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Hello, We are the maintainers of the CINdex package. I believe when the upgrade to the new Bioconductor version happened, the package times out in Windows environment during build. https://bioconductor.org/packages/release/bioc/html/CINdex.html Could you...

Hello We are authors of the newly accepted CINdex package. We have not received our SVN credentials yet. I believe today is the last day to make changes to the package before the new release . Also our package build was...

Dear Bioconductor community, I'm exploring options to create a Bioconductor or package related to RNA-seq data. Specifically, I am looking for an example RNA-seq dataset (fastq files, human genome, preferably liver cancer) to use in Rmarkdown files...

Hello, It looks like our package CINdex has a build error in Windows (other OS are fine). http://bioconductor.org/checkResults/release/bioc-LATEST/CINdex/moscato2-buildsrc.html Seems to be problem with the "Xvector" package not present ? ** preparing package...

Hello Bioconductor team, We are the creator and maintainers of the CINdex Bioconductor package. Last few days, we are seeing build errors in our package (See below). The package builds fine in Mac OS, but is giving the following error...

Hello, We are working on our first Bioconductor package and have a question regarding man pages for helper functions We have several .R files which are all helper functions. 1) I am using RStudio for package development, and it creates...

Dear Biconductor team, We are developers of newly accepted Bioconductor package CINdex. Our package is meant for DNA copy number data analysis, and the example data we use is from Affymetrix SNP 6.0 , so we use 'pd.genomewidesnp.6...

Hello, We are the package maintainers of the CINdex package. Our package is giving build errors and we are investigating why. I'm currently working on setting up the environment so I can replicate the error. I have a MacOS...

Hello, We are working on fine tuning how the citation should look in our DESCRIPTION of our pre-accepted package. We would like our R citation to appear like this: Author1, Author2, Author3, Author4, Author5, Author6 and Author7 (2016), PackageName...

Hello, We are working on fine tuning our newly pre-accepted BioC package. We have two vignettes - an .Rnw file and another .Rmd file. If you see the screen shot in this email, you will see that there is no...

Yes, that would be great. I will be the one making the updates. Thank you. -Krithika On Apr 2, 2016 10:45 AM, "Martin Morgan" <martin.morgan at roswellpark.org> wrote: > > > > On 04/02/2016 08:01 AM, Krithika Bhuvaneshwar...

Hello, I am working on creating a package, and have come across an issue. I have some R code in the "R" folder that works just fine when I test it. The code contains a function accepts a GRangesList as...

Hello, We are the package maintaines for the CINdex package. We have made changes in our package to address the build errors for the upcoming release. The latest code is here in our Gtithub account *https://github.com/ICBI/CINdex...

Hi Nitesh, Thanks for your reply. I managed to get libgit2 installed. But having trouble with its other dependencies - ?gert? Please see attached txt which is a full information of the error. Do you have an installation of R 4...

Thank you very much Martin, that was very helpful ! I had failed to catch that. When I ran "brew install openssl", it was already present in my mac, but I had to run install.packages("openssl") again for it to...

Thank you for catching that ! That was very helpful I have now completed Steps# 1 - 7 and Step # 9 from here: *http://bioconductor.org/developers/how-to/git/sync-existing-repositories/ <http://bioconductor.org/developers/how-to/git/sync-existing...

Thank you for the feedback - I have a follow up question (possibly a newbie question) So from what you are suggesting, the helper functions need not have man pages. I have to import some packages for the code to work...

Hi all, When I use the function elementLengths() in my the Bioc package that I am developing, the devtools::check() runs fine. Since elementLengths() is deprecated, I am now trying to use elementNROWS(). But when I try devtools::check() with...