Re: [Bioc-devel] Fwd: canceR problems reported in the Multiple platform build/check report for BioC 3.6

Hi Karim, Thanks for looking into this. Yes, canceR is all green on today's build report. There was a problem accessing Tcl/Tk files during the canceR build on Dec 9th/10th which (I believe) caused the package to timeout and send you the warning email. I'm not sure why this happened but it

[Bioc-devel] Fwd: canceR problems reported in the Multiple platform build/check report for BioC 3.6

Dear Admin, Following this link https://master.bioconductor.org/checkResults/3.6/bioc-LATEST/canceR/malbec1- buildsrc.html, I did not find any built issue in malbec1 for 3.6 version. Thanks, Karim -- Forwarded message -- From: Date: Mon, Dec 11,

Re: [Bioc-devel] splitting simpleSingleCell into self-contained vignettes

Thanks Val: Obenchain, Valerie wrote: > Hi, > > On 12/11/2017 08:49 AM, Aaron Lun wrote: >> Following up on our earlier discussion: >> >> https://stat.ethz.ch/pipermail/bioc-devel/2017-October/011949.html >> >> I have split the simpleSingleCell workflow into three (four, if you >> include the

Re: [Bioc-devel] splitting simpleSingleCell into self-contained vignettes

Hi, On 12/11/2017 08:49 AM, Aaron Lun wrote: Following up on our earlier discussion: https://stat.ethz.ch/pipermail/bioc-devel/2017-October/011949.html I have split the simpleSingleCell workflow into three (four, if you include the introductory overview) self-contained Rmarkdown files. I am

Re: [Bioc-devel] Errors and warnings while submitting package

We will look into the X11 on our end - ERROR: dependencies RWeka, rmcfs are not available for package BASiNET is occurring on mac - this is because the CRAN binary for rJava (a requirement of rmcfs) is not available. Unfortunately until CRAN provides this binary we cannot install the packages

Re: [Bioc-devel] parallel processing in R?

On 12/11/2017 12:19 PM, Dwivedi, Bhakti wrote: Hi, Is there a way to parallelize ConsensusClusterPlus package? Consider https://bioconductor.org/packages/BiocParallel https://bioconductor.org/packages/release/bioc/html/ConsensusClusterPlus.html We are developing a R shiny tool that

Re: [Bioc-devel] parallel processing in R?

Hi Bhakti, On Mon, Dec 11, 2017 at 12:19 PM, Dwivedi, Bhakti wrote: > Is there a way to parallelize ConsensusClusterPlus package? > https://bioconductor.org/packages/release/bioc/html/ > ConsensusClusterPlus.html > We are developing a R shiny tool that performs

[Bioc-devel] parallel processing in R?

Hi, Is there a way to parallelize ConsensusClusterPlus package? https://bioconductor.org/packages/release/bioc/html/ConsensusClusterPlus.html We are developing a R shiny tool that performs consensus clustering in addition to other genome-wide analyses. The consensus clustering step is

[Bioc-devel] splitting simpleSingleCell into self-contained vignettes

Following up on our earlier discussion: https://stat.ethz.ch/pipermail/bioc-devel/2017-October/011949.html I have split the simpleSingleCell workflow into three (four, if you include the introductory overview) self-contained Rmarkdown files. I am preparing them for submission to BioC's

[Bioc-devel] Single Package Builder Updates and Testing

The Single Package Builder will be undergoing some updating and testing over the next few days. While it will still be active and generating reports, there may be intermittent periods of inactivity. We hope this will be to a minimum and will notify when testing is complete. Lori Shepherd

Re: [Bioc-devel] last check fails on windows server with not reproducible error

Please ignore windows missing dependency ERRORs, as mentioned before, this is do to CRAN package binaries not being available yet. https://stat.ethz.ch/pipermail/bioc-devel/2017-November/012265.html If the package is building without ERROR on linux and mac you can ignore the windows ERROR.

[Bioc-devel] last check fails on windows server with not reproducible error

Dear all, According to the last check, the developer version of the package pwOmics just fails at the windows server with the following message: install for i386 ERROR: dependencies 'rBiopaxParser', 'igraph', 'STRINGdb', 'biomaRt' are not available for package 'pwOmics' * removing