Re: [Bioc-devel] "TissueEnrich" is missing in the BioC 3.7 build report

2018-04-15 Thread Ashish Jain
Hi Martin, Thank you for the reply. I think I accidently updated the DESCRIPTION file. I will fix it now. Regards, Ashish Jain On Sun, Apr 15, 2018 at 4:35 PM, Martin Morgan < martin.mor...@roswellpark.org> wrote: > I made a clean 'read only' clone of your git repository > > git$ git clone http

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

2018-04-15 Thread Ruqian Lyu
Hi Pijush, Did you open the build report which is a link to an HTML page with details of the warning? Regards, Ruqian On Fri, Apr 13, 2018 at 4:54 PM, Pijush Das wrote: > Dear Sir, > > > I have submitted an R package named "sigFeature" in Github and also > Bioconductor 9 days before. > The

Re: [Bioc-devel] "TissueEnrich" is missing in the BioC 3.7 build report

2018-04-15 Thread Martin Morgan
I made a clean 'read only' clone of your git repository git$ git clone https://git.bioconductor.org/packages/TissueEnrich then tried to build it git$ Rdev CMD build TissueEnrich Bioconductor version 3.7 (BiocInstaller 1.29.6), ?biocLite for help * checking for file 'TissueEnrich/DESCRIPTION' ..

[Bioc-devel] "TissueEnrich" is missing in the BioC 3.7 build report

2018-04-15 Thread Ashish Jain
Hi All, I am the developer of the "TissueEnrich" package which got accepted 6 days back. After the acceptance, the package was included in the Bioc 3.7 build and I was able to see it in the build report. But suddenly for last two days, it is not there in the Bioc 3.7 build report. Can somebody hel

Re: [Bioc-devel] tokay2 error with httr

2018-04-15 Thread Martin Morgan
Hi Klara -- You have code structured like out <- tryCatch({ response = httr::GET(url) ... }, error = function(cond) { ... ... htr::http_status(response)$message }) so if GET() fails, response is undefined; I guess this is what happened, the "why" is a mystery bu

Re: [Bioc-devel] RareVariantVis failed

2018-04-15 Thread Tomasz Stokowy
Dear Robert, Thank you for clarification. I updated package following your instructions and committed changes to https://github.com/tstokowy/RareVariantVis. I will verify if the R CMD check goes through this time. Kind regards, -- Tomasz On Tue, 03 Apr 2018 15:16:55 +0200, Robert Castelo

[Bioc-devel] tokay2 error with httr

2018-04-15 Thread Klara Kaleb
Hi Bioc team, I am one of the maintainers the roma package in the devel version. The package is building fine on mac and linux, however I am experience an error on tokay2 that I have been so far unable to solve. The problem seems to be in receiving the responses from the API. which fails in th

Re: [Bioc-devel] WARNING regarding imporing SummarizedExperiment

2018-04-15 Thread Martin Morgan
The solution is, in the NAMESPACE, to import only those functions used importFrom(SummarizedExperiment, "start", "end") importFrom(stats, "mean") or to import everything but importFrom(stats, except = c(start, end)) or to explicitly resolve symbols in the code and not mention them in th

Re: [Bioc-devel] WARNING regarding imporing SummarizedExperiment

2018-04-15 Thread Ruqian Lyu
Thanks, Martin! Cheers, Ruqian On Sun, Apr 15, 2018 at 9:06 PM, Martin Morgan < martin.mor...@roswellpark.org> wrote: > The solution is, in the NAMESPACE, to import only those functions used > > importFrom(SummarizedExperiment, "start", "end") > importFrom(stats, "mean") > > or to import eve