--- re-building ‘phmm_poisson_df.Rmd’ using rmarkdown Loading required package: survival Loading required package: lattice Loading required package: Matrix phmm.c:501:3: runtime error: index 4 out of bounds for type 'double *[nreff + 1]' #0 0x7f1d8aacbd1b in Estep /data/gannet/ripley/R/packages/tests-clang-SAN/phmm/src/phmm.c:501:11 #1 0x7f1d8aac5fd9 in EM /data/gannet/ripley/R/packages/tests-clang-SAN/phmm/src/phmm.c:380:3 #2 0x7f1d8aabf7f9 in phmm /data/gannet/ripley/R/packages/tests-clang-SAN/phmm/src/phmm.c:181:3 #3 0x7450e8 in do_dotCode /data/gannet/ripley/R/svn/R-devel/src/main/dotcode.c #4 0x8417d0 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7090:14 #5 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #6 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #7 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #8 0x8225d2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:846:12 #9 0x8965e3 in do_set /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2956:8 #10 0x821dec in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:798:12 #11 0x89bad3 in do_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3331:13 #12 0x8417d0 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7090:14 #13 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #14 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #15 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #16 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #17 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #18 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #19 0x82270f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:746:9 #20 0x89d6e4 in do_withVisible /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3383:9 #21 0x9a4720 in do_internal /data/gannet/ripley/R/svn/R-devel/src/main/names.c:1384:11 #22 0x83eced in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7110:15 #23 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #24 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #25 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #26 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #27 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #28 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #29 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #30 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #31 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #32 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #33 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #34 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #35 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #36 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #37 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #38 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #39 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #40 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #41 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #42 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #43 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #44 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #45 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #46 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #47 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #48 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #49 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #50 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #51 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #52 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #53 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #54 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #55 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #56 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #57 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #58 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #59 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #60 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #61 0x8225d2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:846:12 #62 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #63 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #64 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #65 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #66 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #67 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #68 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #69 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #70 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #71 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #72 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #73 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #74 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #75 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #76 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #77 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #78 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #79 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #80 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #81 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #82 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #83 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #84 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #85 0x9adde4 in dispatchMethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:436:16 #86 0x9acc1f in Rf_usemethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:476:10 #87 0x9aef43 in do_usemethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:565:9 #88 0x83eced in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7110:15 #89 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #90 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #91 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #92 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #93 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #94 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #95 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #96 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #97 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #98 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #99 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #100 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #101 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #102 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #103 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #104 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #105 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #106 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #107 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #108 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #109 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #110 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #111 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #112 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #113 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #114 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #115 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #116 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #117 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #118 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #119 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #120 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #121 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #122 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #123 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #124 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #125 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #126 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #127 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #128 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #129 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #130 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #131 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #132 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #133 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #134 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #135 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #136 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #137 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #138 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #139 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #140 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #141 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #142 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #143 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #144 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #145 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #146 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #147 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #148 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #149 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #150 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #151 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #152 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #153 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #154 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #155 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #156 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #157 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #158 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #159 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #160 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #161 0x8225d2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:846:12 #162 0x956f79 in Rf_ReplIteration /data/gannet/ripley/R/svn/R-devel/src/main/main.c:264:2 #163 0x95b3e0 in R_ReplConsole /data/gannet/ripley/R/svn/R-devel/src/main/main.c:314:11 #164 0x95b1c5 in run_Rmainloop /data/gannet/ripley/R/svn/R-devel/src/main/main.c:1113:5 #165 0x4dbb4a in main /data/gannet/ripley/R/svn/R-devel/src/main/Rmain.c:29:5 #166 0x7f1d9f6a2f42 in __libc_start_main (/lib64/libc.so.6+0x23f42) #167 0x43036d in _start (/data/gannet/ripley/R/R-clang-SAN/bin/exec/R+0x43036d) SUMMARY: UndefinedBehaviorSanitizer: undefined-behavior phmm.c:501:3 in ================================================================= ==24937==ERROR: AddressSanitizer: dynamic-stack-buffer-overflow on address 0x7ffe6db40f20 at pc 0x7f1d8aad35a4 bp 0x7ffe6db40ed0 sp 0x7ffe6db40ec8 WRITE of size 8 at 0x7ffe6db40f20 thread T0 #0 0x7f1d8aad35a3 in Estep /data/gannet/ripley/R/packages/tests-clang-SAN/phmm/src/phmm.c:501:11 #1 0x7f1d8aac5fd9 in EM /data/gannet/ripley/R/packages/tests-clang-SAN/phmm/src/phmm.c:380:3 #2 0x7f1d8aabf7f9 in phmm /data/gannet/ripley/R/packages/tests-clang-SAN/phmm/src/phmm.c:181:3 #3 0x7450e8 in do_dotCode /data/gannet/ripley/R/svn/R-devel/src/main/dotcode.c #4 0x8417d0 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7090:14 #5 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #6 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #7 