We have resolved the issue on our configuration file for access. You should now
have access to all four packages: SCBN, MEB, SIMD, and CAEN
Lori Shepherd - Kern
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Department of Biostatistics & Bioinformatics
Elm & Carlton
Thank you Hervé. I will take a try. Looks like the first year is free.
J.
From: Hervé Pagès
Date: Thursday, March 24, 2022 at 1:36 PM
To: Jianhong Ou, Ph.D. , bioc-devel@r-project.org
Subject: Re: [Bioc-devel] Need help for debug on palomino3
Hi Jianhong,
Is there any possibility that you
Thank you very much, Hervé!
On Wed, Mar 31, 2021 at 8:25 AM Hervé Pagès
wrote:
> Hi Stian,
>
> I know I know, this thread is almost 1 year old. I had s sticker hanging
> around to remind me about this, and, today, I spent the entire afternoon
> looking into this, found the problem, and
Hi Stian,
I know I know, this thread is almost 1 year old. I had s sticker hanging
around to remind me about this, and, today, I spent the entire afternoon
looking into this, found the problem, and implemented a fix.
Long story short: On our Mac builders, the png() device was using the
Thank you very much for the help so far!
On Fri, Apr 24, 2020 at 8:08 AM Hervé Pagès wrote:
> OK, thanks testing that. This suggests that the problem is on our
> side... sigh! I will need to dig deeper into this.
>
> Best,
> H.
>
>
> On 4/23/20 22:57, Bemis, Kylie wrote:
> > Worked for me
OK, thanks testing that. This suggests that the problem is on our
side... sigh! I will need to dig deeper into this.
Best,
H.
On 4/23/20 22:57, Bemis, Kylie wrote:
Worked for me without errors or warnings:
kuwisdelu@Eva-02-Dash Projects % R CMD build chimeraviz
* checking for file
Worked for me without errors or warnings:
kuwisdelu@Eva-02-Dash Projects % R CMD build chimeraviz
* checking for file ‘chimeraviz/DESCRIPTION’ ... OK
* preparing ‘chimeraviz’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... OK
*
Interesting indeed. Thanks for checking this.
Even though I'm not sure what conclusion to draw from all this.
Since you are on a Mac, can I ask you another big favor? Do you think
you could run 'R CMD build' on chimeraviz and see if you can reproduce
the error we see on the build report here:
That’s interesting. I did:
> BiocManager::install("Cardinal", type="mac.binary.el-capitan”)
> browseVignettes("Cardinal")
from R 3.6.3, and the figures using transparency in the vignettes look fine to
me.
When I use X11() to reproduce the warning locally, the transparent colors get
truncated,
Hi Kylie,
I get the warnings on merida1 for Cardinal too e.g. when I run the code
in the Cardinal-2-stats vignette:
merida1:vignettes biocbuild$ pwd
/Users/biocbuild/bbs-3.10-bioc/meat/Cardinal/vignettes
merida1:vignettes biocbuild$ R CMD Stangle Cardinal-2-stats.Rmd
Output
I’m now seeing the same "semi-transparency" error on my Mac builds for
Cardinal. My vignettes have used transparency for years now and this has never
been an issue before (on merida1 or otherwise).
I can reproduce the error locally with an X11() device, but not with quartz(),
png(), png(),
Ok so I'm changing my mind about this. I suspect that the error is
actually related to the warning. The error comes from the magick package
(a wrapper around the ImageMagick software) and it indicates a failure
to crop an empty image. It can easily be reproduced with:
## Generate an empty
Hi Stian,
I went on machv2 and gave this a shot. I can reproduce the
GeometryDoesNotContainImage error in an interactive session. I don't
have an answer yet but I was curious about the "semi-transparency is not
supported on this device" warning and was wondering if it could somehow
be
I'm still unable to reproduce this error on my end. If anyone with a mac
could try building locally I would be very grateful. Thanks.
On Sat, Apr 18, 2020 at 4:06 PM Stian Lågstad
wrote:
> Hi,
>
> I'm haven't been able to figure out this error for the latest machv2 build
> for chimeraviz:
>
>
Dear Arvind,
This question would have been more appropriate on the support site,
rather than the developer mailing list.
The output of sessionInfo() would have been useful too, so what comes is
speculation based on the BiocUpgrade message.
I assume you are using Windows, otherwise your mzR
Hi,
You've got the wrong mailing list.
Your best bet would probably be to post on the rcpp mailing list. You
can sign up here:
https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel
HTH,
-steve
On Mon, Jan 26, 2015 at 6:00 PM, Setia Pramana setia.pram...@ki.se wrote:
Dear
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