This repository stores the code associated with managing JoBSS survey data. Code numbered 0+ are intended to be run sequentially as the data are available for processing. Code numbered 99 are stored for longetivity, but are intended to only be run once to address a specific issue or run as needed, depending on the intent of the code.
The Datasheets folder contains the KAMERA-specific datasheets for JoBSS surveys.
The data management processing code is as follows:
- JoBSS_01_Import2DB.R - code to import data from the network into the DB
- JoBSS_01_ProcessFootprints2DB.R - code to import footprints (from post-processing) into the DB
- JoBSS_02a_MarkNUCedIRimages.R - code to mark IR images as NUC (after they have been run through BXH processing)
- JoBSS_02b_AssignFinalIRNUC.txt - code to make final NUC call based on the processing approach
- JoBSS_03_ProcessEffortReconciled.txt - code to create/update effort_reconciled field based on review of data (to correct any incorrect assignments)
- JobSS_03b_CreateFlightLines.txt - code to create flight lines from point records
- JoBSS_04a_PrepareManualReviewImages.R - code to generate list of images for manual review
- JoBSS_05_ProcessDetectionShp2DB.R - code to import seal detection locations into the DB
Other code in the repository includes:
- Code for copying images collected while surveying on BEAR effort
- JoBSS_99_CopyBearEffortImages.R
- Code for supporting disturbance analysis:
- JoBSS_99_DisturbanceAnalysis_ExtractCovariates4Trials.R
- JoBSS_99_DisturbanceAnalysis_FLIR_ProcessImages.R
- Code for handling NUC images:
- JoBSS_99_NUCreview_Images.txt
- JoBSS_99_NUCreview_ProcessResults.R
- SQL code for QA/QC of duplicate animals:
- JoBSS_99_QA_DuplicateAnimals.txt
- Code for evaluation of roll during survey to help inform limits for inclusion in analysis:
- JoBSS_99_RollEvaluation.Rmd