==3636017== Memcheck, a memory error detector ==3636017== Copyright (C) 2002-2024, and GNU GPL'd, by Julian Seward et al. ==3636017== Using Valgrind-3.24.0 and LibVEX; rerun with -h for copyright info ==3636017== Command: /data/blackswan/ripley/R/R-devel-vg/bin/exec/R -f throw.R --restore --save --no-readline --vanilla ==3636017== R Under development (unstable) (2026-07-02 r90204) -- "Unsuffered Consequences" Copyright (C) 2026 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > ## original code was designed to detect segfaults/hangs from error handling > > library(lme4) Loading required package: Matrix > set.seed(101) > d <- expand.grid(block = LETTERS[1:26], + rep = 1:100) > d$x <- runif(nrow(d)) > reff_f <- rnorm(length(levels(d$block)),sd=1) > ## need intercept large enough to avoid negative values > d$eta0 <- 4+3*d$x ## version without random effects > d$eta <- d$eta0+reff_f[d$block] > ## inverse link > d$mu <- 1/d$eta > d$y <- rgamma(nrow(d), scale=d$mu/2, shape=2) > > if (.Platform$OS.type != "windows") { + gm0 <- glmer(y ~ 1|block, d, Gamma) + gm0.A25 <- glmer(y ~ 1|block, d, Gamma, nAGQ=25L) + gm1 <- glmer(y ~ x + (1|block), d, Gamma) + gm1.A25 <- glmer(y ~ x + (1|block), d, Gamma, nAGQ=25L) + + ## strange things happening for logLik ==> AIC, etc for nAGQ ??? + anova(gm0, gm1) + anova(gm0, gm0.A25) + anova(gm1, gm1.A25) + + summary(gm1) # "fine" + summary(gm1.A25) # Inf logLik etc ? + + } ==3636017== Invalid read of size 8 ==3636017== at 0x247DA545: coeff (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:925) ==3636017== by 0x247DA545: assignCoeff (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:654) ==3636017== by 0x247DA545: assignCoeffByOuterInner (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:668) ==3636017== by 0x247DA545: run (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:347) ==3636017== by 0x247DA545: call_dense_assignment_loop >, Eigen::Product > >, Eigen::Map >, 1>, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:785) ==3636017== by 0x247DA545: run (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954) ==3636017== by 0x247DA545: call_assignment_no_alias >, Eigen::Product > >, Eigen::Map >, 1>, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890) ==3636017== by 0x247DA545: call_assignment >, Eigen::Product > >, Eigen::Map >, 1>, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858) ==3636017== by 0x247DA545: call_assignment >, Eigen::Product > >, Eigen::Map >, 1> > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836) ==3636017== by 0x247DA545: operator= > >, Eigen::Map >, 1> > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/Assign.h:66) ==3636017== by 0x247DA545: lme4::merPredD::updateXwts(Eigen::Array const&) (packages/tests-vg/lme4/src/predModule.cpp:221) ==3636017== by 0x247B2A2F: internal_glmerWrkIter (packages/tests-vg/lme4/src/external.cpp:274) ==3636017== by 0x247B2A2F: pwrssUpdate (packages/tests-vg/lme4/src/external.cpp:330) ==3636017== by 0x247B8E6C: glmerLaplace (packages/tests-vg/lme4/src/external.cpp:386) ==3636017== by 0x4A91E9: R_doDotCall (svn/R-devel/src/main/dotcode.c:770) ==3636017== by 0x4E4283: bcEval_loop (svn/R-devel/src/main/eval.c:8700) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7533) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7518) ==3636017== by 0x4F464A: Rf_eval (svn/R-devel/src/main/eval.c:1167) ==3636017== by 0x4F65DD: R_execClosure (svn/R-devel/src/main/eval.c:2398) ==3636017== by 0x4F729F: applyClosure_core (svn/R-devel/src/main/eval.c:2314) ==3636017== by 0x4F475A: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x4F475A: Rf_eval (svn/R-devel/src/main/eval.c:1278) ==3636017== by 0x4F96BC: do_set (svn/R-devel/src/main/eval.c:3585) ==3636017== by 0x4F49B2: Rf_eval (svn/R-devel/src/main/eval.c:1230) ==3636017== Address 0x25f3ea60 is 48 bytes inside a block of size 41,648 free'd ==3636017== at 0x4846B83: free (/builddir/build/BUILD/valgrind-3.24.0/coregrind/m_replacemalloc/vg_replace_malloc.c:989) ==3636017== by 0x5354C5: ReleaseLargeFreeVectors (svn/R-devel/src/main/memory.c:1167) ==3636017== by 0x5354C5: RunGenCollect (svn/R-devel/src/main/memory.c:1951) ==3636017== by 0x5354C5: R_gc_internal (svn/R-devel/src/main/memory.c:3237) ==3636017== by 0x53830B: CONS_NR (svn/R-devel/src/main/memory.c:2519) ==3636017== by 0x52D9A2: Rf_matchArgs_NR (svn/R-devel/src/main/match.c:196) ==3636017== by 0x52E1B8: Rf_matchArgs_RC (svn/R-devel/src/main/match.c:392) ==3636017== by 0x4D7080: make_applyClosure_env (svn/R-devel/src/main/eval.c:2261) ==3636017== by 0x4F7251: applyClosure_core (svn/R-devel/src/main/eval.c:2304) ==3636017== by 0x4F475A: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x4F475A: Rf_eval (svn/R-devel/src/main/eval.c:1278) ==3636017== by 0x4C046C: getActiveValue (svn/R-devel/src/main/envir.c:168) ==3636017== by 0x4C54AF: R_findVarInFrame (svn/R-devel/src/main/envir.c:1249) ==3636017== by 0x4C54AF: R_findVar (svn/R-devel/src/main/envir.c:1387) ==3636017== by 0x4F4844: Rf_eval (svn/R-devel/src/main/eval.c:1175) ==3636017== by 0x4F80E4: do_begin (svn/R-devel/src/main/eval.c:3001) ==3636017== Block was alloc'd at ==3636017== at 0x4843866: malloc (/builddir/build/BUILD/valgrind-3.24.0/coregrind/m_replacemalloc/vg_replace_malloc.c:446) ==3636017== by 0x539581: Rf_allocVector3 (svn/R-devel/src/main/memory.c:2894) ==3636017== by 0x44084B: Rf_allocVector (svn/R-devel/src/include/Rinlinedfuns.h:609) ==3636017== by 0x44084B: Rf_allocMatrix (svn/R-devel/src/main/array.c:236) ==3636017== by 0x162E0DA3: modelmatrix (svn/R-devel/src/library/stats/src/model.c:676) ==3636017== by 0x4A76CE: do_External (svn/R-devel/src/main/dotcode.c:573) ==3636017== by 0x4E63CC: bcEval_loop (svn/R-devel/src/main/eval.c:8150) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7533) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7518) ==3636017== by 0x4F464A: Rf_eval (svn/R-devel/src/main/eval.c:1167) ==3636017== by 0x4F65DD: R_execClosure (svn/R-devel/src/main/eval.c:2398) ==3636017== by 0x4F729F: applyClosure_core (svn/R-devel/src/main/eval.c:2314) ==3636017== by 0x4F7D21: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x53FD2B: dispatchMethod (svn/R-devel/src/main/objects.c:473) ==3636017== ==3636017== Invalid read of size 16 ==3636017== at 0x247D31F4: ploadu (R-devel/site-library/RcppEigen/include/Eigen/src/Core/GenericPacketMath.h:603) ==3636017== by 0x247D31F4: ploadt (R-devel/site-library/RcppEigen/include/Eigen/src/Core/GenericPacketMath.h:969) ==3636017== by 0x247D31F4: load (R-devel/site-library/RcppEigen/include/Eigen/src/Core/util/BlasUtil.h:203) ==3636017== by 0x247D31F4: Eigen::internal::general_matrix_vector_product, 0, false, double, Eigen::internal::const_blas_data_mapper, false, 0>::run(long, long, Eigen::internal::const_blas_data_mapper const&, Eigen::internal::const_blas_data_mapper const&, double*, long, double) [clone .isra.0] (R-devel/site-library/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:177) ==3636017== by 0x247E7D5B: run >, Eigen::Matrix, Eigen::Matrix > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:253) ==3636017== by 0x247E7D5B: scaleAndAddTo > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:388) ==3636017== by 0x247E7D5B: void Eigen::internal::generic_product_impl, 0, Eigen::Stride<0, 0> >, Eigen::Matrix, Eigen::DenseShape, Eigen::DenseShape, 7>::scaleAndAddTo >(Eigen::Matrix&, Eigen::Map, 0, Eigen::Stride<0, 0> > const&, Eigen::Matrix const&, double const&) (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:376) ==3636017== by 0x247DD3BE: scaleAndAddTo > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:361) ==3636017== by 0x247DD3BE: evalTo > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:349) ==3636017== by 0x247DD3BE: run (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148) ==3636017== by 0x247DD3BE: call_assignment_no_alias, Eigen::Product >, Eigen::Matrix, 0>, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890) ==3636017== by 0x247DD3BE: run, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> >, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:223) ==3636017== by 0x247DD3BE: call_assignment_no_alias, Eigen::CwiseBinaryOp, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> >, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890) ==3636017== by 0x247DD3BE: _set_noalias, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> > > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797) ==3636017== by 