PredictiveEcology/reproducible: v0.2.0

Known issues: https://github.com/PredictiveEcology/reproducible/issues

• new functions:

  • prepInputs to aid in data downloading and preparation problems, solved in a reproducible, Cache-aware way.
  • postProcess which is a wrapper for sequences of several other new functions (cropInputs, fixErrors, projectInputs, maskInputs, writeOutputs, and determineFilename)
  • downloadFile can handle Google Drive and ftp/http(s) files
  • zipCache and mergeCache
  • compareNA does comparisons with NA as a possible value e.g., compareNA(c(1,NA), c(2, NA)) returns FALSE, TRUE

• Cache -- new features:

  • new arguments showSimilar, verbose which can help with debugging
  • new argument useCache which allows turning caching on and off at a high level (e.g., options("useCache"))
  • new argument cacheId which allows user to hard code a result from a Cache
  • deprecated arguments: digestPathContent --> quick, compareRasterFileLength --> length
  • Cache arguments now propagate inward to nested Cache function calls, unless explicitly set on the inner functions
  • more precise messages provided upon each use
  • many more userTags added automatically to cache entries so much more powerful searching via showCache(userTags="something")

• clearCache and showCache now give messages and require user intervention if request to clearCache would be large quantities of data deleted

• memoise::memoise now used on 3rd run through an identical Cache call, dramatically speeding up in most cases
• new options: reproducible.cachePath, reproducible.quick, reproducible.useMemoise, reproducible.useCache, reproducible.useragent, reproducible.verbose
• asPath has a new argument indicating how deep should the path be considered when included in caching (only relevant when quick = TRUE)
• New vignette on using Cache
• Cache is parallel-safe, meaning there are tryCatch around every attempt at writing to SQLite database so it can be used safely on multi-threaded machines
• bug fixes, unit tests, more imports for packages e.g., stats
• updates for R 3.6.0 compact storage of sequence vectors
• experimental pipes (%>%, %C%) and assign %<%
• several performance enhancements