[R-pkg-devel] Possible false negative for compiled C++ code in CRAN checks
Dear Developers, I am writing to ask for insights on how to fix the errors in the Redatam package and get it back to CRAN. CRAN reported memory leaks for: CLAN/ASAN: https://www.stats.ox.ac.uk/pub/bdr/memtests/clang-ASAN/redatam/00check.log CLANG/UBSAN: https://www.stats.ox.ac.uk/pub/bdr/memtests/gcc-UBSAN/redatam/00check.log The log reads: "HINT: if you don't care about these errors you may set ASAN_OPTIONS=detect_container_overflow=0. If you suspect a false positive see also: https://github.com/google/sanitizers/wiki/AddressSanitizerContainerOverflow. SUMMARY: AddressSanitizer: container-overflow .../src/redatamlib/ByteArrayReader.cpp:170:23 in RedatamLib::ByteArrayReader::ReadByte()" After asking on Stack Overflow (https://stackoverflow.com/q/79171799/3720258), it was suggested that I set 'CXXFLAGS="-stdlib=libc++"' in 'configure'. The question is very long and provides all the details that I skip here. After googling and exploring different steps, I managed to run a Docker image that imitates CRAN's clang ASAN/UBSAN test, but adding 'CXXFLAGS' not only made the error persist, but also create a note about overwriting options. According to a Microsoft thread, the problem is not the Redatam package's code, but the release of 'libc' that comes with the image (see https://github.com/microsoft/DirectXShaderCompiler/issues/5971). They suggest compiling 'libc' yourself instead of using the precompiled version. I would need to explore with a Fedora 36 image with Clang 19 with a compiled libc and explore if there is a difference. I took a 'computer programming' class where I learned a bit of theory and how to write C++ using GCC and testing with 'valgrind' in the Ubuntu machines from the lab. I am not an IT expert, and I honestly would like to fix this issue because I already have users emailing me because they use this package for "data archeology" and I use it for the same reason for my research in Political Science. The alternative is to use old hardware and a point-and-click tool on Windows 98/XP, which is why I keep my old ThinkPad X200 and an external DVD reader. It not feasible to read old census data with modern hardware, which is a problem derived from it being in a closed source format. Even worse, some recent census data comes with an installer that does not work on Windows 10+, and that I was able to restore by using Wine on my main modern laptop. Best wishes, _ Mauricio "Pachá" Vargas Sepúlveda PhD Student, Political Science University of Toronto __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Forbidden URLs?
Hi, Uwe, Kelly and Berwin: Thanks for the replies. Checking my "cran-comments.md" file after Berwin's reply, I found that I had documented two similar problems in 2022. One of these new problems was present in 2022 but not flagged then. The other is new. I documented them both in "cran-comments.md". Thanks again, Spencer Graves p.s. If my memory worked better, I may not have needed to bother R-pkg-devel. (I don't think this memory problem is a symptom of dementia or senility, as I remember not remembering well decades ago ;-) On 11/10/24 07:35, Uwe Ligges wrote: These can be ignored: The websites report "Forbidden" state when the script asks for headers to verify the URLs are correct. Not much you can do unless the websites are under your control. Best, Uwe Ligges On 10.11.2024 06:56, Spencer Graves wrote: Hello: I'm getting: Found the following (possibly) invalid URLs: URL: https://bioguide.congress.gov/ From: man/readDW_NOMINATE.Rd Status: 403 Message: Forbidden URL: https://www.bls.gov/cps/ From: inst/doc/UpdatingUSGDPpresidents.html Status: 403 Message: Forbidden These are in: https://win-builder.r-project.org/9SsxyKVoV7n1/00check.log Searching for "forbidden" in "Writing R Extensions" or in a web search has given me nothing. These are only NOTES. Should I ignore them is submitting to CRAN? Thanks, Spencer Graves __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Forbidden URLs?
These can be ignored: The websites report "Forbidden" state when the script asks for headers to verify the URLs are correct. Not much you can do unless the websites are under your control. Best, Uwe Ligges On 10.11.2024 06:56, Spencer Graves wrote: Hello: I'm getting: Found the following (possibly) invalid URLs: URL: https://bioguide.congress.gov/ From: man/readDW_NOMINATE.Rd Status: 403 Message: Forbidden URL: https://www.bls.gov/cps/ From: inst/doc/UpdatingUSGDPpresidents.html Status: 403 Message: Forbidden These are in: https://win-builder.r-project.org/9SsxyKVoV7n1/00check.log Searching for "forbidden" in "Writing R Extensions" or in a web search has given me nothing. These are only NOTES. Should I ignore them is submitting to CRAN? Thanks, Spencer Graves __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
Re: [R-pkg-devel] Forbidden URLs?
On Sun, 10 Nov 2024 07:38:16 -0600 Spencer Graves wrote: > p.s. If my memory worked better, I may not have needed to bother > R-pkg-devel. (I don't think this memory problem is a symptom of > dementia or senility, as I remember not remembering well decades ago.) Fortune nomination. cheers, Rolf -- Honorary Research Fellow Department of Statistics University of Auckland Stats. Dep't. (secretaries) phone: +64-9-373-7599 ext. 89622 Home phone: +64-9-480-4619 __ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
