to the branch

* Try to supply token

* add secrets designation

* Use V3 checkout

* switch gh_pat designation

* login as jhudsl-robot

* Move the steps:

* No login

* Specify GH_PAT

* Try this instead

* Try environment thing

* Revert "Try environment thing"

This reverts commit ac469b8.

* Don't set inputs.gh_pat

* set git config

* Try to fix error 11

* Fix an inputs.gh_pat

* specify ref

* Adjust the logic

* git add adjust

* Add errors to check that this is working

* Try again

* Calculate error number by hand

* Declare number of errors

* Try this instead

* Forgot a $

* Try to fix number thing

* Still trying to fix error count

* print out error numbers

* Add spelling errors

* Try to set up the error_num another way

* Print out error numbers

* Remove errors and see if this works

* Fix branch merge option

Co-authored-by: GitHub Actions <actions@github.com>
Co-authored-by: jhudsl-robot <97678365+jhudsl-robot@users.noreply.github.com>
Co-authored-by: Tiffany Miller <tiffanym@broadinstitute.org>
Co-authored-by: jhudsl-robot <itcrtrainingnetwork@gmail.com>
Co-authored-by: AM Hoffman <avamariehoffman@gmail.com>
    @cansavvy @actions-user
    @jhudsl-robot @tmm211 @avahoffman
    6 people authored Oct 4, 2022
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  2. Call report-maker.yml from here (#565) 

    * Call report-maker.yml from here

* Delete report-maker.yml from this repo
    @cansavvy
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Commits on Oct 6, 2022

  1. Update links in automatic issues (#567) 

    * Update links in automatic issue set-repo-settings

* remove duplicate GH_PAT

* update more links

* Update links in update-enrollment.md

* update templates-to-edit

* Update all refs to Wiki with new stuff

* Update link in .github/automatic-issues/templates-to-edit.md

* Update another link in .github/automatic-issues/set-repo-settings.md

* another link

* another link

Co-authored-by: Candace Savonen <cansav09@gmail.com>
    @KatherineCox @cansavvy
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  2. Render bookdown

    @jhudsl-robot
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  3. switch the name and refs of course_template to base_ottr (#569) 

    * switch to base_ottr

* Ad to config_automation.yml

* Replace all instances of "jhudsl/course_template" -> "jhudsl/base_ottr"
    @cansavvy
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  4. Render bookdown

    @jhudsl-robot
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  5. Merge branch 'staging' into main

    @cansavvy
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  6. Update sync.yml

    @cansavvy
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