Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Issue 357: Move from fixed n with missing to flexible n #392

Merged
merged 6 commits into from
Jul 23, 2024
Merged

Issue 357: Move from fixed n with missing to flexible n #392

merged 6 commits into from
Jul 23, 2024

Conversation

seabbs
Copy link
Collaborator

@seabbs seabbs commented Jul 22, 2024

This PR expands on the ideas in #389 and from f2f conversations to try to partially resolve some issues seen in #357. Before merging it needs a benchmark and test update to check that it does this.

I think from this implementation their are few user side downsides apart from potentially some confusion about the changing length of complex latent models.

@seabbs seabbs requested a review from SamuelBrand1 July 22, 2024 15:19
SamuelBrand1
SamuelBrand1 previously approved these changes Jul 22, 2024
View reviewed changes
Copy link
Collaborator

@SamuelBrand1 SamuelBrand1 left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

LGTM. Will be interested if this has any noticeable effect on benchmarks.

@codecov-commenter
Copy link

codecov-commenter commented Jul 22, 2024 •
edited
Loading

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 93.33%. Comparing base (d4d46df) to head (f6efb72).

Additional details and impacted files 
@@           Coverage Diff           @@
##             main     #392   +/-   ##
=======================================
  Coverage   93.33%   93.33%           
=======================================
  Files          53       53           
  Lines         540      540           
=======================================
  Hits          504      504           
  Misses         36       36

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

@github-actions GitHub Actions
Copy link
Contributor

Benchmark result

Judge result

Benchmark Report for /home/runner/work/Rt-without-renewal/Rt-without-renewal

Job Properties

  • Time of benchmarks:
    • Target: 22 Jul 2024 - 15:58
    • Baseline: 22 Jul 2024 - 16:29
  • Package commits:
    • Target: 899186
    • Baseline: cc8e0d
  • Julia commits:
    • Target: 48d4fd
    • Baseline: 48d4fd
  • Julia command flags:
    • Target: None
    • Baseline: None
  • Environment variables:
    • Target: None
    • Baseline: None

Results

A ratio greater than 1.0 denotes a possible regression (marked with ❌), while a ratio less
than 1.0 denotes a possible improvement (marked with ✅). Only significant results - results
that indicate possible regressions or improvements - are shown below (thus, an empty table means that all
benchmark results remained invariant between builds).

ID time ratio memory ratio
["EpiLatentModels", "AR", "evaluation", "linked"] 1.06 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.09 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.13 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 1.08 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.17 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 1.10 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "ConcatLatentModels", "evaluation", "linked"] 1.22 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "ConcatLatentModels", "evaluation", "standard"] 1.06 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.71 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.08 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "DiffLatentModel", "evaluation", "linked"] 1.56 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.28 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.05 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.88 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.33 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.48 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.14 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.14 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 1.07 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "linked"] 1.06 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.06 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.06 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "linked"] 0.85 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.10 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 1.06 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 1.08 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "broadcast_weekly", "evaluation", "linked"] 1.07 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "broadcast_weekly", "evaluation", "standard"] 1.11 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.22 (5%) ❌ 1.00 (1%)
["EpiObsModels", "LatentDelay", "evaluation", "linked"] 0.61 (5%) ✅ 0.74 (1%) ✅
["EpiObsModels", "LatentDelay", "evaluation", "standard"] 0.61 (5%) ✅ 0.74 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 0.72 (5%) ✅ 0.70 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 0.76 (5%) ✅ 0.70 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 0.53 (5%) ✅ 0.86 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 0.52 (5%) ✅ 0.85 (1%) ✅
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 0.94 (5%) ✅ 0.99 (1%) ✅
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 0.84 (5%) ✅ 1.00 (1%)
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 0.91 (5%) ✅ 1.00 (1%)
["EpiObsModels", "observation_error", "missing obs", "evaluation", "linked"] 1.13 (5%) ❌ 1.11 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "evaluation", "standard"] 1.33 (5%) ❌ 1.27 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.12 (5%) ❌ 1.13 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.40 (5%) ❌ 1.23 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 1.00 (5%) 1.02 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 1.00 (5%) 1.03 (1%) ❌
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 1.08 (5%) ❌ 1.00 (1%)
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "linked"] 1.19 (5%) ❌ 1.00 (1%)
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "standard"] 0.90 (5%) ✅ 1.00 (1%)
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.10 (5%) ❌ 1.00 (1%)
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.14 (5%) ❌ 1.00 (1%)

Benchmark Group List

Here's a list of all the benchmark groups executed by this job:

  • ["EpiAwareUtils"]
  • ["EpiInfModels", "DirectInfections", "evaluation"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiInfModels", "ExpGrowthRate", "evaluation"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "AR", "evaluation"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "evaluation"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "CombineLatentModels", "evaluation"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "ConcatLatentModels", "evaluation"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "DiffLatentModel", "evaluation"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "HierarchicalNormal", "evaluation"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "Intercept", "evaluation"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "PrefixLatentModel", "evaluation"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RandomWalk", "evaluation"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "evaluation"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "TransformLatentModel", "evaluation"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "evaluation"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_weekly", "evaluation"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "Ascertainment", "evaluation"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "LatentDelay", "evaluation"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "NegativeBinomialError", "evaluation"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PoissonError", "evaluation"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PrefixObservationModel", "evaluation"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "StackObservationModels", "evaluation"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "evaluation"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]

Julia versioninfo

Target

Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-04 10:41 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
      Ubuntu 22.04.4 LTS
  uname: Linux 6.5.0-1023-azure #24~22.04.1-Ubuntu SMP Wed Jun 12 19:55:26 UTC 2024 x86_64 x86_64
  CPU: AMD EPYC 7763 64-Core Processor: 
              speed         user         nice          sys         idle          irq
       #1  3244 MHz       8462 s          0 s        748 s      15042 s          0 s
       #2  2445 MHz       6419 s          0 s        630 s      17204 s          0 s
       #3  2825 MHz       8356 s          0 s        798 s      15113 s          0 s
       #4  3142 MHz       6300 s          0 s        712 s      17240 s          0 s
  Memory: 15.606487274169922 GB (13351.0 MB free)
  Uptime: 2433.01 sec
  Load Avg:  1.0  1.02  1.06
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 4 virtual cores)

Baseline

Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-04 10:41 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
      Ubuntu 22.04.4 LTS
  uname: Linux 6.5.0-1023-azure #24~22.04.1-Ubuntu SMP Wed Jun 12 19:55:26 UTC 2024 x86_64 x86_64
  CPU: AMD EPYC 7763 64-Core Processor: 
              speed         user         nice          sys         idle          irq
       #1  2445 MHz      14120 s          0 s       1288 s      27016 s          0 s
       #2  3242 MHz      10588 s          0 s       1096 s      30741 s          0 s
       #3  2653 MHz      12888 s          0 s       1246 s      28307 s          0 s
       #4  2617 MHz       9083 s          0 s       1118 s      32219 s          0 s
  Memory: 15.606487274169922 GB (13107.38671875 MB free)
  Uptime: 4254.19 sec
  Load Avg:  1.0  1.01  1.0
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 4 virtual cores)

Target result

Benchmark Report for /home/runner/work/Rt-without-renewal/Rt-without-renewal

Job Properties

  • Time of benchmark: 22 Jul 2024 - 15:58
  • Package commit: 899186
  • Julia commit: 48d4fd
  • Julia command flags: None
  • Environment variables: None

Results

Below is a table of this job's results, obtained by running the benchmarks.
The values listed in the ID column have the structure [parent_group, child_group, ..., key], and can be used to
index into the BaseBenchmarks suite to retrieve the corresponding benchmarks.
The percentages accompanying time and memory values in the below table are noise tolerances. The "true"
time/memory value for a given benchmark is expected to fall within this percentage of the reported value.
An empty cell means that the value was zero.

