R Under development (unstable) (2026-07-04 r90207) -- "Unsuffered Consequences"
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> library("lme4")
Loading required package: Matrix
> L <- load(system.file("testdata","crabs_randdata2.Rda",package="lme4"))
> ## randdata0: simulated data, in form suitable for plotting
> ## randdata: simulated data, in form suitable for analysis
> 
> ## fr  ## alive/dead formula
> ## fr2 ## proportion alive formula (use with weights=initial.snail.density)
> 
> ## FIXME: there are still bigger differences than I'd like between the approaches
> ## (mostly in the random-effects correlation).  It's not clear who's right;
> ## lme4 thinks its parameters are better, but ??  Could be explored further.
> 
> if (FALSE) {
+ ## library(ggplot2)  ## commented to avoid triggering Suggests: requirement
+ library(grid)
+ zmargin <- theme(panel.margin=unit(0,"lines"))
+ theme_set(theme_bw())
+ g1 <- ggplot(randdata0,aes(x=snail.size,y=surv,colour=snail.size,fill=snail.size))+
+     geom_hline(yintercept=1,colour="black")+
+     stat_sum(aes(size=factor(..n..)),alpha=0.6)+
+     facet_grid(.~ttt)+zmargin+
+     geom_boxplot(fill=NA,outlier.colour=NULL,outlier.shape=3)+  ## set outliers to same colour as points
+     ## (hard to see which are outliers, but it doesn't really matter in this case)
+     scale_size_discrete("# obs",range=c(2,5))
+ }
> 
> if (.Platform$OS.type != "windows") {
+ t1 <- system.time(glmer1 <- glmer(fr2,weights=initial.snail.density,
+                                   family ="binomial", data=randdata))
+ t1B <- system.time(glmer1B <- glmer(fr,family ="binomial", data=randdata))
+ 
+ res1 <- c(fixef(glmer1),c(VarCorr(glmer1)$plot))
+ res1B <- c(fixef(glmer1B),c(VarCorr(glmer1B)$plot))
+ p1 <- unlist(getME(glmer1,c("theta","beta")))
+ stopifnot(all.equal(res1,res1B))
+ 
+ dfun <- update(glmer1,devFunOnly=TRUE)
+ stopifnot(all.equal(dfun(p1),c(-2*logLik(glmer1))))
+ ##
+ ## library(lme4.0)  ## version 0.999999.2 results
+ ## t1_lme4.0 <- system.time(glmer1X <-
+ ##                           glmer(fr2,weights=initial.snail.density,
+ ##                                 family ="binomial", data=randdata))
+ ## dput(c(fixef(glmer1X),c(VarCorr(glmer1X)$plot)))
+ ## p1X <- c(getME(glmer1X,"theta"),getME(glmer1X,"beta"))
+ p1X <- c(0.681301656652347, -1.14775239687404, 0.436143018123226, 
+ 2.77730476938968, 0.609023583738824, -1.60055813739844, 2.0324468778545, 
+ 0.624173873057839, -1.7908793509579, -2.44540201631615, -1.42365990002708, 
+ -2.26780929006268, 0.700928084600075, -1.26220238391029, 0.369024582097804, 
+ 3.44325347343035, 2.26400391093108)
+ stopifnot(all.equal(unname(p1),p1X,tolerance=0.03))
+ dfun(p1X)
+ dfun(p1)
+ ## ~ 1.8 seconds elapsed time
+ lme4.0_res <- 
+     structure(c(2.77730476938968, 0.609023583738824, -1.60055813739844, 
+                 2.0324468778545, 0.624173873057839, -1.7908793509579, -2.44540201631615, 
+                 -1.42365990002708, -2.26780929006268, 0.700928084600075, -1.26220238391029, 
+                 0.369024582097804, 3.44325347343035, 2.26400391093108, 0.464171947357232, 
+                 -0.532754465140956, -0.532754465140956, 0.801690946568518),
+           .Names = c("(Intercept)", 
+           "crab.speciesS", "crab.speciesW", "crab.sizeS", "crab.sizeM", 
+           "snail.sizeS", "crab.speciesS:crab.sizeS", "crab.speciesS:crab.sizeM", 
+           "crab.speciesS:snail.sizeS", "crab.speciesW:snail.sizeS",
+           "crab.sizeS:snail.sizeS", "crab.sizeM:snail.sizeS",
+           "crab.speciesS:crab.sizeS:snail.sizeS", 
+           "crab.speciesS:crab.sizeM:snail.sizeS", "", "", "", ""))
+ 
+ stopifnot(all.equal(res1,lme4.0_res,tolerance=0.015))
+ 
+ 
+ ## library("glmmADMB")
+ ## prop/weights formulation: ~ 7 seconds
+ ## t1_glmmadmb <- system.time(glmer1B <- glmmadmb(fr,family ="binomial",
+ ##                                               corStruct="full",data=randdata))
+ ## dput(c(fixef(glmer1B),c(VarCorr(glmer1B)$plot)))
+ glmmADMB_res <- structure(c(2.7773101267224, 0.609026276823218, -1.60055704634712, 
+ 2.03244174458562, 0.624171008585953, -1.79088398816641, -2.44540300134182, 
+ -1.42366043619683, -2.26780858382505, 0.700927141726545, -1.26219964572264, 
+ 0.369029052442189, 3.44326297908383, 2.26403738918967, 0.46417, 
+ -0.53253, -0.53253, 0.80169), .Names = c("(Intercept)", "crab.speciesS", 
+ "crab.speciesW", "crab.sizeS", "crab.sizeM", "snail.sizeS", "crab.speciesS:crab.sizeS", 
+ "crab.speciesS:crab.sizeM", "crab.speciesS:snail.sizeS", "crab.speciesW:snail.sizeS", 
+ "crab.sizeS:snail.sizeS", "crab.sizeM:snail.sizeS", "crab.speciesS:crab.sizeS:snail.sizeS", 
+ "crab.speciesS:crab.sizeM:snail.sizeS", "", "", "", ""))
+ 
+ stopifnot(all.equal(res1B,glmmADMB_res,tolerance=0.015))
+ } ## skip on windows (for speed)
