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Update/eigen 5.0.1 by SteveBronder · Pull Request #3271 · stan-dev/math · GitHub

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Update/eigen 5.0.1 - #3271

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SteveBronder merged 13 commits into
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update/eigen_5.0.1
Jun 11, 2026
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Update/eigen 5.0.1#3271
SteveBronder merged 13 commits into
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update/eigen_5.0.1

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SteveBronder commented Jan 21, 2026 •
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Summary

This moves Stan math up to Eigen 5.0.1. I broke this up by commit so that the changes would be more legible

14cbe65 removes the old Eigen
3d74c35 adds new eigen
4607907 adds the patch as discussed in RcppCore/RcppEigen#143 (comment)
7164bb2 for stan specific changes

The biggest stan changes are the we have to use val_op() instead of plain val() more often. Then we had some type deduction issues with mdivide_lower_tri. Besides that it was not too bad!

Note that this is just for Stan Math, I still need to run all of the tests with the stan repo. I'm guessing we will have some issues up there since we use a few weird views

Tests

No new tests

Release notes

Update to Eigen 5.0.1

Checklist

  • Copyright holder: Simons Foundation

    The copyright holder is typically you or your assignee, such as a university or company. By submitting this pull request, the copyright holder is agreeing to the license the submitted work under the following licenses:
    - Code: BSD 3-clause (https://opensource.org/licenses/BSD-3-Clause)
    - Documentation: CC-BY 4.0 (https://creativecommons.org/licenses/by/4.0/)

  • the basic tests are passing

    • unit tests pass (to run, use: ./runTests.py test/unit)
    • header checks pass, (make test-headers)
    • dependencies checks pass, (make test-math-dependencies)
    • docs build, (make doxygen)
    • code passes the built in C++ standards checks (make cpplint)

  • the code is written in idiomatic C++ and changes are documented in the doxygen

  • the new changes are tested

WardBrian commented Jan 21, 2026

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4607907 should probably lead to a STAN_CHANGES file like we do for tbb, just for documentation: https://github.com/stan-dev/math/blob/develop/lib/tbb_2020.3/STAN_CHANGES

SteveBronder commented Jan 21, 2026

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Yes. Also I tried to rebase / squash some commits right before I pushed and that has made a few tests break. But I can fix that stuff and repush.

SteveBronder commented Jan 22, 2026

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@WardBrian can you run the fft test that is failing on your local windows machine? That test passes on linux for me.

WardBrian commented Jan 23, 2026

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@SteveBronder it passed on my local Windows machine but note that I am not using an ARM chip

WardBrian mentioned this pull request Jan 26, 2026
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WardBrian commented Feb 6, 2026

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This is now passing the math pipeline! (Thanks @SteveBronder)

There is a failure downstream in stan:

In file included from ./src/stan/model/indexing/rvalue_varmat.hpp:7,
                 from <command-line>:
src/stan/model/indexing/rvalue.hpp: In lambda function:
src/stan/model/indexing/rvalue.hpp:283:29: error: 'all' is not a member of 'Eigen'

I think this is an easy one by comparison...

This was referenced Feb 10, 2026
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SteveBronder reopened this Mar 11, 2026

stan-buildbot commented Mar 18, 2026

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Name Old Result New Result Ratio Performance change( 1 - new / old )
gp_regr/gp_regr.stan 0.1 0.11 0.84 -18.79% slower
gp_regr/gen_gp_data.stan 0.02 0.02 1.0 -0.07% slower
arK/arK.stan 1.82 1.64 1.11 10.23% faster
eight_schools/eight_schools.stan 0.06 0.06 0.94 -6.08% slower
low_dim_gauss_mix_collapse/low_dim_gauss_mix_collapse.stan 8.95 8.85 1.01 1.07% faster
pkpd/one_comp_mm_elim_abs.stan 20.1 20.25 0.99 -0.74% slower
pkpd/sim_one_comp_mm_elim_abs.stan 0.26 0.26 0.98 -1.63% slower
sir/sir.stan 71.36 71.33 1.0 0.05% faster
gp_pois_regr/gp_pois_regr.stan 2.95 2.4 1.23 18.73% faster
low_dim_gauss_mix/low_dim_gauss_mix.stan 2.75 2.87 0.96 -4.64% slower
irt_2pl/irt_2pl.stan 4.29 5.48 0.78 -27.64% slower
arma/arma.stan 0.3 0.32 0.93 -7.75% slower
garch/garch.stan 0.44 0.48 0.93 -7.13% slower
low_dim_corr_gauss/low_dim_corr_gauss.stan 0.01 0.01 0.96 -4.14% slower
performance.compilation 230.09 286.73 0.8 -24.61% slower
Mean result: 0.9653042470382507

Jenkins Console Log
Blue Ocean
Commit hash: e54f8430358b51f678186c551d8b7ce3a19d9c1c

Machine information No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 20.04.3 LTS Release: 20.04 Codename: focal

CPU:
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
Address sizes: 46 bits physical, 48 bits virtual
CPU(s): 80
On-line CPU(s) list: 0-79
Thread(s) per core: 2
Core(s) per socket: 20
Socket(s): 2
NUMA node(s): 2
Vendor ID: GenuineIntel
CPU family: 6
Model: 85
Model name: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz
Stepping: 4
CPU MHz: 2400.000
CPU max MHz: 3700.0000
CPU min MHz: 1000.0000
BogoMIPS: 4800.00
Virtualization: VT-x
L1d cache: 1.3 MiB
L1i cache: 1.3 MiB
L2 cache: 40 MiB
L3 cache: 55 MiB
NUMA node0 CPU(s): 0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46,48,50,52,54,56,58,60,62,64,66,68,70,72,74,76,78
NUMA node1 CPU(s): 1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,43,45,47,49,51,53,55,57,59,61,63,65,67,69,71,73,75,77,79
Vulnerability Gather data sampling: Mitigation; Microcode
Vulnerability Itlb multihit: KVM: Mitigation: VMX disabled
Vulnerability L1tf: Mitigation; PTE Inversion; VMX conditional cache flushes, SMT vulnerable
Vulnerability Mds: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Meltdown: Mitigation; PTI
Vulnerability Mmio stale data: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Reg file data sampling: Not affected
Vulnerability Retbleed: Mitigation; IBRS
Vulnerability Spec rstack overflow: Not affected
Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl
Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2: Mitigation; IBRS; IBPB conditional; STIBP conditional; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds: Not affected
Vulnerability Tsx async abort: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Vmscape: Mitigation; IBPB before exit to userspace
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku ospke md_clear flush_l1d arch_capabilities