ID time GC time memory allocations
["EpiAwareUtils", "censored_pmf"] 1.090 μs (5%) 352 bytes (1%) 4
["EpiInfModels", "DirectInfections", "evaluation", "linked"] 303.172 ns (5%) 432 bytes (1%) 7
["EpiInfModels", "DirectInfections", "evaluation", "standard"] 305.276 ns (5%) 432 bytes (1%) 7
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 453.442 ns (5%) 784 bytes (1%) 13
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 464.472 ns (5%) 784 bytes (1%) 13
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 9.569 μs (5%) 5.62 KiB (1%) 115
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.528 μs (5%) 5.62 KiB (1%) 115
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 548.893 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 561.108 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "ExpGrowthRate", "evaluation", "linked"] 212.971 ns (5%) 256 bytes (1%) 4
["EpiInfModels", "ExpGrowthRate", "evaluation", "standard"] 211.967 ns (5%) 256 bytes (1%) 4
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 320.557 ns (5%) 512 bytes (1%) 9
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 317.618 ns (5%) 512 bytes (1%) 9
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 9.497 μs (5%) 5.64 KiB (1%) 114
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.428 μs (5%) 5.64 KiB (1%) 114
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 553.462 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 563.514 ns (5%) 272 bytes (1%) 6
["EpiLatentModels", "AR", "evaluation", "linked"] 2.202 μs (5%) 3.84 KiB (1%) 45
["EpiLatentModels", "AR", "evaluation", "standard"] 1.714 μs (5%) 2.80 KiB (1%) 38
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.735 μs (5%) 11.69 KiB (1%) 55
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 3.285 μs (5%) 10.12 KiB (1%) 46
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 107.031 μs (5%) 55.31 KiB (1%) 1113
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 75.352 μs (5%) 40.64 KiB (1%) 818
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 17.273 μs (5%) 8.44 KiB (1%) 225
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 15.880 μs (5%) 7.31 KiB (1%) 207
["EpiLatentModels", "BroadcastLatentModel", "evaluation", "linked"] 1.563 μs (5%) 3.05 KiB (1%) 34
["EpiLatentModels", "BroadcastLatentModel", "evaluation", "standard"] 1.343 μs (5%) 2.17 KiB (1%) 30
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.100 μs (5%) 5.16 KiB (1%) 41
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.013 μs (5%) 4.28 KiB (1%) 37
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 51.637 μs (5%) 24.41 KiB (1%) 447
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 30.136 μs (5%) 16.86 KiB (1%) 333
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.984 μs (5%) 1.00 KiB (1%) 27
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.733 μs (5%) 1.00 KiB (1%) 27
["EpiLatentModels", "CombineLatentModels", "evaluation", "linked"] 64.100 μs (5%) 52.27 KiB (1%) 580
["EpiLatentModels", "CombineLatentModels", "evaluation", "standard"] 59.472 μs (5%) 37.69 KiB (1%) 536
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 132.909 μs (5%) 119.19 KiB (1%) 1184
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 122.761 μs (5%) 89.31 KiB (1%) 1092
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 198.813 μs (5%) 107.81 KiB (1%) 1710
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 152.506 μs (5%) 79.61 KiB (1%) 1378
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 17.924 μs (5%) 8.58 KiB (1%) 226
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 16.321 μs (5%) 7.45 KiB (1%) 208
["EpiLatentModels", "ConcatLatentModels", "evaluation", "linked"] 16.180 μs (5%) 30.39 KiB (1%) 214
["EpiLatentModels", "ConcatLatentModels", "evaluation", "standard"] 9.548 μs (5%) 21.95 KiB (1%) 184
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 24.195 μs (5%) 34.09 KiB (1%) 224
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 11.281 μs (5%) 25.66 KiB (1%) 194
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 75.973 μs (5%) 56.38 KiB (1%) 719
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 55.374 μs (5%) 42.72 KiB (1%) 580
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.245 μs (5%) 2.19 KiB (1%) 52
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.928 μs (5%) 2.19 KiB (1%) 52
["EpiLatentModels", "DiffLatentModel", "evaluation", "linked"] 2.962 μs (5%) 4.17 KiB (1%) 37
["EpiLatentModels", "DiffLatentModel", "evaluation", "standard"] 1.394 μs (5%) 2.48 KiB (1%) 31
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.756 μs (5%) 12.62 KiB (1%) 45
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.917 μs (5%) 10.94 KiB (1%) 39
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 62.988 μs (5%) 38.81 KiB (1%) 748
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 44.484 μs (5%) 31.91 KiB (1%) 633
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.883 μs (5%) 2.22 KiB (1%) 51
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 6.424 μs (5%) 2.22 KiB (1%) 51
["EpiLatentModels", "HierarchicalNormal", "evaluation", "linked"] 430.404 ns (5%) 1.00 KiB (1%) 8
["EpiLatentModels", "HierarchicalNormal", "evaluation", "standard"] 364.302 ns (5%) 864 bytes (1%) 7
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.740 μs (5%) 5.28 KiB (1%) 14
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.165 μs (5%) 5.12 KiB (1%) 13
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 43.592 μs (5%) 19.83 KiB (1%) 376
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 27.041 μs (5%) 14.45 KiB (1%) 266
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.265 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.079 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "Intercept", "evaluation", "linked"] 247.890 ns (5%) 336 bytes (1%) 5
["EpiLatentModels", "Intercept", "evaluation", "standard"] 247.070 ns (5%) 336 bytes (1%) 5
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 353.503 ns (5%) 640 bytes (1%) 10
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 355.139 ns (5%) 640 bytes (1%) 10
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 4.287 μs (5%) 3.53 KiB (1%) 76
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 4.334 μs (5%) 3.53 KiB (1%) 76
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 466.694 ns (5%) 240 bytes (1%) 3
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 471.087 ns (5%) 240 bytes (1%) 3
["EpiLatentModels", "PrefixLatentModel", "evaluation", "linked"] 1.827 μs (5%) 3.47 KiB (1%) 30
["EpiLatentModels", "PrefixLatentModel", "evaluation", "standard"] 1.697 μs (5%) 3.00 KiB (1%) 27
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.794 μs (5%) 7.75 KiB (1%) 36
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.438 μs (5%) 7.28 KiB (1%) 33
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 45.165 μs (5%) 22.16 KiB (1%) 397
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 29.916 μs (5%) 16.47 KiB (1%) 285
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.267 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.071 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "RandomWalk", "evaluation", "linked"] 915.048 ns (5%) 1.86 KiB (1%) 18
["EpiLatentModels", "RandomWalk", "evaluation", "standard"] 796.252 ns (5%) 1.42 KiB (1%) 16
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.173 μs (5%) 8.73 KiB (1%) 25
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.984 μs (5%) 8.30 KiB (1%) 23
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 50.444 μs (5%) 26.19 KiB (1%) 487
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 31.148 μs (5%) 20.53 KiB (1%) 376
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 3.629 μs (5%) 1.31 KiB (1%) 27
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 3.393 μs (5%) 1.31 KiB (1%) 27
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "linked"] 623.613 ns (5%) 1.19 KiB (1%) 12
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "standard"] 489.535 ns (5%) 896 bytes (1%) 10
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 813.442 ns (5%) 1.72 KiB (1%) 18
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 684.649 ns (5%) 1.41 KiB (1%) 16
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 43.562 μs (5%) 19.08 KiB (1%) 380
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 27.913 μs (5%) 13.55 KiB (1%) 269
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.180 μs (5%) 400 bytes (1%) 11
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.004 μs (5%) 400 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "evaluation", "linked"] 311.778 ns (5%) 384 bytes (1%) 6
["EpiLatentModels", "TransformLatentModel", "evaluation", "standard"] 311.046 ns (5%) 384 bytes (1%) 6
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 429.849 ns (5%) 704 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 426.995 ns (5%) 704 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 4.706 μs (5%) 3.84 KiB (1%) 81
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 4.646 μs (5%) 3.84 KiB (1%) 81
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 544.378 ns (5%) 192 bytes (1%) 3
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 549.909 ns (5%) 192 bytes (1%) 3
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "linked"] 2.092 μs (5%) 4.16 KiB (1%) 44
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "standard"] 1.728 μs (5%) 2.84 KiB (1%) 38
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.992 μs (5%) 10.00 KiB (1%) 51
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.708 μs (5%) 8.69 KiB (1%) 45
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 64.521 μs (5%) 35.58 KiB (1%) 689
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 44.724 μs (5%) 29.05 KiB (1%) 574
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.031 μs (5%) 1.22 KiB (1%) 27
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.906 μs (5%) 1.22 KiB (1%) 27
["EpiLatentModels", "broadcast_weekly", "evaluation", "linked"] 2.423 μs (5%) 4.52 KiB (1%) 47
["EpiLatentModels", "broadcast_weekly", "evaluation", "standard"] 1.837 μs (5%) 2.62 KiB (1%) 37
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.087 μs (5%) 7.69 KiB (1%) 57
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 3.281 μs (5%) 5.53 KiB (1%) 45
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 87.334 μs (5%) 41.95 KiB (1%) 771
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 50.034 μs (5%) 28.44 KiB (1%) 513
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.464 μs (5%) 1.81 KiB (1%) 49
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.669 μs (5%) 1.69 KiB (1%) 47
["EpiObsModels", "Ascertainment", "evaluation", "linked"] 3.554 μs (5%) 3.42 KiB (1%) 49
["EpiObsModels", "Ascertainment", "evaluation", "standard"] 3.449 μs (5%) 3.42 KiB (1%) 49
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 4.495 μs (5%) 3.77 KiB (1%) 56
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 4.307 μs (5%) 3.77 KiB (1%) 56
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 51.136 μs (5%) 41.55 KiB (1%) 965
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 35.727 μs (5%) 36.33 KiB (1%) 856
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.868 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.594 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "LatentDelay", "evaluation", "linked"] 18.274 μs (5%) 22.14 KiB (1%) 206
["EpiObsModels", "LatentDelay", "evaluation", "standard"] 18.114 μs (5%) 22.14 KiB (1%) 206
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 22.843 μs (5%) 22.36 KiB (1%) 211
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 22.321 μs (5%) 22.36 KiB (1%) 211
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 303.159 μs (5%) 317.86 KiB (1%) 7386
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 280.858 μs (5%) 312.64 KiB (1%) 7277
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 51.477 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 52.249 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "NegativeBinomialError", "evaluation", "linked"] 1.224 μs (5%) 336 bytes (1%) 5
["EpiObsModels", "NegativeBinomialError", "evaluation", "standard"] 1.198 μs (5%) 336 bytes (1%) 5
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.798 μs (5%) 560 bytes (1%) 10
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.768 μs (5%) 560 bytes (1%) 10
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 47.089 μs (5%) 38.83 KiB (1%) 959
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 31.609 μs (5%) 33.61 KiB (1%) 850
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.997 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.614 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "PoissonError", "evaluation", "linked"] 1.558 μs (5%) 1.80 KiB (1%) 22
["EpiObsModels", "PoissonError", "evaluation", "standard"] 1.227 μs (5%) 1.38 KiB (1%) 18
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.359 μs (5%) 7.75 KiB (1%) 31
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.619 μs (5%) 4.52 KiB (1%) 25
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 142.166 μs (5%) 91.00 KiB (1%) 1913
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 26.179 μs (5%) 29.25 KiB (1%) 712
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 7.300 μs (5%) 176 bytes (1%) 2
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.378 μs (5%) 176 bytes (1%) 2
["EpiObsModels", "PrefixObservationModel", "evaluation", "linked"] 1.716 μs (5%) 1.44 KiB (1%) 26
["EpiObsModels", "PrefixObservationModel", "evaluation", "standard"] 1.686 μs (5%) 1.44 KiB (1%) 26
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.909 μs (5%) 1.66 KiB (1%) 31
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.857 μs (5%) 1.66 KiB (1%) 31
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 23.323 μs (5%) 13.16 KiB (1%) 289
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 8.696 μs (5%) 7.94 KiB (1%) 180
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.304 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.070 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "StackObservationModels", "evaluation", "linked"] 7.096 μs (5%) 5.48 KiB (1%) 93
["EpiObsModels", "StackObservationModels", "evaluation", "standard"] 7.083 μs (5%) 5.48 KiB (1%) 93
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 8.032 μs (5%) 5.83 KiB (1%) 100
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 7.965 μs (5%) 5.83 KiB (1%) 100
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 61.004 μs (5%) 51.73 KiB (1%) 1080
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 42.880 μs (5%) 46.52 KiB (1%) 971
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.334 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 6.090 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "ascertainment_dayofweek", "evaluation", "linked"] 4.609 μs (5%) 8.88 KiB (1%) 75
["EpiObsModels", "ascertainment_dayofweek", "evaluation", "standard"] 4.574 μs (5%) 7.62 KiB (1%) 67
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 5.795 μs (5%) 15.88 KiB (1%) 83
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 5.584 μs (5%) 14.62 KiB (1%) 75
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 85.631 μs (5%) 60.41 KiB (1%) 1139
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 65.703 μs (5%) 53.94 KiB (1%) 1022
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.694 μs (5%) 544 bytes (1%) 11
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.592 μs (5%) 544 bytes (1%) 11
["EpiObsModels", "observation_error", "missing obs", "evaluation", "linked"] 1.624 μs (5%) 2.97 KiB (1%) 31
["EpiObsModels", "observation_error", "missing obs", "evaluation", "standard"] 1.274 μs (5%) 1.41 KiB (1%) 21
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.320 μs (5%) 4.03 KiB (1%) 38
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.998 μs (5%) 2.47 KiB (1%) 28
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 30.888 μs (5%) 24.73 KiB (1%) 490
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 14.297 μs (5%) 17.28 KiB (1%) 352
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.283 μs (5%) 144 bytes (1%) 2
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.032 μs (5%) 144 bytes (1%) 2
["EpiObsModels", "observation_error", "no missing obs", "evaluation", "linked"] 451.859 ns (5%) 288 bytes (1%) 5
["EpiObsModels", "observation_error", "no missing obs", "evaluation", "standard"] 417.135 ns (5%) 288 bytes (1%) 5
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 587.453 ns (5%) 512 bytes (1%) 10
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 539.053 ns (5%) 512 bytes (1%) 10
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 24.747 μs (5%) 18.72 KiB (1%) 414
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 11.792 μs (5%) 12.83 KiB (1%) 286
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.961 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.683 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "linked"] 2.260 μs (5%) 2.05 KiB (1%) 27
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "standard"] 1.731 μs (5%) 1.73 KiB (1%) 25
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.932 μs (5%) 2.22 KiB (1%) 26
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.752 μs (5%) 1.91 KiB (1%) 24
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 41.037 μs (5%) 23.89 KiB (1%) 499
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 24.275 μs (5%) 17.69 KiB (1%) 369
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.334 μs (5%) 112 bytes (1%) 2
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.098 μs (5%) 112 bytes (1%) 2

Benchmark Group List

Here's a list of all the benchmark groups executed by this job:

  • ["EpiAwareUtils"]
  • ["EpiInfModels", "DirectInfections", "evaluation"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiInfModels", "ExpGrowthRate", "evaluation"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "AR", "evaluation"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "evaluation"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "CombineLatentModels", "evaluation"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "ConcatLatentModels", "evaluation"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "DiffLatentModel", "evaluation"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "HierarchicalNormal", "evaluation"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "Intercept", "evaluation"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "PrefixLatentModel", "evaluation"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RandomWalk", "evaluation"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "evaluation"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "TransformLatentModel", "evaluation"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "evaluation"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_weekly", "evaluation"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "Ascertainment", "evaluation"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "LatentDelay", "evaluation"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "NegativeBinomialError", "evaluation"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PoissonError", "evaluation"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PrefixObservationModel", "evaluation"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "StackObservationModels", "evaluation"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "evaluation"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]

Julia versioninfo

Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-04 10:41 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
      Ubuntu 22.04.4 LTS
  uname: Linux 6.5.0-1023-azure #24~22.04.1-Ubuntu SMP Wed Jun 12 19:55:26 UTC 2024 x86_64 x86_64
  CPU: AMD EPYC 7763 64-Core Processor: 
              speed         user         nice          sys         idle          irq
       #1  3244 MHz       8462 s          0 s        748 s      15042 s          0 s
       #2  2445 MHz       6419 s          0 s        630 s      17204 s          0 s
       #3  2825 MHz       8356 s          0 s        798 s      15113 s          0 s
       #4  3142 MHz       6300 s          0 s        712 s      17240 s          0 s
  Memory: 15.606487274169922 GB (13351.0 MB free)
  Uptime: 2433.01 sec
  Load Avg:  1.0  1.02  1.06
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 4 virtual cores)

Baseline result

Benchmark Report for /home/runner/work/Rt-without-renewal/Rt-without-renewal

Job Properties

  • Time of benchmark: 22 Jul 2024 - 16:29
  • Package commit: cc8e0d
  • Julia commit: 48d4fd
  • Julia command flags: None
  • Environment variables: None

Results

Below is a table of this job's results, obtained by running the benchmarks.
The values listed in the ID column have the structure [parent_group, child_group, ..., key], and can be used to
index into the BaseBenchmarks suite to retrieve the corresponding benchmarks.
The percentages accompanying time and memory values in the below table are noise tolerances. The "true"
time/memory value for a given benchmark is expected to fall within this percentage of the reported value.
An empty cell means that the value was zero.

