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-# Rgraphviz
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+# R package: Rgraphviz
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+
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+This is the developer version of Bioconductor package [Rgraphviz](http://bioconductor.org/packages/devel/bioc/html/Rgraphviz.html). Install in R as:
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+
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+```r
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+source('http://bioconductor.org/biocLite.R')
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+biocLite(Rgraphviz')
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+```
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+
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+# Additional installation tips
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Rgraphviz now comes bundles with Graphviz. This should greatly simplify
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installation on all platforms, compared with earlier versions.
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@@ -6,32 +15,32 @@ installation on all platforms, compared with earlier versions.
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While it should not be necessary, we still allow for the use of an external
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Graphviz (external to Rgraphviz) at install time, except on Windows (this used
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to be supported on Windows but this is no longer true). This is indicated by
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-the configure option --with-graphviz.
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+the configure option `--with-graphviz`.
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A direct specification of an external Graphviz at install time would be
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- R CMD INSTALL --configure-args='--with-graphviz=/usr/local' Rgraphviz_*.tar.gz
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+
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+```{bash}
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+R CMD INSTALL --configure-args='--with-graphviz=/usr/local' Rgraphviz_*.tar.gz
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+```
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In this case (with $DIR=/usr/local), the configure script assumes the presence
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-of
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- $DIR/include/graphviz
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- $DIR/lib/graphviz
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+of
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+```{bash}
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+$DIR/include/graphviz
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+$DIR/lib/graphviz
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+```
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as is the default when Graphviz is installed. It is not possible to directly
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-specifify these two directories, only $DIR
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+specifify these two directories, only `$DIR`
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It is also possible to get Rgraphviz to search for Graphviz, by leaving the
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+`--with-graphviz` option empty, as
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- R CMD INSTALL --configure-args='--with-graphviz' Rgraphviz_*.tar.gz
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+```{bash}
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+R CMD INSTALL --configure-args='--with-graphviz' Rgraphviz_*.tar.gz
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+```
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In this case, Rgraphviz will search for Graphviz using the following methods
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- (1) First try pkg-config
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- (2) See if Graphviz is in its default location of /usr/local
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-
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-
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-## Devel repository
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-
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-The devel repository for Rgraphviz is at
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-
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-https://github.com/kasperdanielhansen/Rgraphviz
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+1. First try pkg-config
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+2. See if Graphviz is in its default location of `/usr/local`
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## Notes
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@@ -39,4 +48,7 @@ The release version of Graphviz 2.28 contains bugs that makes it not work with
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Rgraphviz for certain layout options. The patches to the bundled Graphviz
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2.28.0 are included in package.
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+## R CMD check results
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+Bioconductor: [Multiple platform build/check report](http://master.bioconductor.org/checkResults/devel/bioc-LATEST/Rgraphviz/)
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+
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