Remove boost odeint

[SteveBronder]

Summary

This breaks up #3357 into two PRs. This is the second Pr that removes a lot of boost odeint usage.

Checklist

• Copyright holder: Andrew Johnson and 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]

Where are these messages sourced from? https://sundials.readthedocs.io/en/latest/arkode/Constants_link.html#id3 suggests that e.g. -41 is ARK_PRERHS_FAIL: An error occurred in a pre-RHS function., not ARK_INVALID_TABLE, which is listed as -44.

Do these change based on sundials version?

[SteveBronder]

I am going to update these to use the actual sundials error enum values

[stan-buildbot]

Name	Old Result	New Result	Ratio	Performance change( 1 - new / old )
stat_comp_benchmarks/benchmarks/gp_regr/gen_gp_data.stan	0.04	0.04	0.99	-0.9% slower
stat_comp_benchmarks/benchmarks/gp_regr/gp_regr.stan	0.17	0.16	1.03	2.94% faster
stat_comp_benchmarks/benchmarks/garch/garch.stan	0.86	0.87	0.99	-0.76% slower
stat_comp_benchmarks/benchmarks/low_dim_corr_gauss/low_dim_corr_gauss.stan	0.01	0.02	0.92	-8.23% slower
stat_comp_benchmarks/benchmarks/eight_schools/eight_schools.stan	0.11	0.11	1.01	0.66% faster
stat_comp_benchmarks/benchmarks/low_dim_gauss_mix/low_dim_gauss_mix.stan	7.94	8.09	0.98	-1.87% slower
stat_comp_benchmarks/benchmarks/gp_pois_regr/gp_pois_regr.stan	3.68	3.62	1.01	1.46% faster
stat_comp_benchmarks/benchmarks/pkpd/one_comp_mm_elim_abs.stan	32.92	33.02	1.0	-0.28% slower
stat_comp_benchmarks/benchmarks/pkpd/sim_one_comp_mm_elim_abs.stan	0.38	0.39	0.98	-2.13% slower
stat_comp_benchmarks/benchmarks/irt_2pl/irt_2pl.stan	6.84	6.83	1.0	0.23% faster
stat_comp_benchmarks/benchmarks/sir/sir.stan	135.82	166.9	0.81	-22.88% slower
stat_comp_benchmarks/benchmarks/arK/arK.stan	3.23	3.19	1.01	1.26% faster
stat_comp_benchmarks/benchmarks/arma/arma.stan	0.6	0.6	1.0	0.48% faster
stat_comp_benchmarks/benchmarks/low_dim_gauss_mix_collapse/low_dim_gauss_mix_collapse.stan	25.21	25.7	0.98	-1.91% slower
performance.compilation	407.1	391.55	1.04	3.82% faster
Mean result: 0.9847919245782392

Jenkins Console Log
Jenkins Build Stages
Commit hash: 017f091b63e5f89b01de871d2a7ead2d78127331

Machine information

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:                           52 bits physical, 57 bits virtual
CPU(s):                                  192
On-line CPU(s) list:                     0-191
Thread(s) per core:                      2
Core(s) per socket:                      48
Socket(s):                               2
NUMA node(s):                            2
Vendor ID:                               AuthenticAMD
CPU family:                              25
Model:                                   17
Model name:                              AMD EPYC 9474F 48-Core Processor
Stepping:                                1
Frequency boost:                         enabled
CPU MHz:                                 1497.727
CPU max MHz:                             4114.4229
CPU min MHz:                             1500.0000
BogoMIPS:                                7189.39
Virtualization:                          AMD-V
L1d cache:                               3 MiB
L1i cache:                               3 MiB
L2 cache:                                96 MiB
L3 cache:                                512 MiB
NUMA node0 CPU(s):                       0-47,96-143
NUMA node1 CPU(s):                       48-95,144-191
Vulnerability Gather data sampling:      Not affected
Vulnerability Indirect target selection: Not affected
Vulnerability Itlb multihit:             Not affected
Vulnerability L1tf:                      Not affected
Vulnerability Mds:                       Not affected
Vulnerability Meltdown:                  Not affected
Vulnerability Mmio stale data:           Not affected
Vulnerability Old microcode:             Not affected
Vulnerability Reg file data sampling:    Not affected
Vulnerability Retbleed:                  Not affected
Vulnerability Spec rstack overflow:      Mitigation; Safe RET
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; Enhanced / Automatic IBRS; IBPB conditional; STIBP always-on; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds:                     Not affected
Vulnerability Tsa:                       Mitigation; Clear CPU buffers
Vulnerability Tsx async abort:           Not affected
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 mmx fxsr sse sse2 ht syscall nx mmxext fxsr_opt pdpe1gb rdtscp lm constant_tsc rep_good amd_lbr_v2 nopl xtopology nonstop_tsc cpuid extd_apicid aperfmperf rapl pni pclmulqdq monitor ssse3 fma cx16 pcid sse4_1 sse4_2 x2apic movbe popcnt aes xsave avx f16c rdrand lahf_lm cmp_legacy svm extapic cr8_legacy abm sse4a misalignsse 3dnowprefetch osvw ibs skinit wdt tce topoext perfctr_core perfctr_nb bpext perfctr_llc mwaitx cpb cat_l3 cdp_l3 hw_pstate ssbd mba perfmon_v2 ibrs ibpb stibp ibrs_enhanced vmmcall fsgsbase bmi1 avx2 smep bmi2 erms invpcid cqm rdt_a avx512f avx512dq rdseed adx smap avx512ifma clflushopt clwb avx512cd sha_ni avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local user_shstk avx512_bf16 clzero irperf xsaveerptr rdpru wbnoinvd amd_ppin cppc arat npt lbrv svm_lock nrip_save tsc_scale vmcb_clean flushbyasid decodeassists pausefilter pfthreshold avic v_vmsave_vmload vgif x2avic v_spec_ctrl vnmi avx512vbmi umip pku ospke avx512_vbmi2 gfni vaes vpclmulqdq avx512_vnni avx512_bitalg avx512_vpopcntdq la57 rdpid overflow_recov succor smca fsrm flush_l1d debug_swap

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