ID time GC time memory allocations
["EpiAwareUtils", "censored_pmf"] 1.090 μs (5%) 352 bytes (1%) 4
["EpiInfModels", "DirectInfections", "evaluation", "linked"] 306.212 ns (5%) 432 bytes (1%) 7
["EpiInfModels", "DirectInfections", "evaluation", "standard"] 319.469 ns (5%) 432 bytes (1%) 7
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 471.697 ns (5%) 784 bytes (1%) 13
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 470.680 ns (5%) 784 bytes (1%) 13
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 9.668 μs (5%) 5.62 KiB (1%) 115
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.698 μs (5%) 5.62 KiB (1%) 115
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 561.543 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 575.284 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "ExpGrowthRate", "evaluation", "linked"] 212.568 ns (5%) 256 bytes (1%) 4
["EpiInfModels", "ExpGrowthRate", "evaluation", "standard"] 212.828 ns (5%) 256 bytes (1%) 4
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 309.639 ns (5%) 512 bytes (1%) 9
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 311.014 ns (5%) 512 bytes (1%) 9
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 9.778 μs (5%) 5.64 KiB (1%) 114
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.829 μs (5%) 5.64 KiB (1%) 114
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 577.749 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 565.630 ns (5%) 272 bytes (1%) 6
["EpiLatentModels", "AR", "evaluation", "linked"] 2.072 μs (5%) 3.84 KiB (1%) 45
["EpiLatentModels", "AR", "evaluation", "standard"] 1.648 μs (5%) 2.80 KiB (1%) 38
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.424 μs (5%) 11.69 KiB (1%) 55
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.914 μs (5%) 10.12 KiB (1%) 46
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 108.574 μs (5%) 55.31 KiB (1%) 1113
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 70.021 μs (5%) 40.64 KiB (1%) 818
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 17.062 μs (5%) 8.44 KiB (1%) 225
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 15.580 μs (5%) 7.31 KiB (1%) 207
["EpiLatentModels", "BroadcastLatentModel", "evaluation", "linked"] 1.572 μs (5%) 3.05 KiB (1%) 34
["EpiLatentModels", "BroadcastLatentModel", "evaluation", "standard"] 1.307 μs (5%) 2.17 KiB (1%) 30
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.035 μs (5%) 5.16 KiB (1%) 41
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.721 μs (5%) 4.28 KiB (1%) 37
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.948 μs (5%) 24.41 KiB (1%) 447
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 29.065 μs (5%) 16.86 KiB (1%) 333
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.992 μs (5%) 1.00 KiB (1%) 27
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.717 μs (5%) 1.00 KiB (1%) 27
["EpiLatentModels", "CombineLatentModels", "evaluation", "linked"] 63.920 μs (5%) 52.27 KiB (1%) 580
["EpiLatentModels", "CombineLatentModels", "evaluation", "standard"] 58.460 μs (5%) 37.69 KiB (1%) 536
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 129.032 μs (5%) 119.19 KiB (1%) 1184
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 122.470 μs (5%) 89.31 KiB (1%) 1092
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 195.577 μs (5%) 107.81 KiB (1%) 1710
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 148.018 μs (5%) 79.61 KiB (1%) 1378
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 17.963 μs (5%) 8.58 KiB (1%) 226
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 16.110 μs (5%) 7.45 KiB (1%) 208
["EpiLatentModels", "ConcatLatentModels", "evaluation", "linked"] 13.245 μs (5%) 30.39 KiB (1%) 214
["EpiLatentModels", "ConcatLatentModels", "evaluation", "standard"] 9.047 μs (5%) 21.95 KiB (1%) 184
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 14.156 μs (5%) 34.09 KiB (1%) 224
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 10.490 μs (5%) 25.66 KiB (1%) 194
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 74.359 μs (5%) 56.38 KiB (1%) 719
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 54.623 μs (5%) 42.72 KiB (1%) 580
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.133 μs (5%) 2.19 KiB (1%) 52
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.877 μs (5%) 2.19 KiB (1%) 52
["EpiLatentModels", "DiffLatentModel", "evaluation", "linked"] 1.902 μs (5%) 4.17 KiB (1%) 37
["EpiLatentModels", "DiffLatentModel", "evaluation", "standard"] 1.373 μs (5%) 2.48 KiB (1%) 31
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.944 μs (5%) 12.62 KiB (1%) 45
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.772 μs (5%) 10.94 KiB (1%) 39
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 61.625 μs (5%) 38.81 KiB (1%) 748
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 44.904 μs (5%) 31.91 KiB (1%) 633
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.793 μs (5%) 2.22 KiB (1%) 51
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 6.537 μs (5%) 2.22 KiB (1%) 51
["EpiLatentModels", "HierarchicalNormal", "evaluation", "linked"] 427.111 ns (5%) 1.00 KiB (1%) 8
["EpiLatentModels", "HierarchicalNormal", "evaluation", "standard"] 381.623 ns (5%) 864 bytes (1%) 7
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 949.800 ns (5%) 5.28 KiB (1%) 14
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 873.600 ns (5%) 5.12 KiB (1%) 13
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 42.670 μs (5%) 19.83 KiB (1%) 376
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 27.932 μs (5%) 14.45 KiB (1%) 266
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.251 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.057 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "Intercept", "evaluation", "linked"] 249.400 ns (5%) 336 bytes (1%) 5
["EpiLatentModels", "Intercept", "evaluation", "standard"] 249.673 ns (5%) 336 bytes (1%) 5
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 346.851 ns (5%) 640 bytes (1%) 10
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 349.197 ns (5%) 640 bytes (1%) 10
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 4.473 μs (5%) 3.53 KiB (1%) 76
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 4.483 μs (5%) 3.53 KiB (1%) 76
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 476.964 ns (5%) 240 bytes (1%) 3
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 471.189 ns (5%) 240 bytes (1%) 3
["EpiLatentModels", "PrefixLatentModel", "evaluation", "linked"] 1.843 μs (5%) 3.47 KiB (1%) 30
["EpiLatentModels", "PrefixLatentModel", "evaluation", "standard"] 1.687 μs (5%) 3.00 KiB (1%) 27
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.557 μs (5%) 7.75 KiB (1%) 36
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.420 μs (5%) 7.28 KiB (1%) 33
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.057 μs (5%) 22.16 KiB (1%) 397
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 29.755 μs (5%) 16.47 KiB (1%) 285
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.252 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.053 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "RandomWalk", "evaluation", "linked"] 884.700 ns (5%) 1.86 KiB (1%) 18
["EpiLatentModels", "RandomWalk", "evaluation", "standard"] 783.902 ns (5%) 1.42 KiB (1%) 16
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.908 μs (5%) 8.73 KiB (1%) 25
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.738 μs (5%) 8.30 KiB (1%) 23
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 47.328 μs (5%) 26.19 KiB (1%) 487
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 31.248 μs (5%) 20.53 KiB (1%) 376
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 3.628 μs (5%) 1.31 KiB (1%) 27
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 3.331 μs (5%) 1.31 KiB (1%) 27
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "linked"] 587.500 ns (5%) 1.19 KiB (1%) 12
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "standard"] 489.184 ns (5%) 896 bytes (1%) 10
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 816.049 ns (5%) 1.72 KiB (1%) 18
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 679.725 ns (5%) 1.41 KiB (1%) 16
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 43.041 μs (5%) 19.08 KiB (1%) 380
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 27.161 μs (5%) 13.55 KiB (1%) 269
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.172 μs (5%) 400 bytes (1%) 11
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 988.800 ns (5%) 400 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "evaluation", "linked"] 311.674 ns (5%) 384 bytes (1%) 6
["EpiLatentModels", "TransformLatentModel", "evaluation", "standard"] 310.451 ns (5%) 384 bytes (1%) 6
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 404.310 ns (5%) 704 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 404.578 ns (5%) 704 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 4.752 μs (5%) 3.84 KiB (1%) 81
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 4.729 μs (5%) 3.84 KiB (1%) 81
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 533.757 ns (5%) 192 bytes (1%) 3
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 528.200 ns (5%) 192 bytes (1%) 3
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "linked"] 2.455 μs (5%) 4.16 KiB (1%) 44
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "standard"] 1.646 μs (5%) 2.84 KiB (1%) 38
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.904 μs (5%) 10.00 KiB (1%) 51
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.470 μs (5%) 8.69 KiB (1%) 45
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 60.844 μs (5%) 35.58 KiB (1%) 689
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 41.558 μs (5%) 29.05 KiB (1%) 574
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.143 μs (5%) 1.22 KiB (1%) 27
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.888 μs (5%) 1.22 KiB (1%) 27
["EpiLatentModels", "broadcast_weekly", "evaluation", "linked"] 2.254 μs (5%) 4.52 KiB (1%) 47
["EpiLatentModels", "broadcast_weekly", "evaluation", "standard"] 1.658 μs (5%) 2.62 KiB (1%) 37
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.023 μs (5%) 7.69 KiB (1%) 57
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.686 μs (5%) 5.53 KiB (1%) 45
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 86.652 μs (5%) 41.95 KiB (1%) 771
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 48.421 μs (5%) 28.44 KiB (1%) 513
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.302 μs (5%) 1.81 KiB (1%) 49
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.682 μs (5%) 1.69 KiB (1%) 47
["EpiObsModels", "Ascertainment", "evaluation", "linked"] 3.448 μs (5%) 3.42 KiB (1%) 49
["EpiObsModels", "Ascertainment", "evaluation", "standard"] 3.416 μs (5%) 3.42 KiB (1%) 49
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 4.324 μs (5%) 3.77 KiB (1%) 56
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 4.238 μs (5%) 3.77 KiB (1%) 56
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 49.854 μs (5%) 41.55 KiB (1%) 965
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 34.555 μs (5%) 36.33 KiB (1%) 856
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.989 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.701 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "LatentDelay", "evaluation", "linked"] 29.756 μs (5%) 29.86 KiB (1%) 410
["EpiObsModels", "LatentDelay", "evaluation", "standard"] 29.485 μs (5%) 29.86 KiB (1%) 410
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 31.589 μs (5%) 32.09 KiB (1%) 316
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 29.305 μs (5%) 32.09 KiB (1%) 316
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 569.239 μs (5%) 371.16 KiB (1%) 8659
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 541.306 μs (5%) 365.94 KiB (1%) 8550
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 52.209 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 53.862 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "NegativeBinomialError", "evaluation", "linked"] 1.203 μs (5%) 336 bytes (1%) 5
["EpiObsModels", "NegativeBinomialError", "evaluation", "standard"] 1.185 μs (5%) 336 bytes (1%) 5
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.813 μs (5%) 560 bytes (1%) 10
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.749 μs (5%) 560 bytes (1%) 10
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.026 μs (5%) 38.83 KiB (1%) 959
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 31.419 μs (5%) 33.61 KiB (1%) 850
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.777 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.646 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "PoissonError", "evaluation", "linked"] 1.577 μs (5%) 1.80 KiB (1%) 22
["EpiObsModels", "PoissonError", "evaluation", "standard"] 1.235 μs (5%) 1.38 KiB (1%) 18
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.310 μs (5%) 7.75 KiB (1%) 31
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.609 μs (5%) 4.52 KiB (1%) 25
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 146.726 μs (5%) 91.00 KiB (1%) 1913
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 26.139 μs (5%) 29.25 KiB (1%) 712
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 7.330 μs (5%) 176 bytes (1%) 2
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.311 μs (5%) 176 bytes (1%) 2
["EpiObsModels", "PrefixObservationModel", "evaluation", "linked"] 1.685 μs (5%) 1.44 KiB (1%) 26
["EpiObsModels", "PrefixObservationModel", "evaluation", "standard"] 1.664 μs (5%) 1.44 KiB (1%) 26
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.907 μs (5%) 1.66 KiB (1%) 31
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.853 μs (5%) 1.66 KiB (1%) 31
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 23.805 μs (5%) 13.27 KiB (1%) 291
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.228 μs (5%) 8.05 KiB (1%) 182
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.333 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.103 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "StackObservationModels", "evaluation", "linked"] 7.116 μs (5%) 5.48 KiB (1%) 93
["EpiObsModels", "StackObservationModels", "evaluation", "standard"] 7.043 μs (5%) 5.48 KiB (1%) 93
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 8.095 μs (5%) 5.83 KiB (1%) 100
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 9.511 μs (5%) 5.83 KiB (1%) 100
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 66.945 μs (5%) 51.73 KiB (1%) 1080
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 43.231 μs (5%) 46.52 KiB (1%) 971
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.582 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 6.286 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "ascertainment_dayofweek", "evaluation", "linked"] 4.504 μs (5%) 8.88 KiB (1%) 75
["EpiObsModels", "ascertainment_dayofweek", "evaluation", "standard"] 4.745 μs (5%) 7.62 KiB (1%) 67
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 5.939 μs (5%) 15.88 KiB (1%) 83
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 5.510 μs (5%) 14.62 KiB (1%) 75
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 82.605 μs (5%) 60.41 KiB (1%) 1139
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 64.050 μs (5%) 53.94 KiB (1%) 1022
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.854 μs (5%) 544 bytes (1%) 11
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.587 μs (5%) 544 bytes (1%) 11
["EpiObsModels", "observation_error", "missing obs", "evaluation", "linked"] 1.434 μs (5%) 2.67 KiB (1%) 33
["EpiObsModels", "observation_error", "missing obs", "evaluation", "standard"] 954.629 ns (5%) 1.11 KiB (1%) 23
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.077 μs (5%) 3.56 KiB (1%) 39
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.425 μs (5%) 2.00 KiB (1%) 29
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 30.918 μs (5%) 24.22 KiB (1%) 486
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 14.247 μs (5%) 16.77 KiB (1%) 348
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.344 μs (5%) 144 bytes (1%) 2
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.064 μs (5%) 144 bytes (1%) 2
["EpiObsModels", "observation_error", "no missing obs", "evaluation", "linked"] 447.606 ns (5%) 288 bytes (1%) 5
["EpiObsModels", "observation_error", "no missing obs", "evaluation", "standard"] 409.115 ns (5%) 288 bytes (1%) 5
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 581.918 ns (5%) 512 bytes (1%) 10
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 538.723 ns (5%) 512 bytes (1%) 10
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 24.707 μs (5%) 18.72 KiB (1%) 414
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 10.880 μs (5%) 12.83 KiB (1%) 286
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.949 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.660 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "linked"] 1.903 μs (5%) 2.05 KiB (1%) 27
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "standard"] 1.932 μs (5%) 1.73 KiB (1%) 25
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.751 μs (5%) 2.22 KiB (1%) 26
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.537 μs (5%) 1.91 KiB (1%) 24
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 40.336 μs (5%) 23.89 KiB (1%) 499
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 23.344 μs (5%) 17.69 KiB (1%) 369
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.344 μs (5%) 112 bytes (1%) 2
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.038 μs (5%) 112 bytes (1%) 2