=================================================================
==627080==ERROR: AddressSanitizer: heap-use-after-free on address 0x7d7976e40130 at pc 0x7b3962d1593c bp 0x7ffdb38f8250 sp 0x7ffdb38f8248
READ of size 16 at 0x7d7976e40130 thread T0
    #0 0x7b3962d1593b in Eigen::internal::product_evaluator<Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>, 8, Eigen::DiagonalShape, Eigen::DenseShape, double, double>::coeff(long, long) const /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:925:46
    #1 0x7b3962d1593b in Eigen::internal::generic_dense_assignment_kernel<Eigen::internal::evaluator<Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>>, Eigen::internal::evaluator<Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>>, Eigen::internal::assign_op<double, double>, 0>::assignCoeff(long, long) /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:654:58
    #2 0x7b3962d1593b in Eigen::internal::generic_dense_assignment_kernel<Eigen::internal::evaluator<Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>>, Eigen::internal::evaluator<Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>>, Eigen::internal::assign_op<double, double>, 0>::assignCoeffByOuterInner(long, long) /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:668:5
    #3 0x7b3962d1593b in Eigen::internal::dense_assignment_loop<Eigen::internal::generic_dense_assignment_kernel<Eigen::internal::evaluator<Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>>, Eigen::internal::evaluator<Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>>, Eigen::internal::assign_op<double, double>, 0>, 0, 0>::run(Eigen::internal::generic_dense_assignment_kernel<Eigen::internal::evaluator<Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>>, Eigen::internal::evaluator<Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>>, Eigen::internal::assign_op<double, double>, 0>&) /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:347:16
    #4 0x7b3962d1593b in void Eigen::internal::call_dense_assignment_loop<Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>, Eigen::internal::assign_op<double, double>>(Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>&, Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1> const&, Eigen::internal::assign_op<double, double> const&) /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:785:3
    #5 0x7b3962d1593b in Eigen::internal::Assignment<Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>, Eigen::internal::assign_op<double, double>, Eigen::internal::Dense2Dense, void>::run(Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>&, Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1> const&, Eigen::internal::assign_op<double, double> const&) /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:5
    #6 0x7b3962d1593b in void Eigen::internal::call_assignment_no_alias<Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>, Eigen::internal::assign_op<double, double>>(Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>&, Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1> const&, Eigen::internal::assign_op<double, double> const&) /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:3
    #7 0x7b3962d1593b in void Eigen::internal::call_assignment<Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>, Eigen::internal::assign_op<double, double>>(Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>&, Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1> const&, Eigen::internal::assign_op<double, double> const&, Eigen::internal::enable_if<!evaluator_assume_aliasing<Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>>::value, void*>::type) /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:3
    #8 0x7b3962d1593b in void Eigen::internal::call_assignment<Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>>(Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>&, Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1> const&) /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:3
    #9 0x7b3962d1593b in Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>& Eigen::MatrixBase<Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>>::operator=<Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>>(Eigen::DenseBase<Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>> const&) /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/Core/Assign.h:66:3
    #10 0x7b3962d1593b in Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>& Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>::operator=<Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>>(Eigen::DenseBase<Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>> const&) /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/Core/Map.h:162:5
    #11 0x7b3962d1593b in lme4::merPredD::updateXwts(Eigen::Array<double, -1, 1, 0, -1, 1> const&) /data/gannet/ripley/R/packages/tests-clang-ASAN/lme4/src/predModule.cpp:221:30
