Forum: vegan 2.0-1 on CRAN

Posted by: Jari Oksanen
Date: 2011-10-20 12:28
Summary: vegan 2.0-1 on CRAN
Project: vegan - Community Ecology Package

Development Status : 5 - Production/Stable
Intended Audience : End Users/Desktop
License : GNU General Public License (GPL)
Natural Language : English
Operating System : OS Independent
Programming Language : C/C++ : Fortran : R
Topic : Environmetrics : Multivariate Statistics : Ecological Analysis

Content:

Version 2.0-1 of vegan was published today on CRAN.

The immediate reason for the release was that R 2.14.0 will be released soon, and vegan will give a lot of annoying warnings in R 2.14.0. The sd() function will no longer accept matrix input in R 2.14.0 and vegan was adapted to this change. There are also some minor bug fixes in meandist(), metaMDS(), permatswap() and permutest() for cca() objects.

The 2.0-1 release will contain two new functions: clamtest() implements a test to classify species to habitat specialists and generalists (CLAM of Chazdon et al., Ecology 92, 1332-1343; 2011), and raupcrick() implements a version of Raup-Crick dissimilarity where species co-occurrence probabilities are based on species frequencies (Chase et al. (2011) _Ecosphere_ 2:art24).

Latest News

vegan moves to GitHub and new release 2.2-0

Jari Oksanen - 2014-09-18 15:58 -

vegan moves to GitHub and new release 2.2-0

Jari Oksanen - 2014-09-18 15:57 -

vegan 2.0-6 in CRAN

Jari Oksanen - 2013-02-11 13:39 -

Trying GitHub

Jari Oksanen - 2012-02-26 16:27 -

Trying GitHub

Jari Oksanen - 2012-02-26 16:26 -

...

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RE: Loading Vegan Error [ Reply ]
By: Jari Oksanen on 2011-12-18 12:26

[forum:5324]

Ariella,

Sorry for not responding earlier: R-Forge does not alert developers on comments on the NEWS items, and I noticed only now your comment.

I cannot test this problem (all works with me), but this may be caused by the way R-Forge builds package binaries for MacOS: it assumes that users have Fortran installed in their Macs. Usually there is no Fortran in Mac, and this triggers the error. See R for MacOS FAQ question 5.4 to solve this problem.

I just wrote a web page on the issue: see http://vegan.r-forge.r-project.org/FAQ-R-Forge.html (the page should be available within a couple of hours after the time of this message).

Cheers, Jari Oksanen

Loading Vegan Error [ Reply ]
By: ariella cohain on 2011-11-09 16:36

[forum:5163]

Hi,

I am trying to install and load the package vegan so that I can use vegdist() to get a Jaccard Similarity Coefficient.

When I type in install.package("vegan") it works fine but then I type library(vegan) it keeps telling me

Error in get(Info[i, 1], envir = env) :
internal error -3 in R_decompress1
Error: package/namespace load failed for ‘vegan’

I have installed the package permute and can't seem to figure out what to do inorder to get the vegan package.

Please advise, or if anyone knows a different way of calculating the Jaccard Similarity Coefficient.

Thanks!
Ariella