Benchmark Group List

Here's a list of all the benchmark groups executed by this job:

  • ["EpiAwareUtils"]
  • ["EpiInfModels", "DirectInfections", "evaluation"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiInfModels", "ExpGrowthRate", "evaluation"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "AR", "evaluation"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "evaluation"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "CombineLatentModels", "evaluation"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "ConcatLatentModels", "evaluation"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "DiffLatentModel", "evaluation"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "HierarchicalNormal", "evaluation"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "Intercept", "evaluation"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "PrefixLatentModel", "evaluation"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RandomWalk", "evaluation"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "evaluation"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "TransformLatentModel", "evaluation"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "evaluation"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_weekly", "evaluation"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "Ascertainment", "evaluation"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "LatentDelay", "evaluation"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "NegativeBinomialError", "evaluation"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PoissonError", "evaluation"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PrefixObservationModel", "evaluation"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "StackObservationModels", "evaluation"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "evaluation"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]

Julia versioninfo

Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-04 10:41 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
      Ubuntu 22.04.4 LTS
  uname: Linux 6.5.0-1023-azure #24~22.04.1-Ubuntu SMP Wed Jun 12 19:55:26 UTC 2024 x86_64 x86_64
  CPU: AMD EPYC 7763 64-Core Processor: 
              speed         user         nice          sys         idle          irq
       #1  2445 MHz      14120 s          0 s       1288 s      27016 s          0 s
       #2  3242 MHz      10588 s          0 s       1096 s      30741 s          0 s
       #3  2653 MHz      12888 s          0 s       1246 s      28307 s          0 s
       #4  2617 MHz       9083 s          0 s       1118 s      32219 s          0 s
  Memory: 15.606487274169922 GB (13107.38671875 MB free)
  Uptime: 4254.19 sec
  Load Avg:  1.0  1.01  1.0
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 4 virtual cores)

Runtime information

Runtime Info
BLAS #threads 2
BLAS.vendor() lbt
Sys.CPU_THREADS 4

lscpu output:

Architecture:                       x86_64
CPU op-mode(s):                     32-bit, 64-bit
Address sizes:                      48 bits physical, 48 bits virtual
Byte Order:                         Little Endian
CPU(s):                             4
On-line CPU(s) list:                0-3
Vendor ID:                          AuthenticAMD
Model name:                         AMD EPYC 7763 64-Core Processor
CPU family:                         25
Model:                              1
Thread(s) per core:                 2
Core(s) per socket:                 2
Socket(s):                          1
Stepping:                           1
BogoMIPS:                           4890.86
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 nopl tsc_reliable nonstop_tsc cpuid extd_apicid aperfmperf pni pclmulqdq ssse3 fma cx16 pcid sse4_1 sse4_2 movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm cmp_legacy svm cr8_legacy abm sse4a misalignsse 3dnowprefetch osvw topoext invpcid_single vmmcall fsgsbase bmi1 avx2 smep bmi2 erms invpcid rdseed adx smap clflushopt clwb sha_ni xsaveopt xsavec xgetbv1 xsaves clzero xsaveerptr rdpru arat npt nrip_save tsc_scale vmcb_clean flushbyasid decodeassists pausefilter pfthreshold v_vmsave_vmload umip vaes vpclmulqdq rdpid fsrm
Virtualization:                     AMD-V
Hypervisor vendor:                  Microsoft
Virtualization type:                full
L1d cache:                          64 KiB (2 instances)
L1i cache:                          64 KiB (2 instances)
L2 cache:                           1 MiB (2 instances)
L3 cache:                           32 MiB (1 instance)
NUMA node(s):                       1
NUMA node0 CPU(s):                  0-3
Vulnerability Gather data sampling: 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 Retbleed:             Not affected
Vulnerability Spec rstack overflow: Vulnerable: Safe RET, no microcode
Vulnerability Spec store bypass:    Vulnerable
Vulnerability Spectre v1:           Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2:           Mitigation; Retpolines; STIBP disabled; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds:                Not affected
Vulnerability Tsx async abort:      Not affected
Cpu Property Value
Brand AMD EPYC 7763 64-Core Processor
Vendor :AMD
Architecture :Unknown
Model Family: 0xaf, Model: 0x01, Stepping: 0x01, Type: 0x00
Cores 16 physical cores, 16 logical cores (on executing CPU)
No Hyperthreading hardware capability detected
Clock Frequencies Not supported by CPU
Data Cache Level 1:3 : (32, 512, 32768) kbytes
64 byte cache line size
Address Size 48 bits virtual, 48 bits physical
SIMD 256 bit = 32 byte max. SIMD vector size
Time Stamp Counter TSC is accessible via rdtsc
TSC runs at constant rate (invariant from clock frequency)
Perf. Monitoring Performance Monitoring Counters (PMC) are not supported
Hypervisor Yes, Microsoft

@seabbs seabbs mentioned this pull request Jul 22, 2024
Closed
@github-actions GitHub Actions
Copy link
Contributor

Benchmark result

Judge result

Benchmark Report for /home/runner/work/Rt-without-renewal/Rt-without-renewal

Job Properties

  • Time of benchmarks:
    • Target: 22 Jul 2024 - 16:59
    • Baseline: 22 Jul 2024 - 17:23
  • Package commits:
    • Target: 5a44c2
    • Baseline: d4d46d
  • Julia commits:
    • Target: 48d4fd
    • Baseline: 48d4fd
  • Julia command flags:
    • Target: None
    • Baseline: None
  • Environment variables:
    • Target: None
    • Baseline: None

Results

A ratio greater than 1.0 denotes a possible regression (marked with ❌), while a ratio less
than 1.0 denotes a possible improvement (marked with ✅). Only significant results - results
that indicate possible regressions or improvements - are shown below (thus, an empty table means that all
benchmark results remained invariant between builds).

ID time ratio memory ratio
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.07 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.06 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 0.66 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 0.95 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 0.94 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 0.93 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 0.88 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.06 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 0.95 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 0.94 (5%) ✅ 1.00 (1%)
["EpiObsModels", "LatentDelay", "evaluation", "linked"] 0.59 (5%) ✅ 0.74 (1%) ✅
["EpiObsModels", "LatentDelay", "evaluation", "standard"] 0.59 (5%) ✅ 0.74 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 0.70 (5%) ✅ 0.70 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 0.76 (5%) ✅ 0.70 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 0.53 (5%) ✅ 0.86 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 0.14 (5%) ✅ 0.56 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 0.87 (5%) ✅ 1.00 (1%)
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 0.90 (5%) ✅ 1.00 (1%)
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 1.06 (5%) ❌ 1.00 (1%)
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 0.86 (5%) ✅ 1.00 (1%)
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 1.01 (5%) 0.99 (1%) ✅
["EpiObsModels", "observation_error", "missing obs", "evaluation", "linked"] 1.07 (5%) ❌ 1.11 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "evaluation", "standard"] 1.12 (5%) ❌ 1.27 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.12 (5%) ❌ 1.13 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.18 (5%) ❌ 1.23 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 1.00 (5%) 1.02 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 0.98 (5%) 1.03 (1%) ❌

Benchmark Group List

Here's a list of all the benchmark groups executed by this job:

  • ["EpiAwareUtils"]
  • ["EpiInfModels", "DirectInfections", "evaluation"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiInfModels", "ExpGrowthRate", "evaluation"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "AR", "evaluation"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "evaluation"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "CombineLatentModels", "evaluation"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "ConcatLatentModels", "evaluation"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "DiffLatentModel", "evaluation"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "HierarchicalNormal", "evaluation"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "Intercept", "evaluation"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "PrefixLatentModel", "evaluation"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RandomWalk", "evaluation"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "evaluation"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "TransformLatentModel", "evaluation"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "evaluation"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_weekly", "evaluation"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "Ascertainment", "evaluation"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "LatentDelay", "evaluation"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "NegativeBinomialError", "evaluation"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PoissonError", "evaluation"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PrefixObservationModel", "evaluation"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "StackObservationModels", "evaluation"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "evaluation"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]

Julia versioninfo

Target

Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-04 10:41 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
      Ubuntu 22.04.4 LTS
  uname: Linux 6.5.0-1023-azure #24~22.04.1-Ubuntu SMP Wed Jun 12 19:55:26 UTC 2024 x86_64 x86_64
  CPU: AMD EPYC 7763 64-Core Processor: 
              speed         user         nice          sys         idle          irq
       #1  2445 MHz       3869 s          0 s        409 s      14230 s          0 s
       #2  3198 MHz       4792 s          0 s        500 s      13222 s          0 s
       #3  3243 MHz       4623 s          0 s        479 s      13414 s          0 s
       #4  3247 MHz       4246 s          0 s        469 s      13793 s          0 s
  Memory: 15.606487274169922 GB (13365.53515625 MB free)
  Uptime: 1856.93 sec
  Load Avg:  1.0  1.01  0.99
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 4 virtual cores)

Baseline

Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-04 10:41 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
      Ubuntu 22.04.4 LTS
  uname: Linux 6.5.0-1023-azure #24~22.04.1-Ubuntu SMP Wed Jun 12 19:55:26 UTC 2024 x86_64 x86_64
  CPU: AMD EPYC 7763 64-Core Processor: 
              speed         user         nice          sys         idle          irq
       #1  3244 MHz       8319 s          0 s        829 s      23462 s          0 s
       #2  2445 MHz       9174 s          0 s        876 s      22566 s          0 s
       #3  2445 MHz       7090 s          0 s        780 s      24746 s          0 s
       #4  2591 MHz       6137 s          0 s        774 s      25695 s          0 s
  Memory: 15.606487274169922 GB (13160.875 MB free)
  Uptime: 3269.49 sec
  Load Avg:  1.04  1.03  1.0
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 4 virtual cores)

Target result

Benchmark Report for /home/runner/work/Rt-without-renewal/Rt-without-renewal

Job Properties

  • Time of benchmark: 22 Jul 2024 - 16:59
  • Package commit: 5a44c2
  • Julia commit: 48d4fd
  • Julia command flags: None
  • Environment variables: None

Results

Below is a table of this job's results, obtained by running the benchmarks.
The values listed in the ID column have the structure [parent_group, child_group, ..., key], and can be used to
index into the BaseBenchmarks suite to retrieve the corresponding benchmarks.
The percentages accompanying time and memory values in the below table are noise tolerances. The "true"
time/memory value for a given benchmark is expected to fall within this percentage of the reported value.
An empty cell means that the value was zero.