G++:
g++ (Ubuntu 9.4.0-1ubuntu1~20.04) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

Clang:
clang version 10.0.0-4ubuntu1
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin

stan-buildbot commented Mar 19, 2026

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Name Old Result New Result Ratio Performance change( 1 - new / old )
gp_regr/gp_regr.stan 0.1 0.1 0.94 -6.71% slower
gp_regr/gen_gp_data.stan 0.02 0.02 1.09 8.53% faster
arK/arK.stan 1.81 1.52 1.19 16.27% faster
eight_schools/eight_schools.stan 0.06 0.05 1.02 1.7% faster
low_dim_gauss_mix_collapse/low_dim_gauss_mix_collapse.stan 8.92 8.15 1.09 8.62% faster
pkpd/one_comp_mm_elim_abs.stan 19.76 18.72 1.06 5.3% faster
pkpd/sim_one_comp_mm_elim_abs.stan 0.25 0.25 1.03 2.92% faster
sir/sir.stan 70.82 66.71 1.06 5.81% faster
gp_pois_regr/gp_pois_regr.stan 2.84 2.22 1.28 21.87% faster
low_dim_gauss_mix/low_dim_gauss_mix.stan 2.72 2.64 1.03 3.0% faster
irt_2pl/irt_2pl.stan 4.18 4.9 0.85 -17.2% slower
arma/arma.stan 0.29 0.28 1.03 3.3% faster
garch/garch.stan 0.43 0.43 1.0 0.22% faster
low_dim_corr_gauss/low_dim_corr_gauss.stan 0.01 0.01 1.14 12.33% faster
performance.compilation 237.32 275.96 0.86 -16.28% slower
Mean result: 1.0456851118597916

Jenkins Console Log
Blue Ocean
Commit hash: e54f8430358b51f678186c551d8b7ce3a19d9c1c

Machine information No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 20.04.3 LTS Release: 20.04 Codename: focal

CPU:
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
Address sizes: 46 bits physical, 48 bits virtual
CPU(s): 80
On-line CPU(s) list: 0-79
Thread(s) per core: 2
Core(s) per socket: 20
Socket(s): 2
NUMA node(s): 2
Vendor ID: GenuineIntel
CPU family: 6
Model: 85
Model name: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz
Stepping: 4
CPU MHz: 2400.000
CPU max MHz: 3700.0000
CPU min MHz: 1000.0000
BogoMIPS: 4800.00
Virtualization: VT-x
L1d cache: 1.3 MiB
L1i cache: 1.3 MiB
L2 cache: 40 MiB
L3 cache: 55 MiB
NUMA node0 CPU(s): 0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46,48,50,52,54,56,58,60,62,64,66,68,70,72,74,76,78
NUMA node1 CPU(s): 1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,43,45,47,49,51,53,55,57,59,61,63,65,67,69,71,73,75,77,79
Vulnerability Gather data sampling: Mitigation; Microcode
Vulnerability Itlb multihit: KVM: Mitigation: VMX disabled
Vulnerability L1tf: Mitigation; PTE Inversion; VMX conditional cache flushes, SMT vulnerable
Vulnerability Mds: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Meltdown: Mitigation; PTI
Vulnerability Mmio stale data: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Reg file data sampling: Not affected
Vulnerability Retbleed: Mitigation; IBRS
Vulnerability Spec rstack overflow: Not affected
Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl
Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2: Mitigation; IBRS; IBPB conditional; STIBP conditional; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds: Not affected
Vulnerability Tsx async abort: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Vmscape: Mitigation; IBPB before exit to userspace
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku ospke md_clear flush_l1d arch_capabilities

G++:
g++ (Ubuntu 9.4.0-1ubuntu1~20.04) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

Clang:
clang version 10.0.0-4ubuntu1
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin

stan-buildbot commented Apr 6, 2026

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Name Old Result New Result Ratio Performance change( 1 - new / old )
gp_regr/gp_regr.stan 0.1 0.11 0.85 -17.69% slower
gp_regr/gen_gp_data.stan 0.03 0.03 1.01 0.92% faster
arK/arK.stan 1.9 1.65 1.15 13.18% faster
eight_schools/eight_schools.stan 0.06 0.1 0.58 -72.32% slower
low_dim_gauss_mix_collapse/low_dim_gauss_mix_collapse.stan 9.21 8.85 1.04 3.91% faster
pkpd/one_comp_mm_elim_abs.stan 21.08 20.35 1.04 3.47% faster
pkpd/sim_one_comp_mm_elim_abs.stan 0.27 0.26 1.04 3.84% faster
sir/sir.stan 73.62 71.91 1.02 2.33% faster
gp_pois_regr/gp_pois_regr.stan 3.02 2.33 1.3 22.96% faster
low_dim_gauss_mix/low_dim_gauss_mix.stan 2.81 2.83 0.99 -0.67% slower
irt_2pl/irt_2pl.stan 4.51 5.28 0.85 -16.99% slower
arma/arma.stan 0.31 0.3 1.03 3.25% faster
garch/garch.stan 0.46 0.45 1.02 1.87% faster
low_dim_corr_gauss/low_dim_corr_gauss.stan 0.01 0.01 1.01 0.61% faster
performance.compilation 248.19 290.58 0.85 -17.08% slower
Mean result: 0.9860647308086096

