Changelog

Source: NEWS.md

redcapcustodian 1.27.0 (released 2024-12-11)

• Allow multiple EHR IDs in get_hipaa_disclosure_log_from_ehr_fhir_logs() (@pbchase, #173, #174)
• Include dependency setup in gh-action for tests (@saipavan10-git, #171)
• Improve logging for delete_project function (@saipavan10-git, #171)
• Use parameters in get_hipaa_disclosure_log_from_ehr_fhir_logs.R (@pbchase, @saipavan10-git #162)

redcapcustodian 1.26.2 (released 2024-11-20)

• Add new production status (@saipavan10-git, #168, #170)
• Add log event tables 10,11,12 (@saipavan10-git, #168, #170)

redcapcustodian 1.26.1 (released 2024-11-03)

• Use latest rstudio-ci in run-tests.yaml (@pbchase, #167)
• Address check errors (@pbchase, #167)
• remove log and output folder from study_template (@ljwoodley, #167)
• write log file to tempdir (@ljwoodley, #167)

redcapcustodian 1.26.0 (released 2024-10-30)

• Update Dockerfile to rocker/verse:4.4.1 (@pbchase)

redcapcustodian 1.25.0 (released 2024-10-24)

• Add report crash logging to render_report.R (@ljwoodley, #166)
• Update render_report.R to use render_report() function (@ljwoodley, #166)
• Add render_report() (@ljwoodley, #166)

redcapcustodian 1.24.0 (released 2024-10-17)

• Add job failure alerts with run_etl.R and updates to send_mail() (@ljwoodley, #100, #165)
• Add Sai as author in DESCRIPTION (@pbchase)
• Filter out deleted projects in scrape_user_api_tokens() (@pbchase, #163, #164)
• Move Roxygen2 to 7.3.2 (@pbchase)
• Add get_hipaa_disclosure_log_from_ehr_fhir_logs() (@pbchase, #158)
• Update run-tests.yaml to use rstudio-ci:4.3.3 (@pbchase)

redcapcustodian 1.23.0 (released 2024-06-13)

• Add project and instance to logging (@ljwoodley, @pbchase, #159, #160)

redcapcustodian 1.22.2 (released 2024-04-26)

• Restore ‘writexl’ to Dockerfile (@pbchase)

redcapcustodian 1.22.1 (released 2024-04-23)

• Update run-tests.yaml to use rstudio-ci:4.3.3 (@pbchase, #157)
• Switch send_mail() to use openxlsx (@ljwoodley, #152, #157)

redcapcustodian 1.22.0 (released 2024-03-26)

• Implement hacky fix for tlmgr 2023 being unable to install packages (@ChemiKyle, #156)
• Fix bug that prevented email_body from being included in email (@ljwoodley, @ChemiKyle, #155)
• Add ‘Scraping one user’s API tokens’ section to vignettes/credential-scraping.Rmd (@pbchase, @ChemiKyle, #154)
• Update scrape_user_api_tokens() to tidyselect 1.2 standards (@pbchase, #154)

redcapcustodian 1.21.0 (released 2024-03-15)

• Add attachment management to send_email() allowing lists of files or dataframes to be attached to an email (@ljwoodley, #152, #153)

redcapcustodian 1.20.0 (released 2024-02-28)

• Add get_redcap_credentials() (@ljwoodley, #149, #151)
• Revert “add redcap wrapper functions” (@ljwoodley, #149, #150)

redcapcustodian 1.19.0 (released 2024-01-30)

• Add REDCapR wrapper functions (@ljwoodley, #147, #148)

redcapcustodian 1.18.0 (released 2024-01-10)

• Update Dockerfile to verse:4.3.2 (@pbchase)

redcapcustodian 1.17.4 (released 2023-11-22)

• Turn off code chunks in job_logging.Rmd to fix pkgdown::deploy_to_branch() errors (@pbchase)

redcapcustodian 1.17.3 (released 2023-11-21)

• Fix 4 intermittent test failures caused by environment vars (@pbchase, #143)
• Fix error in test ‘init_etl properly sets script name, script run time, and initializes log connection’ (@pbchase, #143)
• Fix 11 warnings about dplyr::all_equal() in tests (@pbchase, #143)
• Address lots of pkgdown::build_site() complaints about garbage-collected connections (@pbchase, @ChemiKyle, #143)
• Address pkgdown::build_site() complaints about non-parsable code examples (@pbchase, @ChemiKyle, #104, #143)
• Update vignettes/job_logging.Rmd to fix build errors (@pbchase, #143)

redcapcustodian 1.17.2 (released 2023-11-17)

• Update vignettes/job_logging.Rmd to fix build errors (@pbchase, #142)

redcapcustodian 1.17.1 (released 2023-11-17)

• Fix build failures caused by vignettes/job_logging.Rmd (@pbchase)

redcapcustodian 1.17.0 (released 2023-11-17)

• Add job_logging vignette (@pbchase, #113, #115)
• Add objects_to_include param to unnest_job_summary_data_json_object() (@pbchase, #112, #115)

redcapcustodian 1.16.0 (released 2023-11-16)

