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Analysis and Metrics","monthly_downloads":0,"total_dependent_repos":0,"total_dependent_packages":0,"readme":"# diversitree: comparative phylogenetic analyses of diversification\n\n\u003c!-- badges: start --\u003e\n[![R-CMD-check](https://github.com/richfitz/diversitree/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/richfitz/diversitree/actions/workflows/R-CMD-check.yaml)\n\u003c!-- badges: end --\u003e\n\nThis repository contains \"diversitree\".  It is my experimental sources\nthough, and may not compile or work for you.  You may prefer the\nreleased version from CRAN:\n\n    \u003e install.packages(\"diversitree\")\n\n\nThe interesting directories are:\n\n* inst/tests: testing functions that exercise most of the\npackage's main features.  Running `./run_tests.R` will run the tests.  These take too long to run on CRAN (over a minute), so are not set up in the usual way.\n* doc: Vignettes, and their required data files.\n\n## Installing diversitree\n\nClone the repository with\n\n    git clone git://github.com/richfitz/diversitree.git\n\nThe package should then be installable the usual way.  You'll need a C, C++ and Fortran compiler.\n\nTo install and specify the location of the fftw library in a\nnon-standard place, a line like this is required:\n  R CMD INSTALL diversitree --configure-args='--with-fftw=/path/to/fftw'\nwhere the path will be the path so that the files\n  /path/to/fftw/include/fftw3.h\n  /path/to/fftw/lib/lib/fftw3.so\nexist.\n\nOn Windows, set the environment variable LIB_FFTW to point to the\ndirectory that contains include/fftw.h, and install the package.\n\nIf fftw is not found, installation will continue, but the (relatively)\nfast C based QuaSSE integration will not be available.  The R based\nfft integrator and the method-of-lines integrator will be available.\n\n## Unresolved clades\n\nAs of version 0.10.0, diversitree can no longer work with unresolved clades (FitzJohn, Maddison and Otto 2009's method), due to the package being long in retirement from development and difficulties adapting the Fortran code to meet CRAN's requirements.  Users can install an older package from github (e.g., with `remotes::install_github(\"mrc-ide/diversitree@e587755\")` to install the last released version that contained this code). This will require a working Fortran compiler. Alternatively, a suitably motivated person could restore the code (reverting changes contained in `aaaa`) and patch the code to work with the current version of `flang` as used by CRAN.\n\n## Branches\n\nThe \"master\" branch contains the bleeding edge version of diversitree.\nIt may or may not work for you.  The \"release\" branch contains stable\nreleases.\n","funding_links":[],"readme_doi_urls":[],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":["geo"],"project_url":"https://ost.ecosyste.ms/api/v1/projects/106829","html_url":"https://ost.ecosyste.ms/projects/106829"}