Jenkins Console Log
Blue Ocean
Commit hash: 240e2dc95a112f175bb961a03b53357d10955996

Machine information No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 20.04.3 LTS Release: 20.04 Codename: focal

CPU:
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
Address sizes: 46 bits physical, 48 bits virtual
CPU(s): 80
On-line CPU(s) list: 0-79
Thread(s) per core: 2
Core(s) per socket: 20
Socket(s): 2
NUMA node(s): 2
Vendor ID: GenuineIntel
CPU family: 6
Model: 85
Model name: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz
Stepping: 4
CPU MHz: 3353.033
CPU max MHz: 3700.0000
CPU min MHz: 1000.0000
BogoMIPS: 4800.00
Virtualization: VT-x
L1d cache: 1.3 MiB
L1i cache: 1.3 MiB
L2 cache: 40 MiB
L3 cache: 55 MiB
NUMA node0 CPU(s): 0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46,48,50,52,54,56,58,60,62,64,66,68,70,72,74,76,78
NUMA node1 CPU(s): 1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,43,45,47,49,51,53,55,57,59,61,63,65,67,69,71,73,75,77,79
Vulnerability Gather data sampling: Mitigation; Microcode
Vulnerability Itlb multihit: KVM: Mitigation: VMX disabled
Vulnerability L1tf: Mitigation; PTE Inversion; VMX conditional cache flushes, SMT vulnerable
Vulnerability Mds: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Meltdown: Mitigation; PTI
Vulnerability Mmio stale data: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Reg file data sampling: Not affected
Vulnerability Retbleed: Mitigation; IBRS
Vulnerability Spec rstack overflow: Not affected
Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl
Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2: Mitigation; IBRS; IBPB conditional; STIBP conditional; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds: Not affected
Vulnerability Tsx async abort: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Vmscape: Mitigation; IBPB before exit to userspace
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku ospke md_clear flush_l1d arch_capabilities

G++:
g++ (Ubuntu 9.4.0-1ubuntu1~20.04) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

Clang:
clang version 10.0.0-4ubuntu1
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin

WardBrian commented Apr 7, 2026

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@SteveBronder I think this is really close, just a failure in the distribution tests:

In file included from test/prob/bernoulli/bernoulli_cdf_log_00000_generated_ffv_test.cpp:3:
In file included from ./test/prob/test_fixture_distr.hpp:4:
In file included from ./stan/math/mix.hpp:8:
In file included from ./stan/math/mix/meta.hpp:6:
In file included from ./stan/math/rev/core.hpp:32:
In file included from ./stan/math/rev/core/operator_divide_equal.hpp:5:
In file included from ./stan/math/rev/core/operator_division.hpp:15:
In file included from ./stan/math/rev/fun/to_arena.hpp:7:
In file included from ./stan/math/prim/functor.hpp:25:
In file included from ./stan/math/prim/functor/map_rect_combine.hpp:7:
In file included from ./stan/math/prim/functor/operands_and_partials.hpp:7:
./stan/math/prim/functor/broadcast_array.hpp:34:19: error: call to function 'sum' that is neither visible in the template definition nor found by argument-dependent lookup

    prim_.get() = sum(m);

stan-buildbot commented Apr 16, 2026

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Name Old Result New Result Ratio Performance change( 1 - new / old )
gp_regr/gp_regr.stan 0.09 0.11 0.86 -15.97% slower
gp_regr/gen_gp_data.stan 0.02 0.03 0.98 -2.54% slower
arK/arK.stan 1.84 1.64 1.12 10.88% faster
eight_schools/eight_schools.stan 0.06 0.06 0.91 -9.38% slower
low_dim_gauss_mix_collapse/low_dim_gauss_mix_collapse.stan 8.84 8.61 1.03 2.55% faster
pkpd/one_comp_mm_elim_abs.stan 19.54 20.0 0.98 -2.33% slower
pkpd/sim_one_comp_mm_elim_abs.stan 0.25 0.26 0.97 -2.92% slower
sir/sir.stan 72.44 71.1 1.02 1.84% faster
gp_pois_regr/gp_pois_regr.stan 2.82 2.49 1.13 11.63% faster
low_dim_gauss_mix/low_dim_gauss_mix.stan 2.73 2.82 0.97 -3.49% slower
irt_2pl/irt_2pl.stan 4.4 5.37 0.82 -22.02% slower
arma/arma.stan 0.3 0.3 0.99 -1.2% slower
garch/garch.stan 0.44 0.47 0.94 -6.43% slower
low_dim_corr_gauss/low_dim_corr_gauss.stan 0.01 0.01 1.0 -0.47% slower
performance.compilation 230.75 278.89 0.83 -20.86% slower
Mean result: 0.9690464431998677

Jenkins Console Log
Blue Ocean
Commit hash: 240e2dc95a112f175bb961a03b53357d10955996

Machine information No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 20.04.3 LTS Release: 20.04 Codename: focal