    #12 0x7b3962ca3cd2 in internal_glmerWrkIter(lme4::merPredD*, lme4::glmResp*, bool) /data/gannet/ripley/R/packages/tests-clang-ASAN/lme4/src/external.cpp:274:13
    #13 0x7b3962ca3cd2 in pwrssUpdate(lme4::glmResp*, lme4::merPredD*, bool, double, int, int) /data/gannet/ripley/R/packages/tests-clang-ASAN/lme4/src/external.cpp:330:20
    #14 0x7b3962ca2bc8 in glmerLaplace /data/gannet/ripley/R/packages/tests-clang-ASAN/lme4/src/external.cpp:386:9
    #15 0x556936e13b06 in R_doDotCall /data/gannet/ripley/R/svn/R-devel/src/main/dotcode.c:770:11
    #16 0x556936ed7d2d in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8700:21
    #17 0x556936ebfd74 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7533:16
    #18 0x556936ebe301 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167:8
    #19 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #20 0x556936f05c58 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2314:16
    #21 0x556936ec13be in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16
    #22 0x556936ebed28 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1278:12
    #23 0x556936f17bc5 in do_set /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3585:8
    #24 0x556936ebe840 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1230:12
    #25 0x556936f15269 in do_begin /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3001:10
    #26 0x556936ebe840 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1230:12
    #27 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #28 0x556936f05c58 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2314:16
    #29 0x556936edfeba in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16
    #30 0x556936edfeba in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8121:16
    #31 0x556936ebfd74 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7533:16
    #32 0x556936ebe301 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167:8
    #33 0x556936ec060a in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:976:13
    #34 0x556936ebe4f5 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1185:6
    #35 0x556936ec09a2 in Rf_evalList /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3683:12
    #36 0x556936ebe9d1 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1249:20
    #37 0x556936f17bc5 in do_set /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3585:8
    #38 0x556936ebe840 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1230:12
    #39 0x556936ec09a2 in Rf_evalList /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3683:12
    #40 0x556936ebe9d1 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1249:20
    #41 0x556936ec09a2 in Rf_evalList /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3683:12
    #42 0x556936ebe9d1 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1249:20
    #43 0x556936ec060a in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:976:13
    #44 0x556936ebe2b7 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1191:2
    #45 0x556936ecc77a in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8150:14
    #46 0x556936ebfd74 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7533:16
    #47 0x556936ebe301 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167:8
    #48 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #49 0x556936f05c58 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2314:16
    #50 0x556936ec13be in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16
    #51 0x556936ebed28 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1278:12
    #52 0x556936f15269 in do_begin /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3001:10
    #53 0x556936ebe840 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1230:12
    #54 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #55 0x556936f05c58 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2314:16
    #56 0x556936edfeba in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16
    #57 0x556936edfeba in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8121:16
    #58 0x556936ebfd74 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7533:16
    #59 0x556936ebe301 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167:8
    #60 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #61 0x556936f05c58 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2314:16
    #62 0x556936ec13be in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16
    #63 0x556936ebed28 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1278:12
    #64 0x556936d74abc in do_docall /data/gannet/ripley/R/svn/R-devel/src/main/coerce.c:2788:12
    #65 0x556936ecc77a in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8150:14
    #66 0x556936ebfd74 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7533:16
