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doccstat / fastcpd

FAST Change Point Detection in R
https://fastcpd.xingchi.li/
GNU General Public License v3.0
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clang-ASAN, gcc-ASAN on CRAN #9

Closed doccstat closed 8 months ago

doccstat commented 8 months ago
clang-ASAN ``` * using log directory ‘/data/gannet/ripley/R/packages/tests-clang-ASAN/fastcpd.Rcheck’ * using R Under development (unstable) (2024-03-12 r86109) * using platform: x86_64-pc-linux-gnu * R was compiled by clang version 18.1.1 flang-new version 18.1.1 * running under: Fedora Linux 36 (Workstation Edition) * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘fastcpd/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘fastcpd’ version ‘0.12.1’ * 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 ‘fastcpd’ can be installed ... [345s/450s] OK * used C++ compiler: ‘clang version 18.1.1’ * checking package directory ... OK * checking whether the package can be loaded ... [10s/16s] OK * checking whether the package can be loaded with stated dependencies ... [11s/31s] OK * checking whether the package can be unloaded cleanly ... [11s/24s] OK * checking whether the namespace can be loaded with stated dependencies ... [10s/22s] OK * checking whether the namespace can be unloaded cleanly ... [10s/22s] OK * checking loading without being on the library search path ... [10s/21s] OK * checking compiled code ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [103s/183s] OK * checking tests ... [39m/22m] OK Running ‘testthat.R’ [39m/22m] * checking package vignettes ... OK * checking re-building of vignette outputs ... [171s/173s] ERROR Error(s) in re-building vignettes: --- re-building ‘comparison-packages.Rmd’ using rmarkdown ================================================================= ==3048050==ERROR: AddressSanitizer: memcpy-param-overlap: memory ranges [0x534000005620,0x5340000094a0) and [0x5340000065c0, 0x53400000a440) overlap #0 0x55a8353b998f in memcpy /data/gannet/ripley/Sources2/LLVM/18/llvm-project-18.1.0.src/compiler-rt/lib/asan/../sanitizer_common/sanitizer_common_interceptors_memintrinsics.inc:115:5 #1 0x7fa2475d6223 in beast2_main_corev4 (/data/gannet/ripley/R/test-clang/Rbeast/libs/Rbeast.so+0x4a223) #2 0x7fa247619081 in mainFunction (/data/gannet/ripley/R/test-clang/Rbeast/libs/Rbeast.so+0x8d081) #3 0x7fa247619fe0 in rexFunction (/data/gannet/ripley/R/test-clang/Rbeast/libs/Rbeast.so+0x8dfe0) #4 0x55a835569505 in R_doDotCall /data/gannet/ripley/R/svn/R-devel/src/main/dotcode.c:757:11 #5 0x55a83562c42b in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8221:21 #6 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #7 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #8 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #9 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #10 0x55a83560f5a0 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1270:12 #11 0x55a8358606a8 in R_DispatchOrEvalSP /data/gannet/ripley/R/svn/R-devel/src/main/subset.c:657:11 #12 0x55a83586dee4 in do_subset3 /data/gannet/ripley/R/svn/R-devel/src/main/subset.c:1265:8 #13 0x55a83560f0d5 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1222:12 #14 0x55a8358606a8 in R_DispatchOrEvalSP /data/gannet/ripley/R/svn/R-devel/src/main/subset.c:657:11 #15 0x55a83586dee4 in do_subset3 /data/gannet/ripley/R/svn/R-devel/src/main/subset.c:1265:8 #16 0x55a83560f0d5 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1222:12 #17 0x55a8356886ce in do_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3922:13 #18 0x55a8356288f3 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7671:14 #19 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #20 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #21 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #22 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #23 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #24 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #25 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #26 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #27 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #28 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #29 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #30 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #31 0x55a83560ed8e in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1177:6 #32 0x55a8356898f3 in do_withVisible /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3965:9 #33 0x55a835733849 in do_internal /data/gannet/ripley/R/svn/R-devel/src/main/names.c:1409:11 #34 0x55a835612d5b in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7691:15 #35 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #36 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #37 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #38 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #39 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #40 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #41 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #42 0x55a83563285d in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767:3 #43 0x55a83563285d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426:20 #44 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #45 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #46 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #47 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #48 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #49 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #50 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #51 0x55a83563285d in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767:3 #52 0x55a83563285d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426:20 #53 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #54 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #55 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #56 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #57 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #58 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #59 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #60 0x55a83563285d in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767:3 #61 0x55a83563285d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426:20 #62 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #63 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #64 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #65 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #66 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #67 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #68 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #69 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #70 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #71 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #72 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #73 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #74 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #75 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #76 0x55a83560f5a0 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1270:12 #77 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #78 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #79 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #80 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #81 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #82 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #83 0x55a83563285d