CPU:
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
Address sizes: 46 bits physical, 48 bits virtual
CPU(s): 80
On-line CPU(s) list: 0-79
Thread(s) per core: 2
Core(s) per socket: 20
Socket(s): 2
NUMA node(s): 2
Vendor ID: GenuineIntel
CPU family: 6
Model: 85
Model name: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz
Stepping: 4
CPU MHz: 2400.000
CPU max MHz: 3700.0000
CPU min MHz: 1000.0000
BogoMIPS: 4800.00
Virtualization: VT-x
L1d cache: 1.3 MiB
L1i cache: 1.3 MiB
L2 cache: 40 MiB
L3 cache: 55 MiB
NUMA node0 CPU(s): 0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46,48,50,52,54,56,58,60,62,64,66,68,70,72,74,76,78
NUMA node1 CPU(s): 1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,43,45,47,49,51,53,55,57,59,61,63,65,67,69,71,73,75,77,79
Vulnerability Gather data sampling: Mitigation; Microcode
Vulnerability Itlb multihit: KVM: Mitigation: VMX disabled
Vulnerability L1tf: Mitigation; PTE Inversion; VMX conditional cache flushes, SMT vulnerable
Vulnerability Mds: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Meltdown: Mitigation; PTI
Vulnerability Mmio stale data: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Reg file data sampling: Not affected
Vulnerability Retbleed: Mitigation; IBRS
Vulnerability Spec rstack overflow: Not affected
Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl
Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2: Mitigation; IBRS; IBPB conditional; STIBP conditional; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds: Not affected
Vulnerability Tsx async abort: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Vmscape: Mitigation; IBPB before exit to userspace
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku ospke md_clear flush_l1d arch_capabilities

G++:
g++ (Ubuntu 9.4.0-1ubuntu1~20.04) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

Clang:
clang version 10.0.0-4ubuntu1
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin

WardBrian mentioned this pull request Apr 20, 2026
Merged
4 tasks

stan-buildbot commented Apr 22, 2026

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Name Old Result New Result Ratio Performance change( 1 - new / old )
gp_regr/gp_regr.stan 0.12 0.11 1.13 11.37% faster
gp_regr/gen_gp_data.stan 0.02 0.03 0.99 -1.06% slower
arK/arK.stan 1.85 1.63 1.13 11.84% faster
eight_schools/eight_schools.stan 0.06 0.06 0.94 -6.03% slower
low_dim_gauss_mix_collapse/low_dim_gauss_mix_collapse.stan 8.96 9.05 0.99 -0.98% slower
pkpd/one_comp_mm_elim_abs.stan 19.63 20.27 0.97 -3.27% slower
pkpd/sim_one_comp_mm_elim_abs.stan 0.25 0.26 0.97 -2.83% slower
sir/sir.stan 77.86 71.37 1.09 8.34% faster
gp_pois_regr/gp_pois_regr.stan 2.83 2.34 1.21 17.31% faster
low_dim_gauss_mix/low_dim_gauss_mix.stan 2.72 2.8 0.97 -3.1% slower
irt_2pl/irt_2pl.stan 4.21 5.24 0.8 -24.51% slower
arma/arma.stan 0.31 0.31 1.0 0.22% faster
garch/garch.stan 0.43 0.46 0.94 -6.18% slower
low_dim_corr_gauss/low_dim_corr_gauss.stan 0.01 0.01 0.94 -5.92% slower
performance.compilation 239.85 290.81 0.82 -21.25% slower
Mean result: 0.9941780511117138

Jenkins Console Log
Blue Ocean
Commit hash: 240e2dc95a112f175bb961a03b53357d10955996

Machine information No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 20.04.3 LTS Release: 20.04 Codename: focal

CPU:
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
Address sizes: 46 bits physical, 48 bits virtual
CPU(s): 80
On-line CPU(s) list: 0-79
Thread(s) per core: 2
Core(s) per socket: 20
Socket(s): 2
NUMA node(s): 2
Vendor ID: GenuineIntel
CPU family: 6
Model: 85
Model name: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz
Stepping: 4
CPU MHz: 2400.000
CPU max MHz: 3700.0000
CPU min MHz: 1000.0000
BogoMIPS: 4800.00
Virtualization: VT-x
L1d cache: 1.3 MiB
L1i cache: 1.3 MiB
L2 cache: 40 MiB
L3 cache: 55 MiB
NUMA node0 CPU(s): 0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46,48,50,52,54,56,58,60,62,64,66,68,70,72,74,76,78
NUMA node1 CPU(s): 1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,43,45,47,49,51,53,55,57,59,61,63,65,67,69,71,73,75,77,79
Vulnerability Gather data sampling: Mitigation; Microcode
Vulnerability Itlb multihit: KVM: Mitigation: VMX disabled
Vulnerability L1tf: Mitigation; PTE Inversion; VMX conditional cache flushes, SMT vulnerable
Vulnerability Mds: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Meltdown: Mitigation; PTI
Vulnerability Mmio stale data: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Reg file data sampling: Not affected
Vulnerability Retbleed: Mitigation; IBRS
Vulnerability Spec rstack overflow: Not affected
Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl
Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2: Mitigation; IBRS; IBPB conditional; STIBP conditional; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds: Not affected
Vulnerability Tsx async abort: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Vmscape: Mitigation; IBPB before exit to userspace
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku ospke md_clear flush_l1d arch_capabilities

G++:
g++ (Ubuntu 9.4.0-1ubuntu1~20.04) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

Clang:
clang version 10.0.0-4ubuntu1
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin

stan-buildbot commented Apr 22, 2026

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Name Old Result New Result Ratio Performance change( 1 - new / old )
gp_regr/gp_regr.stan 0.09 0.1 0.9 -11.25% slower
gp_regr/gen_gp_data.stan 0.02 0.02 1.0 -0.39% slower
arK/arK.stan 1.73 1.52 1.14 12.28% faster
eight_schools/eight_schools.stan 0.05 0.05 0.95 -5.14% slower
low_dim_gauss_mix_collapse/low_dim_gauss_mix_collapse.stan 8.39 8.28 1.01 1.32% faster
pkpd/one_comp_mm_elim_abs.stan 18.57 19.02 0.98 -2.46% slower
pkpd/sim_one_comp_mm_elim_abs.stan 0.24 0.24 0.97 -2.6% slower
sir/sir.stan 68.01 67.11 1.01 1.33% faster
gp_pois_regr/gp_pois_regr.stan 2.68 2.24 1.19 16.31% faster
low_dim_gauss_mix/low_dim_gauss_mix.stan 2.56 2.63 0.97 -2.69% slower
irt_2pl/irt_2pl.stan 3.94 4.87 0.81 -23.65% slower
arma/arma.stan 0.27 0.29 0.94 -5.92% slower
garch/garch.stan 0.4 0.43 0.93 -7.33% slower
low_dim_corr_gauss/low_dim_corr_gauss.stan 0.01 0.01 0.8 -24.26% slower
performance.compilation 213.9 255.02 0.84 -19.22% slower
Mean result: 0.9640193991954682

