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* restructure the README and the vignette * restructure the README and the vignette * restructure the README and the vignette * add reading from DHIS2 * add reading from DHIS2 * add reading from DHIS2 * Automatic readme update * update read_from_ms_sql_server to account for the new server * Automatic readme update * update read_from_ms_sql_server to account for the new server * update read_from_ms_sql_server to account for the new server * update readepi with new dependencies installation * update readepi with new dependencies installation * update readepi with new dependencies installation * update install_dep.R * update install_dep.R * update install_dep.R * update install_dep.R * update install_dep.R * update install_dep.R * update readepi * add reading from Fingertips * update the SQL data base content * update the test file for readepi function * change redcap database source * modify fingertips installation instructions * update redcap project name in readme file * remove R/install_dep * remove tests/testthat/test-install_dep.R * Change MS SQL test server to MySQL * Change MS SQL test server to MySQL * update how fingertipsR is defined as a dependency * update how fingertipsR is defined as a dependency * update how fingertipsR is defined as a dependency * update the test REDCap server details * update the test REDCap server details * update the test REDCap server details * remove install_dependencies.sh * aplly styler on package * Automatic readme update * aplly styler on package * aplly styler on package * aplly styler on package * fixed all lintr issues * restructure reading from server by adding the possibility to submit an SQL query * fixed new linter issues and impoved package coverage * subdivide readepi_helpers into different helpers * update the DESCRIPTION file * Update R/read_from_redcap-helpers.R Co-authored-by: Hugo Gruson <[email protected]> * fix lintr issues * add authors * add Bubacarr's ORCID * build package website * update the README.Rmd * update the README.Rmd and package website * add the package logo * replace DBI::dbConnect() with pool::dbPool() * removed lint.yaml and lint-changed-files.yaml * update the helper functions for read_servers.R * exported and set examples for helper functions for read_from_fingertips * update readme and vignette, fix lintr issue related to loading the package in tests/testthat.R * fix typo error in readme * comment the installation line in readme * update the readme with vignette instructions * update the readme with vignette instructions * update the readme with vignette instructions * updates on the .DS_Store file after merging PR and deleting develop branch * Start of the review * modify the file in ./github/workflow * add functions to handle genomic data * update readme * update description file with github installation * update package vignette * comment out DHIS2 reading * comment out DHIS2 reading * update records and fields subsetting * Automatic readme update * correct for failed check of 07/02/2021 * Automatic readme update * correct for failed check of 07/02/2021 * update credential file * update function's documentation * update function's documentation * update on readepi following pull request * update on readepi following pull request * Automatic readme update * add function to install MS driver * restructure the README and the vignette * restructure the README and the vignette * restructure the README and the vignette * restructure the README and the vignette * add reading from DHIS2 * add reading from DHIS2 * add reading from DHIS2 * Automatic readme update * update read_from_ms_sql_server to account for the new server * Automatic readme update * update read_from_ms_sql_server to account for the new server * update read_from_ms_sql_server to account for the new server * update readepi with new dependencies installation * update readepi with new dependencies installation * update readepi with new dependencies installation * update install_dep.R * update install_dep.R * update install_dep.R * update install_dep.R * update install_dep.R * update install_dep.R * update readepi * add reading from Fingertips * update the SQL data base content * update the test file for readepi function * change redcap database source * modify fingertips installation instructions * update redcap project name in readme file * remove R/install_dep * remove tests/testthat/test-install_dep.R * Change MS SQL test server to MySQL * Change MS SQL test server to MySQL * update how fingertipsR is defined as a dependency * update how fingertipsR is defined as a dependency * update how fingertipsR is defined as a dependency * update the test REDCap server details * update the test REDCap server details * update the test REDCap server details * remove install_dependencies.sh * aplly styler on package * Automatic readme update * aplly styler on package * aplly styler on package * aplly styler on package * fixed all lintr issues * restructure reading from server by adding the possibility to submit an SQL query * fixed new linter issues and impoved package coverage * subdivide readepi_helpers into different helpers * update the DESCRIPTION file * Update R/read_from_redcap-helpers.R Co-authored-by: Hugo Gruson <[email protected]> * fix lintr issues * add authors * add Bubacarr's ORCID * build package website * update the README.Rmd * update the README.Rmd and package website * add the package logo * replace DBI::dbConnect() with pool::dbPool() * removed lint.yaml and lint-changed-files.yaml * update the helper functions for read_servers.R * exported and set examples for helper functions for read_from_fingertips * update readme and vignette, fix lintr issue related to loading the package in tests/testthat.R * fix typo error in readme * comment the installation line in readme * update the readme with vignette instructions * update the readme with vignette instructions * update the readme with vignette instructions * Start of the review * let github actions run from any branch on PR * add package logo * improved documentation * Automatic readme update * Captalize comments... * update README * Automatic readme update * unexport internal functions and use file.path instead of paste0 * remove .DS_Store * remove .Rhistory * remove .Rhistory * remove .DS_Store * remove Meta/ folder * remove ..Rcheck/ folder * update return messages in different functions * fix issues related to DESCRIPTION, Depencies, General technical sections raised by Pratik * Automatic readme update * fix issues related to DHIS2 sections raised by Pratik * fix issues related to For local files sections raised by Pratik * replace '-' by '_' in file names * Automatic readme update * general updates * remove docs/ folder * remove .github/.DS_Store file * remove inst/.DS_Store file * remove inst/.DS_Store files * update functions documentation and test files * update test files * Automatic readme update * update test files * update readepi() * update readepi() by swapping source and from arguments * remove the .DS_Store files * fix linters * upated test-read_from_dhis2_helpers.R * update readme and vignette * Automatic readme update * update readme, vignette and function documentation * update readme, vignette and function documentation * update test-read_from_dhis2_helpers.R * remove reading from file-related files and functions * Automatic readme update * update readme and vignette * update readepi_helpers.R * update vignette * fix-issue-16 * update readme and vignette * update the github workflows files * Automatic readme update * update test files * update test files * update readme * update workflow files to account for the develop branch * update package version number in DESCRIPTION file * Update CITATION.cff * remove Meta folder and .DS_Store files * remove .DS_Store files * add citation file at inst/ * Update CITATION.cff * update readme and vignette * remove tests/.DS_Store * fix conflicts with main * Automatic readme update * let the workflows run on the release branch * fix linters * fix issues with tests files * Update Hugo's email Co-authored-by: Hugo Gruson <[email protected]> * enclose software and brand names with quotation Co-authored-by: Hugo Gruson <[email protected]> * Update {readepi} URL Co-authored-by: Hugo Gruson <[email protected]> * Update R/check_dhis2_attributes-helpers.R Co-authored-by: Hugo Gruson <[email protected]> * Update R/read_servers.R Co-authored-by: Hugo Gruson <[email protected]> * Update R/read_servers_helpers.R Co-authored-by: Hugo Gruson <[email protected]> * fix issues detected by Hugo * fix issues detected by Hugo * update desc * create mock for fingertips * update _pkgdown.yml * update readme * Automatic readme update * update readme * update package version * update readme * Automatic readme update * update readme and vignette * Update CITATION.cff * updates * remove CITATION.cff * Automatic readme update * update vignette * update show_tables.R --------- Co-authored-by: GitHub Action <[email protected]> Co-authored-by: Hugo Gruson <[email protected]> Co-authored-by: Karim Mane <[email protected]> Co-authored-by: Karim Mane <[email protected]> Co-authored-by: abdoelnaser-mahmood-degoot <[email protected]>
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