ID time GC time memory allocations
["EpiAwareUtils", "censored_pmf"] 1.080 μs (5%) 352 bytes (1%) 4
["EpiInfModels", "DirectInfections", "evaluation", "linked"] 301.295 ns (5%) 432 bytes (1%) 7
["EpiInfModels", "DirectInfections", "evaluation", "standard"] 304.095 ns (5%) 432 bytes (1%) 7
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 440.672 ns (5%) 784 bytes (1%) 13
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 438.352 ns (5%) 784 bytes (1%) 13
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 9.518 μs (5%) 5.62 KiB (1%) 115
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.618 μs (5%) 5.62 KiB (1%) 115
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 569.592 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 563.844 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "ExpGrowthRate", "evaluation", "linked"] 212.767 ns (5%) 256 bytes (1%) 4
["EpiInfModels", "ExpGrowthRate", "evaluation", "standard"] 210.502 ns (5%) 256 bytes (1%) 4
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 307.172 ns (5%) 512 bytes (1%) 9
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 307.618 ns (5%) 512 bytes (1%) 9
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 9.368 μs (5%) 5.64 KiB (1%) 114
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.417 μs (5%) 5.64 KiB (1%) 114
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 564.853 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 553.599 ns (5%) 272 bytes (1%) 6
["EpiLatentModels", "AR", "evaluation", "linked"] 1.969 μs (5%) 3.84 KiB (1%) 45
["EpiLatentModels", "AR", "evaluation", "standard"] 1.602 μs (5%) 2.80 KiB (1%) 38
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.450 μs (5%) 11.69 KiB (1%) 55
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.884 μs (5%) 10.12 KiB (1%) 46
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 107.570 μs (5%) 55.31 KiB (1%) 1113
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 69.409 μs (5%) 40.64 KiB (1%) 818
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 17.302 μs (5%) 8.44 KiB (1%) 225
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 15.479 μs (5%) 7.31 KiB (1%) 207
["EpiLatentModels", "BroadcastLatentModel", "evaluation", "linked"] 1.557 μs (5%) 3.05 KiB (1%) 34
["EpiLatentModels", "BroadcastLatentModel", "evaluation", "standard"] 1.305 μs (5%) 2.17 KiB (1%) 30
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.149 μs (5%) 5.16 KiB (1%) 41
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.702 μs (5%) 4.28 KiB (1%) 37
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 45.555 μs (5%) 24.41 KiB (1%) 447
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 29.164 μs (5%) 16.86 KiB (1%) 333
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.993 μs (5%) 1.00 KiB (1%) 27
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.733 μs (5%) 1.00 KiB (1%) 27
["EpiLatentModels", "CombineLatentModels", "evaluation", "linked"] 62.877 μs (5%) 52.27 KiB (1%) 580
["EpiLatentModels", "CombineLatentModels", "evaluation", "standard"] 57.918 μs (5%) 37.69 KiB (1%) 536
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 128.699 μs (5%) 119.19 KiB (1%) 1184
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 121.296 μs (5%) 89.31 KiB (1%) 1092
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 192.158 μs (5%) 107.81 KiB (1%) 1710
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 144.830 μs (5%) 79.61 KiB (1%) 1378
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 17.824 μs (5%) 8.58 KiB (1%) 226
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 16.020 μs (5%) 7.45 KiB (1%) 208
["EpiLatentModels", "ConcatLatentModels", "evaluation", "linked"] 11.592 μs (5%) 30.39 KiB (1%) 214
["EpiLatentModels", "ConcatLatentModels", "evaluation", "standard"] 8.947 μs (5%) 21.95 KiB (1%) 184
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 13.766 μs (5%) 34.09 KiB (1%) 224
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 10.479 μs (5%) 25.66 KiB (1%) 194
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 72.986 μs (5%) 56.38 KiB (1%) 719
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 52.268 μs (5%) 42.72 KiB (1%) 580
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.243 μs (5%) 2.19 KiB (1%) 52
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.926 μs (5%) 2.19 KiB (1%) 52
["EpiLatentModels", "DiffLatentModel", "evaluation", "linked"] 1.713 μs (5%) 4.17 KiB (1%) 37
["EpiLatentModels", "DiffLatentModel", "evaluation", "standard"] 1.368 μs (5%) 2.48 KiB (1%) 31
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.064 μs (5%) 12.62 KiB (1%) 45
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.638 μs (5%) 10.94 KiB (1%) 39
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 58.929 μs (5%) 38.81 KiB (1%) 748
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 42.198 μs (5%) 31.91 KiB (1%) 633
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.988 μs (5%) 2.22 KiB (1%) 51
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 6.538 μs (5%) 2.22 KiB (1%) 51
["EpiLatentModels", "HierarchicalNormal", "evaluation", "linked"] 425.161 ns (5%) 1.00 KiB (1%) 8
["EpiLatentModels", "HierarchicalNormal", "evaluation", "standard"] 363.455 ns (5%) 864 bytes (1%) 7
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 947.800 ns (5%) 5.28 KiB (1%) 14
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 866.056 ns (5%) 5.12 KiB (1%) 13
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 41.968 μs (5%) 19.83 KiB (1%) 376
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 26.419 μs (5%) 14.45 KiB (1%) 266
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.233 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.049 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "Intercept", "evaluation", "linked"] 248.000 ns (5%) 336 bytes (1%) 5
["EpiLatentModels", "Intercept", "evaluation", "standard"] 247.326 ns (5%) 336 bytes (1%) 5
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 344.844 ns (5%) 640 bytes (1%) 10
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 344.738 ns (5%) 640 bytes (1%) 10
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 4.314 μs (5%) 3.53 KiB (1%) 76
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 4.276 μs (5%) 3.53 KiB (1%) 76
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 453.386 ns (5%) 240 bytes (1%) 3
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 454.299 ns (5%) 240 bytes (1%) 3
["EpiLatentModels", "PrefixLatentModel", "evaluation", "linked"] 1.833 μs (5%) 3.47 KiB (1%) 30
["EpiLatentModels", "PrefixLatentModel", "evaluation", "standard"] 1.672 μs (5%) 3.00 KiB (1%) 27
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.534 μs (5%) 7.75 KiB (1%) 36
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.438 μs (5%) 7.28 KiB (1%) 33
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.096 μs (5%) 22.16 KiB (1%) 397
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 30.276 μs (5%) 16.47 KiB (1%) 285
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.233 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.055 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "RandomWalk", "evaluation", "linked"] 899.742 ns (5%) 1.86 KiB (1%) 18
["EpiLatentModels", "RandomWalk", "evaluation", "standard"] 791.733 ns (5%) 1.42 KiB (1%) 16
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.704 μs (5%) 8.73 KiB (1%) 25
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.675 μs (5%) 8.30 KiB (1%) 23
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.737 μs (5%) 26.19 KiB (1%) 487
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 30.648 μs (5%) 20.53 KiB (1%) 376
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 3.582 μs (5%) 1.31 KiB (1%) 27
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 3.348 μs (5%) 1.31 KiB (1%) 27
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "linked"] 574.436 ns (5%) 1.19 KiB (1%) 12
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "standard"] 476.500 ns (5%) 896 bytes (1%) 10
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 803.400 ns (5%) 1.72 KiB (1%) 18
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 680.242 ns (5%) 1.41 KiB (1%) 16
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 43.160 μs (5%) 19.08 KiB (1%) 380
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 27.030 μs (5%) 13.55 KiB (1%) 269
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.153 μs (5%) 400 bytes (1%) 11
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 970.737 ns (5%) 400 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "evaluation", "linked"] 304.898 ns (5%) 384 bytes (1%) 6
["EpiLatentModels", "TransformLatentModel", "evaluation", "standard"] 305.488 ns (5%) 384 bytes (1%) 6
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 405.905 ns (5%) 704 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 404.455 ns (5%) 704 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 4.686 μs (5%) 3.84 KiB (1%) 81
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 4.600 μs (5%) 3.84 KiB (1%) 81
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 537.654 ns (5%) 192 bytes (1%) 3
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 529.832 ns (5%) 192 bytes (1%) 3
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "linked"] 2.023 μs (5%) 4.16 KiB (1%) 44
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "standard"] 1.641 μs (5%) 2.84 KiB (1%) 38
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.683 μs (5%) 10.00 KiB (1%) 51
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.470 μs (5%) 8.69 KiB (1%) 45
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 58.048 μs (5%) 35.58 KiB (1%) 689
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 40.826 μs (5%) 29.05 KiB (1%) 574
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 4.974 μs (5%) 1.22 KiB (1%) 27
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.869 μs (5%) 1.22 KiB (1%) 27
["EpiLatentModels", "broadcast_weekly", "evaluation", "linked"] 2.196 μs (5%) 4.52 KiB (1%) 47
["EpiLatentModels", "broadcast_weekly", "evaluation", "standard"] 1.733 μs (5%) 2.62 KiB (1%) 37
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.862 μs (5%) 7.69 KiB (1%) 57
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.231 μs (5%) 5.53 KiB (1%) 45
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 82.995 μs (5%) 41.95 KiB (1%) 771
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 46.977 μs (5%) 28.44 KiB (1%) 513
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.353 μs (5%) 1.81 KiB (1%) 49
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.636 μs (5%) 1.69 KiB (1%) 47
["EpiObsModels", "Ascertainment", "evaluation", "linked"] 3.405 μs (5%) 3.42 KiB (1%) 49
["EpiObsModels", "Ascertainment", "evaluation", "standard"] 3.389 μs (5%) 3.42 KiB (1%) 49
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 4.252 μs (5%) 3.77 KiB (1%) 56
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 4.161 μs (5%) 3.77 KiB (1%) 56
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 51.646 μs (5%) 41.55 KiB (1%) 965
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 34.354 μs (5%) 36.33 KiB (1%) 856
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.832 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.644 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "LatentDelay", "evaluation", "linked"] 17.202 μs (5%) 22.14 KiB (1%) 206
["EpiObsModels", "LatentDelay", "evaluation", "standard"] 17.182 μs (5%) 22.14 KiB (1%) 206
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 21.730 μs (5%) 22.36 KiB (1%) 211
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 21.651 μs (5%) 22.36 KiB (1%) 211
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 296.422 μs (5%) 317.86 KiB (1%) 7386
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 76.112 μs (5%) 204.36 KiB (1%) 4657
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 51.405 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 50.224 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "NegativeBinomialError", "evaluation", "linked"] 1.211 μs (5%) 336 bytes (1%) 5
["EpiObsModels", "NegativeBinomialError", "evaluation", "standard"] 1.190 μs (5%) 336 bytes (1%) 5
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.813 μs (5%) 560 bytes (1%) 10
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.740 μs (5%) 560 bytes (1%) 10
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.828 μs (5%) 38.83 KiB (1%) 959
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 31.850 μs (5%) 33.61 KiB (1%) 850
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.707 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.601 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "PoissonError", "evaluation", "linked"] 1.555 μs (5%) 1.80 KiB (1%) 22
["EpiObsModels", "PoissonError", "evaluation", "standard"] 1.219 μs (5%) 1.38 KiB (1%) 18
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.240 μs (5%) 7.75 KiB (1%) 31
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.488 μs (5%) 4.52 KiB (1%) 25
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 137.727 μs (5%) 91.00 KiB (1%) 1913
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 25.568 μs (5%) 29.25 KiB (1%) 712
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.244 μs (5%) 176 bytes (1%) 2
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.272 μs (5%) 176 bytes (1%) 2
["EpiObsModels", "PrefixObservationModel", "evaluation", "linked"] 1.706 μs (5%) 1.44 KiB (1%) 26
["EpiObsModels", "PrefixObservationModel", "evaluation", "standard"] 1.672 μs (5%) 1.44 KiB (1%) 26
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.885 μs (5%) 1.66 KiB (1%) 31
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.829 μs (5%) 1.66 KiB (1%) 31
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 23.374 μs (5%) 13.16 KiB (1%) 289
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 8.693 μs (5%) 7.94 KiB (1%) 180
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.308 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.074 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "StackObservationModels", "evaluation", "linked"] 7.159 μs (5%) 5.48 KiB (1%) 93
["EpiObsModels", "StackObservationModels", "evaluation", "standard"] 7.103 μs (5%) 5.48 KiB (1%) 93
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 8.008 μs (5%) 5.83 KiB (1%) 100
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 7.861 μs (5%) 5.83 KiB (1%) 100
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 59.942 μs (5%) 51.73 KiB (1%) 1080
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 41.678 μs (5%) 46.52 KiB (1%) 971
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.410 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 6.113 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "ascertainment_dayofweek", "evaluation", "linked"] 4.455 μs (5%) 8.88 KiB (1%) 75
["EpiObsModels", "ascertainment_dayofweek", "evaluation", "standard"] 4.322 μs (5%) 7.62 KiB (1%) 67
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 5.692 μs (5%) 15.88 KiB (1%) 83
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 5.308 μs (5%) 14.62 KiB (1%) 75
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 82.764 μs (5%) 60.41 KiB (1%) 1139
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 63.949 μs (5%) 53.94 KiB (1%) 1022
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.727 μs (5%) 544 bytes (1%) 11
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.495 μs (5%) 544 bytes (1%) 11
["EpiObsModels", "observation_error", "missing obs", "evaluation", "linked"] 1.568 μs (5%) 2.97 KiB (1%) 31
["EpiObsModels", "observation_error", "missing obs", "evaluation", "standard"] 1.032 μs (5%) 1.41 KiB (1%) 21
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.142 μs (5%) 4.03 KiB (1%) 38
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.629 μs (5%) 2.47 KiB (1%) 28
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 29.285 μs (5%) 24.73 KiB (1%) 490
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 13.885 μs (5%) 17.28 KiB (1%) 352
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.340 μs (5%) 144 bytes (1%) 2
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.038 μs (5%) 144 bytes (1%) 2
["EpiObsModels", "observation_error", "no missing obs", "evaluation", "linked"] 442.944 ns (5%) 288 bytes (1%) 5
["EpiObsModels", "observation_error", "no missing obs", "evaluation", "standard"] 407.760 ns (5%) 288 bytes (1%) 5
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 598.339 ns (5%) 512 bytes (1%) 10
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 546.201 ns (5%) 512 bytes (1%) 10
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 24.586 μs (5%) 18.72 KiB (1%) 414
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 10.880 μs (5%) 12.83 KiB (1%) 286
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.986 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.697 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "linked"] 1.814 μs (5%) 2.05 KiB (1%) 27
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "standard"] 1.640 μs (5%) 1.73 KiB (1%) 25
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.724 μs (5%) 2.22 KiB (1%) 26
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.518 μs (5%) 1.91 KiB (1%) 24
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 39.935 μs (5%) 23.89 KiB (1%) 499
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 23.404 μs (5%) 17.69 KiB (1%) 369
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.289 μs (5%) 112 bytes (1%) 2
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.023 μs (5%) 112 bytes (1%) 2