    #67 0x556936ebe301 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167:8
    #68 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #69 0x556936f05c58 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2314:16
    #70 0x556936ec13be in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16
    #71 0x556936ebed28 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1278:12
    #72 0x556936f17bc5 in do_set /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3585:8
    #73 0x556936ebe840 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1230:12
    #74 0x556936ec060a in forcePromise /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:976:13
    #75 0x556936eeb1b1 in getvar /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:5867:6
    #76 0x556936eeb1b1 in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7880:20
    #77 0x556936ebfd74 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7533:16
    #78 0x556936ebe301 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167:8
    #79 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #80 0x556936f05c58 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2314:16
    #81 0x556936ec13be in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16
    #82 0x556936ebed28 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1278:12
    #83 0x556936f17bc5 in do_set /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3585:8
    #84 0x556936ebe840 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1230:12
    #85 0x556936f15269 in do_begin /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3001:10
    #86 0x556936ebe840 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1230:12
    #87 0x556936ebe840 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1230:12
    #88 0x556936f8fbe1 in Rf_ReplIteration /data/gannet/ripley/R/svn/R-devel/src/main/main.c:264:23
    #89 0x556936f92410 in R_ReplConsole /data/gannet/ripley/R/svn/R-devel/src/main/main.c:317:11
    #90 0x556936f92410 in run_Rmainloop /data/gannet/ripley/R/svn/R-devel/src/main/main.c:1235:5
    #91 0x556936f924a2 in Rf_mainloop /data/gannet/ripley/R/svn/R-devel/src/main/main.c:1242:5
    #92 0x556936c93d3c in main /data/gannet/ripley/R/svn/R-devel/src/main/Rmain.c:29:5
    #93 0x7f397a311574 in __libc_start_call_main (/lib64/libc.so.6+0x3574) (BuildId: 92b5376d35bb29c098175948cf3e7cbcae3aeae1)
    #94 0x7f397a311627 in __libc_start_main@GLIBC_2.2.5 (/lib64/libc.so.6+0x3627) (BuildId: 92b5376d35bb29c098175948cf3e7cbcae3aeae1)
    #95 0x556936bab7d4 in _start (/data/gannet/ripley/R/clang-ASAN/bin/exec/R+0x17d4)

0x7d7976e40130 is located 48 bytes inside of 7664-byte region [0x7d7976e40100,0x7d7976e41ef0)
freed by thread T0 here:
    #0 0x556936c50916 in free /home/runner/work/llvm-project/llvm-project/compiler-rt/lib/asan/asan_malloc_linux.cpp:51:3
    #1 0x556936fad31b in ReleaseLargeFreeVectors /data/gannet/ripley/R/svn/R-devel/src/main/memory.c:1167:7
    #2 0x556936fad31b in RunGenCollect /data/gannet/ripley/R/svn/R-devel/src/main/memory.c:1951:5
    #3 0x556936fa018b in R_gc_internal /data/gannet/ripley/R/svn/R-devel/src/main/memory.c:3237:19
    #4 0x556936fb70e5 in Rf_mkPROMISE /data/gannet/ripley/R/svn/R-devel/src/main/memory.c:2613:2
    #5 0x556936f06136 in make_applyClosure_env /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2280:16
    #6 0x556936f05b25 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2304:19
    #7 0x556936ec13be in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16
    #8 0x556936ebed28 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1278:12
    #9 0x556936f109cb in do_if /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2709:20
    #10 0x556936ebe840 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1230:12
    #11 0x556936f15269 in do_begin /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3001:10
    #12 0x556936ebe840 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1230:12
    #13 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #14 0x556936f1060a in R_execMethod /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2567:11
    #15 0x7f3977335f40 in R_dispatchGeneric /data/gannet/ripley/R/svn/R-devel/src/library/methods/src/methods_list_dispatch.c:1154:19
    #16 0x556936fd5853 in do_standardGeneric /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:1348:13
    #17 0x556936edaa1f in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8085:12
    #18 0x556936ebfd74 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7533:16
    #19 0x556936ebe301 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167:8
    #20 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #21 0x556936f05c58 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2314:16
    #22 0x556936ec13be in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16