Jenkins Console Log
Blue Ocean
Commit hash: e0729e1cdec40e8ec3da60b40b20a2cfc223fc94

Machine information No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 20.04.3 LTS Release: 20.04 Codename: focal

CPU:
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
Address sizes: 46 bits physical, 48 bits virtual
CPU(s): 80
On-line CPU(s) list: 0-79
Thread(s) per core: 2
Core(s) per socket: 20
Socket(s): 2
NUMA node(s): 2
Vendor ID: GenuineIntel
CPU family: 6
Model: 85
Model name: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz
Stepping: 4
CPU MHz: 2400.000
CPU max MHz: 3700.0000
CPU min MHz: 1000.0000
BogoMIPS: 4800.00
Virtualization: VT-x
L1d cache: 1.3 MiB
L1i cache: 1.3 MiB
L2 cache: 40 MiB
L3 cache: 55 MiB
NUMA node0 CPU(s): 0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46,48,50,52,54,56,58,60,62,64,66,68,70,72,74,76,78
NUMA node1 CPU(s): 1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,43,45,47,49,51,53,55,57,59,61,63,65,67,69,71,73,75,77,79
Vulnerability Gather data sampling: Mitigation; Microcode
Vulnerability Itlb multihit: KVM: Mitigation: VMX disabled
Vulnerability L1tf: Mitigation; PTE Inversion; VMX conditional cache flushes, SMT vulnerable
Vulnerability Mds: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Meltdown: Mitigation; PTI
Vulnerability Mmio stale data: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Reg file data sampling: Not affected
Vulnerability Retbleed: Mitigation; IBRS
Vulnerability Spec rstack overflow: Not affected
Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl
Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2: Mitigation; IBRS; IBPB conditional; STIBP conditional; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds: Not affected
Vulnerability Tsx async abort: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Vmscape: Mitigation; IBPB before exit to userspace
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku ospke md_clear flush_l1d arch_capabilities

G++:
g++ (Ubuntu 9.4.0-1ubuntu1~20.04) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

Clang:
clang version 10.0.0-4ubuntu1
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin

stan-buildbot commented Apr 27, 2026

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Name Old Result New Result Ratio Performance change( 1 - new / old )
gp_regr/gp_regr.stan 0.11 0.13 0.89 -12.49% slower
gp_regr/gen_gp_data.stan 0.03 0.02 1.19 16.25% faster
arK/arK.stan 2.23 1.69 1.32 24.13% faster
eight_schools/eight_schools.stan 0.06 0.06 1.01 0.69% faster
low_dim_gauss_mix_collapse/low_dim_gauss_mix_collapse.stan 10.57 8.91 1.19 15.72% faster
pkpd/one_comp_mm_elim_abs.stan 22.79 21.62 1.05 5.12% faster
pkpd/sim_one_comp_mm_elim_abs.stan 0.4 0.28 1.44 30.6% faster
sir/sir.stan 82.91 77.77 1.07 6.19% faster
gp_pois_regr/gp_pois_regr.stan 3.59 2.56 1.4 28.69% faster
low_dim_gauss_mix/low_dim_gauss_mix.stan 3.46 2.93 1.18 15.15% faster
irt_2pl/irt_2pl.stan 5.35 5.76 0.93 -7.59% slower
arma/arma.stan 0.37 0.34 1.08 7.59% faster
garch/garch.stan 0.54 0.5 1.08 7.47% faster
low_dim_corr_gauss/low_dim_corr_gauss.stan 0.01 0.01 1.09 8.05% faster
performance.compilation 251.11 278.16 0.9 -10.77% slower
Mean result: 1.121267358819904

Jenkins Console Log
Blue Ocean
Commit hash: e0729e1cdec40e8ec3da60b40b20a2cfc223fc94

Machine information No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 20.04.3 LTS Release: 20.04 Codename: focal

CPU:
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
Address sizes: 46 bits physical, 48 bits virtual
CPU(s): 80
On-line CPU(s) list: 0-79
Thread(s) per core: 2
Core(s) per socket: 20
Socket(s): 2
NUMA node(s): 2
Vendor ID: GenuineIntel
CPU family: 6
Model: 85
Model name: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz
Stepping: 4
CPU MHz: 2400.000
CPU max MHz: 3700.0000
CPU min MHz: 1000.0000
BogoMIPS: 4800.00
Virtualization: VT-x
L1d cache: 1.3 MiB
L1i cache: 1.3 MiB
L2 cache: 40 MiB
L3 cache: 55 MiB
NUMA node0 CPU(s): 0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46,48,50,52,54,56,58,60,62,64,66,68,70,72,74,76,78
NUMA node1 CPU(s): 1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,43,45,47,49,51,53,55,57,59,61,63,65,67,69,71,73,75,77,79
Vulnerability Gather data sampling: Mitigation; Microcode
Vulnerability Itlb multihit: KVM: Mitigation: Split huge pages
Vulnerability L1tf: Mitigation; PTE Inversion; VMX conditional cache flushes, SMT vulnerable
Vulnerability Mds: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Meltdown: Mitigation; PTI
Vulnerability Mmio stale data: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Reg file data sampling: Not affected
Vulnerability Retbleed: Mitigation; IBRS
Vulnerability Spec rstack overflow: Not affected
Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl
Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2: Mitigation; IBRS; IBPB conditional; STIBP conditional; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds: Not affected
Vulnerability Tsx async abort: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Vmscape: Mitigation; IBPB before exit to userspace
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku ospke md_clear flush_l1d arch_capabilities

