Hi, When I search ChIPpeakAnno using google web site, the first hit is the following URL. But when I click on the URL, I got the error "The requested URL was not found on this server". I am wondering if this is because the server is temporary down or the site is permanently removed. http://www.bioconductor.org/packages/bioc/html/ChIPpeakAnno.html Thanks so much for your help! Best regards, Julie ******************************************* Lihua Julie Zhu, Ph.D Research Associate Professor Program in Gene Function and Expression Program in Molecular Medicine University of Massachusetts Medical School 364 Plantation Street, Room 613 Worcester, MA 01605 508-856-5256 http://www.umassmed.edu/pgfe/faculty/zhu.cfm
[Bioc-devel] Bioconductor package not found with Google search result link
5 messages · Zhu, Lihua (Julie), James W. MacDonald, Sean Davis +1 more
Hi Julie,
Zhu, Julie wrote:
Hi, When I search ChIPpeakAnno using google web site, the first hit is the following URL. But when I click on the URL, I got the error "The requested URL was not found on this server". I am wondering if this is because the server is temporary down or the site is permanently removed.
It appears Google doesn't have the current index of the Bioc website. The URI you want is http://www.bioconductor.org/packages/2.6/bioc/html/ChIPpeakAnno.html Best, Jim
http://www.bioconductor.org/packages/bioc/html/ChIPpeakAnno.html Thanks so much for your help! Best regards, Julie ******************************************* Lihua Julie Zhu, Ph.D Research Associate Professor Program in Gene Function and Expression Program in Molecular Medicine University of Massachusetts Medical School 364 Plantation Street, Room 613 Worcester, MA 01605 508-856-5256 http://www.umassmed.edu/pgfe/faculty/zhu.cfm
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James W. MacDonald, M.S. Biostatistician Douglas Lab University of Michigan Department of Human Genetics 5912 Buhl 1241 E. Catherine St. Ann Arbor MI 48109-5618 734-615-7826 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues
On Mon, May 3, 2010 at 11:09 AM, James W. MacDonald
<jmacdon at med.umich.edu> wrote:
Hi Julie, Zhu, Julie wrote:
Hi, When I search ChIPpeakAnno using google web site, the first hit is the following URL. But when I click on the URL, I got the error "The requested URL was not found on this server". I am wondering if this is because the server is temporary down or the site is permanently removed.
It appears Google doesn't have the current index of the Bioc website. The URI you want is http://www.bioconductor.org/packages/2.6/bioc/html/ChIPpeakAnno.html
And the following URL will get the most recent release, whatever that may be. http://www.bioconductor.org/packages/release/bioc/html/ChIPpeakAnno.html
It will be interesting to hear from the Seattle folks, as I'm not sure that this was ever a valid URL? Sean
On 5/3/10 8:52 AM, Sean Davis wrote:
On Mon, May 3, 2010 at 11:09 AM, James W. MacDonald <jmacdon at med.umich.edu> wrote:
Hi Julie, Zhu, Julie wrote:
Hi, When I search ChIPpeakAnno using google web site, the first hit is the following URL. But when I click on the URL, I got the error "The requested URL was not found on this server". I am wondering if this is because the server is temporary down or the site is permanently removed.
It appears Google doesn't have the current index of the Bioc website. The URI you want is http://www.bioconductor.org/packages/2.6/bioc/html/ChIPpeakAnno.html
And the following URL will get the most recent release, whatever that may be. http://www.bioconductor.org/packages/release/bioc/html/ChIPpeakAnno.html
Best, Jim
It will be interesting to hear from the Seattle folks, as I'm not sure that this was ever a valid URL?
I believe this is related to some cleanup of some quite old repository organization that was done as part of the release. We will have some details and possibly a fix later today.
Hi again,
On 5/3/10 10:10 AM, Seth Falcon wrote:
On 5/3/10 8:52 AM, Sean Davis wrote:
On Mon, May 3, 2010 at 11:09 AM, James W. MacDonald <jmacdon at med.umich.edu> wrote:
It appears Google doesn't have the current index of the Bioc website. The URI you want is http://www.bioconductor.org/packages/2.6/bioc/html/ChIPpeakAnno.html
And the following URL will get the most recent release, whatever that may be. http://www.bioconductor.org/packages/release/bioc/html/ChIPpeakAnno.html
Yes, both of the above URLs work and are the intended URLs for a package. As you mention the /packages/release/... URLs will always point to the current release which will change over time. Such URLs will go 404 if a given package drops out of the Bioconductor releases. So the /packages/release/... URLs have the convenience of always being current, but don't have the permanence that one might want when, e.g., referencing software used for a particular analysis.
It will be interesting to hear from the Seattle folks, as I'm not sure that this was ever a valid URL?
Well it somewhat depends on what "valid" means ;-) This URL did resolve to the current release, but it represents a very out-dated repository layout that existed before Bioconductor had separate annotation and experiment data package repositories. We have added a "moved permanently" redirect so the above link (and those similar to it) resolve again. That path is also now excluded from indexing via robots.txt (but this can take awhile to be updated). We have added the task of generating a proper site map for bioconductor.org to our TODO list which should also help with these sort of issues. + seth