Certara.RDarwin (version 1.2.0)

reconnect_pyDarwinJob: Reconnect, Monitor, and Retrieve Results from a Remote pyDarwin Job

Description

This function reconnects to a pyDarwin job previously launched in the background on a remote host. It monitors the job until completion (if a PID is available), then downloads and processes the results.

Usage

reconnect_pyDarwinJob(
  LocalDirectoryPath = ".",
  LocalJobInfoFilePath = NULL,
  OriginalOptionsPath = NULL,
  Password = NULL,
  KeyPath = NULL,
  MonitoringInterval = 30,
  verbose = getOption("verbose", default = FALSE)
)

Value

A list containing parsed results similar to RunPyDarwinRemote(Wait = TRUE)

(i.e., results data.frame, FinalResultFile, FinalControlFile, DownloadedResultsDir, DownloadedItems), or the content of the downloaded messages.txt as a character vector if primary result files are not found or parsed successfully. If essential information (like job info or options file) is missing, the function will stop.

Arguments

LocalDirectoryPath

Character string: The base local directory associated with the pyDarwin job. This directory is used to: 1. Locate the job information file (if LocalJobInfoFilePath is NULL), expected as {ProjectName}_remote_job_info.json. 2. Locate the original options.json file (if OriginalOptionsPath is NULL). 3. Serve as the base location for downloading results into a subdirectory (e.g., {LocalDirectoryPath}/{ProjectName}_Results/).

LocalJobInfoFilePath

Character string (optional): Explicit path to the local JSON file containing information about the remote job (e.g., as created by RunPyDarwinRemote(Wait = FALSE)). If NULL (default), the path is constructed using LocalDirectoryPath and ProjectName (derived from OriginalOptionsPath).

OriginalOptionsPath

Character string (optional): Explicit path to the original local options.json file that was used when the job was first launched. This is needed to correctly parse results (e.g., engine_adapter) and to derive ProjectName if not available from LocalJobInfoFilePath. If NULL (default), the function attempts to find options.json within LocalDirectoryPath. If not found, the operation will stop.

Password

Character string. The password for SSH authentication. Defaults to "", which is appropriate when using key-based authentication. Using keys is strongly recommended over embedding passwords in scripts.

KeyPath

Character string. The path to your private SSH key file. Defaults to the path stored in the SSH_PRIVATE_KEY_PATH environment variable.

MonitoringInterval

Numeric. The interval in seconds between status checks when monitoring a running job (Wait = TRUE).

verbose

Logical: Passed to helper functions for verbose output during SSH connection and file downloads. Default: getOption("verbose", default = FALSE).

Details

This function requires a job information JSON file (typically created by RunPyDarwinRemote when Wait = FALSE) to obtain details like the remote host, user, remote project directory, and optionally the remote process ID (PID).

The ProjectName is crucial. It's primarily derived from the project_name field in the original options file (located via OriginalOptionsPath or within LocalDirectoryPath). If not present in the options file, a fallback derivation uses the parent directory name of the options file. This ProjectName is then used to find the job info file (as {ProjectName}_remote_job_info.json in LocalDirectoryPath) if LocalJobInfoFilePath is not directly provided. If the job info file itself contains a ProjectName, that value may take precedence. Downloaded results are organized locally using this determined ProjectName.

If RemoteJobPID is available in the job info file, the function will actively monitor the process. If the PID is not available, it will skip active monitoring and proceed directly to attempt downloading any available results.

See Also

run_pyDarwin(), run_pyDarwinRemote()

Examples

if (FALSE) {
# Assuming 'my_project_job_info.json' and 'options.json' exist in '~/darwin_runs/my_project_run'
# and 'my_project_job_info.json' was created by a previous RunPyDarwinRemote(Wait=FALSE) call.

# Example 1: Specifying only the local directory path
# ProjectName will be derived from options.json within that path.
# Job info file will be sought as {ProjectName}_remote_job_info.json.
try({
  reconnect_pyDarwinJob(
    LocalDirectoryPath = "~/darwin_runs/my_project_run"
  )
})

# Example 2: Specifying paths explicitly
try({
  reconnect_pyDarwinJob(
    LocalDirectoryPath = "~/darwin_runs/my_project_run", # Still used for downloads
    LocalJobInfoFilePath = "~/darwin_runs/my_project_run/my_project_remote_job_info.json",
    OriginalOptionsPath = "~/darwin_runs/my_project_run/options.json",
    KeyPath = "~/.ssh/id_rsa_remote_server"
  )
})
}