cmdstanr now standard

Now requires and defaults to cmdstanr instead of rstan for MCMC engine. See README for installation details.

minor maintenance

2.13 - maintenance

- rgampois2 to match Stan's neg_binom_2()
- ulam() with cmdstan=TRUE should not return unwanted variables anymore
- ulam() with cmstan=TRUE should support warmup argument correctly now

incremental cmdstanr support

2.12

Update README.md

basic cmdstanr support

v2.11 - update for cmdstanr v0.0.0.9006

-fixes deprecated stuff in latest cmdstanr. this breaks my old exe caching code, so will need to figure out a new way to accomplish that.

Compatibility with R 4.0.0

Compatibility release for R 4.0.0

Version 2.01 fixes problems introduced when R 4.0.0 was released. There should not be any functionality changes.

2nd edition feature release

New features from Experimental branch merged, needed for 2nd edition of Statistical Rethinking text.

2nd edition pre-release

Check against 1st edition code — ensemble() patched

Warming up for 2nd edition book release

First release that uses the 2nd edition code base. Default branch is now Experimental, which will become the master branch when 2nd edition comes out.

Patch for rstan 2.10.1

v1.59 - patch for rstan 2.10.1

- Brings map2stan up to date with syntax changes in rstan 2.10.1. Now
requires rstan 2.10.0 or greater. See changes to R/map2stan-templates.r
if curious about internal syntax changes. Older Stan code will still
function, but will throw deprecation warnings.
- A book errata file is now included: ERRATA.md
- A few documentation fixes
- Adjusted namespace and added manually constructed generics
(R/aa_generics.r) to hopefully fix the odd issues with plot methods
that some people have had. I still can’t repeat the issue myself, so
flying blind. Sorry.
- fixed an unusual variable name bug with glimmer()
- fixed an issue with negative bounds in uniform densities and map2stan.

1.58 - Book release drum beat

Various tuning adjustments, and one feature addition in this version.

Feature:
- coerce_index now works with multiple columns. See ?coerce_index for
details.

Tuning:
- simplehist much more efficient now
- add stancode method for stanfit objects
- map2stan uses rstan's own multicore code now, instead of my
implementation. Should be equivalent, but produces less Terminal spam
now.
- Various documentation edits.