[BioC] Windows binary for GEOquery (R 2.10.0)

Sean Davis seandavi at gmail.com
Thu Dec 10 21:03:12 CET 2009


On Tue, Dec 8, 2009 at 1:39 PM, Seth Falcon <sfalcon at fhcrc.org> wrote:
> On 12/8/09 10:23 AM, James W. MacDonald wrote:
>>>
>>> I've made some changes to the vignette in the hopes that it will build
>>> fast enough to become available again. I don't have any idea why the
>>> Windows build is slower than that on Linux or MacOS, but that appears
>>> to be the case, resulting in a timeout in the vignette build process.
>>> In the meantime, the package can almost certainly be installed from
>>> source on Windows IF you have the capability of doing that.
>>
>> And having the capability to build packages on Windows is now almost
>> trivial. See
>>
>>
>> http://cran.r-project.org/bin/windows/base/rw-FAQ.html#Can-I-install-packages-into-libraries-in-this-version_003f
>
> We believe we have now identified the cause of the problem for GEOquery on
> Windows.  At issue is the use of base::seek which is not reliable on
> Windows.  So while installing on Windows from source will work, not all
> package functionality will work as desired.
>
> We are working with Sean to fix things by avoiding seek.

As far as I know, I have fixed these issues.  Thanks to Martin and the
folks in Seattle for identifying the source of the problem.

A new version of GEOquery is now available.  Sorry for the inconvenience.

Sean



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