Re: [Bioc-devel] build machines

Hi, The Linux and Windows builders have 32 GB of RAM, the Mac builders 64 Gb. We also run concurrent R CMD check's. Here is a summary: platform RAM nb of nb of concurrent (Gb) coresR CMD check's

Re: [Bioc-devel] Process to rename a bioconductor package

Hi Nitesh, thanks a lot for the prompt reply. We renamed the github repo as well. Is there anything else we need to do except from adopting the new name in the package itself? Best Adrian On 26/04/18 17:42, Turaga, Nitesh wrote: > Hi Adrian, > > I’ve changed your package name from roma to

[Bioc-devel] No Mac builds for 3.7 today

Just a heads up that tokay2 ran out of disk space in the last build so we don't have the Mac in the report today. Valerie This email message may contain legally privileged and/or confidential information. If you are not the intended recipient(s), or the employee or agent responsible for the

Re: [Bioc-devel] Process to rename a bioconductor package

Hi Adrian, I’ve changed your package name from roma to “OmaDB”. You should change your GitHub repo’s name as well "https://github.com/klarakaleb/roma” —> https://github.com/klarakaleb/OmaDB. You can do this by, https://github.com/klarakaleb/roma/settings, and there will be an option to

Re: [Bioc-devel] build machines

Hi Daniel, I have the same issue with my package (new contribution). I just finish reviewing the package with the modifications requested. I am having a warning because R CMD check is exceeding 5 min, but this is happening only in the Windows machine. In Linux and OSX the check finishes in <=

Re: [Bioc-devel] Errors on DAPAR and Prostar packages ??

This shield issue should be resolved. The main page for packages should be updated with correct badges/shields within the next 24 hours. As for your package ERRORs Prostar is failing because it needs a higher version of the DAPAR package DAPAR is failing because it needs a higher version

Re: [Bioc-devel] BioC 3.7 Windows check warning "file link zz in package yy does not exist "

Lori, Thank you for the clarification. I will try it. Yasir From: Shepherd, Lori [mailto:lori.sheph...@roswellpark.org] Sent: Thursday, April 26, 2018 6:14 AM To: Rahmatallah, Yasir; joris.m...@ugent.be Cc: bioc-devel Subject: Re: [Bioc-devel] BioC 3.7 Windows check warning "file link zz in

Re: [Bioc-devel] Process to rename a bioconductor package

Dear Lori, thanks for helping with this. We appreciate your concern about the ambiguity of the name. In our opinion the best option would be to rename it to 'OmaDB' to emphases both OMA and the fact that it queries a database. We would be very glad if you could initiate the process for rename

[Bioc-devel] build machines

We have been working on the minfi package lately, with a move to a DelayedArray backend. Right now there are some weird issues regarding timings in R CMD check. Leaving aside the issue that the tests (now disabled) and examples are too slow, we get some very weird behaviour. An example is the

Re: [Bioc-devel] Errors on DAPAR and Prostar packages ??

It looks like this is a problem with the shields. I'm investigating now. The summary page is accurate - http://bioconductor.org/checkResults/devel/bioc-LATEST/DAPAR/ Lori Shepherd Bioconductor Core Team Roswell Park Cancer Institute Department of Biostatistics & Bioinformatics Elm &

[Bioc-devel] Errors on DAPAR and Prostar packages ??

Hi I am the developer of the packages Prostar and DAPAR. Prostar depends on DAPAR. At this time, DAPAR is shown in error in the main page (http://bioconductor.org/packages/devel/bioc/html/DAPAR.html) but all is OK in the summary page

Re: [Bioc-devel] BioC 3.7 Windows check warning "file link zz in package yy does not exist "

The packages will not be rejected for this WARNING, but please see the suggestion in the previous response that also might help clear them up. https://cran.r-project.org/doc/manuals/R-exts.html#Cross_002dreferences Lori Shepherd Bioconductor Core Team Roswell Park Cancer Institute

Re: [Bioc-devel] Including data for @examples to run

Hi Adam, On Wed, Apr 25, 2018 at 2:35 PM, Adam Price wrote: > > There are a few reasons why I'm using \dontrun{} for my examples and want > to know if there is any way to actually run my examples. > > My package incorporates some automated data management and requires in >

Re: [Bioc-devel] Need some help to submit a R package.

Wait for the reviewer to comment further on your package. On 04/26/2018 02:20 AM, Pijush Das wrote: Dear Sir, I have found that my package sigFeature had passed all the built test without errors or warnings on all platforms. What should I do next ? regards Pijush On Tue,

Re: [Bioc-devel] BioC 3.7 Windows check warning "file link zz in package yy does not exist "

On Wed, Apr 25, 2018 at 11:52 PM, Rahmatallah, Yasir wrote: > Dear all, > > Build report show that many packages still have check warnings due to > missing file links (cross referencing pages from other packages) under > windows. The issue happens because there are

Re: [Bioc-devel] Need some help to submit a R package.

Dear Sir, I have found that my package sigFeature had passed all the built test without errors or warnings on all platforms. What should I do next ? regards Pijush On Tue, Apr 24, 2018 at 10:56 PM, Shepherd, Lori < lori.sheph...@roswellpark.org> wrote: > It doesn't look like