From kornelius.rohmeyer at small-projects.de  Sat Jun 11 02:46:07 2011
From: kornelius.rohmeyer at small-projects.de (Kornelius Rohmeyer)
Date: Sat, 11 Jun 2011 02:46:07 +0200
Subject: [Rd] CRAN package with dependencies on Bioconductor
In-Reply-To: <4DF2AA9F.60907@fhcrc.org>
References: <BANLkTinzAC44xnkHzVk+=BK3qaPYPQqtkA@mail.gmail.com>
	<BANLkTi=aOE4hPt9YRw=PqXkpk2Jcv8rRqA@mail.gmail.com>
	<4DF2AA9F.60907@fhcrc.org>
Message-ID: <BANLkTi=0m40VwTFcbbyLtw4pjLQwbNwMeA@mail.gmail.com>

Dear Martin,

thanks for your response.

>> The superclass graphBase is introduced in graph 1.30. In my
>> understanding the problem is that our package gMCP is build on CRAN
>> for R 2.12 with the package graph in version 1.30. Unfortunately
>> biocLite installs graph_1.28.0.zip for R 2.12.
>
> biocLite is returning the correct package -- graph 1.28.0. graph 1.30 did
> not come in to existence until the most recent release, 2011-04-13,
> approximately when R-2.13 became the current release version.
>
> CRAN is building packages with the current release, R-2.13, for which
> biocLite and install.packages both (correctly) return graph 1.30.

I doubt this, i.e. CRAN is also still building packages for R 2.12 -
and is using graph 1.30 for this as far as I understand it (instead of
1.28).

>> Are there ways to make dependencies on Bioconductor less complicated?
>
> Use the current version of R.

So you agree that it is impossible to give a reasonable instruction to
install such binary packages for older versions of R like the four
month old R 2.12? (Reasonable means without manual installation of
packages in the correct versions - where the correct versions have to
be found out by the maintainer.)

Best regards, Kornelius.



[Rd] CRAN package with dependencies on Bioconductor
Kornelius Rohmeyer