I'm trying to use drosophila2GENENAME with the BioC 1.6 release and
running into some trouble. It seems that all of the gene names are
NA. Did something happen to these or am I doing something wrong here?
In an attempt to figure out what's going on, I've stumbled across a
couple other things:
1. When doing install.packages2("drosophila2"), everything seems to
install OK, but the message about Installation complete From URL: is
less than helpful as it doesn't return the full URL of the downloaded
package, but rather the URL http://www.bioconductor.org/packages/data/
annotation/stable/src/contrib . While I'm sure folks who are more
informed than I can ape the proper URL for the drosophila2 package, I
can't.
2. The "Return to index" link on the http://bioconductor.org/data/
metaData/html/ page is busted.
I imagine that the web pages are still in a state of flux; if you
want me to hold off on bug reports on the bioc web pages, I'm happy
to do so.
Thanks,
Cyrus
btw, I'm successfully (for the most part) using BioC 1.6 on OS X
10.4.1 with R-2.1.0 built w/ gfortran. Lots of moving rapidly targets...
[Bioc-devel] drosophila2GENENAME problem?
2 messages · Cyrus Harmon, Seth Falcon
Hi Cyrus, Cyrus Harmon <ch-bioc@bobobeach.com> writes:
I'm trying to use drosophila2GENENAME with the BioC 1.6 release and running into some trouble. It seems that all of the gene names are NA. Did something happen to these or am I doing something wrong here?
We're looking into it.
In an attempt to figure out what's going on, I've stumbled across a
couple other things:
1. When doing install.packages2("drosophila2"), everything seems to
install OK, but the message about Installation complete From URL: is
less than helpful as it doesn't return the full URL of the downloaded
package, but rather the URL http://www.bioconductor.org/packages/data/
annotation/stable/src/contrib . While I'm sure folks who are more
informed than I can ape the proper URL for the drosophila2 package, I
can't.
I'm not sure how useful the URL is, complete or not, but I will add it to a list of improvements. I think that we will be moving towards increased use of install.packages which does output the complete URL, but not as a summary message at the end, so it can be hard to catch.
2. The "Return to index" link on the http://bioconductor.org/data/ metaData/html/ page is busted. I imagine that the web pages are still in a state of flux; if you want me to hold off on bug reports on the bioc web pages, I'm happy to do so.
Please hold off on bug reports on the web pages. As you imagined, things are in a temporary state and we will be putting effort into website improvements over the next couple of weeks.
btw, I'm successfully (for the most part) using BioC 1.6 on OS X
10.4.1 with R-2.1.0 built w/ gfortran. Lots of moving rapidly
targets...
Glad to hear it! + seth