biorxiv (
http://biorxiv.org/content/early/2016/05/27/055772).
Kind regards,
Maarten van Iterson
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Dear all,
Should I worry about not yet updated package sources/binaries in devel:
Package Source MethylAid_1.5.3.tar.gz
Windows Binary None
Mac OS X 10.6 (Snow Leopard) MethylAid_1.3.1.tgz
Mac OS X 10.9 (Mavericks) MethylAid_1.5.3.tgz
For example, no binary for windows and old
Dear all,
My package MethylAid does not pass check on moscato2.
I got
"Error in while (m%/%128 == 1) { : argument is of length zero
Calls: summarize ... readIDAT_nonenc -> lapply -> FUN -> readField ->
readString"
the summarize function calls read.metharray.exp from minfi which calls
>
>> > Dan
>> >
>> >
>> > - Original Message -
>> > > From: "Henrik Bengtsson" <henrik.bengts...@gmail.com>
>> > > To: "Dan Tenenbaum" <dtene...@fredhutch.org>
>> > > Cc: "Maarte
Dear all,
I'm struggling with using git and the Bioconductor SVN repo of my packages.
For example, I have a package in devel (bacon) and managed to push changes
to the svn/trunk of my package using the steps described at:
https://www.bioconductor.org/developers/how-to/git-mirrors/
following
l Message -----
> > From: "Maarten van Iterson" <mviter...@gmail.com>
> > To: "bioc-devel" <bioc-devel@r-project.org>
> > Sent: Thursday, March 31, 2016 12:01:04 AM
> > Subject: [Bioc-devel] not yet updated package sources/binaries in devel
>
Dear list,
Combining SummarizedExperiment object, containing a DNAStringSet in the
rowData seems not to work properly. If I cbind two SummarizedExperiment
objects, which I know are identical, an error is reported:
Error in FUN(X[[i]], ...) (from #2) :
column(s) 'sourceSeq' in ‘mcols’ are
t; as false positives. We'll fix the "cbind" and "rbind" methods for
> SummarizedExperiment to work around this problem.
>
> Thanks for the report.
>
> H.
>
>
> On 04/03/2017 12:58 AM, Maarten van Iterson wrote:
>
>> Dear list,
>>
>> Co
Dear all,
SummarizedExperiment and matrixStats both contain a method/function called
rowRanges one operates on a SummarizedExperiment-object the other on a
matrix. matrixStats is required by SummarizedExperiment, or a package it is
depending on, so rowRanges is masked when loading
017 03:11 AM, Vincent Carey wrote:
>
>> I am sure there are better responses to come, but here are a few initial
>> comments.
>>
>> On Thu, Apr 6, 2017 at 5:42 AM, Maarten van Iterson <mviter...@gmail.com>
>> wrote:
>>
>> Dear a
Dear all,
I've created a package that contains one vignette showing its core
functionality that I would like to be processed by the build-system and two
other vignettes showing more comprehensive examples, e.g. including
downloading publicly available data from GEO and 1000G vcfs which take too
see pull request # 3.
>
> Regards,
>
> Marcel
>
>
>
> On 12/13/2017 03:25 PM, Maarten van Iterson wrote:
>
> Hi Marcel,
>
> Thanks for your help, do you mean I should add "bgredata" to our DESCR
> file? omicsPrint should not depend on it?
>
> Th
Dear all,
Our new package, omicsPrint, has been accepted and added to the
bioconductor build system but is not passing through on any system. Locally
we are able to build install and execute the vignette. We have tried
several things without success.
The current error we got for version 0.99.29
Hi Maarten,
>
> It appears that your vignette is pointing to a package that doesn't exist
> in the build system.
>
> Please reference `package = "brgedata"` instead.
>
> Regards,
> Marcel
>
>
> *Note. Apologies if you've received this email twice.
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