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Dear BioC team, I just noticed that our package is failing on the bioconductor build system during the build of the vignette on Windows and on MacOS platforms.

Dear Bioc Team, I got today a build error from OUTRIDER and FRASER with: LaTeX errors: ! Package xcolor Error: Undefined color `fgcolor'. The same errror also pops up at other packages such as ggbio: output file: ggbio.tex ! Package xcolor...

Dear Bioc team, I'm very sorry to ask you this, since it is release time and you fixed already the 3_11 branch. But during the last 3 days, Nature decided to change their URLs and hence it broke...

Hey all, I have a question. My package builds perfectly on Linux and MacOS, but fails to link my documentation correctly on Windows, which results in a warning. The exact error which I get is: Rd warning: C:/Users/biocbuild...

Dear Bioc team, I tried to push an update to my FRASER package, but was not successful. Are the permissions correct? Maybe the problem comes from the fact that Ines Scheller did submit the package but I'm stated as...

Hi all, Im the developer of OUTRIDER. Our package normalises RNA-seq count data and finds expression outliers within the population. During the development we compared our approach against PCA and PEER. The later one is a well established method...

Dear Bioconductor team, I noticed that my package OUTRIDER and also some others have an issue with the Cairo package. The error is: .onLoad failed in loadNamespace() for 'Cairo', details: ? call: dyn.load(file, DLLpath = DLLpath, ...) ? error: unable to load...

Dear Nitesh, thank you for resolving this so quickly! Best, Christian On Tue, 2020-06-02 at 11:53 -0400, Nitesh Turaga wrote: > Hi, > > This is because you don?t have access to FRASER package. Only Ines > Scheller seems to...

Thanks Martin for the hint. Then let's hope that it will vanish automatically with the next build. Am 10/12/2019 um 3:06 AM schrieb Martin Morgan: > I think this is an error in BiocParallel that has been...

Hi, Thanks for the quick and helpful comments! As suggested, I used the the following code \code{\link[BiocParallel:BiocParallelParam-class]{BiocParallelParam}} And it worked perfectly and all warnings are gone now! But im still puzzled why it only gave...

Dear Lori, thank you for the info. I kind of expected it. The master branch is already updated. Best, Christian On Wed, 2020-10-21 at 11:49 +0000, Kern, Lori wrote: > The RELEASE_3_11 branch is frozen and...

I just came across this issue on rmarkdown which links the same problem to BiocStyle. The post is from Nov 2017. https://github.com/rstudio/rmarkdown/issues/1207 Maybe this helps to understand the underlying problem? It was suggested to...

Thanks a lot for the info! So from my understanding we dont use any trimming or editing function from ImageMagick directly. I think this is rather knitr based since we just include png files in the vignette. I guess it...

Dear Lori, I checked our package OUTRIDER on the devel branch and I guess that the error arises from a misconfiguration on the OSX platform. It looks like a problem with the cairo library/package on the OSX system. ?? 1...

Dear Valerie, thanks for the heads-up on this. Best, Christian Am 12/17/2018 um 6:52 PM schrieb Obenchain, Valerie: > Hi Christian, > > This is a known - there are no Mac binaries for El Capitan for R 3.6...

Dear Bioc Team, I noticed already the error and I'm not completely sure why this is happening. On appveyor it is going through with no problems. I never call the function mcparallel but I did register MulticoreParams() in the...

Hi Martin Morgen, Thanks for the suggestion with the vignette. This will do it. Best, Christian > On 26. Sep 2018, at 04:07, Martin Morgan <mtmorgan.bioc at gmail.com> wrote: > > > > On 09/25/2018 07:07 PM, Christian Mertes...

Hi, thanks for the answers. Since we only use 5 functions from the package within one function in our package, I hoped to get around it by masking this function in a special way. The package is not dependent on...

Hey Bioc-devel community, My package OUTRIDER fails again sometimes on the build system but rather randomly. First I thought it was due to the ImageMagick problem I posted some days ago. But this is really only a warning. I...