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| adapr-package | Implementation of an Accountable Data Analysis Process |
| adapr | Implementation of an Accountable Data Analysis Process |
| adaprApp | Launches Main app |
| add_package | Add R package to a project |
| Check.file.hash | Checks the consistency of the dependency directory with the files within the file system |
| Check.file.hash.source | Checks the consistency of the dependency directory with the files within the file system Reports the source scripts that need to be updated! |
| Check.file.mtime.source | Checks the consistency of the dependency directory with the files within the file system Reports the source scripts that need to be updated! |
| checkAdaprHashAlgo | Checks or changes the specified adapr hash algorithm (adaprHashAlgo option) |
| checkRmdMode | Checks whether interactive R markdown session is ON |
| commit.project | Git commit of project. |
| commit2char | git2r commit class to character converter |
| Condense.file.info | Generate condensed information about files from dependency object |
| Create.file.info | Creates a list containing information about a file |
| create_markdown | Renders and Rmarkdown file |
| create_program_graph | Make plot of project programs only Summarize all programs. Sync status is assessed and indicated. |
| create_program_graph_v2 | Make plot of project programs only Summarize all programs. |
| create_source_file_dir | Create source file directories |
| default.adapr.setup | Set up adapr 1st time |
| dependency | Dependency class |
| dependency-class | Dependency class |
| Digest | Digest files from (digest package) |
| finalize_dependency | Writes dependency data to file in "Dependency" directory |
| first.project | Create first project |
| Get.file.info | Retrieve the file info for the file by name OR from the data subdirectory data |
| get.fs.time | Retrun time of file system |
| get.project | Returns the adapr project in R option "adaprProject" |
| get.project.info | Acquire all dependencies related to a project, Generate graph of project dependencies, Get all file information related to project |
| get.project.info.si | Given source_info object, retrieves project information |
| get.project.path | Given Project name, Return project directory |
| get.project.publish.path | Given Project name, Return project publish directory |
| get.project.swap.directory | Retrieve project swap directory |
| get.pubresults | Read result filepaths to publish |
| get_adapr_options | Returns the primary hub file with project location and id information |
| get_orchard | Returns the primary hub file with project location and id information |
| git.add | git add to stage the file |
| git.commit | git commit. Requires git installation. |
| git.configure | Configure user.name and email for git. Requires git installation. |
| git.configure.test | Checks git configuration. Requires git installation |
| git.history.search | Performes git history search |
| git.info | Retrieves the information from git about a file |
| git.init | Initiate git |
| git_path | Find path for git executable |
| git_provenance | Identify git provenance of file within a project |
| Graph | Write object and capture file information |
| graph.project | Make plot of project programs only Summarize all programs. Sync status is assessed and indicated. |
| guess.read.fcn | Return function for reading common file types |
| guess.write.fcn | Return function for writing common file types |
| Harvest.trees | Collect trees from dependency directory |
| hashcopy | Given Project name, Return project publish directory |
| ID.sync | Returns the source files needed to repair synchrony |
| id_new_libs | Captures libraries that are not loaded automatically |
| init.project | initialize project |
| initialize_dependency_info | Initializes dependency object source_info |
| install_project_packages | Installs all packages |
| list.branches | Lists the branches available for loading in the adapr project |
| list.datafiles | Lists the data files available for reading in the adapr project |
| list.programs | Lists the R scripts in the adapr project |
| listBranches | Lists the branches available for loading in the adapr project |
| listDatafiles | Lists the data files available for reading in the adapr project |
| listScripts | Lists the R scripts in the adapr project |
| Load.branch | Loads a single R object from file |
| load.install.library.file | Loads librarys within the file library.list.file |
| load.source.directory | Runs all source files within the directory source.directory |
| Make.dependency.graph.obj | Creates an graph object from a dependency object |
| make.hyperlink | Makes HTML hyper link |
| make.program | Generates the shell of a code that is project specific |
| Make.summary.graph | Make.summary graph of projects based on files in dependency directory |
| monitorParallelSync.project | Track parallelSync.project while in progress |
| open_orchard | Browses orchard in file system |
| parallelSync.project | Uses DOSNOW package for parallel syncrhonization of project. Takes advantage of directed acyclic graph structure to run R script processes in parallel. |
| path.expand.2 | Swap / for \ in path expand |
| plant.orchard | Create project hub files in root directory |
| plant.tree | initialize project |
| program.io.table | Create program io table |
| project.directory.tree | Project directory tree structure contains the relative directory structure included analysis, data, texidr, dependency.dir, support functions, and library bank locations |
| project_report_markdown | Make plot of network within html documents. Summarize all programs. |
| project_report_send_rmd | Make plot of network within html documents. Summarize all programs. Make a readme file at top project directory copy to target.directory Uses pander and pandoc unlike project_report |
| pull_source_info | Create source_info from project.id |
| Read | Read data and capture the file information within dependency object |
| Read.cap | Read data and capture the file information within dependency object |
| read.dependency | Read the dependcy data from file |
| ReadTrack | Tracks files that read by functions not in adapr and captures the file information within dependency object |
| read_library | Read library file |
| redirect.tree | Changes project directory/publish directory or identifies imported project |
| relocate.project | Changes project directory/publish directory or identifies imported project |
| remove.program | Remove an R script from a project. Removes program, dependency, and results. |
| remove.project | Removes project from orchard, but doesn't delete project from file system |
| remove_package | Remove R package to a project |
| Render_Rmd | Renders and Rmarkdown file |
| report.project | Make plot of network within html documents. Summarize all programs. |
| rework.project.path | Collects all trees in dependency.dir and changes the project path |
| run.program | Run an R script within a project using devtools::clean_source |
| scriptLoader | Initializes dependency object source_info |
| send.branch | Copy dependent programs to swap directory |
| send.branch.si | Copy dependent programs to swap directory |
| send.pubresults | Read in results to publish & Copies results to the project's publication directory |
| set.project | Checks or changes the specified adapr project in R option "adaprProject" |
| set_adapr_options | Returns Modifies the primary adapr option file |
| show.project | Opens project directory |
| show.pubresults | Browses publication table for editing |
| show.results | Opens results directory of project or R script within a project |
| showProject | Opens project directory |
| showResults | Opens results directory |
| source.sync.si | Synchronize project by running necessary R scripts |
| source_sync_si_load | Synchronize project by IDENTIFYING necessary R scripts |
| sprout.program | Generates the shell of a code that is project specific |
| swap.project.paths | Take list of dependency file data and changes the project path |
| sync.project | Checks the synchronization project and runs scripts needed for synchronization |
| Sync.test | check the synchrony of source files and their created objects |
| Sync.test.OLD | check the synchrony of source files and their created objects |
| Sync.test.pi | Tests the synchrony of files in dependency tree |
| sync.test.si | Tests the synchrony of files in dependency tree |
| Sync.test_2nd | check the synchrony of source files and their created objects |
| synctest.project | Tests the synchrony of files in dependency tree |
| Write | Write object and capture file information |
| Write.cap | Write data and capture the file information within dependency object |
| write.dependency | Write the dependcy object to file |
| WriteTrack | Tracks files written by functions not in adapr and captures the file information within dependency object |