Benchmark Group List

Here's a list of all the benchmark groups executed by this job:

  • ["EpiAwareUtils"]
  • ["EpiInfModels", "DirectInfections", "evaluation"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiInfModels", "ExpGrowthRate", "evaluation"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "AR", "evaluation"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "evaluation"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "CombineLatentModels", "evaluation"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "ConcatLatentModels", "evaluation"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "DiffLatentModel", "evaluation"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "HierarchicalNormal", "evaluation"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "Intercept", "evaluation"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "PrefixLatentModel", "evaluation"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RandomWalk", "evaluation"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "evaluation"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "TransformLatentModel", "evaluation"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "evaluation"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_weekly", "evaluation"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "Ascertainment", "evaluation"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "LatentDelay", "evaluation"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "NegativeBinomialError", "evaluation"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PoissonError", "evaluation"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PrefixObservationModel", "evaluation"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "StackObservationModels", "evaluation"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "evaluation"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]

Julia versioninfo

Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-04 10:41 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
      Ubuntu 22.04.4 LTS
  uname: Linux 6.5.0-1023-azure #24~22.04.1-Ubuntu SMP Wed Jun 12 19:55:26 UTC 2024 x86_64 x86_64
  CPU: AMD EPYC 7763 64-Core Processor: 
              speed         user         nice          sys         idle          irq
       #1  2445 MHz       3869 s          0 s        409 s      14230 s          0 s
       #2  3198 MHz       4792 s          0 s        500 s      13222 s          0 s
       #3  3243 MHz       4623 s          0 s        479 s      13414 s          0 s
       #4  3247 MHz       4246 s          0 s        469 s      13793 s          0 s
  Memory: 15.606487274169922 GB (13365.53515625 MB free)
  Uptime: 1856.93 sec
  Load Avg:  1.0  1.01  0.99
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 4 virtual cores)

Baseline result

Benchmark Report for /home/runner/work/Rt-without-renewal/Rt-without-renewal

Job Properties

  • Time of benchmark: 22 Jul 2024 - 17:23
  • Package commit: d4d46d
  • Julia commit: 48d4fd
  • Julia command flags: None
  • Environment variables: None

Results

Below is a table of this job's results, obtained by running the benchmarks.
The values listed in the ID column have the structure [parent_group, child_group, ..., key], and can be used to
index into the BaseBenchmarks suite to retrieve the corresponding benchmarks.
The percentages accompanying time and memory values in the below table are noise tolerances. The "true"
time/memory value for a given benchmark is expected to fall within this percentage of the reported value.
An empty cell means that the value was zero.

ID time GC time memory allocations
["EpiAwareUtils", "censored_pmf"] 1.087 μs (5%) 352 bytes (1%) 4
["EpiInfModels", "DirectInfections", "evaluation", "linked"] 310.930 ns (5%) 432 bytes (1%) 7
["EpiInfModels", "DirectInfections", "evaluation", "standard"] 315.706 ns (5%) 432 bytes (1%) 7
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 443.789 ns (5%) 784 bytes (1%) 13
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 438.899 ns (5%) 784 bytes (1%) 13
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 9.387 μs (5%) 5.62 KiB (1%) 115
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.528 μs (5%) 5.62 KiB (1%) 115
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 574.951 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 573.571 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "ExpGrowthRate", "evaluation", "linked"] 218.389 ns (5%) 256 bytes (1%) 4
["EpiInfModels", "ExpGrowthRate", "evaluation", "standard"] 214.018 ns (5%) 256 bytes (1%) 4
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 311.938 ns (5%) 512 bytes (1%) 9
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 310.340 ns (5%) 512 bytes (1%) 9
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 9.487 μs (5%) 5.64 KiB (1%) 114
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.338 μs (5%) 5.64 KiB (1%) 114
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 564.351 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 566.189 ns (5%) 272 bytes (1%) 6
["EpiLatentModels", "AR", "evaluation", "linked"] 2.032 μs (5%) 3.84 KiB (1%) 45
["EpiLatentModels", "AR", "evaluation", "standard"] 1.643 μs (5%) 2.80 KiB (1%) 38
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.468 μs (5%) 11.69 KiB (1%) 55
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.888 μs (5%) 10.12 KiB (1%) 46
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 106.107 μs (5%) 55.31 KiB (1%) 1113
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 69.520 μs (5%) 40.64 KiB (1%) 818
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 17.143 μs (5%) 8.44 KiB (1%) 225
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 15.609 μs (5%) 7.31 KiB (1%) 207
["EpiLatentModels", "BroadcastLatentModel", "evaluation", "linked"] 1.556 μs (5%) 3.05 KiB (1%) 34
["EpiLatentModels", "BroadcastLatentModel", "evaluation", "standard"] 1.285 μs (5%) 2.17 KiB (1%) 30
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.003 μs (5%) 5.16 KiB (1%) 41
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.644 μs (5%) 4.28 KiB (1%) 37
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.417 μs (5%) 24.41 KiB (1%) 447
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 28.283 μs (5%) 16.86 KiB (1%) 333
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.947 μs (5%) 1.00 KiB (1%) 27
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.719 μs (5%) 1.00 KiB (1%) 27
["EpiLatentModels", "CombineLatentModels", "evaluation", "linked"] 64.650 μs (5%) 52.27 KiB (1%) 580
["EpiLatentModels", "CombineLatentModels", "evaluation", "standard"] 60.924 μs (5%) 37.69 KiB (1%) 536
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 133.068 μs (5%) 119.19 KiB (1%) 1184
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 127.066 μs (5%) 89.31 KiB (1%) 1092
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 190.585 μs (5%) 107.81 KiB (1%) 1710
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 148.377 μs (5%) 79.61 KiB (1%) 1378
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 17.653 μs (5%) 8.58 KiB (1%) 226
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 16.160 μs (5%) 7.45 KiB (1%) 208
["EpiLatentModels", "ConcatLatentModels", "evaluation", "linked"] 11.181 μs (5%) 30.39 KiB (1%) 214
["EpiLatentModels", "ConcatLatentModels", "evaluation", "standard"] 8.987 μs (5%) 21.95 KiB (1%) 184
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 13.034 μs (5%) 34.09 KiB (1%) 224
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 10.189 μs (5%) 25.66 KiB (1%) 194
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 76.353 μs (5%) 56.38 KiB (1%) 719
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 52.427 μs (5%) 42.72 KiB (1%) 580
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.163 μs (5%) 2.19 KiB (1%) 52
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.909 μs (5%) 2.19 KiB (1%) 52
["EpiLatentModels", "DiffLatentModel", "evaluation", "linked"] 1.751 μs (5%) 4.17 KiB (1%) 37
["EpiLatentModels", "DiffLatentModel", "evaluation", "standard"] 1.347 μs (5%) 2.48 KiB (1%) 31
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.037 μs (5%) 12.62 KiB (1%) 45
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.625 μs (5%) 10.94 KiB (1%) 39
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 60.974 μs (5%) 38.81 KiB (1%) 748
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 41.648 μs (5%) 31.91 KiB (1%) 633
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.799 μs (5%) 2.22 KiB (1%) 51
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 6.771 μs (5%) 2.22 KiB (1%) 51
["EpiLatentModels", "HierarchicalNormal", "evaluation", "linked"] 419.030 ns (5%) 1.00 KiB (1%) 8
["EpiLatentModels", "HierarchicalNormal", "evaluation", "standard"] 359.466 ns (5%) 864 bytes (1%) 7
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.430 μs (5%) 5.28 KiB (1%) 14
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 912.211 ns (5%) 5.12 KiB (1%) 13
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 42.799 μs (5%) 19.83 KiB (1%) 376
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 27.261 μs (5%) 14.45 KiB (1%) 266
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.273 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.070 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "Intercept", "evaluation", "linked"] 248.335 ns (5%) 336 bytes (1%) 5
["EpiLatentModels", "Intercept", "evaluation", "standard"] 248.351 ns (5%) 336 bytes (1%) 5
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 346.610 ns (5%) 640 bytes (1%) 10
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 347.829 ns (5%) 640 bytes (1%) 10
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 4.272 μs (5%) 3.53 KiB (1%) 76
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 4.314 μs (5%) 3.53 KiB (1%) 76
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 484.595 ns (5%) 240 bytes (1%) 3
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 490.400 ns (5%) 240 bytes (1%) 3
["EpiLatentModels", "PrefixLatentModel", "evaluation", "linked"] 1.893 μs (5%) 3.47 KiB (1%) 30
["EpiLatentModels", "PrefixLatentModel", "evaluation", "standard"] 1.732 μs (5%) 3.00 KiB (1%) 27
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.863 μs (5%) 7.75 KiB (1%) 36
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.301 μs (5%) 7.28 KiB (1%) 33
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 45.905 μs (5%) 22.16 KiB (1%) 397
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 29.165 μs (5%) 16.47 KiB (1%) 285
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.270 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.075 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "RandomWalk", "evaluation", "linked"] 902.415 ns (5%) 1.86 KiB (1%) 18
["EpiLatentModels", "RandomWalk", "evaluation", "standard"] 765.165 ns (5%) 1.42 KiB (1%) 16
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.795 μs (5%) 8.73 KiB (1%) 25
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.637 μs (5%) 8.30 KiB (1%) 23
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.396 μs (5%) 26.19 KiB (1%) 487
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 29.646 μs (5%) 20.53 KiB (1%) 376
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 3.682 μs (5%) 1.31 KiB (1%) 27
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 3.421 μs (5%) 1.31 KiB (1%) 27
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "linked"] 573.929 ns (5%) 1.19 KiB (1%) 12
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "standard"] 476.143 ns (5%) 896 bytes (1%) 10
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 798.451 ns (5%) 1.72 KiB (1%) 18
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 683.150 ns (5%) 1.41 KiB (1%) 16
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 42.248 μs (5%) 19.08 KiB (1%) 380
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 26.910 μs (5%) 13.55 KiB (1%) 269
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.208 μs (5%) 400 bytes (1%) 11
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 973.588 ns (5%) 400 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "evaluation", "linked"] 313.774 ns (5%) 384 bytes (1%) 6
["EpiLatentModels", "TransformLatentModel", "evaluation", "standard"] 308.087 ns (5%) 384 bytes (1%) 6
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 417.975 ns (5%) 704 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 412.458 ns (5%) 704 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 4.621 μs (5%) 3.84 KiB (1%) 81
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 4.541 μs (5%) 3.84 KiB (1%) 81
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 539.788 ns (5%) 192 bytes (1%) 3
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 545.106 ns (5%) 192 bytes (1%) 3
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "linked"] 2.111 μs (5%) 4.16 KiB (1%) 44
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "standard"] 1.624 μs (5%) 2.84 KiB (1%) 38
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.844 μs (5%) 10.00 KiB (1%) 51
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.390 μs (5%) 8.69 KiB (1%) 45
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 59.150 μs (5%) 35.58 KiB (1%) 689
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 41.317 μs (5%) 29.05 KiB (1%) 574
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.210 μs (5%) 1.22 KiB (1%) 27
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.044 μs (5%) 1.22 KiB (1%) 27
["EpiLatentModels", "broadcast_weekly", "evaluation", "linked"] 2.197 μs (5%) 4.52 KiB (1%) 47
["EpiLatentModels", "broadcast_weekly", "evaluation", "standard"] 1.666 μs (5%) 2.62 KiB (1%) 37
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.866 μs (5%) 7.69 KiB (1%) 57
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.265 μs (5%) 5.53 KiB (1%) 45
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 82.935 μs (5%) 41.95 KiB (1%) 771
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 48.150 μs (5%) 28.44 KiB (1%) 513
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.275 μs (5%) 1.81 KiB (1%) 49
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.570 μs (5%) 1.69 KiB (1%) 47
["EpiObsModels", "Ascertainment", "evaluation", "linked"] 3.401 μs (5%) 3.42 KiB (1%) 49
["EpiObsModels", "Ascertainment", "evaluation", "standard"] 3.359 μs (5%) 3.42 KiB (1%) 49
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 4.165 μs (5%) 3.77 KiB (1%) 56
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 4.176 μs (5%) 3.77 KiB (1%) 56
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 49.503 μs (5%) 41.55 KiB (1%) 965
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 33.522 μs (5%) 36.33 KiB (1%) 856
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.826 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.590 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "LatentDelay", "evaluation", "linked"] 29.124 μs (5%) 29.86 KiB (1%) 410
["EpiObsModels", "LatentDelay", "evaluation", "standard"] 29.085 μs (5%) 29.86 KiB (1%) 410
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 31.097 μs (5%) 32.09 KiB (1%) 316
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 28.593 μs (5%) 32.09 KiB (1%) 316
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 561.425 μs (5%) 371.16 KiB (1%) 8659
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 536.349 μs (5%) 365.94 KiB (1%) 8550
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 58.769 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 55.603 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "NegativeBinomialError", "evaluation", "linked"] 1.183 μs (5%) 336 bytes (1%) 5
["EpiObsModels", "NegativeBinomialError", "evaluation", "standard"] 1.161 μs (5%) 336 bytes (1%) 5
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.850 μs (5%) 560 bytes (1%) 10
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.736 μs (5%) 560 bytes (1%) 10
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.006 μs (5%) 38.83 KiB (1%) 959
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 30.176 μs (5%) 33.61 KiB (1%) 850
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.822 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.647 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "PoissonError", "evaluation", "linked"] 1.544 μs (5%) 1.80 KiB (1%) 22
["EpiObsModels", "PoissonError", "evaluation", "standard"] 1.215 μs (5%) 1.38 KiB (1%) 18
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.227 μs (5%) 7.75 KiB (1%) 31
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.504 μs (5%) 4.52 KiB (1%) 25
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 139.520 μs (5%) 91.00 KiB (1%) 1913
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 25.477 μs (5%) 29.25 KiB (1%) 712
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 7.225 μs (5%) 176 bytes (1%) 2
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.344 μs (5%) 176 bytes (1%) 2
["EpiObsModels", "PrefixObservationModel", "evaluation", "linked"] 1.700 μs (5%) 1.44 KiB (1%) 26
["EpiObsModels", "PrefixObservationModel", "evaluation", "standard"] 1.678 μs (5%) 1.44 KiB (1%) 26
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.859 μs (5%) 1.66 KiB (1%) 31
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.821 μs (5%) 1.66 KiB (1%) 31
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 23.193 μs (5%) 13.27 KiB (1%) 291
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 8.603 μs (5%) 8.05 KiB (1%) 182
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.305 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.092 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "StackObservationModels", "evaluation", "linked"] 7.091 μs (5%) 5.48 KiB (1%) 93
["EpiObsModels", "StackObservationModels", "evaluation", "standard"] 7.038 μs (5%) 5.48 KiB (1%) 93
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 8.128 μs (5%) 5.83 KiB (1%) 100
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 7.947 μs (5%) 5.83 KiB (1%) 100
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 60.262 μs (5%) 51.73 KiB (1%) 1080
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 41.708 μs (5%) 46.52 KiB (1%) 971
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.342 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 6.175 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "ascertainment_dayofweek", "evaluation", "linked"] 4.425 μs (5%) 8.88 KiB (1%) 75
["EpiObsModels", "ascertainment_dayofweek", "evaluation", "standard"] 4.131 μs (5%) 7.62 KiB (1%) 67
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 5.662 μs (5%) 15.88 KiB (1%) 83
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 5.278 μs (5%) 14.62 KiB (1%) 75
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 79.748 μs (5%) 60.41 KiB (1%) 1139
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 62.215 μs (5%) 53.94 KiB (1%) 1022
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.779 μs (5%) 544 bytes (1%) 11
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.522 μs (5%) 544 bytes (1%) 11
["EpiObsModels", "observation_error", "missing obs", "evaluation", "linked"] 1.464 μs (5%) 2.67 KiB (1%) 33
["EpiObsModels", "observation_error", "missing obs", "evaluation", "standard"] 917.833 ns (5%) 1.11 KiB (1%) 23
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.920 μs (5%) 3.56 KiB (1%) 39
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.379 μs (5%) 2.00 KiB (1%) 29
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 29.285 μs (5%) 24.22 KiB (1%) 486
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 14.177 μs (5%) 16.77 KiB (1%) 348
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.378 μs (5%) 144 bytes (1%) 2
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.017 μs (5%) 144 bytes (1%) 2
["EpiObsModels", "observation_error", "no missing obs", "evaluation", "linked"] 443.808 ns (5%) 288 bytes (1%) 5
["EpiObsModels", "observation_error", "no missing obs", "evaluation", "standard"] 410.620 ns (5%) 288 bytes (1%) 5
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 576.071 ns (5%) 512 bytes (1%) 10
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 525.377 ns (5%) 512 bytes (1%) 10
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 24.585 μs (5%) 18.72 KiB (1%) 414
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 10.870 μs (5%) 12.83 KiB (1%) 286
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.987 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.670 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "linked"] 1.826 μs (5%) 2.05 KiB (1%) 27
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "standard"] 1.631 μs (5%) 1.73 KiB (1%) 25
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.694 μs (5%) 2.22 KiB (1%) 26
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.524 μs (5%) 1.91 KiB (1%) 24
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 39.754 μs (5%) 23.89 KiB (1%) 499
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 23.393 μs (5%) 17.69 KiB (1%) 369
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.309 μs (5%) 112 bytes (1%) 2
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.037 μs (5%) 112 bytes (1%) 2