in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767:3 #84 0x55a83563285d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426:20 #85 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #86 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #87 0x55a83563285d in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767:3 #88 0x55a83563285d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426:20 #89 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #90 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #91 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #92 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #93 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #94 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #95 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #96 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #97 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #98 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #99 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #100 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #101 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #102 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #103 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #104 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #105 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #106 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #107 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #108 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #109 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #110 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #111 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #112 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #113 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #114 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #115 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #116 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #117 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #118 0x55a83573a067 in dispatchMethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:472:16 #119 0x55a835738bc4 in Rf_usemethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:512:10 #120 0x55a83573b2af in do_usemethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:578:9 #121 0x55a835612d5b in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7691:15 #122 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #123 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #124 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #125 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #126 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #127 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #128 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #129 0x55a83563285d in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767:3 #130 0x55a83563285d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426:20 #131 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #132 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #133 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #134 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #135 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #136 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #137 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #138 0x55a83563285d in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767:3 #139 0x55a83563285d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426:20 #140 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #141 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #142 0x55a83563285d in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767:3 #143 0x55a83563285d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426:20 #144 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #145 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #146 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #147 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #148 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #149 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #150 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #151 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #152 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #153 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #154 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #155 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #156 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #157 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #158 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #159 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #160 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #161 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #162 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #163 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #164 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #165 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #166 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #167 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #168 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #169 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #170 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #171 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #172 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #173 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #174 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #175 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #176 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #177 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #178 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #179 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #180 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #181 0x55a83563285d in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767:3 #182 0x55a83563285d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426:20 #183 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #184 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #185 0x55a83563285d in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767:3 #186 0x55a83563285d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426:20 #187 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #188 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #189 0x55a83563285d in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767:3 #190 0x55a83563285d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426:20 #191 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #192 0x55a8356646e3 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966:8 #193 0x55a83563285d in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767:3 #194 0x55a83563285d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426:20 #195 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #196 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #197 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #198 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #199 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #200 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #201 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #202 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #203 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #204 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #205 