    #23 0x556936fd6e97 in R_possible_dispatch /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:1687:10
    #24 0x556936efea0f in tryDispatch /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:6090:16
    #25 0x556936ecc1c2 in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8320:19
    #26 0x556936ebfd74 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7533:16
    #27 0x556936ebe301 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167:8
    #28 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #29 0x556936f05c58 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2314:16
    #30 0x556936ec13be in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16

previously allocated by thread T0 here:
    #0 0x556936c50bb4 in malloc /home/runner/work/llvm-project/llvm-project/compiler-rt/lib/asan/asan_malloc_linux.cpp:67:3
    #1 0x556936f9ac7c in Rf_allocVector3 /data/gannet/ripley/R/svn/R-devel/src/main/memory.c:2894:7
    #2 0x556936cf332b in Rf_allocVector /data/gannet/ripley/R/svn/R-devel/src/include/Rinlinedfuns.h:609:12
    #3 0x556936cf332b in Rf_allocMatrix /data/gannet/ripley/R/svn/R-devel/src/main/array.c:236:17
    #4 0x7b396989c0ce in modelmatrix /data/gannet/ripley/R/svn/R-devel/src/library/stats/src/model.c:676:17
    #5 0x556936e08365 in do_External /data/gannet/ripley/R/svn/R-devel/src/main/dotcode.c:573:11
    #6 0x556936ecc77a in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8150:14
    #7 0x556936ebfd74 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7533:16
    #8 0x556936ebe301 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167:8
    #9 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #10 0x556936f05c58 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2314:16
    #11 0x556936ec13be in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16
    #12 0x556936fcce14 in dispatchMethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:473:16
    #13 0x556936fcba98 in Rf_usemethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:523:9
    #14 0x556936fce073 in do_usemethod /data/gannet/ripley/R/svn/R-devel/src/main/objects.c:579:9
    #15 0x556936ed1f93 in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8170:15
    #16 0x556936ebfd74 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7533:16
    #17 0x556936ebe301 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167:8
    #18 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #19 0x556936f05c58 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2314:16
    #20 0x556936ec13be in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16
    #21 0x556936ebed28 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1278:12
    #22 0x556936f1c653 in do_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3975:13
    #23 0x556936ecc77a in bcEval_loop /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:8150:14
    #24 0x556936ebfd74 in bcEval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:7533:16
    #25 0x556936ebe301 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1167:8
    #26 0x556936f06a9c in R_execClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2398:39
    #27 0x556936f05c58 in applyClosure_core /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2314:16
    #28 0x556936ec13be in Rf_applyClosure /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:2333:16
    #29 0x556936ebed28 in Rf_eval /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:1278:12
    #30 0x556936f17bc5 in do_set /data/gannet/ripley/R/svn/R-devel/src/main/eval.c:3585:8

SUMMARY: AddressSanitizer: heap-use-after-free /data/gannet/ripley/R/test-clang/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:925:46 in Eigen::internal::product_evaluator<Eigen::Product<Eigen::DiagonalWrapper<Eigen::Map<Eigen::Matrix<double, -1, 1, 0, -1, 1>, 0, Eigen::Stride<0, 0>> const>, Eigen::Map<Eigen::Matrix<double, -1, -1, 0, -1, -1>, 0, Eigen::Stride<0, 0>>, 1>, 8, Eigen::DiagonalShape, Eigen::DenseShape, double, double>::coeff(long, long) const
Shadow bytes around the buggy address:
  0x7d7976e3fe80: fa fa fa fa fa fa fa fa fa fa fa fa fa fa fa fa
  0x7d7976e3ff00: fa fa fa fa fa fa fa fa fa fa fa fa fa fa fa fa
  0x7d7976e3ff80: fa fa fa fa fa fa fa fa fa fa fa fa fa fa fa fa
  0x7d7976e40000: fa fa fa fa fa fa fa fa fa fa fa fa fa fa fa fa
  0x7d7976e40080: fa fa fa fa fa fa fa fa fa fa fa fa fa fa fa fa
=>0x7d7976e40100: fd fd fd fd fd fd[fd]fd fd fd fd fd fd fd fd fd
  0x7d7976e40180: fd fd fd fd fd fd fd fd fd fd fd fd fd fd fd fd
  0x7d7976e40200: fd fd fd fd fd fd fd fd fd fd fd fd fd fd fd fd
  0x7d7976e40280: fd fd fd fd fd fd fd fd fd fd fd fd fd fd fd fd
  0x7d7976e40300: fd fd fd fd fd fd fd fd fd fd fd fd fd fd fd fd
  0x7d7976e40380: fd fd fd fd fd fd fd fd fd fd fd fd fd fd fd fd
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
==627080==ABORTING