Re: [R-pkg-devel] Question about Clang 17 Error

2023-10-11 Thread Reed A. Cartwright
Okay, I'll reach out to the CRAN team shortly. I wanted to run it by the group here first because my interactions with the CRAN team haven't always been positive and I need to make sure that I'm not missing something "obvious". On Wed, Oct 11, 2023, 22:22 Simon Urbanek wrote: > Reed, > >

Re: [R-pkg-devel] Question about Clang 17 Error

2023-10-11 Thread Simon Urbanek
Reed, please contact CRAN - this list can only help with general developer's questions, not specific issues with a particular CRAN setup - only the corresponding member of CRAN running the setup can help. I don't see anything obvious - we can see that it's a mismatch of run-times between the

Re: [Rd] FR: valid_regex() to test string validity as a regular expression

2023-10-11 Thread Michael Chirico via R-devel
Great to know this exists in package space! Of course, using re2 validation for a regex to be executed with TRE (via grep*) is just begging for trouble (e.g. [1] suggests re2 is closer to PCRE, [2] says "mostly" PCRE compatible). And overhauling everything to use re2 just for regex validation is

Re: [R-pkg-devel] Question about Clang 17 Error

2023-10-11 Thread Reed A. Cartwright
Also the most recent source code tested by CRAN is here: https://github.com/reedacartwright/rbedrock/tree/v0.3.1 On Wed, Oct 11, 2023 at 7:51 PM Reed A. Cartwright wrote: > Update: I submitted a new version of the package, but it did not fix the > issue. The package has now been archived and I

Re: [R-pkg-devel] Question about Clang 17 Error

2023-10-11 Thread Reed A. Cartwright
Update: I submitted a new version of the package, but it did not fix the issue. The package has now been archived and I do not have access to the error log output anymore from r-devel-linux-x86_64-fedora-clang. I did reproduce CRAN's configuration in a VM using the information provided by CRAN

Re: [Rd] FR: valid_regex() to test string validity as a regular expression

2023-10-11 Thread Toby Hocking
Hi Michael, it sounds like you don't want to use a CRAN package for this, but you may try re2, see below. > grepl("(invalid","subject",perl=TRUE) Error in grepl("(invalid", "subject", perl = TRUE) : invalid regular expression '(invalid' In addition: Warning message: In grepl("(invalid",

Re: [Rd] About FlexiBLAS in the R-admin docs

2023-10-11 Thread George Ostrouchov
I agree that the "R Installation and Administration" guide statement about FlexiBLAS needs an update. Standard R in CentOS Stream 9, which is now downstream from Fedora, gives the following result for Matrix products in sessionInfo(): > sessionInfo() R version 4.3.1 (2023-06-16) Platform:

Re: [Bioc-devel] arm64 on Mac build fails due to problem with MPO.db

2023-10-11 Thread Hervé Pagès
Hi Matteo, Thanks for letting us know. FWIW the dependency on MPO.db is via clusterProfiler and DOSE. Not directly addressing the issue but note that clusterProfiler is a heavy-weight dependency that triggers the loading of 120+ packages. All together, loading Moonlight2R with

Re: [R-pkg-devel] Question regarding CRAN submission with notes

2023-10-11 Thread Duncan Murdoch
The note says it contains "an installed version" of the package, presumably referring to your test package. I think you shouldn't do that. For a trivial package it might be true that the installed version is the same on all systems, but it won't continue to be as the installation code

Re: [R-pkg-devel] Question regarding CRAN submission with notes

2023-10-11 Thread Uwe Ligges
This is under discussion with the CRAN team now. Best, Uwe Ligges On 11.10.2023 09:06, Tony Wilkes wrote: Dear all, I'm trying to publish an R package to CRAN. Their checks come back with 2 NOTES. The first one is saying that the package is a new submission, and the second one is that there

[R-pkg-devel] Question regarding CRAN submission with notes

2023-10-11 Thread Tony Wilkes
Dear all, I'm trying to publish an R package to CRAN. Their checks come back with 2 NOTES. The first one is saying that the package is a new submission, and the second one is that there is a subdirectory with a package inside my package. Both notes are correct. I have explained in my

[Bioc-devel] arm64 on Mac build fails due to problem with MPO.db

2023-10-11 Thread Matteo Tiberti via Bioc-devel
Dear all, We are seeing a couple of build fails of our MoonlightR and Moonlight2R packages in the devel (3.18) MacOS arm64 builder that seem to be related to the MPO.db package. This is the error message we get: * installing to library

Re: [R-pkg-devel] pkg check: SyntaxError: break must be inside loop or switch

2023-10-11 Thread Ivan Krylov
В Tue, 10 Oct 2023 16:36:31 +0200 Charles Driver пишет: > SyntaxError: break must be inside loop or switch This looks like an error coming from a JavaScript engine or from a JavaScript-derived language: