[adegenet-forum] help not working

[Jombart, Thibaut]

Dear Mrinalini, 

I forward your question to the adegenet forum, since this is a question that will likely be frequently asked.
In think by default on windows, R seeks html help, while these are not necessarily installed along packages (I think it depends on the initial settings of your installation, but it's not done by default).
So, looking for help, R does not find it. It is not a problem specific to adegenet, but to contributed packages in general.
To solve it, you need to disable the html help. This is done by setting the option:
##
options("help_type"="text")
##
Then try:
library(adegenet)
?dapc

This should now work.

Best regards

Thibaut



________________________________________
From: Mrinalini,Mrinalini [bsp22e at bangor.ac.uk]
Sent: 09 November 2010 16:11
To: Jombart, Thibaut
Subject: Re: Other: new tool for describing genetic diversity



Dear Thibaut,

Thanks for your reply. I thought I should let you know that ?dapc says
the URL cannot be retrieved and "connection failed" (I have seen that
this is what happens with "?" pages in many other R genetics packages
and it is really frustrating!!!). I also tried going to the html folder
that comes with the adegenet download and opening the 00Index.html.
Although the index help page comes up, the individual topic pages can't
be retrieved. I don't know if there is much more information on these
web pages as opposed to the tutorial and the manual but it would be good
if R illiterates like me can access as much information as possible. I
think this is a problem with the cran people? (It would be hard to
imagine that all genetics people got this wrong!)

Thank you,
Mrinalini.