0x247DD3BE: PlainObjectBase, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> > > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594) ==3636017== by 0x247DD3BE: Matrix, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> > > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/Matrix.h:423) ==3636017== by 0x247DD3BE: lme4::merPredD::linPred(double const&) const (packages/tests-vg/lme4/src/predModule.cpp:95) ==3636017== by 0x247B286F: internal_glmerWrkIter (packages/tests-vg/lme4/src/external.cpp:290) ==3636017== by 0x247B286F: pwrssUpdate (packages/tests-vg/lme4/src/external.cpp:330) ==3636017== by 0x247B8E6C: glmerLaplace (packages/tests-vg/lme4/src/external.cpp:386) ==3636017== by 0x4A91E9: R_doDotCall (svn/R-devel/src/main/dotcode.c:770) ==3636017== by 0x4E4283: bcEval_loop (svn/R-devel/src/main/eval.c:8700) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7533) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7518) ==3636017== by 0x4F464A: Rf_eval (svn/R-devel/src/main/eval.c:1167) ==3636017== by 0x4F65DD: R_execClosure (svn/R-devel/src/main/eval.c:2398) ==3636017== by 0x4F729F: applyClosure_core (svn/R-devel/src/main/eval.c:2314) ==3636017== by 0x4F475A: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x4F475A: Rf_eval (svn/R-devel/src/main/eval.c:1278) ==3636017== Address 0x25f3ea60 is 48 bytes inside a block of size 41,648 free'd ==3636017== at 0x4846B83: free (/builddir/build/BUILD/valgrind-3.24.0/coregrind/m_replacemalloc/vg_replace_malloc.c:989) ==3636017== by 0x5354C5: ReleaseLargeFreeVectors (svn/R-devel/src/main/memory.c:1167) ==3636017== by 0x5354C5: RunGenCollect (svn/R-devel/src/main/memory.c:1951) ==3636017== by 0x5354C5: R_gc_internal (svn/R-devel/src/main/memory.c:3237) ==3636017== by 0x53830B: CONS_NR (svn/R-devel/src/main/memory.c:2519) ==3636017== by 0x52D9A2: Rf_matchArgs_NR (svn/R-devel/src/main/match.c:196) ==3636017== by 0x52E1B8: Rf_matchArgs_RC (svn/R-devel/src/main/match.c:392) ==3636017== by 0x4D7080: make_applyClosure_env (svn/R-devel/src/main/eval.c:2261) ==3636017== by 0x4F7251: applyClosure_core (svn/R-devel/src/main/eval.c:2304) ==3636017== by 0x4F475A: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x4F475A: Rf_eval (svn/R-devel/src/main/eval.c:1278) ==3636017== by 0x4C046C: getActiveValue (svn/R-devel/src/main/envir.c:168) ==3636017== by 0x4C54AF: R_findVarInFrame (svn/R-devel/src/main/envir.c:1249) ==3636017== by 0x4C54AF: R_findVar (svn/R-devel/src/main/envir.c:1387) ==3636017== by 0x4F4844: Rf_eval (svn/R-devel/src/main/eval.c:1175) ==3636017== by 0x4F80E4: do_begin (svn/R-devel/src/main/eval.c:3001) ==3636017== Block was alloc'd at ==3636017== at 0x4843866: malloc (/builddir/build/BUILD/valgrind-3.24.0/coregrind/m_replacemalloc/vg_replace_malloc.c:446) ==3636017== by 0x539581: Rf_allocVector3 (svn/R-devel/src/main/memory.c:2894) ==3636017== by 0x44084B: Rf_allocVector (svn/R-devel/src/include/Rinlinedfuns.h:609) ==3636017== by 0x44084B: Rf_allocMatrix (svn/R-devel/src/main/array.c:236) ==3636017== by 0x162E0DA3: modelmatrix (svn/R-devel/src/library/stats/src/model.c:676) ==3636017== by 0x4A76CE: do_External (svn/R-devel/src/main/dotcode.c:573) ==3636017== by 0x4E63CC: bcEval_loop (svn/R-devel/src/main/eval.c:8150) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7533) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7518) ==3636017== by 0x4F464A: Rf_eval (svn/R-devel/src/main/eval.c:1167) ==3636017== by 0x4F65DD: R_execClosure (svn/R-devel/src/main/eval.c:2398) ==3636017== by 0x4F729F: applyClosure_core (svn/R-devel/src/main/eval.c:2314) ==3636017== by 0x4F7D21: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x53FD2B: dispatchMethod (svn/R-devel/src/main/objects.c:473) ==3636017== ==3636017== Invalid read of size 16 ==3636017== at 0x247D3204: ploadu (R-devel/site-library/RcppEigen/include/Eigen/src/Core/GenericPacketMath.h:603) ==3636017== by 0x247D3204: ploadt (R-devel/site-library/RcppEigen/include/Eigen/src/Core/GenericPacketMath.h:969) ==3636017== by 0x247D3204: load (R-devel/site-library/RcppEigen/include/Eigen/src/Core/util/BlasUtil.h:203) ==3636017== by 0x247D3204: Eigen::internal::general_matrix_vector_product, 