can you pass along some of the magic kasper? what encode portal are you
talking about?
On Tue, Mar 27, 2018 at 5:16 AM, Kasper Daniel Hansen <
kasperdanielhan...@gmail.com> wrote:
> What is the current state for AnnotationHub (2)? I have recently figured
> out (read: pestered the people who know
Thanks for catching the typo - I'll fix that.
The last day to submit packages is April 2. The API deadline (no new packages
added to manifest) is the 16th so we moved the last day to submit from the 9th
to the 2nd. This allows 2 weeks for the review instead of 1.
Valerie
On 03/27/2018 03:45 P
When I try and install the version on the master branch of the
Bioconductor git repository I get
STAN master$ Rdev --vanilla CMD INSTALL .
* installing to library ‘/home/mtmorgan/R/x86_64-pc-linux-gnu-library
...
** testing if installed package can be loaded
Error: package or namespace load fail
https://www.bioconductor.org/developers/release-schedule/ seems it bit unclear
- see below.
Do we have until April 9th to submit new packages?
- Paul
Monday March 26
• Announce new package deadline of April 9.
Monday April 2
• Announce deprecated packages for BioC 3.7. The
Dear bioc-devel team,
I am developing the STAN packages and I am running into problems when
trying to build my package. The problem is the following:
Error in vignette_type(Outfile) :
Vignette product 'STAN.tex' does not have a known filename extension
('NA')
ERROR: installing vignettes fa
Thanks so much, Nitesh!
That works beautfully!
Best regards,
Julie
On 3/27/18, 4:19 PM, "Turaga, Nitesh" wrote:
Hi Julie,
I used a tool called BFG cleaner to fix your repository.
The problem was, two files which were really large
Filename
Hi Julie,
I used a tool called BFG cleaner to fix your repository.
The problem was, two files which were really large
Filename Git id
-
HEK293_site4All.bam | 4643c11b (87.9 MB)
HEK293_site4All.bed | ba26 (
On 03/27/2018 12:11 PM, Mike Smith wrote:
I'm trying to do some auditing on how frequently questions are asked about
the packages I maintain (and also maybe whether I answer them). I can't
see anything in the forum API
(https://support.bioconductor.org/info/api/) about
tags but I thought maybe
It is still a work in progress. For now the old-style is still active and
encouraged to use. We would recommend making an Annotation Package that
utilizes AnnotaitonHub
https://bioconductor.org/packages/release/bioc/vignettes/AnnotationHub/inst/doc/CreateAnAnnotationPackage.html
We will kee
Hi,
The only person with write permissions on the bnbc repo is Kasper, e.g,
'khansen'. If you want permissions to this repo please cc him so he can give us
the ok.
The only package user 'c.fletez-brant' has access to is flowClean.
Valerie
On 03/27/2018 08:25 AM, Kipper Fletez-Brant wrote:
H
I'm trying to do some auditing on how frequently questions are asked about
the packages I maintain (and also maybe whether I answer them). I can't
see anything in the forum API
(https://support.bioconductor.org/info/api/) about
tags but I thought maybe the tag RSS feed would work e.g.
https://sup
Thanks Valerie. Kasper, would you sign off here so I can fix this?
On Tue, Mar 27, 2018 at 3:54 PM, Obenchain, Valerie <
valerie.obench...@roswellpark.org> wrote:
> Hi,
>
> The only person with write permissions on the bnbc repo is Kasper, e.g,
> 'khansen'. If you want permissions to this repo pl
Hi,
I am trying to fix an issue with the package "bnbc" and following the
instructions [1], I get a weird message when I try to push to
upstream/master (copied below).
Please advise,
Kipper Fletez-Brant
git push upstream master
FATAL: W any packages/bnbc c.fletez-brant DENIED by fallthru
(or you
Dear Nitesh,
I think I have similar problem...
I tried to push some updates to Bioconductor using *git push upstream
master *and having the following problem*:*
*To git.bioconductor.org:packages/iterClust.git ! [rejected]master
-> master (non-fast-forward)error: failed to push som
The deadline to submit new packages for inclusion in Bioconductor 3.7 is
Monday, April 2.
We cannot guarantee packages submitted by this date will be included in the
release as they still need to go through the standard review process. Please
note the last day for new packages to be accepted is
Developers and Community Members,
The release of Bioconductor 3.7 will be on Tuesday, May 1, 2018. Please see the
schedule for details:
https://www.bioconductor.org/developers/release-schedule/
Over the next month, key deadlines will be announced on the bioc-devel mailing
list:
https://st
Hey all,
Thanks for the advice. I managed to fix the problem of no permissions! My
windows machine, after an update, changed the paths to my github keys and
had to reposition them. I have now succesfully pushed in both master and
RELEASE_3_6 branches.
Cheers,
Sokratis
On 26 March 2018 at 15:47,
hi,
when i use the function 'readVcf()' from the 'VariantAnnotation' package
through a 'TabixFile' object, i can stream over it even if i do not
specify the argument 'yieldSize', although in that case the streaming is
trivial because is reading the whole file into main memory:
CEUvcf <- file
What is the current state for AnnotationHub (2)? I have recently figured
out (read: pestered the people who knows the arcane incantations for this
resource; I have been taught the sacred rituals) the interface to the
encode data portal and we should make an AnnotationHub interface to this.
But shou
19 matches
Mail list logo