G++:
g++ (Ubuntu 9.4.0-1ubuntu1~20.04) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

Clang:
clang version 10.0.0-4ubuntu1
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin

stan-buildbot commented Apr 30, 2026

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Name Old Result New Result Ratio Performance change( 1 - new / old )
gp_regr/gp_regr.stan 0.1 0.11 0.92 -8.96% slower
gp_regr/gen_gp_data.stan 0.03 0.02 1.07 6.8% faster
arK/arK.stan 1.85 1.55 1.19 15.9% faster
eight_schools/eight_schools.stan 0.08 0.05 1.48 32.55% faster
low_dim_gauss_mix_collapse/low_dim_gauss_mix_collapse.stan 8.92 8.24 1.08 7.6% faster
pkpd/one_comp_mm_elim_abs.stan 19.83 19.54 1.01 1.46% faster
pkpd/sim_one_comp_mm_elim_abs.stan 0.26 0.25 1.04 3.57% faster
sir/sir.stan 72.74 68.12 1.07 6.35% faster
gp_pois_regr/gp_pois_regr.stan 2.86 2.3 1.24 19.67% faster
low_dim_gauss_mix/low_dim_gauss_mix.stan 2.76 2.7 1.02 2.17% faster
irt_2pl/irt_2pl.stan 4.31 5.03 0.86 -16.69% slower
arma/arma.stan 0.31 0.3 1.04 3.9% faster
garch/garch.stan 0.44 0.44 1.01 0.52% faster
low_dim_corr_gauss/low_dim_corr_gauss.stan 0.01 0.01 1.05 4.98% faster
performance.compilation 241.51 272.86 0.89 -12.98% slower
Mean result: 1.0647688341084165

Jenkins Console Log
Blue Ocean
Commit hash: e0729e1cdec40e8ec3da60b40b20a2cfc223fc94

Machine information No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 20.04.3 LTS Release: 20.04 Codename: focal

CPU:
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
Address sizes: 46 bits physical, 48 bits virtual
CPU(s): 80
On-line CPU(s) list: 0-79
Thread(s) per core: 2
Core(s) per socket: 20
Socket(s): 2
NUMA node(s): 2
Vendor ID: GenuineIntel
CPU family: 6
Model: 85
Model name: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz
Stepping: 4
CPU MHz: 3393.478
CPU max MHz: 3700.0000
CPU min MHz: 1000.0000
BogoMIPS: 4800.00
Virtualization: VT-x
L1d cache: 1.3 MiB
L1i cache: 1.3 MiB
L2 cache: 40 MiB
L3 cache: 55 MiB
NUMA node0 CPU(s): 0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46,48,50,52,54,56,58,60,62,64,66,68,70,72,74,76,78
NUMA node1 CPU(s): 1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,43,45,47,49,51,53,55,57,59,61,63,65,67,69,71,73,75,77,79
Vulnerability Gather data sampling: Mitigation; Microcode
Vulnerability Itlb multihit: KVM: Mitigation: Split huge pages
Vulnerability L1tf: Mitigation; PTE Inversion; VMX conditional cache flushes, SMT vulnerable
Vulnerability Mds: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Meltdown: Mitigation; PTI
Vulnerability Mmio stale data: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Reg file data sampling: Not affected
Vulnerability Retbleed: Mitigation; IBRS
Vulnerability Spec rstack overflow: Not affected
Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl
Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2: Mitigation; IBRS; IBPB conditional; STIBP conditional; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds: Not affected
Vulnerability Tsx async abort: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Vmscape: Mitigation; IBPB before exit to userspace
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku ospke md_clear flush_l1d arch_capabilities

G++:
g++ (Ubuntu 9.4.0-1ubuntu1~20.04) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

Clang:
clang version 10.0.0-4ubuntu1
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin

stan-buildbot commented May 1, 2026

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Name Old Result New Result Ratio Performance change( 1 - new / old )
gp_regr/gp_regr.stan 0.13 0.1 1.23 18.68% faster
gp_regr/gen_gp_data.stan 0.02 0.02 1.06 5.43% faster
arK/arK.stan 1.86 1.56 1.19 15.92% faster
eight_schools/eight_schools.stan 0.06 0.05 1.02 1.65% faster
low_dim_gauss_mix_collapse/low_dim_gauss_mix_collapse.stan 8.98 8.3 1.08 7.48% faster
pkpd/one_comp_mm_elim_abs.stan 19.77 19.21 1.03 2.87% faster
pkpd/sim_one_comp_mm_elim_abs.stan 0.25 0.24 1.04 3.71% faster
sir/sir.stan 73.2 68.13 1.07 6.93% faster
gp_pois_regr/gp_pois_regr.stan 2.85 2.34 1.22 17.77% faster
low_dim_gauss_mix/low_dim_gauss_mix.stan 2.74 2.73 1.0 0.47% faster
irt_2pl/irt_2pl.stan 4.33 5.08 0.85 -17.32% slower
arma/arma.stan 0.3 0.29 1.04 3.55% faster
garch/garch.stan 0.44 0.45 0.97 -3.11% slower
low_dim_corr_gauss/low_dim_corr_gauss.stan 0.01 0.01 1.08 7.7% faster
performance.compilation 235.89 280.39 0.84 -18.86% slower
Mean result: 1.0480756847676629

Jenkins Console Log
Blue Ocean
Commit hash: e0729e1cdec40e8ec3da60b40b20a2cfc223fc94

