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D4TAlink.light (version 2.1.18)

GDP - Workflow Management

Description

Tools, methods and processes for the management of analysis workflows. These lightweight solutions facilitate structuring R&D activities. These solutions were developed to comply with Good Documentation Practice (GDP), with ALCOA+ principles as proposed by the U.S. FDA, and with FAIR principles as discussed by Jacobsen et al. (2017) .

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Version

Install

install.packages('D4TAlink.light')

Monthly Downloads

404

Version

2.1.18

License

GPL-3

Maintainer

Gregoire Thomas

Last Published

April 2nd, 2025

Functions in D4TAlink.light (2.1.18)

archiveTask

Create an archive containing the files of a given task.
binaryDir

Get path of binary directory.
getTaskRmdTemplate

Get the path to the Rmd task template.
D4getenv

Get env var.
getTaskFilepath

Get the path of a file.
D4TAlinkTask

D4TAlinkTask Documentation of the D4TAlinkTask class
datasourceFn

Get path of data source file.
getTaskRoot

Get the root of the task repository.
getTaskStructure

Get repository directory structure.
DTx

Generic function.
binaryFn

Get path of binary file.
getTaskPaths

Get the paths of the task.
docDir

Get path of documentation directory.
catReport

Output R object using function cat.
jpegReport

Graphics devices for JPEG format bitmap files.
getTaskAuthor

Get the name of the task author.
initTask

Initialize a task
scanReport

Read data into vector or list using function scan.
listTaskFiles

List the files associated to a task.
getTaskRscriptTemplate

Get the path to the R script task template.
jpegReportFn

Get path of jpeg output file.
listTasks

List details of all tasks stored in the root directory.
setTaskAuthor

Set the name of the tasks author.
pdfReport

Graphics devices for pdf format bitmap files.
createTask

Create a task.
pathsGLPG

Task paths generator.
getTaskEnckey

Get the encryption key for binary data files.
datasourceDir

Get path of data source directory.
pdfReportFn

Get path of pdf output file.
initTaskRmd

Create task template in Rmd format.
renderTaskRmd

Render the task from the Rmd file
pathsPMS

Task paths generator.
getTaskSponsor

Get the name of the task sponsor.
pngReport

Graphics devices for PNG format bitmap files.
reportDir

Get path of report directory.
saveReportTable

Output R object using function write.csv.
saveReportXls

Save R object in binary file.
pngReportFn

Get path of png output file.
restoreTask

Restore an archive containing the files of a given task from a file created with archiveTask.
setTaskSponsor

Set the name of the tasks sponsor.
setTaskRoot

Set the root of the task repository.
initTaskRscript

Create task R script.
rmdFn

Get path of R script file name.
progDir

Get path of scripts directory.
readBinary

Restore R object from binary file.
readFeather

Restore R data.frame from Apache Arrow feather file.
setTaskRscriptTemplate

Set the path to the R script task template.
setTaskStructure

Set task repository directory structure.
docFn

Get path of documentation file.
formatTaskDocx

Replace default task fields in 'docx' file.
reportFn

Get path of output file.
reportXlsFn

Get path of xlsx output file.
loadTask

Load a task.
setTaskEnckey

Set the encryption key for binary data files.
readPickle

Restore R data.frame from a Python pickle file.
savePickle

Save R object in Python pickle file.
setTaskRmdTemplate

Set the path to the Rmd task template.
saveBinaryE

Save R object in encrypted binary file.
saveFeather

Save R object in Apache Arrow feather file.
saveReportJSON

Output R object in JSON format.
pathsDefault

Task paths generator.
taskID

Get task identifier string.
readReportJSON

Read JSON data into R object.
readReportTable

Read data into vector or list using function scan.
rscriptFn

Get path of R script file name.
saveBinary

Save R object in binary file.
D4TAlink-common-args

Arguments used across the functions of the D4TAlink package.