0, false, double, Eigen::internal::const_blas_data_mapper, false, 0>::run(long, long, Eigen::internal::const_blas_data_mapper const&, Eigen::internal::const_blas_data_mapper const&, double*, long, double) [clone .isra.0] (R-devel/site-library/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:177) ==3636017== by 0x247E7D5B: run >, Eigen::Matrix, Eigen::Matrix > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:253) ==3636017== by 0x247E7D5B: scaleAndAddTo > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:388) ==3636017== by 0x247E7D5B: void Eigen::internal::generic_product_impl, 0, Eigen::Stride<0, 0> >, Eigen::Matrix, Eigen::DenseShape, Eigen::DenseShape, 7>::scaleAndAddTo >(Eigen::Matrix&, Eigen::Map, 0, Eigen::Stride<0, 0> > const&, Eigen::Matrix const&, double const&) (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:376) ==3636017== by 0x247DD3BE: scaleAndAddTo > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:361) ==3636017== by 0x247DD3BE: evalTo > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:349) ==3636017== by 0x247DD3BE: run (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148) ==3636017== by 0x247DD3BE: call_assignment_no_alias, Eigen::Product >, Eigen::Matrix, 0>, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890) ==3636017== by 0x247DD3BE: run, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> >, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:223) ==3636017== by 0x247DD3BE: call_assignment_no_alias, Eigen::CwiseBinaryOp, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> >, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890) ==3636017== by 0x247DD3BE: _set_noalias, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> > > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797) ==3636017== by 0x247DD3BE: PlainObjectBase, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> > > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594) ==3636017== by 0x247DD3BE: Matrix, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> > > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/Matrix.h:423) ==3636017== by 0x247DD3BE: lme4::merPredD::linPred(double const&) const (packages/tests-vg/lme4/src/predModule.cpp:95) ==3636017== by 0x247B286F: internal_glmerWrkIter (packages/tests-vg/lme4/src/external.cpp:290) ==3636017== by 0x247B286F: pwrssUpdate (packages/tests-vg/lme4/src/external.cpp:330) ==3636017== by 0x247B8E6C: glmerLaplace (packages/tests-vg/lme4/src/external.cpp:386) ==3636017== by 0x4A91E9: R_doDotCall (svn/R-devel/src/main/dotcode.c:770) ==3636017== by 0x4E4283: bcEval_loop (svn/R-devel/src/main/eval.c:8700) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7533) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7518) ==3636017== by 0x4F464A: Rf_eval (svn/R-devel/src/main/eval.c:1167) ==3636017== by 0x4F65DD: R_execClosure (svn/R-devel/src/main/eval.c:2398) ==3636017== by 0x4F729F: applyClosure_core (svn/R-devel/src/main/eval.c:2314) ==3636017== by 0x4F475A: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x4F475A: Rf_eval (svn/R-devel/src/main/eval.c:1278) ==3636017== Address 0x25f3ea70 is 64 bytes inside a block of size 41,648 free'd ==3636017== at 0x4846B83: free (/builddir/build/BUILD/valgrind-3.24.0/coregrind/m_replacemalloc/vg_replace_malloc.c:989) ==3636017== by 0x5354C5: ReleaseLargeFreeVectors (svn/R-devel/src/main/memory.c:1167) ==3636017== by 0x5354C5: RunGenCollect (svn/R-devel/src/main/memory.c:1951) ==3636017== by 0x5354C5: R_gc_internal (svn/R-devel/src/main/memory.c:3237) ==3636017== by 0x53830B: CONS_NR (svn/R-devel/src/main/memory.c:2519) ==3636017== by 0x52D9A2: Rf_matchArgs_NR (svn/R-devel/src/main/match.c:196) ==3636017== by 0x52E1B8: Rf_matchArgs_RC (svn/R-devel/src/main/match.c:392) ==3636017== by 0x4D7080: make_applyClosure_env (svn/R-devel/src/main/eval.c:2261) ==3636017== by 0x4F7251: applyClosure_core (svn/R-devel/src/main/eval.c:2304) ==3636017== by 0x4F475A: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x4F475A: Rf_eval (svn/R-devel/src/main/eval.c:1278) ==3636017== by 0x4C046C: getActiveValue (svn/R-devel/src/main/envir.c:168) ==3636017== by 0x4C54AF: R_findVarInFrame (svn/R-devel/src/main/envir.c:1249) ==3636017== by 