[BioC] can't get simpleaffy for Macs; was: Re: problem with loading affyQCReport
drnevich at uiuc.edu
Fri Dec 16 21:55:41 CET 2005
I'm relaying on a problem about downloading simpleaffy for Macs; thought it
might be related what happened before. Adrienne was able to download and
install other Bioconductor packages, but not simpleaffy.
Thank you! Well, I managed to get almost everything to install okay on my Mac
(OS X, PowerPC G4, 512 MB SDRAM). I figured out that there is a Package
Installer in the menu bar. By selecting Bioconductor (binaries), I was able
a long list that included all of the packages listed in #7 of your
selected each of them and clicked install. This worked for all of the packages
except simpleaffy. The error message** popped up in the R console. It also
Warning: unable to access index for repository http://www.bioconductor.org/
trying URL 'http://www.bioconductor.org/packages/bioc/stable/bin/macosx/
but I think it said that even when it was able to download/install the other
**Here's the error message:
Error in download.file(url, destfile, method, mode = "wb") :
cannot open URL 'http://www.bioconductor.org/packages/bioc/stable/
Here's her sessionInfo():
R version 2.2.0, 2005-10-06, powerpc-apple-darwin7.9.0
attached base packages:
 "tcltk" "tools" "methods" "stats" "graphics"
 "grDevices" "utils" "datasets" "base"
other attached packages:
plier affy tkWidgets DynDoc reposTools
"1.2.0" "1.8.1" "1.8.0" "1.8.0" "1.8.0"
widgetTools convert marray Biobase made4
"1.6.0" "1.4.0" "1.8.0" "1.8.0" "1.4.0"
scatterplot3d ade4 limma
"0.3-24" "1.4-0" "2.4.4"
At 06:10 PM 12/14/2005, Herve Pages wrote:
>Thanks for telling us!
>Due to recent minor fixes in packages "GeneR", "DEDS" and "simpleaffy",
>I recently had to rebuild them in order to provide updated source and binary
>(Windows) packages on our BioC 1.7 repository.
>But given the error message you got while trying to load the "simpleaffy"
>package, I guess I probably used R-2.3 instead of R-2.2 to rebuild.
>My mistake, sorry!
>Packages affected by this mistake are: GeneR (1.4.1), DEDS (1.2.1) and
>Today I rebuilt them with R-2.2 and pushed them to our repository
>(http://bioconductor.org). The new (and hopefully working *) packages
>are: GeneR (1.4.2), DEDS (1.2.2) and simpleaffy (2.4.2).
Functional Genomics Bioinformatics Specialist
W.M. Keck Center for Comparative and Functional Genomics
Roy J. Carver Biotechnology Center
University of Illinois, Urbana-Champaign
1201 W. Gregory Dr.
Urbana, IL 61801
e-mail: drnevich at uiuc.edu
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