Hi all, I am reaching out to seeking help in debugging my package. The package has been already on CRAN for some time, updated twice. Also, I have been checking the package regularly on rhub, since my last submission to CRAN, with no errors.
However, recently last checks on rhub end with a segmentation fault for the following platform: Platform: Fedora Linux, R-devel, clang, gfortran From the error log below it seems that the error happens after running the examples: * checking examples with --run-donttest ...sh: line 1: 10229 Segmentation fault (core dumped) LANGUAGE=en _R_CHECK_INTERNALS2_=1 R_LIBS=/tmp/RtmpBr5Iyu/RLIBS_264b50c09c34 R_ENVIRON_USER='' R_LIBS_USER='' R_LIBS_SITE='no_such_dir' '/opt/R-devel/lib64/R/bin/R' --vanilla --encoding=UTF-8 > 'iCARH-Ex.Rout' 2>&1 < 'iCARH-Ex.R' ERROR Running examples in ‘iCARH-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: iCARH.getPathwaysMat > ### Title: Builds pathways adjacency matrices > ### Aliases: iCARH.getPathwaysMat > > ### ** Examples > > keggid = list("C08363") > iCARH.getPathwaysMat(keggid, "rno") [1] "no result" NULL > ## No test: > keggid = list("Unk1", "C00350","Unk2",c("C08363", "C00712")) > iCARH.getPathwaysMat(keggid, "rno") named list() > ## End(No test) > > > > > base::assign(".dptime", (proc.time() - get(".ptime", pos = "CheckExEnv")), > pos = "CheckExEnv") > base::cat("iCARH.getPathwaysMat", base::get(".format_ptime", pos = > 'CheckExEnv')(get(".dptime", pos = "CheckExEnv")), "\n", > file=base::get(".ExTimings", pos = 'CheckExEnv'), append=TRUE, sep="\t") > cleanEx() *** caught segfault *** address 0xffffffffffffff96, cause 'memory not mapped' An irrecoverable exception occurred. R is aborting now ... The full log link is below: https://builder.r-hub.io/status/original/iCARH_2.0.2.1.tar.gz-5af530549db347e2827b37d9e8b00231 Any ideas on how this can be solved are welcome. Thanks in advance, Bw, Dr. Takoua Jendoubi Statistics section | Department of Mathematics | Imperial College London | Room 533 | South Kensington Campus | London | SW7 2AZ | [[alternative HTML version deleted]] ______________________________________________ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel