split off non-core functions into another package

[achubaty]

Many of these aren't well tested and documented, and aren't required for SpaDES itself (e.g., crw, spread, etc.) so it may be best to put them in a new package e.g., SpaDES_toolbox.

Several of our outstanding issues are enhancements etc. related to these 'extras' at could be moved to the other repo/package:

• spread - add fire size as a criterion for spreading #6
• Agent - reproduction #7
• initCoords - add the ability to assign initial coordinates to agents #8
• spread as a reaction-diffusion equation #17
• additional movement methods besides "crw" #20
• Mapping facilities module - reproject, crop, rasterize etc. #50
• All current and new "contagious" functions should have an argument "torus" #193
• Create caching mechanisms for a spades call #206

NOTE: we will need to reorganize the vignettes and sample modules as they rely on many of these 'extras'.

[eliotmcintire]

This is in next release, so lower priority.

[achubaty]

use https://github.com/google/github-issue-mover to transfer appropriate issues from this repo into the new package repos

[achubaty]

It may be time to consider splitting the package:

Status: 1 NOTE
checking installed package size ... NOTE
  installed size is  5.4Mb
  sub-directories of 1Mb or more:
    R     1.6Mb
    doc   2.1Mb

---

Proposed packages:

• SpaDES: a metapackage that imports all the others and loads them per tidyverse

  • Imports (with library call in zzz.R): quickPlot, reproducible, SpaDES.extra, SpaDES.shiny, SpaDES.tools

• SpaDES.core: the core DES

  • Depends: reproducible
  • Imports: quickPlot
  • Suggests: SpaDES.extra, SpaDES.tools

• SpaDES.cache reproducible: provides simulation caching mechanisms.

  • Extends SpaDES.core

• SpaDES.extra (NOT YET BUILT): additional general-purpose modules, e.g. translator modules like Translator modules - change object names #329, 'crop-load-reproject' module, and output analysis modules

  • Extends: SpaDES.core

• SpaDES.plot quickPlot: modular plotting

  • Extends: SpaDES.core

• SpaDES.shiny: move all shiny/SpaDESUI related stuff here

  • Extends: SpaDES.core

• SpaDES.tools: additonal functions for building spatial simulation models (crw, spread, etc.)

  • Extends: SpaDES.core

• SpaDES.addins: Rstudio addins for SpaDES and SpaDES module development

  • Imports: SpaDES / SpaDES.core

[achubaty]

added SpaDES.shiny above

[achubaty]

@eliotmcintire we need to coordinate this split. When can you pause development of caching/spreading so that we can split the package?

[achubaty]

we should aim to have our next CRAN update ready for the release of R 3.4.0 on April 21, 2017

[achubaty]

started...

• https://github.com/PredictiveEcology/quickPlot contains the Plot elements
• https://github.com/PredictiveEcology/reproducible contains Cache and file path elements

[achubaty]

moved Rstudio addins out of development branch and into their own package (https://github.com/PredictiveEcology/SpaDES.addins; b5c49c8)

[achubaty]

moved shine() out of SpaDES and into SpaDES.shiny (f0848ed)

[achubaty]

😢 just hit an issue with the proposed package names: C++ doesn't allow dots in the names, so Rcpp errors (see here; and here).

@eliotmcintire are you OK with using underscores (e.g., SpaDES_tools)?

Otherwise we may be able to wait for the fixed Rcpp to appear on CRAN. Looks like that linked issue was closed today.

[eliotmcintire]

I think we should remove SpaDES from the name... reproducible is a stand alone product ... quickPlot too ... what links the tools? If we can't do that... what about no punctuation: SpaDEStools ... SpaDESshiny?

[achubaty]

Latest Rcpp works fine: install_github("RcppCore/Rcpp")

[achubaty]

moved various pieces into SpaDES.tools (PredictiveEcology/SpaDES.tools@46d3dc2)

[achubaty]

completed.