Hi,
On 03/30/2017 03:20 AM, Janssen-10, R.R.E. wrote:
> Hello all,
>
> We wrote our vignette in Sweave/LaTeX, and I am running into a problem with
> citing to other papers.
> I would like to use the APA style of citing which looks like: "Determine the
> optimal factorization rank using the NMF p
Hi Martin,
My apologies to Tomas Kalibera. I read too fast and missed the part where
you gave him credit for the report.
As I wrote in my previous email, I have started a significant clean-up of
the GOexpress package to improve both the coding standards and the user
experience. I haven't reached
On 03/31/2017 08:21 AM, Kevin RUE wrote:
Hi Martin,
Thanks a lot for systematically identifying the issue.
Looking at the issue for GOexpress now, I realise that the issue is not
in GOexpress itself, but actually within the VennDiagram package that
GOexpress imports. You actually captured that
Hi all,
Reminder that today (March 31) is the last day for new package
submissions. I've run into a few problems generating the db0 annotation
packages so unfortunately they won't be ready today - I'm hoping Monday
at the latest.
http://www.bioconductor.org/developers/release-schedule/
Valerie
That took care of it. Thank you, Vincent.
From: Vincent Carey [mailto:st...@channing.harvard.edu]
Sent: Friday, March 31, 2017 5:37 AM
To: Zimmermann, Michael T., Ph.D.
Cc: bioc-devel@r-project.org
Subject: Re: [Bioc-devel] masking functions
in the NAMESPACE file
import(gplots)
import(plotrix,
Hi,
Looks like this was a glitch in rtracklayer and has been fixed:
r127902 | m.lawrence | 2017-03-31 04:37:23 -0700 (Fri, 31 Mar 2017) | 2
lines
do not try to import pmapFromTranscripts from GenomicAlignments
My guess is
Hi Martin,
Thanks a lot for systematically identifying the issue.
Looking at the issue for GOexpress now, I realise that the issue is not in
GOexpress itself, but actually within the VennDiagram package that
GOexpress imports. You actually captured that in your report:
"GOexpress","*VennDiagram*
And note the existence of the "Internal" keyword for documentation:
http://www.hep.by/gnu/r-patched/r-exts/R-exts_50.html
On Fri, Mar 31, 2017 at 5:35 AM, Wolfgang Huber
wrote:
>
> Thanks Juan; the .point used to be a way to do this, but since the
> introduction of namespaces to R, it is neith
in the NAMESPACE file
import(gplots)
import(plotrix, except=plotCI)
can help avoid the warning you mention. If this is not a solution for you
you will have to provide more details.
On Fri, Mar 31, 2017 at 1:07 AM, Zimmermann, Michael T., Ph.D. <
zimmermann.mich...@mayo.edu> wrote:
> Dear Bio
On 03/31/2017 05:29 AM, Sokratis Kariotis wrote:
Hey all,
Following your advice, the package now builds successfully! However, I
got this error while checking:
* checking package dependencies ... ERROR
Namespace dependency not required: ‘SummarizedExperiment’
Should I add /Imports ://Summarize
Thanks Juan; the .point used to be a way to do this, but since the
introduction of namespaces to R, it is neither necessary nor sufficient
for private functions. See e.g. .Hub in the AnnotationHub package, or
the .Call function in base.
See
https://cran.r-project.org/doc/manuals/r-release/R
Hey all,
Following your advice, the package now builds successfully! However, I got
this error while checking:
* checking package dependencies ... ERROR
Namespace dependency not required: ‘SummarizedExperiment’
Should I add *Imports :**SummarizedExperiment* in my DESCRIPTION file?
Regards,
Sok
Hi,
My package DaMiRseq fails to build in veracruz2 server with this error:
Quitting from lines 424-428 (DaMiRseq.Rnw)
Error: processing vignette 'DaMiRseq.Rnw' failed with diagnostics:
object 'R_svmtrain' not found
Moreover, this message appeared in latest nightly builds:
No methods found in "
Dear All,
A package I maintain, ADaCGH2, is failing to build in veracruz2 with a
segfault that seems to happen when plotting (in a call to plotting that
happens inside a mclapply)
http://bioconductor.org/checkResults/devel/bioc-LATEST/ADaCGH2/veracruz2-buildsrc.html
these are some of the lines
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