0x4C54AF: R_findVar (svn/R-devel/src/main/envir.c:1387) ==3636017== by 0x4F4844: Rf_eval (svn/R-devel/src/main/eval.c:1175) ==3636017== by 0x4F80E4: do_begin (svn/R-devel/src/main/eval.c:3001) ==3636017== Block was alloc'd at ==3636017== at 0x4843866: malloc (/builddir/build/BUILD/valgrind-3.24.0/coregrind/m_replacemalloc/vg_replace_malloc.c:446) ==3636017== by 0x539581: Rf_allocVector3 (svn/R-devel/src/main/memory.c:2894) ==3636017== by 0x44084B: Rf_allocVector (svn/R-devel/src/include/Rinlinedfuns.h:609) ==3636017== by 0x44084B: Rf_allocMatrix (svn/R-devel/src/main/array.c:236) ==3636017== by 0x162E0DA3: modelmatrix (svn/R-devel/src/library/stats/src/model.c:676) ==3636017== by 0x4A76CE: do_External (svn/R-devel/src/main/dotcode.c:573) ==3636017== by 0x4E63CC: bcEval_loop (svn/R-devel/src/main/eval.c:8150) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7533) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7518) ==3636017== by 0x4F464A: Rf_eval (svn/R-devel/src/main/eval.c:1167) ==3636017== by 0x4F65DD: R_execClosure (svn/R-devel/src/main/eval.c:2398) ==3636017== by 0x4F729F: applyClosure_core (svn/R-devel/src/main/eval.c:2314) ==3636017== by 0x4F7D21: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x53FD2B: dispatchMethod (svn/R-devel/src/main/objects.c:473) ==3636017== ==3636017== Invalid read of size 16 ==3636017== at 0x247D3211: ploadu (R-devel/site-library/RcppEigen/include/Eigen/src/Core/GenericPacketMath.h:603) ==3636017== by 0x247D3211: ploadt (R-devel/site-library/RcppEigen/include/Eigen/src/Core/GenericPacketMath.h:969) ==3636017== by 0x247D3211: load (R-devel/site-library/RcppEigen/include/Eigen/src/Core/util/BlasUtil.h:203) ==3636017== by 0x247D3211: Eigen::internal::general_matrix_vector_product, 0, false, double, Eigen::internal::const_blas_data_mapper, false, 0>::run(long, long, Eigen::internal::const_blas_data_mapper const&, Eigen::internal::const_blas_data_mapper const&, double*, long, double) [clone .isra.0] (R-devel/site-library/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:177) ==3636017== by 0x247E7D5B: run >, Eigen::Matrix, Eigen::Matrix > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:253) ==3636017== by 0x247E7D5B: scaleAndAddTo > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:388) ==3636017== by 0x247E7D5B: void Eigen::internal::generic_product_impl, 0, Eigen::Stride<0, 0> >, Eigen::Matrix, Eigen::DenseShape, Eigen::DenseShape, 7>::scaleAndAddTo >(Eigen::Matrix&, Eigen::Map, 0, Eigen::Stride<0, 0> > const&, Eigen::Matrix const&, double const&) (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:376) ==3636017== by 0x247DD3BE: scaleAndAddTo > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:361) ==3636017== by 0x247DD3BE: evalTo > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:349) ==3636017== by 0x247DD3BE: run (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148) ==3636017== by 0x247DD3BE: call_assignment_no_alias, Eigen::Product >, Eigen::Matrix, 0>, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890) ==3636017== by 0x247DD3BE: run, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> >, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:223) ==3636017== by 0x247DD3BE: call_assignment_no_alias, Eigen::CwiseBinaryOp, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> >, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890) ==3636017== by 0x247DD3BE: _set_noalias, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> > > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797) ==3636017== by 0x247DD3BE: PlainObjectBase, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> > > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594) ==3636017== by 0x247DD3BE: Matrix, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> > > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/Matrix.h:423) ==3636017== by 0x247DD3BE: lme4::merPredD::linPred(double const&) const (packages/tests-vg/lme4/src/predModule.cpp:95) ==3636017== by 0x247B286F: internal_glmerWrkIter (packages/tests-vg/lme4/src/external.cpp:290) ==3636017== by 0x247B286F: pwrssUpdate (packages/tests-vg/lme4/src/external.cpp:330) ==3636017== by 0x247B8E6C: glmerLaplace (packages/tests-vg/lme4/src/external.cpp:386) ==3636017== by 0x4A91E9: R_doDotCall (svn/R-devel/src/main/dotcode.c:770) ==3636017== by 0x4E4283: bcEval_loop (svn/R-devel/src/main/eval.c:8700) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7533) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7518) ==3636017== by 0x4F464A: Rf_eval (svn/R-devel/src/main/eval.c:1167) ==3636017== by 0x4F65DD: R_execClosure (svn/R-devel/src/main/eval.c:2398) ==3636017== by 0x4F729F: applyClosure_core (svn/R-devel/src/main/eval.c:2314) ==3636017== by 0x4F475A: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x4F475A: Rf_eval (svn/R-devel/src/main/eval.c:1278) ==3636017== Address 0x25f3ea80 is 80 bytes inside a block of size 41,648 free'd ==3636017== at 0x4846B83: free (/builddir/build/BUILD/valgrind-3.24.0/coregrind/m_replacemalloc/vg_replace_malloc.c:989) ==3636017== by 0x5354C5: ReleaseLargeFreeVectors (svn/R-devel/src/main/memory.c:1167) ==3636017== by 0x5354C5: RunGenCollect (svn/R-devel/src/main/memory.c:1951) ==3636017== by 0x5354C5: R_gc_internal (svn/R-devel/src/main/memory.c:3237) ==3636017== by 0x53830B: CONS_NR (svn/R-devel/src/main/memory.c:2519) ==3636017== by 0x52D9A2: Rf_matchArgs_NR (svn/R-devel/src/main/match.c:196) ==3636017== by 0x52E1B8: Rf_matchArgs_RC (svn/R-devel/src/main/match.c:392) ==3636017== by 0x4D7080: make_applyClosure_env (svn/R-devel/src/main/eval.c:2261) ==3636017== by 0x4F7251: applyClosure_core (svn/R-devel/src/main/eval.c:2304) ==3636017== by 0x4F475A: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x4F475A: Rf_eval (svn/R-devel/src/main/eval.c:1278) ==3636017== by 0x4C046C: getActiveValue (svn/R-devel/src/main/envir.c:168) ==3636017== by 0x4C54AF: R_findVarInFrame (svn/R-devel/src/main/envir.c:1249) ==3636017== by 0x4C54AF: R_findVar (svn/R-devel/src/main/envir.c:1387) ==3636017== by 0x4F4844: Rf_eval (svn/R-devel/src/main/eval.c:1175) ==3636017== by 0x4F80E4: do_begin (svn/R-devel/src/main/eval.c:3001) ==3636017== Block was alloc'd at ==3636017== at 0x4843866: malloc (/builddir/build/BUILD/valgrind-3.24.0/coregrind/m_replacemalloc/vg_replace_malloc.c:446) ==3636017== by 0x539581: Rf_allocVector3 (svn/R-devel/src/main/memory.c:2894) ==3636017== by 0x44084B: Rf_allocVector (svn/R-devel/src/include/Rinlinedfuns.h:609) ==3636017== by 0x44084B: Rf_allocMatrix (svn/R-devel/src/main/array.c:236) ==3636017== by 0x162E0DA3: modelmatrix (svn/R-devel/src/library/stats/src/model.c:676) ==3636017== by 0x4A76CE: do_External (svn/R-devel/src/main/dotcode.c:573) ==3636017== by 0x4E63CC: bcEval_loop (svn/R-devel/src/main/eval.c:8150) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7533) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7518) ==3636017== by 0x4F464A: Rf_eval (svn/R-devel/src/main/eval.c:1167) ==3636017== by 0x4F65DD: R_execClosure (svn/R-devel/src/main/eval.c:2398) ==3636017== by 0x4F729F: applyClosure_core (svn/R-devel/src/main/eval.c:2314) ==3636017== by 0x4F7D21: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x53FD2B: dispatchMethod (svn/R-devel/src/main/objects.c:473) ==3636017== ==3636017== Invalid read of size 16 ==3636017== at 0x247D321E: pmul (R-devel/site-library/RcppEigen/include/Eigen/src/Core/GenericPacketMath.h:237) ==3636017== by 0x247D321E: pmadd (R-devel/site-library/RcppEigen/include/Eigen/src/Core/GenericPacketMath.h:959) ==3636017== by 0x247D321E: pmadd (R-devel/site-library/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:95) ==3636017== by 0x247D321E: Eigen::internal::general_matrix_vector_product, 0, false, double, Eigen::internal::const_blas_data_mapper, false, 0>::run(long, long, Eigen::internal::const_blas_data_mapper const&, Eigen::internal::const_blas_data_mapper const&, double*, long, double) [clone .isra.0] (R-devel/site-library/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:177) ==3636017== by 0x247E7D5B: run >, Eigen::Matrix, Eigen::Matrix > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:253) ==3636017== by 0x247E7D5B: scaleAndAddTo > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:388) ==3636017== by 0x247E7D5B: void Eigen::internal::generic_product_impl, 0, Eigen::Stride<0, 0> >, Eigen::Matrix, Eigen::DenseShape, Eigen::DenseShape, 7>::scaleAndAddTo >(Eigen::Matrix&, Eigen::Map, 0, Eigen::Stride<0, 0> > const&, Eigen::Matrix const&, double const&) (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:376) ==3636017== by 0x247DD3BE: scaleAndAddTo > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:361) ==3636017== by 0x247DD3BE: evalTo > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:349) ==3636017== by 0x247DD3BE: run (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148) ==3636017== by 0x247DD3BE: call_assignment_no_alias, Eigen::Product >, Eigen::Matrix, 0>, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890) ==3636017== by 0x247DD3BE: run, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> >, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:223) ==3636017== by 0x247DD3BE: call_assignment_no_alias, Eigen::CwiseBinaryOp, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> >, Eigen::internal::assign_op > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890) ==3636017== by 0x247DD3BE: _set_noalias, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> > > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797) ==3636017== by 0x247DD3BE: PlainObjectBase, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> > > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594) ==3636017== by 0x247DD3BE: Matrix, const Eigen::Product >, Eigen::Matrix, 0>, const Eigen::Product > >, Eigen::Matrix, 0> > > (R-devel/site-library/RcppEigen/include/Eigen/src/Core/Matrix.h:423) ==3636017== by 0x247DD3BE: lme4::merPredD::linPred(double const&) const (packages/tests-vg/lme4/src/predModule.cpp:95) ==3636017== by 0x247B286F: internal_glmerWrkIter (packages/tests-vg/lme4/src/external.cpp:290) ==3636017== by 0x247B286F: pwrssUpdate (packages/tests-vg/lme4/src/external.cpp:330) ==3636017== by 0x247B8E6C: glmerLaplace (packages/tests-vg/lme4/src/external.cpp:386) ==3636017== by 0x4A91E9: R_doDotCall (svn/R-devel/src/main/dotcode.c:770) ==3636017== by 0x4E4283: bcEval_loop (svn/R-devel/src/main/eval.c:8700) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7533) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7518) ==3636017== by 0x4F464A: Rf_eval (svn/R-devel/src/main/eval.c:1167) ==3636017== by 0x4F65DD: R_execClosure (svn/R-devel/src/main/eval.c:2398) ==3636017== by 0x4F729F: applyClosure_core (svn/R-devel/src/main/eval.c:2314) ==3636017== by 0x4F475A: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x4F475A: Rf_eval (svn/R-devel/src/main/eval.c:1278) ==3636017== Address 0x25f3ea90 is 96 bytes inside a block of size 41,648 free'd ==3636017== at 0x4846B83: free (/builddir/build/BUILD/valgrind-3.24.0/coregrind/m_replacemalloc/vg_replace_malloc.c:989) ==3636017== by 0x5354C5: ReleaseLargeFreeVectors (svn/R-devel/src/main/memory.c:1167) ==3636017== by 0x5354C5: RunGenCollect (svn/R-devel/src/main/memory.c:1951) ==3636017== by 0x5354C5: R_gc_internal (svn/R-devel/src/main/memory.c:3237) ==3636017== by 0x53830B: CONS_NR (svn/R-devel/src/main/memory.c:2519) ==3636017== by 0x52D9A2: Rf_matchArgs_NR (svn/R-devel/src/main/match.c:196) ==3636017== by 0x52E1B8: Rf_matchArgs_RC (svn/R-devel/src/main/match.c:392) ==3636017== by 0x4D7080: make_applyClosure_env (svn/R-devel/src/main/eval.c:2261) ==3636017== by 0x4F7251: applyClosure_core (svn/R-devel/src/main/eval.c:2304) ==3636017== by 0x4F475A: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x4F475A: Rf_eval (svn/R-devel/src/main/eval.c:1278) ==3636017== by 0x4C046C: getActiveValue (svn/R-devel/src/main/envir.c:168) ==3636017== by 0x4C54AF: R_findVarInFrame (svn/R-devel/src/main/envir.c:1249) ==3636017== by 0x4C54AF: R_findVar (svn/R-devel/src/main/envir.c:1387) ==3636017== by 0x4F4844: Rf_eval (svn/R-devel/src/main/eval.c:1175) ==3636017== by 0x4F80E4: do_begin (svn/R-devel/src/main/eval.c:3001) ==3636017== Block was alloc'd at ==3636017== at 0x4843866: malloc (/builddir/build/BUILD/valgrind-3.24.0/coregrind/m_replacemalloc/vg_replace_malloc.c:446) ==3636017== by 0x539581: Rf_allocVector3 (svn/R-devel/src/main/memory.c:2894) ==3636017== by 0x44084B: Rf_allocVector (svn/R-devel/src/include/Rinlinedfuns.h:609) ==3636017== by 0x44084B: Rf_allocMatrix (svn/R-devel/src/main/array.c:236) ==3636017== by 0x162E0DA3: modelmatrix (svn/R-devel/src/library/stats/src/model.c:676) ==3636017== by 0x4A76CE: do_External (svn/R-devel/src/main/dotcode.c:573) ==3636017== by 0x4E63CC: bcEval_loop (svn/R-devel/src/main/eval.c:8150) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7533) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7518) ==3636017== by 0x4F464A: Rf_eval (svn/R-devel/src/main/eval.c:1167) ==3636017== by 0x4F65DD: R_execClosure (svn/R-devel/src/main/eval.c:2398) ==3636017== by 0x4F729F: applyClosure_core (svn/R-devel/src/main/eval.c:2314) ==3636017== by 0x4F7D21: Rf_applyClosure (svn/R-devel/src/main/eval.c:2333) ==3636017== by 0x53FD2B: dispatchMethod (svn/R-devel/src/main/objects.c:473) ==3636017== Generalized linear mixed model fit by maximum likelihood (Adaptive Gauss-Hermite Quadrature, nAGQ = 25) [glmerMod] Family: Gamma ( inverse ) Formula: y ~ x + (1 | block) Data: d AIC BIC logLik -2*log(L) df.resid Inf Inf -Inf Inf 2596 Scaled residuals: Min 1Q Median 3Q Max -1.4253 -0.7327 -0.2273 0.4677 5.8018 Random effects: Groups Name Variance Std.Dev. block (Intercept) 1.104 1.051 Number of obs: 2600, groups: block, 26 Fixed effects: Estimate Std. Error t value Pr(>|z|) (Intercept) 4.0725 0.1895 21.49 <2e-16 *** x 3.0806 0.2491 12.37 <2e-16 *** --- Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1 Correlation of Fixed Effects: (Intr) x -0.531 optimizer (Nelder_Mead) convergence code: 0 (OK) Gradient contains NAs Warning messages: 1: In vcov(object, use.hessian = use.hessian) : variance-covariance matrix computed from finite-difference Hessian is not positive definite or contains NA values: falling back to var-cov estimated from RX 2: In vcov.merMod(object, correlation = correlation, sigm = sig) : variance-covariance matrix computed from finite-difference Hessian is not positive definite or contains NA values: falling back to var-cov estimated from RX > > proc.time() user system elapsed 167.883 1.561 168.284 ==3636017== ==3636017== HEAP SUMMARY: ==3636017== in use at exit: 217,887,313 bytes in 43,457 blocks ==3636017== total heap usage: 252,182 allocs, 208,725 frees, 1,843,027,766 bytes allocated ==3636017== ==3636017== 416 bytes in 1 blocks are possibly lost in loss record 211 of 2,815 ==3636017== at 0x484B133: calloc (/builddir/build/BUILD/valgrind-3.24.0/coregrind/m_replacemalloc/vg_replace_malloc.c:1675) ==3636017== by 0x4011F63: UnknownInlinedFun (/usr/src/debug/glibc-2.39-38.fc40.x86_64/elf/../include/rtld-malloc.h:44) ==3636017== by 0x4011F63: allocate_dtv (/usr/src/debug/glibc-2.39-38.fc40.x86_64/elf/../elf/dl-tls.c:395) ==3636017== by 0x4012A61: _dl_allocate_tls (/usr/src/debug/glibc-2.39-38.fc40.x86_64/elf/../elf/dl-tls.c:673) ==3636017== by 0x557CC03: allocate_stack (/usr/src/debug/glibc-2.39-38.fc40.x86_64/nptl/allocatestack.c:431) ==3636017== by 0x557CC03: pthread_create@@GLIBC_2.34 (/usr/src/debug/glibc-2.39-38.fc40.x86_64/nptl/pthread_create.c:660) ==3636017== by 0x21168DB6: cli__start_thread (/tmp/RtmpOgXr6R/R.INSTALL3b00f1391d945e/cli/src/thread.c:54) ==3636017== by 0x21168DF7: clic_start_thread (/tmp/RtmpOgXr6R/R.INSTALL3b00f1391d945e/cli/src/thread.c:78) ==3636017== by 0x4A924D: R_doDotCall (svn/R-devel/src/main/dotcode.c:760) ==3636017== by 0x4A97A3: do_dotcall (svn/R-devel/src/main/dotcode.c:1437) ==3636017== by 0x4EEA31: bcEval_loop (svn/R-devel/src/main/eval.c:8085) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7533) ==3636017== by 0x4F4317: bcEval (svn/R-devel/src/main/eval.c:7518) ==3636017== by 0x4F464A: Rf_eval (svn/R-devel/src/main/eval.c:1167) ==3636017== by 0x4F65DD: R_execClosure (svn/R-devel/src/main/eval.c:2398) ==3636017== ==3636017== LEAK SUMMARY: ==3636017== definitely lost: 0 bytes in 0 blocks ==3636017== indirectly lost: 0 bytes in 0 blocks ==3636017== possibly lost: 416 bytes in 1 blocks ==3636017== still reachable: 217,886,897 bytes in 43,456 blocks ==3636017== suppressed: 0 bytes in 0 blocks ==3636017== Reachable blocks (those to which a pointer was found) are not shown. ==3636017== To see them, rerun with: --leak-check=full --show-leak-kinds=all ==3636017== ==3636017== For lists of detected and suppressed errors, rerun with: -s ==3636017== ERROR SUMMARY: 530401 errors from 6 contexts (suppressed: 0 from 0)