* using log directory ‘/data/gannet/ripley/R/packages/tests-gcc-SAN/couplr.Rcheck’ * using R Under development (unstable) (2026-01-20 r89309) * 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 ‘couplr/DESCRIPTION’ ... OK * this is package ‘couplr’ version ‘1.0.6’ * package encoding: UTF-8 * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking whether package ‘couplr’ can be installed ... [9m/10m] OK * used C++ compiler: ‘g++ (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’ * checking C++ specification ... INFO specified C++17 * checking package directory ... 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 ... [8s/11s] OK * checking loading without being on the library search path ... OK * checking compiled code ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [24s/28s] OK * checking tests ... [705s/439s] OK Running ‘testthat.R’ [703s/437s] * checking package vignettes ... OK * checking re-building of vignette outputs ... [45m/46m] ERROR Error(s) in re-building vignettes: --- re-building ‘algorithms.Rmd’ using rmarkdown gabow_tarjan/utils_gabow_tarjan.cpp:1398:30: runtime error: left shift of negative value -1 #0 0x7b71e3c35741 in solve_gabow_tarjan_inner(std::vector >, std::allocator > > > const&, std::vector >&, std::vector >&, std::vector >&, std::vector >&) gabow_tarjan/utils_gabow_tarjan.cpp:1398 #1 0x7b71e3f04463 in solve_gabow_tarjan_impl(Rcpp::Matrix<14, Rcpp::PreserveStorage>, bool) gabow_tarjan/solve_gabow_tarjan.cpp:95 #2 0x7b71e3c6b891 in lap_solve_gabow_tarjan(Rcpp::Matrix<14, Rcpp::PreserveStorage>, bool) /data/gannet/ripley/R/packages/tests-gcc-SAN/couplr/src/rcpp_interface.cpp:203 #3 0x7b71e3c6bce3 in _couplr_lap_solve_gabow_tarjan /data/gannet/ripley/R/packages/tests-gcc-SAN/couplr/src/RcppExports.cpp:214 #4 0x00000074f3f6 in R_doDotCall /data/gannet/ripley/R/svn/R-devel/src/main/dotcode.c:757 #5 0x0000008e551a in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8682 #6 0x0000008bbd5b in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7515 #7 0x00000085c5b2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167 #8 0x0000008722fa in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2389 #9 0x0000008763ba in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2302 #10 0x00000085cc53 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2324 #11 0x00000085cc53 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1280 #12 0x00000088ab6e in do_set /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3581 #13 0x00000085d076 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1232 #14 0x000000892111 in do_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3955 #15 0x0000008ceb12 in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8132 #16 0x0000008bbd5b in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7515 #17 0x00000085c5b2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167 #18 0x0000009233f1 in forcePromise.part.0.lto_priv.0 /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:976 #19 0x00000085dc0c in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1187 #20 0x000000894bd3 in do_withVisible /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3998 #21 0x000000a95bc6 in do_internal /data/gannet/ripley/R/svn/R-devel/src/main/names.c:1411 #22 0x0000008dbd21 in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8152 #23 0x0000008bbd5b in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7515 #24 0x00000085c5b2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167 #25 0x0000009233f1 in forcePromise.part.0.lto_priv.0 /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:976 #26 0x00000085dc0c in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1187 #27 0x0000009233f1 in forcePromise.part.0.lto_priv.0 /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:976 #28 0x0000008a6c31 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:956 #29 0x0000008a6c31 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5849 #30 0x0000008de98c in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7862 #31 0x0000008bbd5b in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7515 #32 0x00000085c5b2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167 #33 0x0000008722fa in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2389 #34 0x0000008763ba in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2302 #35 0x00000085cc53 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2324 #36 0x00000085cc53 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1280 #37 0x000000892111 in do_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3955 #38 0x0000008ceb12 in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8132 #39 0x0000008bbd5b in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7515 #40 0x00000085c5b2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167 #41 0x0000008722fa in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2389 #42 0x0000008763ba in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2302 #43 0x00000085cc53 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2324 #44 0x00000085cc53 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1280 #45 0x0000008722fa in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2389 #46 0x0000008763ba in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2302 #47 0x0000008e3615 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2324 #48 0x0000008e3615 in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8103 #49 0x0000008bbd5b in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7515 #50 0x00000085c5b2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167 #51 0x0000008722fa in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2389 #52 0x0000008763ba in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2302 #53 0x00000085cc53 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2324 #54 0x00000085cc53 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1280 #55 0x000000a02408 in Rf_ReplIteration /data/gannet/ripley/R/svn/R-devel/src/main/main.c:264 #56 0x000000a02408 in R_ReplConsole /data/gannet/ripley/R/svn/R-devel/src/main/main.c:317 #57 0x000000a104ea in run_Rmainloop /data/gannet/ripley/R/svn/R-devel/src/main/main.c:1235 #58 0x000000a10582 in Rf_mainloop /data/gannet/ripley/R/svn/R-devel/src/main/main.c:1242 #59 0x00000041318f in main /data/gannet/ripley/R/svn/R-devel/src/main/Rmain.c:29 #60 0x7f71fea115f4 in __libc_start_call_main (/lib64/libc.so.6+0x35f4) (BuildId: a1dda014206b55b07f58fe8db80121b752dc3d03) #61 0x7f71fea116a7 in __libc_start_main@@GLIBC_2.34 (/lib64/libc.so.6+0x36a7) (BuildId: a1dda014206b55b07f58fe8db80121b752dc3d03) #62 0x000000413b74 in _start (/data/gannet/ripley/R/gcc-SAN3/bin/exec/R+0x413b74) (BuildId: 24d1a082f9a1a85e7bf3ba465e4da160116b02bf) [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘algorithms.Rmd’ --- re-building ‘comparison.Rmd’ using rmarkdown Quitting from comparison.Rmd:680-723 [lalonde-balance] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error in `select()`: ! unused arguments (variable, std_diff) --- Backtrace: ▆ 1. ├─... %>% mutate(stage = "After") 2. └─dplyr::mutate(., stage = "After") ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'comparison.Rmd' failed with diagnostics: unused arguments (variable, std_diff) --- failed re-building ‘comparison.Rmd’ --- re-building ‘getting-started.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘getting-started.Rmd’ --- re-building ‘matching-workflows.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘matching-workflows.Rmd’ --- re-building ‘pixel-morphing.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. [WARNING] Could not fetch resource images/ImageA_80.png [WARNING] Could not fetch resource images/ImageB_80.png [WARNING] Could not fetch resource images/circleA_80.png [WARNING] Could not fetch resource images/circleB_80.png --- finished re-building ‘pixel-morphing.Rmd’ --- re-building ‘troubleshooting.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘troubleshooting.Rmd’ SUMMARY: processing the following file failed: ‘comparison.Rmd’ Error: Vignette re-building failed. Execution halted * DONE Status: 1 ERROR