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #206 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #207 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #208 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #209 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #210 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #211 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #212 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #213 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #214 0x55a83562fd89 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642:12 #215 0x55a83560eba2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152:8 #216 0x55a835678fd8 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357:22 #217 0x55a835677364 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250:16 #218 0x55a835665cf5 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270:16 #219 0x55a83560f5a0 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1270:12 #220 0x55a8356fe4bb in Rf_ReplIteration /data/gannet/ripley/R/svn/R-devel/src/main/main.c:262:2 #221 0x55a835700c40 in R_ReplConsole /data/gannet/ripley/R/svn/R-devel/src/main/main.c:314:11 #222 0x55a835700c40 in run_Rmainloop /data/gannet/ripley/R/svn/R-devel/src/main/main.c:1216:5 #223 0x55a835700cd2 in Rf_mainloop /data/gannet/ripley/R/svn/R-devel/src/main/main.c:1223:5 #224 0x55a8353faa1c in main /data/gannet/ripley/R/svn/R-devel/src/main/Rmain.c:29:5 #225 0x7fa261a2950f in __libc_start_call_main (/lib64/libc.so.6+0x2950f) (BuildId: 8257ee907646e9b057197533d1e4ac8ede7a9c5c) #226 0x7fa261a295c8 in __libc_start_main@GLIBC_2.2.5 (/lib64/libc.so.6+0x295c8) (BuildId: 8257ee907646e9b057197533d1e4ac8ede7a9c5c) #227 0x55a8353224b4 in _start (/data/gannet/ripley/R/clang-ASAN/bin/exec/R+0x1584b4) 0x534000005620 is located 20000 bytes inside of 124223-byte region [0x534000000800,0x53400001ed3f) allocated by thread T0 here: #0 0x55a8353baaaf in malloc /data/gannet/ripley/Sources2/LLVM/18/llvm-project-18.1.0.src/compiler-rt/lib/asan/asan_malloc_linux.cpp:68:3 #1 0x7fa2475af3bc in mem_alloc abc_mem.c 0x5340000065c0 is located 24000 bytes inside of 124223-byte region [0x534000000800,0x53400001ed3f) allocated by thread T0 here: #0 0x55a8353baaaf in malloc /data/gannet/ripley/Sources2/LLVM/18/llvm-project-18.1.0.src/compiler-rt/lib/asan/asan_malloc_linux.cpp:68:3 #1 0x7fa2475af3bc in mem_alloc abc_mem.c SUMMARY: AddressSanitizer: memcpy-param-overlap (/data/gannet/ripley/R/test-clang/Rbeast/libs/Rbeast.so+0x4a223) in beast2_main_corev4 ==3048050==ABORTING --- re-building ‘comparison-pelt.Rmd’ using rmarkdown --- finished re-building ‘comparison-pelt.Rmd’ --- re-building ‘examples-advanced.Rmd’ using rmarkdown --- finished re-building ‘examples-advanced.Rmd’ --- re-building ‘examples-custom-model.Rmd’ using rmarkdown --- finished re-building ‘examples-custom-model.Rmd’ SUMMARY: processing the following file failed: ‘comparison-packages.Rmd’ Error: Vignette re-building failed. Execution halted * DONE Status: 1 ERROR ```
gcc-ASAN ``` * using log directory ‘/data/gannet/ripley/R/packages/tests-gcc-SAN/fastcpd.Rcheck’ * using R Under development (unstable) (2024-03-12 r86109) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc-13 (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Fedora Linux 36 (Workstation Edition) * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘fastcpd/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘fastcpd’ version ‘0.12.1’ * 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 ‘fastcpd’ can be installed ... [11m/11m] OK * used C++ compiler: ‘g++-13 (GCC) 13.2.0’ * checking package directory ... OK * checking whether the package can be loaded ... [12s/13s] OK * checking whether the package can be loaded with stated dependencies ... [12s/13s] OK * checking whether the package can be unloaded cleanly ... [11s/12s] OK * checking whether the namespace can be loaded with stated dependencies ... [11s/12s] OK * checking whether the namespace can be unloaded cleanly ... [11s/11s] OK * checking loading without being on the library search path ... [11s/11s] OK * checking compiled code ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [110s/114s] OK * checking tests ... [41m/21m] ERROR Running ‘testthat.R’ [41m/21m] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(fastcpd) > > test_check("fastcpd") Starting 2 test processes [ FAIL 1 | WARN 0 | SKIP 5 | PASS 99 ] ══ Skipped tests (5) ═══════════════════════════════════════════════════════════ • Skip vanilla logistic regression. (1): 'test-fastcpd-sanity.R:285:3' • Skip vanilla penalized linear regression. (1): 'test-fastcpd-sanity.R:982:3' • Skip vanilla poisson regression. (1): 'test-fastcpd-sanity.R:622:3' • These tests are intended to be run manually. (2): 'test-examples-fastcpd_ts.R:1:1', 'test-experiments.R:1:1' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-examples-fastcpd_mean-time.R:8:5'): examples/fastcpd_mean-time.R ── result_time[3] < 10 is not TRUE `actual`: FALSE `expected`: TRUE [ FAIL 1 | WARN 0 | SKIP 5 | PASS 99 ] Error: Test failures Execution halted * checking package vignettes ... OK * checking re-building of vignette outputs ... [365s/374s] ERROR Error(s) in re-building vignettes: --- re-building ‘comparison-packages.Rmd’ using rmarkdown ================================================================= ==1190686==ERROR: AddressSanitizer: memcpy-param-overlap: memory ranges [0x60c00000acd4,0x60c00000acdc) and [0x60c00000acd8, 0x60c00000ace0) overlap #0 0x7f87a866e855 in __interceptor_memcpy ../../../../latest/libsanitizer/sanitizer_common/sanitizer_common_interceptors.inc:899 #1 0x7f878f578fd4 in memcpy /usr/include/bits/string_fortified.h:29 #2 0x7f878f578fd4 in DSVT_UpdateGoodVecForNewTerm /tmp/RtmpKChtCT/R.INSTALL23f0cd172e7327/Rbeast/src/beastv2_basis_updategoodvec.c:72 #3 0x7f878f55b7e9 in beast2_main_corev4 /tmp/RtmpKChtCT/R.INSTALL23f0cd172e7327/Rbeast/src/beastv2_COREV4.c:338 #4 0x7f878f591fcc in mainFunction /tmp/RtmpKChtCT/R.INSTALL23f0cd172e7327/Rbeast/src/glue_code.c:94 #5 0x7f878f59243b in rexFunction /tmp/RtmpKChtCT/R.INSTALL23f0cd172e7327/Rbeast/src/glue_code.c:538 #6 0x7f878f59243b in rexFunction /tmp/RtmpKChtCT/R.INSTALL23f0cd172e7327/Rbeast/src/glue_code.c:529 #7 0x58c815 in R_doDotCall /data/gannet/ripley/R/svn/R-devel/src/main/dotcode.c:757 #8 0x652d6f in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8221 #9 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #10 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #11 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #12 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #13 0x684ddd in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1270 #14 0x85b29a in R_DispatchOrEvalSP /data/gannet/ripley/R/svn/R-devel/src/main/subset.c:657 #15 0x86af40 in do_subset3 /data/gannet/ripley/R/svn/R-devel/src/main/subset.c:1265 #16 0x6851b8 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1222 #17 0x85b29a in R_DispatchOrEvalSP /data/gannet/ripley/R/svn/R-devel/src/main/subset.c:657 #18 0x86af40 in do_subset3 /data/gannet/ripley/R/svn/R-devel/src/main/subset.c:1265 #19 0x6851b8 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1222 #20 0x696101 in do_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3922 #21 0x645f8d in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7671 #22 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #23 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #24 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #25 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #26 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #27 