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #8 0x8225d2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:846:12 #9 0x8965e3 in do_set /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2956:8 #10 0x821dec in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:798:12 #11 0x89bad3 in do_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3331:13 #12 0x8417d0 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7090:14 #13 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #14 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #15 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #16 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #17 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #18 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #19 0x82270f in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:746:9 #20 0x89d6e4 in do_withVisible /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3383:9 #21 0x9a4720 in do_internal /data/gannet/ripley/R/svn/R-devel/src/main/names.c:1384:11 #22 0x83eced in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7110:15 #23 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #24 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #25 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #26 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #27 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #28 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #29 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #30 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #31 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #32 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #33 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #34 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #35 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #36 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #37 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #38 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #39 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #40 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #41 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #42 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #43 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #44 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #45 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #46 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #47 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #48 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #49 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #50 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #51 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #52 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #53 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #54 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #55 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #56 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #57 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #58 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #59 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #60 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #61 0x8225d2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:846:12 #62 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #63 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #64 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #65 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #66 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #67 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #68 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #69 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #70 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #71 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #72 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #73 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #74 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #75 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #76 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #77 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #78 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #79 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #80 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #81 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #82 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #83 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #84 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #85 0x9adde4 in dispatchMethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:436:16 #86 0x9acc1f in Rf_usemethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:476:10 #87 0x9aef43 in do_usemethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:565:9 #88 0x83eced in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7110:15 #89 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #90 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #91 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #92 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #93 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #94 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #95 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #96 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #97 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #98 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #99 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #100 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #101 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #102 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #103 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #104 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #105 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #106 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #107 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #108 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #109 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #110 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #111 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #112 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #113 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #114 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #115 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #116 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #117 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #118 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #119 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #120 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #121 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #122 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #123 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #124 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #125 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #126 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #127 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #128 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #129 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #130 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #131 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #132 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #133 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #134 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #135 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #136 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #137 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #138 0x882b96 in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:551:8 #139 0x8b4066 in FORCE_PROMISE /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5123:15 #140 0x8b4066 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5164:14 #141 0x857c25 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6842:20 #142 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #143 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #144 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #145 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #146 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #147 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #148 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #149 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #150 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #151 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #152 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #153 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #154 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #155 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #156 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #157 0x84430e in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7058:12 #158 0x821799 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:723:8 #159 0x889ceb in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c #160 0x885147 in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1814:16 #161 0x8225d2 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:846:12 #162 0x956f79 in Rf_ReplIteration /data/gannet/ripley/R/svn/R-devel/src/main/main.c:264:2 #163 0x95b3e0 in R_ReplConsole /data/gannet/ripley/R/svn/R-devel/src/main/main.c:314:11 #164 0x95b1c5 in run_Rmainloop /data/gannet/ripley/R/svn/R-devel/src/main/main.c:1113:5 #165 0x4dbb4a in main /data/gannet/ripley/R/svn/R-devel/src/main/Rmain.c:29:5 #166 0x7f1d9f6a2f42 in __libc_start_main (/lib64/libc.so.6+0x23f42) #167 0x43036d in _start (/data/gannet/ripley/R/R-clang-SAN/bin/exec/R+0x43036d) Address 0x7ffe6db40f20 is located in stack of thread T0 SUMMARY: AddressSanitizer: dynamic-stack-buffer-overflow /data/gannet/ripley/R/packages/tests-clang-SAN/phmm/src/phmm.c:501:11 in Estep Shadow bytes around the buggy address: 0x10004db60190: 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 0x10004db601a0: 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 0x10004db601b0: 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 0x10004db601c0: 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 0x10004db601d0: 00 00 00 00 00 00 00 00 00 00 00 00 ca ca ca ca =>0x10004db601e0: 00 00 00 00[cb]cb cb cb ca ca ca ca 00 00 00 00 0x10004db601f0: 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 0x10004db60200: 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 0x10004db60210: 00 00 00 00 cb cb cb cb ca ca ca ca 00 00 00 00 0x10004db60220: 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 0x10004db60230: 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 Shadow byte legend (one shadow byte represents 8 application bytes): Addressable: 00 Partially addressable: 01 02 03 04 05 06 07 Heap left redzone: fa Freed heap region: fd Stack left redzone: f1 Stack mid redzone: f2 Stack right redzone: f3 Stack after return: f5 Stack use after scope: f8 Global redzone: f9 Global init order: f6 Poisoned by user: f7 Container overflow: fc Array cookie: ac Intra object redzone: bb ASan internal: fe Left alloca redzone: ca Right alloca redzone: cb Shadow gap: cc ==24937==ABORTING