[Bioc-devel] How to proper write documentation (Rd) file for setReplaceMethod

[Jianhong Ou, Ph.D.]

Hi All,

I got warning message in windows building like:


Rd warning: cannot open file 
'D:/biocbuild/bbs-3.13-bioc/meat/trackViewer.buildbin-libdir/00LOCK-trackViewer/00new/trackViewer/help/$<-,track-method.html':
 Invalid argument

I used RoxygenNote to create the Rd file and the note I wrote like this:

#' Method $<-
#' @rdname trackStyle-class
#' @exportMethod $<-
#' @aliases $<-,track-method

Any help will be appreciated. Thanks in advance.


Yours Sincerely,

Jianhong Ou

Email: jianhong...@duke.edu
Bioinformatician II
Department of Cell Biology
Duke University School of Medicine
Durham, NC, 27710

Confidentiality Notice:\ This e-mail message, including ...{{dropped:12}}

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[Bioc-devel] R CMD CHECK time out on Windows machine

[Murphy, Alan E]

Hi all,

I am submitting [EWCE](https://github.com/NathanSkene/EWCE) to bioconductor and 
have been working to reduce the runtime of the R CMD Check which was causing 
issues. I have improved the run time and locally, on my mac, it is now running 
in 11m 56.5s. However, I still get a timeout error on the bioconductor windows 
machine (tokay2). I don't get any warnings from any of the other machines (I 
think the linux machine malbec2 will give a warning if the runtime is over 10 
minutes).

As I have nearly exhausted all tricks I can think of to reduce the run time, I 
was wondering is there a way to check how long the run takes to complete in 
full on tokay2? This way I can see how much more work is needed. Moreover, if 
anyone has other suggestions to improve run time of my package that would be 
greatly appreciated.


Kind regards,
Alan.

Alan Murphy
Bioinformatician
Neurogenomics lab
UK Dementia Research Institute
Imperial College London

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[Bioc-devel] Bioconductor Release 3.12 and Bioconductor Devel 3.13 Code Freeze Deadlines!

[Kern, Lori]

Release 3.12 Code Freeze:

The release 3.12 branch will be frozen May 4th. All code changes should be 
committed by May 3rd. After this date there will be no updates to Bioconductor 
3.12 packages in Bioconductor.


Devel 3.13 Deadline:

The deadline for packages to pass R CMD build/check without error in the 
current Devel Bioconductor 3.13 branch is Friday May 14th.

This ensures a build report with the committed changes. The branch will be 
frozen Tuesday May 18th to branch for the Release of Bioconductor 3.13.



Please see the release schedule for other important deadlines:
http://bioconductor.org/developers/release-schedule
Bioconductor - Release: 
Schedule
Bioconductor 3.12 Release Schedule. This release will use the latest R-4.0.0. 
The official release date is schedule for Wednesday October 28th.
bioconductor.org



Lori Shepherd

Bioconductor Core Team

Roswell Park Comprehensive Cancer Center

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263


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