• using R Under development (unstable) (2025-07-18 r88430)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)     GNU Fortran (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘gdalraster/DESCRIPTION’ ... OK
• this is package ‘gdalraster’ version ‘2.1.0’
• package encoding: UTF-8
• checking package namespace information ... OK
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking for executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘gdalraster’ can be installed ... [316s/215s] OK See the install log for details.
• used C++ compiler: ‘g++ (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’
• checking C++ specification ... OK
• checking package directory ... OK
• checking ‘build’ directory ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level files ... OK
• checking for left-over files ... OK
• checking index information ... OK
• checking package subdirectories ... OK
• checking code files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... OK
• checking whether the package can be loaded with stated dependencies ... OK
• checking whether the package can be unloaded cleanly ... OK
• checking whether the namespace can be loaded with stated dependencies ... OK
• checking whether the namespace can be unloaded cleanly ... OK
• checking loading without being on the library search path ... OK
• checking whether startup messages can be suppressed ... OK
• checking use of S3 registration ... OK
• checking dependencies in R code ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... [46s/59s] OK
• checking Rd files ... OK
• checking Rd metadata ... OK
• checking Rd line widths ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking line endings in shell scripts ... OK
• checking line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking compilation flags in Makevars ... OK
• checking for GNU extensions in Makefiles ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking use of PKG_*FLAGS in Makefiles ... OK
• checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
• checking pragmas in C/C++ headers and code ... OK
• checking compilation flags used ... OK
• checking compiled code ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [13s/19s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [42s/55s] OK   Running ‘testthat.R’ [42s/55s]
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [48s/67s] ERROR Error(s) in re-building vignettes: --- re-building ‘gdal-config-quick-ref.Rmd’ using rmarkdown --- finished re-building ‘gdal-config-quick-ref.Rmd’ --- re-building ‘raster-api-tutorial.Rmd’ using rmarkdown --- finished re-building ‘raster-api-tutorial.Rmd’ --- re-building ‘raster-attribute-tables.Rmd’ using rmarkdown --- finished re-building ‘raster-attribute-tables.Rmd’ --- re-building ‘vector-api-overview.Rmd’ using rmarkdown ERROR 1: Reprojection failed ERROR 1: Reprojection failed ERROR 1: Reprojection failed ERROR 1: Reprojection failed ERROR 1: Reprojection failed ERROR 1: Reprojection failed [gannet:437257:0:438316] Caught signal 11 (Segmentation fault: address not mapped to object at address 0x553b) ERROR 1: Reprojection failed ERROR 1: Reprojection failed ERROR 1: Reprojection failed ERROR 1: Reprojection failed  *** caught segfault *** address (nil), cause 'memory not mapped' ERROR 1: Reprojection failed Traceback:  1: ogr2ogr(src_dsn, out_dsn, src_layers, cl_arg = args, open_options = src_open_options)  2: ogr_reproject(ynp_dsn, "points_of_interest", mtbs_dsn, srs_mtsp)  3: eval(expr, envir)  4: eval(expr, envir)  5: withVisible(eval(expr, envir))  6: withCallingHandlers(code, message = function (cnd) { watcher$capture_plot_and_output() if (on_message$capture) { watcher$push(cnd) } if (on_message$silence) { invokeRestart("muffleMessage") }}, warning = function (cnd) { if (getOption("warn") >= 2 || getOption("warn") < 0) { return() } watcher$capture_plot_and_output() if (on_warning$capture) { cnd <- sanitize_call(cnd) watcher$push(cnd) } if (on_warning$silence) { invokeRestart("muffleWarning") }}, error = function (cnd) { watcher$capture_plot_and_output() cnd <- sanitize_call(cnd) watcher$push(cnd) switch(on_error, continue = invokeRestart("eval_continue"), stop = invokeRestart("eval_stop"), error = NULL)})  7: eval(call)  8: eval(call)  9: with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers) 10: doWithOneRestart(return(expr), restart) 11: withOneRestart(expr, restarts[[1L]]) 12: withRestartList(expr, restarts[-nr]) 13: doWithOneRestart(return(expr), restart) 14: withOneRestart(withRestartList(expr, restarts[-nr]), restarts[[nr]]) 15: withRestartList(expr, restarts) 16: withRestarts(with_handlers({ for (expr in tle$exprs) { ev <- withVisible(eval(expr, envir)) watcher$capture_plot_and_output() watcher$print_value(ev$value, ev$visible, envir) } TRUE}, handlers), eval_continue = function() TRUE, eval_stop = function() FALSE) 17: evaluate::evaluate(...) 18: evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options)) 19: in_dir(input_dir(), expr) 20: in_input_dir(evaluate(code, envir = env, new_device = FALSE, keep_warning = if (is.numeric(options$warning)) TRUE else options$warning, keep_message = if (is.numeric(options$message)) TRUE else options$message, stop_on_error = if (is.numeric(options$error)) options$error else { if (options$error && options$include) 0L else 2L }, output_handler = knit_handlers(options$render, options))) 21: eng_r(options) 22: block_exec(params) 23: call_block(x) 24: process_group(group) 25: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } }) 26: xfun:::handle_error(withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { if (progress && is.function(pb$interrupt)) pb$interrupt() if (xfun::pkg_available("rlang", "1.0.0")) { if (is_R_CMD_build() || is_R_CMD_check()) { cnd = tryCatch(rlang::entrace(e), error = identity) error <<- format(cnd) } else { rlang::entrace(e) } } }), function(loc) { setwd(wd) write_utf8(res, output %n% stdout()) paste0("\nQuitting from ", loc, if (!is.null(error)) paste0("\n", rule(), error, "\n", rule()))}, if (labels[i] != "") sprintf(" [%s]", labels[i]), get_loc) 27: process_file(text, output) 28: knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet) 29: rmarkdown::render(file, encoding = encoding, quiet = quiet, envir = globalenv(), output_dir = getwd(), ...) 30: vweave_rmarkdown(...) 31: engine$weave(file, quiet = quiet, encoding = enc) 32: doTryCatch(return(expr), name, parentenv, handler) 33: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 34: tryCatchList(expr, classes, parentenv, handlers) 35: tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) output <- find_vignette_product(name, by = "weave", engine = engine) if (!have.makefile && vignette_is_tex(output)) { texi2pdf(file = output, clean = FALSE, quiet = quiet) output <- find_vignette_product(name, by = "texi2pdf", engine = engine) }}, error = function(e) { OK <<- FALSE message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)))}) 36: tools:::.buildOneVignette("vector-api-overview.Rmd", "/data/gannet/ripley/R/packages/tests-devel/gdalraster.Rcheck/vign_test/gdalraster", TRUE, FALSE, "vector-api-overview", "UTF-8", "/tmp/Rtmpzq2oeC/working_dir/RtmpYH1yia/file68e9352b04839.rds") An irrecoverable exception occurred. R is aborting now ... SUMMARY: processing the following file failed:   ‘vector-api-overview.Rmd’ Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... [25s/33s] OK
• checking HTML version of manual ... [12s/20s] OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 1 ERROR