[Rd] Tcl/Tk extensions

2008-02-20 Thread Prof Brian Ripley
This is a word of warning to those package authors who want to make use of Tcl/Tk extensions. First, please document them in the DESCRIPTION file, in the SystemRequirements field. Second, people have been recommending ActiveTcl. The latest ActiveTcl releases are much smaller, and it seems thi

Re: [Rd] DNAcopy package output data

2008-02-20 Thread Martin Morgan
This is a Bioconductor package, so please address questions to the Bioconductor list (instructions at http://www.bioconductor.org/docs/mailList.html). This is not a question related to 'development' but to use, so you do not need to ask on the '-devel' mailing list. Do you mean the result of 'segm

Re: [Rd] Bug using X11 on mac osx (for jpeg or png creation) (PR#10800)

2008-02-20 Thread Hin-Tak Leung
That being documented behavior, I still find the documented behavior somewhat inconvenient: the fact that some code I interactively tested does not run in the same way in batch mode. My own solution involves running a separate semi-permanent Xvfb process and let R CMD BATCH uses the virtual X serv

[Rd] DNAcopy package output data

2008-02-20 Thread Vladmir Makarov
Hello R Developers I am using DNACopy package http://bioconductor.org/packages/1.9/bioc/html/DNAcopy.html I am not able to figure out how to (if at all possible) to modify output format, namely, I am getting the following: "ID""chrom" "loc.start" "loc.end" "num.mark" "seg.mean"

[Rd] allow NAs in upper tri for eigen(x,symmetric=TRUE)?

2008-02-20 Thread Dan Davison
Thanks for acting on my original quibble; I had never questioned whether the diagonal was part of the lower triangle. However, I'm afraid I now have another related quibble. Seeing as ?eigen says that if(symmetric) 'only its lower triangle is used', it's seems a bit unfair of it to complain whe

[Rd] minor bug and patch: attr(x, "names")<-y when y is a pairlist (PR#10807)

2008-02-20 Thread jbrzusto
Full_Name: John Brzustowski Version: R-devel trunk and R 2.4.0 OS: linux Submission from: (NULL) (76.10.152.79) # Bug: > x<-1:3 > attr(x, "names")<-pairlist("a", "b", "c") > x a a a 1 2 3 # Note that the simpler alternative does work: > names(x)<-pairlist("a", "b", "c") > x a b c 1 2 3 # Af

[Rd] Reference: A Legal Issues Primer for Open Source and Free Software Projects

2008-02-20 Thread Henrik Bengtsson
FYI, I found the following to give a useful introduction to what copyright/left is, the ideas behind open-source licenses, and more: Fontana R. et al. 2008. A Legal Issues Primer for Open Source and Free Software Projects. Version 1.5. Software Freedom Law Center, February 14, 2008. URL: http://