[Bioc-devel] Warnings about man pages for assignment operators on Windows builds

2020-12-29 Thread Stephanie Gogarten
Hi all, Several of my packages have a set of warnings on the Windows devel builds that have persisted for a while now, all of this form: Rd warning: cannot open file 'C:/Users/biocbuild/bbs-3.13-bioc/meat/SeqVarTools.buildbin-libdir/00LOCK-SeqVarTools/00new/SeqVarTools/help/lastFilter<-.html':

Re: [Rd] Small bug in the documentation of `[.data.frame`

2020-12-29 Thread Rui Barradas
Hello, Thank you both, Duncan and Martin, for the quick and clear answer. I hadn't considered printing `[.data.frame`, which is in fact very useful, but I had read the Arguments section. What I didn't realize was that it was the answer to the question. Sorry for the noise. Rui Barradas Às

Re: [Bioc-devel] IlluminaHumanMethylation450kanno.ilmn12.hg19

2020-12-29 Thread xin wwa
P.S. It only a bug on windows. It works fine on MacOS and ubuntu. Xin Yu Ph.D. student of Biomedical Informatics College of Bioinformatics - Huazhong Agricultural University whirl...@gmail.com yu...@webmail.hzau.edu.cn tel: (+86) 186-5313-5769 xin wwa 于2020年12月29日周二 下午11:09写道: > Also, I tested

Re: [Bioc-devel] IlluminaHumanMethylation450kanno.ilmn12.hg19

2020-12-29 Thread xin wwa
Also, I tested on my computer as well as my colleagues', they all froze at the testing line. Therefore, I think that could be a bug that reproducible. If need more information, please let me know. Thanks in advance and any help is appreciated. Best, Xin Yu Ph.D. student of Biomedical Informatics

Re: [Rd] Small bug in the documentation of `[.data.frame`

2020-12-29 Thread Martin Maechler
> Duncan Murdoch > on Tue, 29 Dec 2020 08:37:51 -0500 writes: > On 29/12/2020 8:29 a.m., Rui Barradas wrote: >> Hello, >> >> R 4.0.3 on Ubuntu 20.10, session info at end. >> >> Isn't the default value of argument drop missing in >> >>

Re: [Rd] Small bug in the documentation of `[.data.frame`

2020-12-29 Thread Duncan Murdoch
On 29/12/2020 8:29 a.m., Rui Barradas wrote: Hello, R 4.0.3 on Ubuntu 20.10, session info at end. Isn't the default value of argument drop missing in ?`[.data.frame` Usage: ## S3 method for class 'data.frame' x[i, j, drop = ] I had the impression that it was TRUE (it is when

[Rd] Small bug in the documentation of `[.data.frame`

2020-12-29 Thread Rui Barradas
Hello, R 4.0.3 on Ubuntu 20.10, session info at end. Isn't the default value of argument drop missing in ?`[.data.frame` Usage: ## S3 method for class 'data.frame' x[i, j, drop = ] I had the impression that it was TRUE (it is when running the function, I'm talking about the

[Bioc-devel] IlluminaHumanMethylation450kanno.ilmn12.hg19

2020-12-29 Thread xin wwa
Dear bioconductor team, recently I found that under R 4.0.3 I can not install the package IlluminaHumanMethylation450kanno.ilmn12.hg19, It froze at the testing message. I tried this on 3.6.3, It will successfully be installed. However, It will be failed if you are using R 4.0.2+ It will let the

Re: [Bioc-devel] cannot reproduce the build error with InTAD package

2020-12-29 Thread Konstantin Okonechnikov
Thanks a lot for the replies! Actually InTAD strongly depends on MultiAssayExperiment. The fail part exactly corresponds to creating the main object with MultiAssayExperiment within. Indeed, I also saw some other recent issues connected to it, will follow them accordingly. >From running command