• Add MySQL database comparison tools (@pbchase, @ChemiKyle, #140)

redcapcustodian 1.15.0 (released 2023-10-31)

• Fix test data for get_redcap_email_revisions() (@pbchase)
• Add delete_project() (@ljwoodley, #139)
• Add dataframe_to_redcap_dictionary() (@ljwoodley, #136)

redcapcustodian 1.14.1 (released 2023-08-24)

• Update etl/delete_erroneous_survey_reminders.R (@pbchase, #137)

redcapcustodian 1.14.0 (released 2023-08-14)

• Fix build issues on Apple silicon (@pbchase, #133, #134)
• Add delete_erroneous_survey_reminders.R (@pbchase, #131, #132)

redcapcustodian 1.13.1 (released 2023-08-04)

• update render_report to handle qmd files (@ljwoodley, #117, #129)
• Add LICENSE (@pbchase, #119, #124)

redcapcustodian 1.13.0 (released 2023-06-23)

• Add project_purpose_other_research_labels.rda (@pbchase, #123)
• Add project_status_labels and project_purpose_labels (@pbchase, #122)
• Add conn parameter to write_summary_metrics() (@pbchase, #122)
• Add copy_entire_table_to_db() (@pbchase, #122)
• Update render_report.R to support quarto files (@pbchase, #118)

redcapcustodian 1.12.0 (released 2023-06-02)

• Add unnest_job_summary_data_json_object() (@pbchase, #111)
• Fix Version in DESCRIPTION (@pbchase)

redcapcustodian 1.11.0 (released 2023-05-10)

• Add description_base_name to get_project_life_cycle() output. (@pbchase, #110)
• Expand list of descriptions in project_life_cycle_descriptions to include more modern descriptions.(@pbchase, #110)

redcapcustodian 1.10.0 (released 2023-04-24)

• Add project_life_cycle_descriptions (@pbchase, #106)
• Add get_project_life_cycle() (@pbchase, #106)

redcapcustodian 1.9.0 (released 2023-04-24)

• Add quarto and tlmgr packages it needs for pdf generation (@pbchase, #107)

redcapcustodian 1.8.1 (released 2023-03-20)

• Update NEWS.md and DESCRIPTION to comply with pkgdown (@pbchase, #103)

redcapcustodian 1.8.0 (released 2023-03-17)

Added

• Add a log database system for dev work (@pbchase, #110)

Changed

• Fix ORCIDs in DESCRIPTION (@pbchase)

redcapcustodian 1.7.0 (released 2023-03-17)

Added

• Add a pkgdown website (@pbchase, #102)

Changed

• Revise the package title away from REDCap and towards automation (@pbchase)
• Remove publication_date from .zenodo.json (@pbchase)

redcapcustodian 1.6.0 (released 2023-02-21)

Added

• Add randomization management functions and a sample ETL (@pbchase, #99)
• Add batch_size parm to dbx calls in sync_table_2 (@pbchase)
• Add batch_size parm to dbx calls in sync_table Prevents possible error: Expression tree is too large (maximum depth 1000) (@ChemiKyle, #96)

Changed

• Update testing image used at github (@pbchase)
• Eschew deprecated tidyselect features (@pbchase, #98)
• Modernize tests of sync_table_2 (@pbchase)
• Address fatal bug in sync_table caused when delete = T but there are no records to delete (@ChemiKyle, #97)

redcapcustodian 1.5.0 (released 2023-01-25)

Added

• Create write_summary_metrics function, corresponding schema and test (@ChemiKyle, #95)
• Add render_report to /report (@ljwoodley, #93)
• Port convert_schema_to_sqlite from rcc.billing, altering it to accept path to sql file as input (@ChemiKyle, #94)
• Port mutate_columns_to_posixct from rcc.billing (@ChemiKyle, #94)

Changed

• Ignore local credentials DBs (@pbchase)

redcapcustodian 1.4.1 (released 2022-12-15)

Changed

• Install latex packages directly in Dockerfile (@ljwoodley, #91)

redcapcustodian 1.4.0 (released 2022-12-13)

Added

• Switch Dockerfile from tidyverse to verse (@ljwoodley, #90)
• Add render_report.R to render Rmds (@ljwoodley, #90)

redcapcustodian 1.3.2 (released 2022-09-14)

Changed

• Specify package for na.exclude() (@pbchase)
• escape . to treat as literal character instead of wildcard in gsub statements (@ChemiKyle)

redcapcustodian 1.3.1 (released 2022-08-30)

Added

• Remove remants of the site concept (@pbchase)

redcapcustodian 1.3.0 (released 2022-08-29)

Added

• Add get_bad_emails_from_individual_emails function (@ChemiKyle)

redcapcustodian 1.2.2 (released 2022-08-26)

Changed

• Modernize container and add dependencies (@pbchase)

redcapcustodian 1.2.1 (released 2022-08-26)

Changed

• Move schema files into package space (@pbchase)
• Correct send_email using email_to for email_cc (@ChemiKyle)

redcapcustodian 1.2.0 (released 2022-08-25)