Benchmark Group List

Here's a list of all the benchmark groups executed by this job:

  • ["EpiAwareUtils"]
  • ["EpiInfModels", "DirectInfections", "evaluation"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiInfModels", "ExpGrowthRate", "evaluation"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "AR", "evaluation"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "evaluation"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "CombineLatentModels", "evaluation"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "ConcatLatentModels", "evaluation"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "DiffLatentModel", "evaluation"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "HierarchicalNormal", "evaluation"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "Intercept", "evaluation"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "PrefixLatentModel", "evaluation"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RandomWalk", "evaluation"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "evaluation"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "TransformLatentModel", "evaluation"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "evaluation"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_weekly", "evaluation"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "Ascertainment", "evaluation"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "LatentDelay", "evaluation"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "NegativeBinomialError", "evaluation"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PoissonError", "evaluation"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PrefixObservationModel", "evaluation"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "StackObservationModels", "evaluation"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "evaluation"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]

Julia versioninfo

Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-04 10:41 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
      Ubuntu 22.04.4 LTS
  uname: Linux 6.5.0-1023-azure #24~22.04.1-Ubuntu SMP Wed Jun 12 19:55:26 UTC 2024 x86_64 x86_64
  CPU: AMD EPYC 7763 64-Core Processor: 
              speed         user         nice          sys         idle          irq
       #1  3244 MHz       8319 s          0 s        829 s      23462 s          0 s
       #2  2445 MHz       9174 s          0 s        876 s      22566 s          0 s
       #3  2445 MHz       7090 s          0 s        780 s      24746 s          0 s
       #4  2591 MHz       6137 s          0 s        774 s      25695 s          0 s
  Memory: 15.606487274169922 GB (13160.875 MB free)
  Uptime: 3269.49 sec
  Load Avg:  1.04  1.03  1.0
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 4 virtual cores)

Runtime information

Runtime Info
BLAS #threads 2
BLAS.vendor() lbt
Sys.CPU_THREADS 4

lscpu output:

Architecture:                       x86_64
CPU op-mode(s):                     32-bit, 64-bit
Address sizes:                      48 bits physical, 48 bits virtual
Byte Order:                         Little Endian
CPU(s):                             4
On-line CPU(s) list:                0-3
Vendor ID:                          AuthenticAMD
Model name:                         AMD EPYC 7763 64-Core Processor
CPU family:                         25
Model:                              1
Thread(s) per core:                 2
Core(s) per socket:                 2
Socket(s):                          1
Stepping:                           1
BogoMIPS:                           4890.85
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 nopl tsc_reliable nonstop_tsc cpuid extd_apicid aperfmperf pni pclmulqdq ssse3 fma cx16 pcid sse4_1 sse4_2 movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm cmp_legacy svm cr8_legacy abm sse4a misalignsse 3dnowprefetch osvw topoext invpcid_single vmmcall fsgsbase bmi1 avx2 smep bmi2 erms invpcid rdseed adx smap clflushopt clwb sha_ni xsaveopt xsavec xgetbv1 xsaves clzero xsaveerptr rdpru arat npt nrip_save tsc_scale vmcb_clean flushbyasid decodeassists pausefilter pfthreshold v_vmsave_vmload umip vaes vpclmulqdq rdpid fsrm
Virtualization:                     AMD-V
Hypervisor vendor:                  Microsoft
Virtualization type:                full
L1d cache:                          64 KiB (2 instances)
L1i cache:                          64 KiB (2 instances)
L2 cache:                           1 MiB (2 instances)
L3 cache:                           32 MiB (1 instance)
NUMA node(s):                       1
NUMA node0 CPU(s):                  0-3
Vulnerability Gather data sampling: 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 Retbleed:             Not affected
Vulnerability Spec rstack overflow: Vulnerable: Safe RET, no microcode
Vulnerability Spec store bypass:    Vulnerable
Vulnerability Spectre v1:           Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2:           Mitigation; Retpolines; STIBP disabled; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds:                Not affected
Vulnerability Tsx async abort:      Not affected
Cpu Property Value
Brand AMD EPYC 7763 64-Core Processor
Vendor :AMD
Architecture :Unknown
Model Family: 0xaf, Model: 0x01, Stepping: 0x01, Type: 0x00
Cores 16 physical cores, 16 logical cores (on executing CPU)
No Hyperthreading hardware capability detected
Clock Frequencies Not supported by CPU
Data Cache Level 1:3 : (32, 512, 32768) kbytes
64 byte cache line size
Address Size 48 bits virtual, 48 bits physical
SIMD 256 bit = 32 byte max. SIMD vector size
Time Stamp Counter TSC is accessible via rdtsc
TSC runs at constant rate (invariant from clock frequency)
Perf. Monitoring Performance Monitoring Counters (PMC) are not supported
Hypervisor Yes, Microsoft

@seabbs seabbs requested a review from SamuelBrand1 July 22, 2024 17:29
@seabbs seabbs force-pushed the from-missing-to-index-padding branch from 08ca35f to f6efb72 Compare July 22, 2024 17:29
@seabbs seabbs linked an issue Jul 22, 2024 that may be closed by this pull request
Integration benchmarks of Ascertainment fail in certain combinations #357
Closed
@seabbs
Copy link
Collaborator Author

seabbs commented Jul 22, 2024

I've added integration benchmarks (including from #357 which now run without check warnings being thrown (as far as I can see). I haven't added new unit tests as I felt like the functionality change was covered by the benchmarks but can cover in a follow up PR if we need to?

