review_profiles: Visually inspect temperature, salinity, and density profiles...

In afsc-gap-products/gapctd: Process CTD data from bottom trawl surveys

Visually inspect temperature, salinity, and density profiles (R workflow)

Description

Visually inspect profile data to evaluate whether they are acceptable. Profiles that are acceptable will be copied to a review directory. Unacceptable profiles will be removed from the directory and may need to be re-evaluated using wrapper_flag_interpolate() or other remedial measures. This function skips profiles that have already been reviewed and accepted.

Usage

review_profiles(
  rds_dir_path,
  threshold = -1e-05,
  in_pattern = "_qc.rds",
  out_pattern = "_final.rds"
)

Arguments

rds_dir_path	Filepath to directory containing rds files to be reviewed.
threshold	Numerical. Threshold for flagging a density inversion. Must be negative. Default (-1e-5) is the buoyancy frequency threshold PMEL uses. GTSPP uses a density threshold of 0.05.
in_pattern	Character vector search pattern for input files. Default = "_qc.rds"
out_pattern	Character vector to append to filename. Default = "_final.rds"

Value

Writes accepted profiles to rds_dir_path with out_pattern appended.

Author(s)

Sean Rohan

afsc-gap-products/gapctd documentation built on March 5, 2025, 3:42 a.m.