Sorry I have been traveling. Will get to it soon.
On Apr 4, 2017 12:58 PM, "Rainer Johannes"
wrote:
> Hi Herve,
>
> sorry for all the reds - actually I provided the patches to biovizBase and
> ggbio, but it did not work out that smoothly that I hoped. For the other
> packages that depend on ense
Hi Herve,
sorry for all the reds - actually I provided the patches to biovizBase and
ggbio, but it did not work out that smoothly that I hoped. For the other
packages that depend on ensembldb there's no problem or only small changes
required (did contact the developers).
Fingers crossed that Mi
Thank you, I changed to use tempdir(), and it works now.
One more question is how to locate those outputs in temporary directory since
I want users to use those outputs.
Aimin
On Tue, Apr 4, 2017 at 2:00 PM, Shepherd, Lori <
lori.sheph...@roswellpark.org> wrote:
> Write and access your output to
Hi Johannes,
This move is generating a lot of red today on the build report.
Hopefully biovizBase and ggbio can be fixed quickly. Note that
maybe a smoother path would have been to notify the maintainers
of these packages first and wait that they make the required
changes (i.e. to import the filt
Write and access your output to a temporary directory instead using tempdir().
Lori Shepherd
Bioconductor Core Team
Roswell Park Cancer Institute
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
From: Bioc-devel on
In the package I am trying ti submit to bioconductor, I got the following
error for check.
Warning in dir.create(output.file.dir) :
cannot create dir '/home/pkgbuild/OutputEnmap', reason 'Permission denied'
Warning in file(file, ifelse(append, "a", "w")) :
cannot open file '/home/pkgbuild/Outp
Hello all,
The ensembl 87 and 88 gtfs (converted to GRanges on the fly) have been added to
AnnotationHub and are currently available:
> library(AnnotationHub)
> hub = AnnotationHub()
updating metadata: retrieving 1 resource
|==
This is an ERROR on our tokay2 builder and we are in the process of resolving.
You do not need to take any actions at this time and when it is resolved this
should clear up automatically on the next build.
Lori Shepherd
Bioconductor Core Team
Roswell Park Cancer Institute
Department of Bios
Hi,
My package BUMHMM fails to build on tokay2 with the following error
message:
" there is no package called 'Biobase' ".
http://bioconductor.org/checkResults/3.5/bioc-LATEST/
BUMHMM/tokay2-buildsrc.html
There are no problems with other platforms.
It seems that many packages are encountering t
On 4 Apr 2017, at 10:59, Stian Lågstad
mailto:stianlags...@gmail.com>> wrote:
Hi,
Thanks again for notifying me about the changes needed in chimeraviz. Right now
I'm having problems installing Gviz - I get these errors:
"""
No methods found in "GenomicAlignments" for requests: pmapFromTransc
## I am resending this email as I it got rejected from posting due to "a
message with identical text being posted to the list recently" (for reasons
unknown to me). ##
Hi,
My package BUMHMM is giving an error when building on tokay2, with the
error message: "there is no package called 'Biobase'".
Hi,
My package BUMHMM is failing to build on tokay2, with the error: "there is
no package called 'Biobase'". The package is built and checked with no
problems on other platforms.
The build report is here:
http://bioconductor.org/checkResults/3.5/bioc-LATEST/BUMHMM/tokay2-buildsrc.html
This seems
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