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PredictiveEcology/SpaDES: v1.3.0

Eliot McIntire; Alex Chubaty; Yong Luo; Sarah Bauduin; Steve Cumming; ygc2l


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{
  "publisher": "Zenodo", 
  "DOI": "10.5281/zenodo.159485", 
  "title": "PredictiveEcology/SpaDES: v1.3.0", 
  "issued": {
    "date-parts": [
      [
        2016, 
        10, 
        6
      ]
    ]
  }, 
  "abstract": "<p>Known issues: <a href=\"https://github.com/PredictiveEcology/SpaDES/issues\">https://github.com/PredictiveEcology/SpaDES/issues</a></p>\nversion 1.3.0\n<ul>\n<li>stricter package version dependencies in Imports and Suggests</li>\n<li><code>debug</code> argument in <code>spades()</code> can now take any expression, character strings. <code>TRUE</code>/<code>FALSE</code> changed behavior to show only current event.</li>\n<li>timeunits: when there are parent and grandparent modules, if timeunit is defined, it overrides the \"smallest unit\" rule. Thus, a parent module can force a timeunit.</li>\n<li><p>Plot - enhancements and fixes:</p>\n<ul>\n<li>more robust base plotting and many visual tests on Windows;</li>\n<li>re-add <code>col</code> arg to <code>Plot</code> (mimicks <code>cols</code>). Was lost from version 1.1.2;</li>\n<li>allow any arbitrary function to be used internally to <code>Plot</code> (<em>e.g.</em>, barplot, plot, etc.);</li>\n<li>add <code>arr</code> argument to <code>Plot()</code>, allowing passing of arrangement;</li>\n<li>allow <code>title</code> arg in <code>Plot()</code> to accept character for plot title;</li>\n<li><code>Plot</code> can use character passed to <code>title</code> as a title;</li>\n<li>some additional functionality for plotting of factor rasters, incl. <code>clickValues</code>, legends correct for wide variety of types;</li>\n<li>change <code>new</code> arg in <code>Plot()</code>. Now it does one plot at a time, not whole device. Use <code>clearPlot()</code> to wipe whole device.</li>\n</ul>\n</li>\n<li>Add <code>modulesGraph</code>, showing parent and child module relationships.</li>\n<li>Add <code>filesOnly</code> arg to <code>shine()</code>. This can be in preparation for publishing to www.shinyapps.io or other pages. Currently still alpha.</li>\n<li>Add POM: Pattern Oriented Modeling (#269). A simple interface to a simList object, allowing fitting parameters to data.</li>\n<li>add <code>.inputObjects</code> functionality -- function that runs during <code>simInit()</code> to create default <code>inputObjects</code></li>\n<li>add <code>P</code> as a namespaced shortcut for params: <code>P(sim)</code> would replace <code>params(sim)$moduleName</code> when called from within that module</li>\n<li>allow <code>params(sim)</code> &amp; <code>start(sim)</code> &amp; others in <code>defineModule()</code> by changing parse order in module metadata</li>\n<li>add explicit <code>cl</code> arg to parallel aware functions, for more control</li>\n<li><code>newModule</code> gains new arguments <code>type = c(\"child\", \"parent\")</code> and <code>children = c()</code>. See <code>?newModule</code> (#300).</li>\n<li>module structure now includes an R subfolder for R scripts. These will be parsed during simInit.</li>\n<li><code>checksums</code> updated to use faster hashing algorithm (<code>xxhash64</code>) and now only requires a single hash value per file (#295)</li>\n<li>new Rstudio addin for 'newModule' (#298); requires Import of <code>shiny (&gt;= 0.13)</code>, <code>miniUI (&gt;= 0.1.1)</code>, and <code>rstudioapi (&gt;= 0.5)</code></li>\n<li>fixed bugs in module template</li>\n<li>fixed bug in <code>cir</code> (#288, #311)</li>\n<li>improved use of package options; added new option <code>spades.modulesPath</code>.</li>\n<li>improved <code>downloadModule</code> to use option <code>spades.modulesPath</code> (#309)</li>\n<li>improved specification of module inputs and outputs (#189, #214, PR#310)</li>\n<li>remove module version warning (#312)</li>\n<li>other tweaks and fixes</li>\n</ul>", 
  "author": [
    {
      "family": "Eliot McIntire"
    }, 
    {
      "family": "Alex Chubaty"
    }, 
    {
      "family": "Yong Luo"
    }, 
    {
      "family": "Sarah Bauduin"
    }, 
    {
      "family": "Steve Cumming"
    }, 
    {
      "family": "ygc2l"
    }
  ], 
  "version": "v1.3.0", 
  "type": "article", 
  "id": "159485"
}
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