Hi Leonardo,
Both moscato2 and zin2 use pandoc 1.13.2.
When I manually run R CMD build derfinder on moscato2 it actually pops up a
crash dialog which of course you can't see in the build report.
I'll take a look and see if I can figure out what is going on.
Dan
- Original Message -
>
- Original Message -
> From: "Bernd Klaus"
> To: "bioc-devel"
> Sent: Thursday, December 3, 2015 3:41:51 AM
> Subject: [Bioc-devel] strange bug in a BioC workflow that only appears on
> Jenkis
> Dear all,
>
> I am currently developing an end-to-end workflow for Microarray
> analy
Hi Hervé,
OK thanks for the workaround and the quick reply.
Best wishes,
Leonard
On Fri, Dec 4, 2015 at 10:41 AM, Hervé Pagès wrote:
> Hi Leonard,
>
>
> On 12/04/2015 09:43 AM, Leonard Goldstein wrote:
>>
>> Hi all,
>>
>> In the latest Bioc release (and devel) I encountered problems with
>> c
Hi Leonard,
On 12/04/2015 09:43 AM, Leonard Goldstein wrote:
Hi all,
In the latest Bioc release (and devel) I encountered problems with
classes inheriting from GRangesList. Combining two or more objects
that belong to such classes can result in an error, as the combined
object is apparently not
Hi Stephanie and Hervé,
ncdf has been added to the extra repos for BioC 3.2
I hesitate to add it to the extra repos for devel (3.3). If we don't add it,
then we will start getting build errors as soon as ncdf is removed from CRAN
(well actually, it will happen the next time we update R on the d
Hi all,
In the latest Bioc release (and devel) I encountered problems with
classes inheriting from GRangesList. Combining two or more objects
that belong to such classes can result in an error, as the combined
object is apparently not recognized as a valid instance of the class.
I included an exam
- Original Message -
> From: "Thomas Dybdal Pedersen"
> To: "bioc-devel"
> Sent: Friday, December 4, 2015 6:50:36 AM
> Subject: [Bioc-devel] New instance types for Bioconductor AMI
> Hi
>
> When launching instances of the Bioconductor AMI I have noticed that the
> current
> generatio
Hi
When launching instances of the Bioconductor AMI I have noticed that the
current generation of instance types are not possible to select. Is this a
matter of the AMI not having been tested against these instances or is it due
to another matter (outside the hands of Bioc core)?
best
Thomas
_
Oops, I forgot to mention that I implemented this in devel, version 2.31.1.
It's in SVN now and all being well via biocLite() on Saturday afternoon Eastern
time.
From: Morgan, Martin
Sent: Friday, December 04, 2015 9:22 AM
To: Philipp Angerer; Bioc-devel
S
Hi Phillip --
es$foo accesses phenoData(es)$foo, so I implemented .DollarNames.eSet for this.
An ExpressionSet is rectangular and has two-dimensional subsettings, the core
data is a matrix, and generally ExperessionSet behaves like a matrix. So rather
than names() try colnames().
Thanks for th
Hi,
the S3 generic .DollarNames is used to create tab completions in the R command
line and RStudio.
since you can access featureData(es)$feature via es$feature, it would be
useful to either implement .DollarNames.ExpressionSet or simply
names.ExpressionSet
I couldn’t find a bug tracker for B
Dear all,
I know that’s not a really urgent and important thing, but to me it seems that
the code coverage/test coverage badges are not calculated or updated anymore.
For example, on http://bioconductor.org/packages/devel/bioc/html/FamAgg.html it
says test coverage unknown suggesting that there
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