Dear all,
I'm the maintainer of package RBowtie2.
Some scripts of Bowtie2 need to be supported by python. RBowtie2 passes the
checking and building in Windows and MacOS but fails in Linux because python
can not be found in Linux server. How to solve this problem?
Here is the result:
htt
Hello, I�m the developer of the package ISAnalytics.
I�d like to ask if it is possible to have a file/vignette that links to other
documentation outside the package (like a GitHub wiki) since we have issues
with the maximum allowed package size due to vignette size, We would like to
maintain as
Hi Giulia,
I think it is ok to host the vignettes somewhere else. I have two packages
of which the vignettes are hosted on GitHub Page.
http://www.bioconductor.org/packages/devel/bioc/html/ComplexHeatmap.html
https://www.bioconductor.org/packages/devel/bioc/html/cola.html
But since now the vigne
We don't encourage hosting a vignette someplace else as then the code is not
automatically checked. Is the large size do to data or images? Could you
provide some additional detail please?
Lori Shepherd
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Department of Biostatis
In generally, Bioconductor will always require at least one vignette
automatically checked and that performs non trivial calls to package code.
Lori Shepherd
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Bu
Hi Lori,
It is mainly data and a couple of plots, no images. Even if there is very
minimal data somehow we can�t obtain vignettes smaller than 1 MB.
From: "Kern, Lori"
Date: Thursday, September 23, 2021 at 14:52
To: Zuguang Gu , Giulia Pais
Cc: "bioc-devel@r-project.org"
Subject: Re: [Bioc-de
It seems to me the reason for the large vignette size is that you have
significant DT::datatable rendering
capabilities within your vignettes, and the tables are large. I would
propose that you use subsets of the
table content for the vignettes, and direct the reader who wants to search
the entire
Tried removing completely all DT calls but we�re still slightly above the
limit. Is there no other way other than removing vignettes or files?
From: Vincent Carey
Date: Thursday, September 23, 2021 at 15:51
To: Giulia Pais
Cc: "Kern, Lori" , Zuguang Gu
, "bioc-devel@r-project.org"
Subject: Re
Hi all,
I maintain the netDx package.
I've just changed the active repo to https://github.com/realpailab/netdx.
All future updates will be performed here.
On the new fork, I've added git.bioconductor.org as the upstream source and
code changes seem to be propagating to git.bioconductor.org. I hav
Bioconductor will always use the versions that are pushed to
git.bioconductor.org. You may use any github location as your own development
branch that you like. As long as you push the changes to git.bioconductor.org
than you should be all set.
Lori Shepherd
Bioconductor Core Team
Roswel
Hi Zuguang,
On 23/09/2021 05:45, Zuguang Gu wrote:
Hi Giulia,
I think it is ok to host the vignettes somewhere else. I have two packages
of which the vignettes are hosted on GitHub Page.
Unfortunately this is something we **strongly** discourage.
It's important to understand that your vign
Zheng,
I talked to Herve about your issue as well as the build machines. You should
use `python` for Windows and `python3` for Linux and Mac.
Jennifer Wokaty
Bioconductor Core Team
Waldron Lab
CUNY Graduate School of Public Health and Health Policy
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