v1.0.8

Known issues: https://github.com/PredictiveEcology/SpaDES.core/issues

version 1.0.8

new features

• Plots function can be used like Plot, but with types specified.
  The devices to save on disk will have some different behaviours to the screen representation, since "wiping" an individual plot on a device doesn't exist for a file device.

version 1.0.7

new features

• Plots function that will produce zero to 4 types of items that are relevant for plotting: 1) Visual on screen, 2) The plot object saved to disk, 3) The raw data that went into the plot and 4) The plot as one or more image files, e.g., .png or .pdf via ggsave
• spades now accepts an events argument, which will limit the events that are run to those specified in the argument. This seems to be most useful for the init case, e.g., spades(sim, events = "init"). See ?spades.
• messaging during simInit now is prefixed with Sys.time() and "simInit"
• messaging during spades is simplified to take up fewer characters: INFO:: has been removed
• simInit now checks for minimum version of SpaDES.core needed in a module and stops if it fails, giving instructions how to upgrade.
• several human-readable only elements of a module metadata are no longer enforced, including spatialExtent, as they are not used by the spades algorithms
• new function: anyPlotting to test whether plotting of one form or another should occur
• line-by-line messaging during spades call is now more informative, including module name (by default shortened -- can be changed with options("spades.messagingNumCharsModule")))
• defineParameter can now accept a vector of "class", so a parameter can be more than one class.
  Presumably this should generally not be used, but a good reason could be, say, c("numeric", "function"), where the use can pass either a numeric or a function that would calculate that numeric.
• new helper function simFile to generate file names for use with e.g., saveSimList
• zipSimList is now exported
• spades will now attempt to load reqdPkgs, which is already done in simInit.
  In cases where simInit was not run, e.g., Cache(simInitAndSpades, ..., events = "init"), then modules will not have access to packages.
  For cases where simInit was called, then this should add very little overhead.
• saveSimList will now convert file-backed Raster* class objects to memory if fileBackend = 0.
  Previously, it left them as is (on disk if on disk, in memory if in memory).
• For code/documentation contributors, markdown syntax is now turned on and can be used when writing function documentation
• The first event will now run if it is scheduled to be prior to time(sim) in the case where it is equal to or after end(sim). Previously, this would not run any events if time(sim) >= end(sim) && events(sim)[[1]] < time(sim).
• minor documentation modifications
• Add optional .seed parameter for modules (#163)

Bugfixes

• defineParameter was throwing is.na(default) warning when a parameter was not an atomic.
• recovery mode did not work correctly if the file-backed rasters were in the temporary directory, as it would collide with the temporary directory of the recovery mode mechanism. Now recovery mode uses a dedicated temporary directory
• other minor bugfixes,