Machine information No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 20.04.3 LTS Release: 20.04 Codename: focal

CPU:
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
Address sizes: 46 bits physical, 48 bits virtual
CPU(s): 80
On-line CPU(s) list: 0-79
Thread(s) per core: 2
Core(s) per socket: 20
Socket(s): 2
NUMA node(s): 2
Vendor ID: GenuineIntel
CPU family: 6
Model: 85
Model name: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz
Stepping: 4
CPU MHz: 2400.000
CPU max MHz: 3700.0000
CPU min MHz: 1000.0000
BogoMIPS: 4800.00
Virtualization: VT-x
L1d cache: 1.3 MiB
L1i cache: 1.3 MiB
L2 cache: 40 MiB
L3 cache: 55 MiB
NUMA node0 CPU(s): 0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46,48,50,52,54,56,58,60,62,64,66,68,70,72,74,76,78
NUMA node1 CPU(s): 1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,43,45,47,49,51,53,55,57,59,61,63,65,67,69,71,73,75,77,79
Vulnerability Gather data sampling: Mitigation; Microcode
Vulnerability Itlb multihit: KVM: Mitigation: Split huge pages
Vulnerability L1tf: Mitigation; PTE Inversion; VMX conditional cache flushes, SMT vulnerable
Vulnerability Mds: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Meltdown: Mitigation; PTI
Vulnerability Mmio stale data: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Reg file data sampling: Not affected
Vulnerability Retbleed: Mitigation; IBRS
Vulnerability Spec rstack overflow: Not affected
Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl
Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2: Mitigation; IBRS; IBPB conditional; STIBP conditional; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds: Not affected
Vulnerability Tsx async abort: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Vmscape: Mitigation; IBPB before exit to userspace
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku ospke md_clear flush_l1d arch_capabilities

G++:
g++ (Ubuntu 9.4.0-1ubuntu1~20.04) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

Clang:
clang version 10.0.0-4ubuntu1
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin

WardBrian commented May 4, 2026

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Looks like tests passed @SteveBronder!

Do you mind rewriting the history of the commits a bit and adding a STAN_CHANGES to the Eigen folder?

SteveBronder force-pushed the update/eigen_5.0.1 branch from bbdad92 to cd15587 Compare May 5, 2026 17:37

SteveBronder commented May 5, 2026

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All the Stan math changes are now in cd15587

stan-buildbot commented May 6, 2026

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Name Old Result New Result Ratio Performance change( 1 - new / old )
gp_regr/gp_regr.stan 0.1 0.11 0.91 -10.32% slower
gp_regr/gen_gp_data.stan 0.03 0.03 1.07 6.8% faster
arK/arK.stan 2.02 1.65 1.23 18.58% faster
eight_schools/eight_schools.stan 0.06 0.06 1.0 0.41% faster
low_dim_gauss_mix_collapse/low_dim_gauss_mix_collapse.stan 9.64 8.84 1.09 8.33% faster
pkpd/one_comp_mm_elim_abs.stan 20.81 20.12 1.03 3.3% faster
pkpd/sim_one_comp_mm_elim_abs.stan 0.27 0.26 1.06 5.43% faster
sir/sir.stan 77.6 74.67 1.04 3.77% faster
gp_pois_regr/gp_pois_regr.stan 3.06 2.55 1.2 16.5% faster
low_dim_gauss_mix/low_dim_gauss_mix.stan 2.96 2.86 1.03 3.2% faster
irt_2pl/irt_2pl.stan 5.27 5.59 0.94 -6.15% slower
arma/arma.stan 0.36 0.33 1.11 10.25% faster
garch/garch.stan 0.54 0.5 1.08 7.2% faster
low_dim_corr_gauss/low_dim_corr_gauss.stan 0.01 0.01 1.05 4.98% faster
performance.compilation 232.21 269.54 0.86 -16.08% slower
Mean result: 1.0474439179776258

Jenkins Console Log
Blue Ocean
Commit hash: e0729e1cdec40e8ec3da60b40b20a2cfc223fc94

Machine information No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 20.04.3 LTS Release: 20.04 Codename: focal

CPU:
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
Address sizes: 46 bits physical, 48 bits virtual
CPU(s): 80
On-line CPU(s) list: 0-79
Thread(s) per core: 2
Core(s) per socket: 20
Socket(s): 2
NUMA node(s): 2
Vendor ID: GenuineIntel
CPU family: 6
Model: 85
Model name: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz
Stepping: 4
CPU MHz: 3343.196
CPU max MHz: 3700.0000
CPU min MHz: 1000.0000
BogoMIPS: 4800.00
Virtualization: VT-x
L1d cache: 1.3 MiB
L1i cache: 1.3 MiB
L2 cache: 40 MiB
L3 cache: 55 MiB
NUMA node0 CPU(s): 0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46,48,50,52,54,56,58,60,62,64,66,68,70,72,74,76,78
NUMA node1 CPU(s): 1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,43,45,47,49,51,53,55,57,59,61,63,65,67,69,71,73,75,77,79
Vulnerability Gather data sampling: Mitigation; Microcode
Vulnerability Itlb multihit: KVM: Mitigation: Split huge pages
Vulnerability L1tf: Mitigation; PTE Inversion; VMX conditional cache flushes, SMT vulnerable
Vulnerability Mds: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Meltdown: Mitigation; PTI
Vulnerability Mmio stale data: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Reg file data sampling: Not affected
Vulnerability Retbleed: Mitigation; IBRS
Vulnerability Spec rstack overflow: Not affected
Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl
Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2: Mitigation; IBRS; IBPB conditional; STIBP conditional; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds: Not affected
Vulnerability Tsx async abort: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Vmscape: Mitigation; IBPB before exit to userspace
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku ospke md_clear flush_l1d arch_capabilities

G++:
g++ (Ubuntu 9.4.0-1ubuntu1~20.04) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

Clang:
clang version 10.0.0-4ubuntu1
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin

WardBrian commented May 6, 2026

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I'll try to work through cd15587 tomorrow.

