NEWS about changes in Chao extrapolated richness
Proof read NEWS (and dune.taxon man page accordingly)
Bad \usage lines found in documentation object 'specpool'
Update examples (see comments below for: commsim swhs_samp)

* CHECK THIS: commsim models seem to have changed with
  allowing double in swsh_samp methods
* Changes in avoiding dollar for with, and with for data
* Chao changes, in particular the small sample correction
bump up version to 2.1-99
Update web addresses to use github instead of R-Forge
Bump up version to 2.3-0 with branching of cran-2.2 for release
Do not set strata if they appear to have been set earlier

anova.cca generated permutation matrix with strata in
getPermuteMatrix and passed that on to other functions (like
permutest.cca). This was broken in efd575f1 which passed
strata from anova.cca (unnecessarily), but we fix it in
getPermuteMatrix so that the solution is more general (and
strata are to be deprecated in the next releases in any case).
anova.cca passes permutationMatrix: no need to pass 'strata'

anova.cca alwyas passes a permutation matrix to permutest.cca
and there is no need to pass 'strata' (which will be ingored).
Merge pull request #72 from jarioksa/fix-strata-redefinition

Do not set strata if they appear to have been set earlier
typo had symbolic forms for species and site scores swapped in table caption?
Merge pull request #73 from gavinsimpson/typo-design-vignette

typo in table caption?