.gitignore

## These are generated automatically
www/beetles.eps
www/logo.R
www/logo.pdf
www/logo.png
www/studies.bib
www/studies.html
www/bib/studies_tmp.html
www/doc
www/bib/studies.html

## Generated during example compilation
www/examples/*/*.Rmd
www/examples/*/*.md
www/examples/*/*.html
www/examples/*/figure
www/examples/*/cache


## These are generated too:
logo/logo.pdf
logo/logo.png
logo/beetles.eps.xml

## Byproducts of all vignettes:
doc/cache
## ... of diversitree-ext
doc/Makevars
doc/diversitree-ext.R
doc/diversitree-ext.aux
doc/diversitree-ext.out
doc/diversitree-ext.pdf
doc/diversitree-ext.rip
doc/diversitree-ext.tex
## ... of diversitree-tutorial
diversitree-tutorial.R
diversitree-tutorial.aux
diversitree-tutorial.bbl
diversitree-tutorial.blg
diversitree-tutorial.out
diversitree-tutorial.pdf
diversitree-tutorial.tex
diversitree-tutorial.toc
## ... of diversitree-tuning
doc/diversitree-tuning.R
doc/diversitree-tuning.pdf
doc/diversitree-tuning.tex
## ... of derivations
doc/derivations.pdf

## These are generated by configure/compilation of diversitree:
a.out.dSYM
src-i386
autom4te.cache/
config.status
src/Makevars
src/config.h
config.log

src/*.o
src/*.so
diversitree/config.log
diversitree/src/*.o
diversitree/src/*.so
diversitree/src/symbols.rds
*.swp
diversitree_*.tar.gz
diversitree.pdf

## I will often have a checking file here:
diversitree.Rcheck

## Development stuff
bounded

pub/bm/bm-timing.pdf
pub/bm/timings*Rdata

pub/simulations/musse-multitrait-ci.pdf
pub/simulations/musse-multitrait-power.pdf
pub/simulations/output
pub/simulations/trees

pub/example/cache
pub/example/primates.tex
pub/example/primates-incl.tex
pub/example/primates.R
pub/example/primates.tex
pub/example/primates.pdf

pub/diversitree-suppl.pdf
pub/diversitree.pdf

ideas.org
inst/web