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #28 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #29 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #30 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #31 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #32 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #33 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #34 0x684b63 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #35 0x684b63 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1177 #36 0x6977cc in do_withVisible /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3965 #37 0x731e3c in do_internal /data/gannet/ripley/R/svn/R-devel/src/main/names.c:1409 #38 0x643a7b in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7691 #39 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #40 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #41 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #42 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #43 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #44 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #45 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #46 0x686f1b in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #47 0x686f1b in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767 #48 0x653291 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426 #49 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #50 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #51 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #52 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #53 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #54 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #55 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #56 0x686f1b in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #57 0x686f1b in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767 #58 0x653291 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426 #59 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #60 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #61 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #62 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #63 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #64 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #65 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #66 0x686f1b in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #67 0x686f1b in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767 #68 0x653291 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426 #69 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #70 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #71 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #72 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #73 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #74 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #75 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #76 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #77 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #78 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #79 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #80 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #81 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #82 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #83 0x684ddd in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1270 #84 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #85 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #86 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #87 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #88 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #89 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #90 0x686f1b in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #91 0x686f1b in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767 #92 0x653291 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426 #93 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #94 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #95 0x686f1b in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #96 0x686f1b in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767 #97 0x653291 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426 #98 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #99 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #100 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #101 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #102 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #103 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #104 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #105 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #106 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #107 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #108 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #109 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #110 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #111 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #112 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #113 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #114 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #115 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #116 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #117 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #118 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #119 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #120 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #121 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #122 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #123 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #124 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #125 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #126 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #127 0x737e10 in dispatchMethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:472 #128 0x73901d in Rf_usemethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:512 #129 0x739a00 in do_usemethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:578 #130 0x643a7b in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7691 #131 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #132 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #133 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #134 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #135 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #136 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #137 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #138 0x686f1b in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #139 0x686f1b in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767 #140 0x653291 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426 #141 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #142 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #143 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #144 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #145 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #146 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #147 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #148 0x686f1b in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #149 0x686f1b in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767 #150 0x653291 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426 #151 