Hi,
I am the maintainer of Bioconductor package celda. Recently there is an build
check error on the development branch specifically on Windows i386 platform. I
cannot reproduce this error on my local x64 Windows machine. The error report
is as follows:
* checking files in 'vignettes' ... OK
*
Yes - those are the scripts we are using. We (Martin and I) will be spending
time tomorrow to work through this. With the release quickly approaching
we will work on making edits to the scripts to download this new data.
Thank you for bringing this to our attention.
- Kayla
On 4/1/20, 12:44 PM
Further to this point, when comparing to the latest OBO from geneontology,
it looks like the current GO.db has just over 1000 GO IDs that are not in
GO any longer, and almost 500 GO IDs are in the GO OBO file that are not in
GO.db
On Wed, Apr 1, 2020 at 12:11 PM James W. MacDonald wrote:
> Are w
Are we still using the scripts in BioconductorAnnotationPipeline/go/scripts
to download GO data and create the GO.db package?
If so, that is likely a problem that will only get worse with time.
Apparently geneontology.org is no longer generating the SQL dumps that the
go scripts rely on, so whatev
Hi Antti,
On 3/30/20 00:14, Antti Honkela wrote:
Hi all,
I am a co-maintainer of BitSeq. About a year ago, we were offered help
in migration from Rsamtools to Rhtslib and we took the offer.
The commit pushed by BioC team added a file src/bam_plbuf.c with just
one line:
#include
This is n
We will be updating the devel builders to the lastest R 4.0.0 later today.
This should not affect the daily builder but may interrupt the Single Package
Builder for new submission. Build report status for a platform on the single
package builder may be missing during the update period. The do
Hi,
Did you add your Github username to your BiocCredentials account?
If you add your Github username to your BiocCredentials account, it will import
the SSH keys you add on your Github account.
Best,
Nitesh
> On Mar 31, 2020, at 11:46 PM, Saskia Freytag wrote:
>
> Hi,
>
> I have added
Hi,
this sounds very much like the bioconda approach,
they have self-archived / mirrored the packages,
which is not ideal.
The Bio.tools people also ran into that issue earlier,
and as mentioned in [1] is now fixed on the bioconductor side
with stable download links.
Yours,
Steffen
[1]
ht
There has been an issue reported that there is some connectivity / timeout
issues happening to experimenthub and annotationhub. It seems to be
intermittent but we are aware and investigating the issue.
Thank you
Lori Shepherd
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