Added

• Add email_from and email_cc params to send_email function, default to env value (@ChemiKyle)

redcapcustodian 1.1.1 (released 2022-08-24)

Changed

• Fix test for search results in get_bad_emails_from_listserv_digest (@pbchase)

redcapcustodian 1.1.0 (released 2022-08-08)

Added

• Add logging in Friday Call demo (@pbchase)

Changed

• Define username and tube count variables in friday call demo (@ChemiKyle)
• Move fake data section to setup file in Friday Call Demo (@pbchase)
• Move credential creation and scraping from main friday call to auxiliary setup file (@ChemiKyle)

redcapcustodian 1.0.0 (released 2022-08-02)

Added

• Add logging to suspend_users_with_no_primary_email (@pbchase)
• Add sync_table2 a merge of dataset_diff and sync_table (@pbchase)
• Add expire_user_project_rights (@pbchase)

Changed

• Use sync_table_2 in update_redcap_email_addresses (@pbchase)
• Refactor tests and test data related to cleanup_bad_email_addresses.R (@pbchase)
• Remove credentials for public image (@mbentz-uf)
• Fix deployment of cron file (@pbchase)
• Add common directories to template ignore files (@pbchase)
• Fix ADD of my.study (@pbchase)

redcapcustodian 0.7.0 (released 2022-07-17)

Changed

• Add here package to Dockerfile (@pbchase)
• Add send_email function adapted from stp (@ChemiKyle)
• Add DOI badge to README (@pbchase)

redcapcustodian 0.6.1 (released 2022-07-13)

Changed

• Fix typo in description (@pbchase)

redcapcustodian 0.6.0 (released 2022-07-13)

Added

• Add resources for publication (@pbchase)
• Add friday-call-demo.Rmd (@ChemiKyle, @pbchase)

Changed

• Update ignore files to respect new features (@pbchase)
• Replace reference to stp with rcc.billing (@ChemiKyle)
• Enlarge the job_summary_data field in rcc_job_log (@pbchase)
• Add new content to custom_rscript (@pbchase)
• Make docs study-centric (@pbchase)
• Update DESCRIPTION and init_etl.Rd to satisfy R 4.2.1 (@pbchase)
• Use *_PORT_DB in connect_to_db, defaulting to 3306 (@ChemiKyle)
• Move credentials DB (@pbchase)
• Reduce earliest_date in cleanup_bad_email_addresses.R (@pbchase)
• Use MariaDB as default driver in init_etl (@pbchase)
• Update username to my_username to avoid tautological filter in credential gathering (@ChemiKyle)

redcapcustodian 0.5.1 (released 2022-06-24)

Changed

• Export email-fixing functions (@pbchase)

redcapcustodian 0.5.0 (released 2022-06-23)

Added

• Add first version of a demonstration script (@pbchase)
• Add sync_table (@ChemiKyle)
• Add dataset_diff (@pbchase)
• Add multi_instance.R (@ChemiKyle)
• Add sync_metadata using credentials (@ChemiKyle)
• Add scrape_user_api_tokens (@ChemiKyle)
• Add set_super_api_token (@ChemiKyle)
• Add set_project_api_token (@ChemiKyle)
• Add ETL job logging(@mbentz-uf)
• Add cleanup_bad_email_addresses (@ljwoodley)

Changed

• Ignore site_template in build (@pbchase)
• Ignore ./output/ (@pbchase)

redcapcustodian 0.4.1 (released 2022-03-04)

Changed

• Fix build.sh deployment bugs (@pbchase)

redcapcustodian 0.4.0 (released 2022-03-03)

Added

• Remove host image concet and deploy from site project (@pbchase)

redcapcustodian 0.3.0 (released 2022-03-03)

Added

• Add mRpostman and writexl to the Dockerfile (@pbchase)
• Add suspend_users_with_no_primary_email (@ljwoodley)
• Add update_redcap_email_addresses (@ljwoodley)

Changed

• Fix get_redcap_email_revisions to match initial implementation allows it to create data that will result in user suspension (@ChemiKyle)

redcapcustodian 0.2.0 (released 2022-02-16)

Added

• Add get_redcap_email_revisions (@mbentz-uf)
• Add automated tests (@mbentz-uf)
• Add create_test_tables (@ChemiKyle)
• Add test tables (@ChemiKyle)
• Add get_bad_emails_from_listserv_digest (@pbchase)
• Add get_institutional_person_data (@pbchase)
• Add get_redcap_emails (@pbchase)
• Add create_test_table (@pbchase)
• Add site concept and docs (@pbchase)
• Add add_get_redcap_db_connection (@pbchase)
• Store rc_conn in env (@pbchase)
• Add add_connect_to_redcap_db (@pbchase)
• Add basic logging (@mbentz-uf)

redcapcustodian 0.1.0 (released 2021-06-22)

Summary

• Initial commit of redcapcustodian
• Scripted image building.
• Scripted deployment.
• redcapcustodian R package
• testthat for redcapcustodian tests
• Host-specific customization of R scripts
• Host-specific customization of cron-files
• Host-specific customization of environment files