Package 'dvs'

copy files to the storage directory

Description

copy files to the storage directory

Usage

dvs_add(files, message = NULL, split_output = FALSE)

Arguments

files	file paths or glob patterns to add to the storage directory
message	optional: a message associated with the file(s) for versioning context to appear in dvs metadata files
split_output	optional: when TRUE, a list of two data frames is returned: successes and failures. rows in successes are successfully added file inputs rows in failures are inputs that returned errors when FALSE, the output is a single data frame whose rows are the files attempted to add in the given operation, the successes or failures of which are indicated in the outcome column

Details

after initializing the storage directory with dvs_init, this command copies files to storage directory for other collaborators to version and retrieve with dvs_get If an explicitly inputted file doesn't exist, the command returns an error .

For any other error retrieving a particular file, the function itself will indicate the error type and message in the data frame output; the function itself will not return an error.

Value

one or two data frames whose rows are the files attempted to add in the given operation.

Examples

## Not run: 
# would add all csv files in data/derived to the initialized storage directory
dvs_add("data/derived/*.csv")

# would add model/nonmem/1001/1001.ext and all files in data/derived
# to the initialized storage directory (excluding dvs metadata and .gitignore files)
dvs_add(c("model/nonmem/1001/1001.ext", "data/derived/*"))

## End(Not run)

---

get or update files if they are in shared storage to add to the local repo

Description

get or update files if they are in shared storage to add to the local repo

Usage

dvs_get(files, split_output = FALSE)

Arguments

files	file paths or glob patterns to get from the storage directory
split_output	when split_output is true, a list of two data frames - successes and failures - is returned. Rows in successes are files successfully retrieved, and rows in failures are inputs that returned errors. When split_output is false, the output is a single data frame with all files attempted to recopy to the project directory, and whose success or failure is indicated as such in the outcome column.

Details

retrieves files previously added with dvs_add to the storage directory (initialized by dvs_init). If a file is explicitly inputted without a corresponding dvs metadata file i.e. hasn't been added yet with dvs_add, the command returns an error.

For any other error retrieving a particular file, the function itself will indicate the error type and message in the data frame output; the function itself will not return an error.

Value

one or two data frames whose rows are the files attempted to get in the given operation.

Examples

## Not run: 
# would get all previously added files in data/derived from
# the initialized storage directory
dvs_get("data/derived/*.dvs")

# would get all files in data/derived (excluding
# .gitignore files) and ~Projects/project_x/large_file.pdf
# from the initialized storage directory
dvs_get(c("data/derived/*", "~Projects/project_x/large_file.pdf"))

## End(Not run)

---

initialize devious to add/get versioned files from the storage directory

Description

initialize devious to add/get versioned files from the storage directory

Usage

dvs_init(storage_directory, permissions = NULL, group = NULL)

Arguments

storage_directory	path to the desired storage directory for versioned files
permissions	optional: linux file permissions to set for files added to the storage directory (in octal format)
group	optional: primary group to set for files added to the storage directory

Value

A data frame with the storage directory, permissions, and group

Examples

## Not run: 
# would initialize the project's storage directory at /data/project_x
dvs_init("/data/project_x")

# would initialize the project's storage directory at /data/project_x and
# configure the linux permissions "777" and primary group "project_x_group" for all
# files added to the storage directory
dvs_init("/data/project_x", 777, "project_x_group")

## End(Not run)

---

status report for added files

Description

status report for added files

Usage

dvs_status(files = c(""), split_output = FALSE)

Arguments

files	optional: when specified, returns data frame with only these specified file paths or glob patterns.
split_output	when split_output is true, a list of two data frames - successes and failures - is returned. Rows in successes are files with successfully curated statuses, and rows in failures are inputs that returned errors. When split_output is false, the output is a single data frame with all attempted file status reports, and whose success or failure is indicated as such in the outcome column.

Details

gives the statuses of previously added files (current, unsynced, absent, or error) to make users aware if files stored in the storage directory don't exist in their local repository or have been updated. If no file paths or glob patterns are inputted, dvs_status gives the status of all previously added files. If there an error getting the status of a particular file, the function itself will not return an error, rather, a given error will be indicated in the data frame output.

Value

a data frame with the statuses of previously added files

Examples

## Not run: 
  # would give the status of all previously added files
  dvs_status()

  # would attempt to get the status of all files in data/derived
  # (except for .gitignore files)
  dvs_status("data/derived/*")

## End(Not run)

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