v2.0.3

SpaDES.core 2.0.3

Enhancements

• new accessor function figurePath() to get the directory of a module's output figures, which is now uses a separate subdirectory per module (i.e., file.path(outputPath(sim), "figures", <moduleName>)); Plots() defaults to using this path, and module developers are encouraged to update their module code to use figurePath(sim) where Plots() is not being used.
• re-Caching of a simList no longer triggers on changes to .useCache parameter, when it doesn't pertain to the event or module in question.
• many historical modules used bind_rows from dplyr within expectsInput or createsOutput. Now, if a module uses bind_rows and doesn't have dplyr installed, SpaDES.core will intercept and use SpaDES.core::bindrows.
• saveSimList() better handles relative paths and symbolic links (#263)
• saveSimList() does an improved job at handling file-backed objects (previously, tests were passing because object was still there; now object is deleted, simList reloaded, and file-backed objects put back into place)
• deal with upstream reproducible changes to .wrap
• deal with upstream reproducible changes to Cache messaging, specifically, remove cases where function was a userTag for an outer function call. Now these will display as otherFunction, so that individual functions can be more easily isolated.
• overhaul of messaging during simInit and spades that allows for nested calls to simInit and/or spades
• elapsed time during simInit is now reported
• elapsedTime now displays the largest time unit, which may not be secs
• some parts of any warning messages are now muffled for clarity: e.g., In modCall... is removed.
• options that are either RequireOptions(), spadesOptions() or reproducibleOptions() can now be set during the simInit by passing them as arguments, e.g., simInit(useMemoise = FALSE). See ?simInit, specifically the ... parameter description. This is not passed as an argument named options: these are just options. For convenience, user can omit the package prefix, e.g., useMemoise for reproducible.useMemoise
• all necessary updates to deal with reproducible updates to exported methods
• new function: dmin to go with the other d* SpaDES times.
• updates to unit tests to accommodate all these changes.

Dependency Changes

• dplyr is removed (again)

Bug fixes

• coltab<- from terra changed how it deals with multi-layer SpatRasters. Two sample modules have been modified to set colours on these multi-layer SpatRasters
• loading of asc raster-type files using inputs did not work; fixed.
• fixed bug in simInit parameter checking
• A number of new edge cases dealt with for reducing false positive and false negative Cacheing of events and modules. Now, for example, a change to the parameter .useCache = c("init") to .useCache = c("init", ".inputObjects") will not trigger a rerun of the init event. Also, .inputObjects is no longer evaluated for Cacheing of doEvent
• Error in if (is.na(sim@params[[m]][[x]])) fixed.
• asc spatial map files were incorrectly loaded by terra package: fixed.