Re: [Bioc-devel] Transfer Maintainership of GeoDiff

2021-11-19 Thread Nitesh Turaga
Hi, I’ve added Nicole. She should have maintainer access. Please change the DESCRIPTION file. Best, Nitesh Turaga Scientist II, Department of Data Science, Bioconductor Core Team Member Dana Farber Cancer Institute > On Nov 15, 2021, at 1:59 PM, Nicole Ortogero wrote: > > Hi Bioconductor

Re: [Bioc-devel] Activate account in Bioconductor Git Credentials

2021-11-19 Thread Nitesh Turaga
Hi Yihang, You should have access now. Please activate your account at https://git.bioconductor.org/BiocCredentials/account_activation and add SSH keys. You’ll be able to push to the package. Make sure you are complaint with all the rules of contributions here,

Re: [Bioc-devel] Git recognizes me but denies access

2021-11-19 Thread Nitesh Turaga
Please activate your account flying-sh...@web.de for BiocCredentials. You should be good to go. Nitesh Turaga Scientist II, Department of Data Science, Bioconductor Core Team Member Dana Farber Cancer Institute > On Nov 18, 2021, at 4:23 AM, Philipp A. wrote: > > My addresses are

Re: [Bioc-devel] EXTERNAL: LazyData: false and accessing data in the YAML section of an Rmd document

2021-11-19 Thread McDavid, Andrew
How about in the YAML: params: configuration: NULL project_conf: NULL data: NULL Then in the first chunk something like: ```{r data-config} if(is.null(params$data)){ data(data_ionstar, package = "prolfqua") data = data_ionstar configuration = data$filtered()$config } ``` You can use a

Re: [Bioc-devel] ERROR: More than one VignetteEngine specified.

2021-11-19 Thread Lluís Revilla
Hi Witek, Probably it is a false positive, caused by a commented VignetteEngine on https://github.com/protViz/prozor/blob/master/vignettes/TargetDecoyFDR_Example.Rmd#L16 If you delete it (and the line below to be sure) I guess it will go away. Best, Lluís On Fri, 19 Nov 2021 at 14:33, Witold

[Bioc-devel] ERROR: More than one VignetteEngine specified.

2021-11-19 Thread Witold Wolski
Hi, I am getting the following error when running BiocCheck "ERROR: More than one VignetteEngine specified." But all the vignettes have the same %\VignetteEngine{knitr::rmarkdown} specified. Where else does BiocCheck look for vignetteEngine specification? Regards Witek PS. the code can be