Any news on if eigen Upstream accepted the patches for the intrinsics and memset issue?

SteveBronder commented May 7, 2026

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They accepted the patches but are not going to push a new release yet. But RcppEigen did take in the patches so we are good on the R side of things

WardBrian reviewed Jun 3, 2026
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Choose a reason Spam Abuse Off Topic Outdated Duplicate Resolved Low Quality

Skimmed the stan changes, most look good as simple header cleanups or forwarding changes. A few things besides the two conflicts that have arisen

Comment thread stan/math/prim/functor/broadcast_array_fwd.hpp
Comment thread stan/math/rev/core/Eigen_NumTraits.hpp Outdated
Comment thread test/unit/math/prim/functor/operands_and_partials_test.cpp
WardBrian previously approved these changes Jun 5, 2026
View reviewed changes
SteveBronder and others added 4 commits June 10, 2026 16:47
Adapt Stan Math and tests for Eigen 5.0.1
d6833b8
update
6dca04a
Merge remote-tracking branch 'origin/develop' into update/eigen_5.0.1
5c7ea82 
# Conflicts:
#	stan/math/mix/functor/conditional_copy_and_promote.hpp
#	stan/math/mix/functor/laplace_likelihood.hpp
#	stan/math/mix/functor/laplace_marginal_density.hpp
#	stan/math/prim/functor/conditional_copy_and_promote.hpp
#	stan/math/rev/functor/conditional_copy_and_promote.hpp
[Jenkins] auto-formatting by clang-format version 10.0.0-4ubuntu1
4a17383

stan-buildbot commented Jun 11, 2026

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Name Old Result New Result Ratio Performance change( 1 - new / old )
gp_regr/gp_regr.stan 0.1 0.1 1.05 4.92% faster
gp_regr/gen_gp_data.stan 0.03 0.02 1.18 14.95% faster
arK/arK.stan 1.89 1.51 1.26 20.35% faster
eight_schools/eight_schools.stan 0.06 0.05 1.1 9.46% faster
low_dim_gauss_mix_collapse/low_dim_gauss_mix_collapse.stan 9.39 8.2 1.14 12.66% faster
pkpd/one_comp_mm_elim_abs.stan 20.72 18.91 1.1 8.75% faster
pkpd/sim_one_comp_mm_elim_abs.stan 0.26 0.24 1.09 8.46% faster
sir/sir.stan 74.68 68.88 1.08 7.77% faster
gp_pois_regr/gp_pois_regr.stan 3.07 2.29 1.34 25.58% faster
low_dim_gauss_mix/low_dim_gauss_mix.stan 2.78 2.73 1.02 1.64% faster
irt_2pl/irt_2pl.stan 4.54 4.89 0.93 -7.62% slower
arma/arma.stan 0.31 0.29 1.08 7.35% faster
garch/garch.stan 0.46 0.44 1.05 4.49% faster
low_dim_corr_gauss/low_dim_corr_gauss.stan 0.01 0.01 1.08 7.22% faster
performance.compilation 233.19 270.03 0.86 -15.8% slower
Mean result: 1.090819234996851

Jenkins Console Log
Blue Ocean
Commit hash: 7c2fc6d7320e26ddc8cd64f7e1c6d00353d2ed95

Machine information No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 20.04.3 LTS Release: 20.04 Codename: focal

CPU:
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
Address sizes: 46 bits physical, 48 bits virtual
CPU(s): 80
On-line CPU(s) list: 0-79
Thread(s) per core: 2
Core(s) per socket: 20
Socket(s): 2
NUMA node(s): 2
Vendor ID: GenuineIntel
CPU family: 6
Model: 85
Model name: Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz
Stepping: 4
CPU MHz: 3100.007
CPU max MHz: 3700.0000
CPU min MHz: 1000.0000
BogoMIPS: 4800.00
Virtualization: VT-x
L1d cache: 1.3 MiB
L1i cache: 1.3 MiB
L2 cache: 40 MiB
L3 cache: 55 MiB
NUMA node0 CPU(s): 0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46,48,50,52,54,56,58,60,62,64,66,68,70,72,74,76,78
NUMA node1 CPU(s): 1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,43,45,47,49,51,53,55,57,59,61,63,65,67,69,71,73,75,77,79
Vulnerability Gather data sampling: Mitigation; Microcode
Vulnerability Itlb multihit: KVM: Mitigation: Split huge pages
Vulnerability L1tf: Mitigation; PTE Inversion; VMX conditional cache flushes, SMT vulnerable
Vulnerability Mds: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Meltdown: Mitigation; PTI
Vulnerability Mmio stale data: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Reg file data sampling: Not affected
Vulnerability Retbleed: Mitigation; IBRS
Vulnerability Spec rstack overflow: Not affected
Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl
Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2: Mitigation; IBRS; IBPB conditional; STIBP conditional; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds: Not affected
Vulnerability Tsx async abort: Mitigation; Clear CPU buffers; SMT vulnerable
Vulnerability Vmscape: Mitigation; IBPB before exit to userspace
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts hwp hwp_act_window hwp_epp hwp_pkg_req pku ospke md_clear flush_l1d arch_capabilities

G++:
g++ (Ubuntu 9.4.0-1ubuntu1~20.04) 9.4.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

Clang:
clang version 10.0.0-4ubuntu1
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin

SteveBronder merged commit eb4b45d into develop Jun 11, 2026
34 checks passed
WardBrian deleted the update/eigen_5.0.1 branch June 11, 2026 16:47
WardBrian mentioned this pull request Jun 15, 2026
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