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #152 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #153 0x686f1b in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #154 0x686f1b in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767 #155 0x653291 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426 #156 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #157 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #158 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #159 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #160 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #161 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #162 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #163 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #164 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #165 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #166 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #167 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #168 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #169 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #170 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #171 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #172 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #173 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #174 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #175 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #176 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #177 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #178 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #179 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #180 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #181 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #182 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #183 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #184 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #185 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #186 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #187 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #188 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #189 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #190 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #191 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #192 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #193 0x686f1b in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #194 0x686f1b in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767 #195 0x653291 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426 #196 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #197 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #198 0x686f1b in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #199 0x686f1b in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767 #200 0x653291 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426 #201 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #202 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #203 0x686f1b in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #204 0x686f1b in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767 #205 0x653291 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426 #206 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #207 0x6864e5 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:966 #208 0x686f1b in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:943 #209 0x686f1b in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5767 #210 0x653291 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7426 #211 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #212 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #213 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #214 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #215 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #216 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #217 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #218 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #219 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #220 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #221 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #222 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #223 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #224 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #225 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #226 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #227 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #228 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #229 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #230 0x63fdcd in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7642 #231 0x68483f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1152 #232 0x68a338 in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2357 #233 0x68c7eb in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2250 #234 0x68d4b2 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2270 #235 0x684ddd in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1270 #236 0x70685e in Rf_ReplIteration /data/gannet/ripley/R/svn/R-devel/src/main/main.c:262 #237 0x706ef1 in R_ReplConsole /data/gannet/ripley/R/svn/R-devel/src/main/main.c:314 #238 0x707034 in run_Rmainloop /data/gannet/ripley/R/svn/R-devel/src/main/main.c:1216 #239 0x707082 in Rf_mainloop /data/gannet/ripley/R/svn/R-devel/src/main/main.c:1223 #240 0x41c7b8 in main /data/gannet/ripley/R/svn/R-devel/src/main/Rmain.c:29 #241 0x7f87a702950f in __libc_start_call_main (/lib64/libc.so.6+0x2950f) (BuildId: 8257ee907646e9b057197533d1e4ac8ede7a9c5c) #242 0x7f87a70295c8 in __libc_start_main_alias_2 (/lib64/libc.so.6+0x295c8) (BuildId: 8257ee907646e9b057197533d1e4ac8ede7a9c5c) #243 0x41f014 in _start (/data/gannet/ripley/R/gcc-SAN/bin/exec/R+0x41f014) (BuildId: 27e094b0812a827dea81144262e7e909199eaa48) 0x60c00000acd4 is located 20 bytes inside of 119-byte region [0x60c00000acc0,0x60c00000ad37) allocated by thread T0 here: #0 0x7f87a86d92ef in __interceptor_malloc ../../../../latest/libsanitizer/asan/asan_malloc_linux.cpp:69 #1 0x7f878f53daf6 in malloc_aligned /tmp/RtmpKChtCT/R.INSTALL23f0cd172e7327/Rbeast/src/abc_mem.c:39 0x60c00000acd8 is located 24 bytes inside of 119-byte region [0x60c00000acc0,0x60c00000ad37) allocated by thread T0 here: #0 0x7f87a86d92ef in __interceptor_malloc ../../../../latest/libsanitizer/asan/asan_malloc_linux.cpp:69 #1 0x7f878f53daf6 in malloc_aligned /tmp/RtmpKChtCT/R.INSTALL23f0cd172e7327/Rbeast/src/abc_mem.c:39 SUMMARY: AddressSanitizer: memcpy-param-overlap ../../../../latest/libsanitizer/sanitizer_common/sanitizer_common_interceptors.inc:899 in __interceptor_memcpy ==1190686==ABORTING --- re-building ‘comparison-pelt.Rmd’ using rmarkdown --- finished re-building ‘comparison-pelt.Rmd’ --- re-building ‘examples-advanced.Rmd’ using rmarkdown --- finished re-building ‘examples-advanced.Rmd’ --- re-building ‘examples-custom-model.Rmd’ using rmarkdown --- finished re-building ‘examples-custom-model.Rmd’ SUMMARY: processing the following file failed: ‘comparison-packages.Rmd’ Error: Vignette re-building failed. Execution halted * DONE Status: 2 ERRORs ```

Diffs between the latest version and last CRAN version

The error message likely comes from Rbeast but Rbeast on CRAN does not have the ASAN error. The current solution would be to comment the Rbeast code.

doccstat commented 8 months ago

Fixed in v0.12.2

Diffs between v0.12.2 and v0.12.1