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ncsu-landscape-dynamics/rpops: PoPS 2.0.0

Chris Jones; Vaclav Petras; nfkruska; Devon Gaydos; Margaret Lawrimore

Added
  • quantity_allocation_disagreement now takes in the use_distance parameter which is FALSE by default. This allows the model to compute the minimum total distance between observed and simulated infestations (@ChrisJones, #130).

  • validate, calibrate, pops_multirun, auto_manage and pops now take in network_min_distance, network_max_distance, and network_filename parameters these are used when the anthropogenic_kernel_type = "network". This allows directed spread along a network such as a railroad (@ChrisJones and @wenzeslaus, #131)

Changed
  • validate now takes the variable point_file and uses it to calculate statistics based on the point_file in addition to the raster file also calculates new measures of model performance accuracy, precision, recall, and specificity (@ChrisJones, #124).

  • calibrate no longer uses success_metrics and checks parameters as these are both handled internally by auto-updating if the values are too far of in the first generation. This makes for a simpler and faster user experience (@ChrisJones, #130).

  • validate no longer uses success_metrics parameter but now has the added parameters use_rmse and use_distance that are used in quantity_allocation_disagreement. This allows for a more intuitive user interface (@ChrisJones, #130).

  • quantity_allocation_disagreement variable configuration changed to use_configuration to be more consistent with variable names. (@ChrisJones, #130).

  • pops_multirun can now use variable write_output = "all_simulations" to write out susceptible, exposed, and infected rasters from all simulations. This will allow for a future update where simulations can easily be started from previous simulation outputs. (@ChrisJones, #133)

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