@seabbs seabbs enabled auto-merge July 22, 2024 17:30
@seabbs seabbs mentioned this pull request Jul 22, 2024
Closed
@github-actions GitHub Actions
Copy link
Contributor

Benchmark result

Judge result

Benchmark Report for /home/runner/work/Rt-without-renewal/Rt-without-renewal

Job Properties

  • Time of benchmarks:
    • Target: 22 Jul 2024 - 17:55
    • Baseline: 22 Jul 2024 - 18:19
  • Package commits:
    • Target: 1c9909
    • Baseline: d4d46d
  • Julia commits:
    • Target: 48d4fd
    • Baseline: 48d4fd
  • Julia command flags:
    • Target: None
    • Baseline: None
  • Environment variables:
    • Target: None
    • Baseline: None

Results

A ratio greater than 1.0 denotes a possible regression (marked with ❌), while a ratio less
than 1.0 denotes a possible improvement (marked with ✅). Only significant results - results
that indicate possible regressions or improvements - are shown below (thus, an empty table means that all
benchmark results remained invariant between builds).

ID time ratio memory ratio
["EpiInfModels", "ExpGrowthRate", "evaluation", "linked"] 0.88 (5%) ✅ 1.00 (1%)
["EpiInfModels", "ExpGrowthRate", "evaluation", "standard"] 0.91 (5%) ✅ 1.00 (1%)
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.05 (5%) ❌ 1.00 (1%)
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.06 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 0.94 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "ConcatLatentModels", "evaluation", "linked"] 0.84 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 0.90 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 0.88 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 0.85 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.08 (5%) ❌ 1.00 (1%)
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "linked"] 0.69 (5%) ✅ 1.00 (1%)
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.10 (5%) ❌ 1.00 (1%)
["EpiObsModels", "Ascertainment", "evaluation", "linked"] 1.06 (5%) ❌ 1.00 (1%)
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.05 (5%) ❌ 1.00 (1%)
["EpiObsModels", "LatentDelay", "evaluation", "linked"] 0.58 (5%) ✅ 0.74 (1%) ✅
["EpiObsModels", "LatentDelay", "evaluation", "standard"] 0.59 (5%) ✅ 0.74 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 0.75 (5%) ✅ 0.70 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 0.75 (5%) ✅ 0.70 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 0.52 (5%) ✅ 0.86 (1%) ✅
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 0.51 (5%) ✅ 0.85 (1%) ✅
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 0.92 (5%) ✅ 1.00 (1%)
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 0.98 (5%) 0.99 (1%) ✅
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 0.52 (5%) ✅ 1.00 (1%)
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 0.45 (5%) ✅ 1.00 (1%)
["EpiObsModels", "observation_error", "missing obs", "evaluation", "linked"] 1.12 (5%) ❌ 1.11 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "evaluation", "standard"] 1.16 (5%) ❌ 1.27 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.11 (5%) ❌ 1.13 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.19 (5%) ❌ 1.23 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 1.01 (5%) 1.02 (1%) ❌
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 1.01 (5%) 1.03 (1%) ❌

Benchmark Group List

Here's a list of all the benchmark groups executed by this job:

  • ["EpiAwareUtils"]
  • ["EpiInfModels", "DirectInfections", "evaluation"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiInfModels", "ExpGrowthRate", "evaluation"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "AR", "evaluation"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "evaluation"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "CombineLatentModels", "evaluation"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "ConcatLatentModels", "evaluation"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "DiffLatentModel", "evaluation"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "HierarchicalNormal", "evaluation"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "Intercept", "evaluation"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "PrefixLatentModel", "evaluation"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RandomWalk", "evaluation"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "evaluation"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "TransformLatentModel", "evaluation"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "evaluation"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_weekly", "evaluation"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "Ascertainment", "evaluation"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "LatentDelay", "evaluation"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "NegativeBinomialError", "evaluation"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PoissonError", "evaluation"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PrefixObservationModel", "evaluation"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "StackObservationModels", "evaluation"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "evaluation"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]

Julia versioninfo

Target

Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-04 10:41 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
      Ubuntu 22.04.4 LTS
  uname: Linux 6.5.0-1023-azure #24~22.04.1-Ubuntu SMP Wed Jun 12 19:55:26 UTC 2024 x86_64 x86_64
  CPU: AMD EPYC 7763 64-Core Processor: 
              speed         user         nice          sys         idle          irq
       #1  3233 MHz       4486 s          0 s        441 s      11831 s          0 s
       #2  3244 MHz       4294 s          0 s        384 s      12069 s          0 s
       #3  2445 MHz       5677 s          0 s        589 s      10491 s          0 s
       #4  2604 MHz       3100 s          0 s        430 s      13220 s          0 s
  Memory: 15.606491088867188 GB (13409.078125 MB free)
  Uptime: 1680.64 sec
  Load Avg:  1.03  1.02  0.96
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 4 virtual cores)

Baseline

Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-04 10:41 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
      Ubuntu 22.04.4 LTS
  uname: Linux 6.5.0-1023-azure #24~22.04.1-Ubuntu SMP Wed Jun 12 19:55:26 UTC 2024 x86_64 x86_64
  CPU: AMD EPYC 7763 64-Core Processor: 
              speed         user         nice          sys         idle          irq
       #1  2496 MHz       9240 s          0 s        870 s      20656 s          0 s
       #2  3158 MHz       8113 s          0 s        763 s      21879 s          0 s
       #3  3243 MHz       8469 s          0 s        896 s      21401 s          0 s
       #4  3271 MHz       4828 s          0 s        710 s      25218 s          0 s
  Memory: 15.606491088867188 GB (13239.37890625 MB free)
  Uptime: 3083.85 sec
  Load Avg:  1.0  1.02  1.0
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 4 virtual cores)

Target result

Benchmark Report for /home/runner/work/Rt-without-renewal/Rt-without-renewal

Job Properties

  • Time of benchmark: 22 Jul 2024 - 17:55
  • Package commit: 1c9909
  • Julia commit: 48d4fd
  • Julia command flags: None
  • Environment variables: None

Results

Below is a table of this job's results, obtained by running the benchmarks.
The values listed in the ID column have the structure [parent_group, child_group, ..., key], and can be used to
index into the BaseBenchmarks suite to retrieve the corresponding benchmarks.
The percentages accompanying time and memory values in the below table are noise tolerances. The "true"
time/memory value for a given benchmark is expected to fall within this percentage of the reported value.
An empty cell means that the value was zero.

ID time GC time memory allocations
["EpiAwareUtils", "censored_pmf"] 1.090 μs (5%) 352 bytes (1%) 4
["EpiInfModels", "DirectInfections", "evaluation", "linked"] 311.671 ns (5%) 432 bytes (1%) 7
["EpiInfModels", "DirectInfections", "evaluation", "standard"] 323.722 ns (5%) 432 bytes (1%) 7
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 441.894 ns (5%) 784 bytes (1%) 13
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 441.838 ns (5%) 784 bytes (1%) 13
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 9.257 μs (5%) 5.62 KiB (1%) 115
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.228 μs (5%) 5.62 KiB (1%) 115
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 560.086 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 572.000 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "ExpGrowthRate", "evaluation", "linked"] 220.357 ns (5%) 256 bytes (1%) 4
["EpiInfModels", "ExpGrowthRate", "evaluation", "standard"] 219.541 ns (5%) 256 bytes (1%) 4
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 316.472 ns (5%) 512 bytes (1%) 9
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 316.991 ns (5%) 512 bytes (1%) 9
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 9.207 μs (5%) 5.64 KiB (1%) 114
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.257 μs (5%) 5.64 KiB (1%) 114
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 563.532 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 567.918 ns (5%) 272 bytes (1%) 6
["EpiLatentModels", "AR", "evaluation", "linked"] 2.020 μs (5%) 3.84 KiB (1%) 45
["EpiLatentModels", "AR", "evaluation", "standard"] 1.619 μs (5%) 2.80 KiB (1%) 38
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.365 μs (5%) 11.69 KiB (1%) 55
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.878 μs (5%) 10.12 KiB (1%) 46
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 108.524 μs (5%) 55.31 KiB (1%) 1113
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 69.651 μs (5%) 40.64 KiB (1%) 818
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 17.173 μs (5%) 8.44 KiB (1%) 225
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 15.439 μs (5%) 7.31 KiB (1%) 207
["EpiLatentModels", "BroadcastLatentModel", "evaluation", "linked"] 1.526 μs (5%) 3.05 KiB (1%) 34
["EpiLatentModels", "BroadcastLatentModel", "evaluation", "standard"] 1.302 μs (5%) 2.17 KiB (1%) 30
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.939 μs (5%) 5.16 KiB (1%) 41
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.703 μs (5%) 4.28 KiB (1%) 37
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.167 μs (5%) 24.41 KiB (1%) 447
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 28.303 μs (5%) 16.86 KiB (1%) 333
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.991 μs (5%) 1.00 KiB (1%) 27
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.711 μs (5%) 1.00 KiB (1%) 27
["EpiLatentModels", "CombineLatentModels", "evaluation", "linked"] 63.319 μs (5%) 52.27 KiB (1%) 580
["EpiLatentModels", "CombineLatentModels", "evaluation", "standard"] 59.472 μs (5%) 37.69 KiB (1%) 536
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 130.786 μs (5%) 119.19 KiB (1%) 1184
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 124.213 μs (5%) 89.31 KiB (1%) 1092
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 197.721 μs (5%) 107.81 KiB (1%) 1710
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 149.501 μs (5%) 79.61 KiB (1%) 1378
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 17.653 μs (5%) 8.58 KiB (1%) 226
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 16.180 μs (5%) 7.45 KiB (1%) 208
["EpiLatentModels", "ConcatLatentModels", "evaluation", "linked"] 10.820 μs (5%) 30.39 KiB (1%) 214
["EpiLatentModels", "ConcatLatentModels", "evaluation", "standard"] 9.047 μs (5%) 21.95 KiB (1%) 184
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 13.746 μs (5%) 34.09 KiB (1%) 224
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 10.189 μs (5%) 25.66 KiB (1%) 194
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 74.369 μs (5%) 56.38 KiB (1%) 719
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 53.260 μs (5%) 42.72 KiB (1%) 580
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.238 μs (5%) 2.19 KiB (1%) 52
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.934 μs (5%) 2.19 KiB (1%) 52
["EpiLatentModels", "DiffLatentModel", "evaluation", "linked"] 1.760 μs (5%) 4.17 KiB (1%) 37
["EpiLatentModels", "DiffLatentModel", "evaluation", "standard"] 1.401 μs (5%) 2.48 KiB (1%) 31
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.777 μs (5%) 12.62 KiB (1%) 45
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.289 μs (5%) 10.94 KiB (1%) 39
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 61.927 μs (5%) 38.81 KiB (1%) 748
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 43.242 μs (5%) 31.91 KiB (1%) 633
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.733 μs (5%) 2.22 KiB (1%) 51
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 6.436 μs (5%) 2.22 KiB (1%) 51
["EpiLatentModels", "HierarchicalNormal", "evaluation", "linked"] 425.422 ns (5%) 1.00 KiB (1%) 8
["EpiLatentModels", "HierarchicalNormal", "evaluation", "standard"] 362.005 ns (5%) 864 bytes (1%) 7
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.288 μs (5%) 5.28 KiB (1%) 14
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 879.444 ns (5%) 5.12 KiB (1%) 13
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 42.600 μs (5%) 19.83 KiB (1%) 376
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 26.981 μs (5%) 14.45 KiB (1%) 266
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.264 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.095 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "Intercept", "evaluation", "linked"] 249.452 ns (5%) 336 bytes (1%) 5
["EpiLatentModels", "Intercept", "evaluation", "standard"] 250.083 ns (5%) 336 bytes (1%) 5
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 356.530 ns (5%) 640 bytes (1%) 10
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 361.575 ns (5%) 640 bytes (1%) 10
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 4.388 μs (5%) 3.53 KiB (1%) 76
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 4.390 μs (5%) 3.53 KiB (1%) 76
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 463.259 ns (5%) 240 bytes (1%) 3
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 464.342 ns (5%) 240 bytes (1%) 3
["EpiLatentModels", "PrefixLatentModel", "evaluation", "linked"] 1.849 μs (5%) 3.47 KiB (1%) 30
["EpiLatentModels", "PrefixLatentModel", "evaluation", "standard"] 1.698 μs (5%) 3.00 KiB (1%) 27
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.495 μs (5%) 7.75 KiB (1%) 36
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.367 μs (5%) 7.28 KiB (1%) 33
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.588 μs (5%) 22.16 KiB (1%) 397
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 30.147 μs (5%) 16.47 KiB (1%) 285
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.272 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.090 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "RandomWalk", "evaluation", "linked"] 881.177 ns (5%) 1.86 KiB (1%) 18
["EpiLatentModels", "RandomWalk", "evaluation", "standard"] 758.491 ns (5%) 1.42 KiB (1%) 16
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.714 μs (5%) 8.73 KiB (1%) 25
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.664 μs (5%) 8.30 KiB (1%) 23
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 47.299 μs (5%) 26.19 KiB (1%) 487
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 30.357 μs (5%) 20.53 KiB (1%) 376
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 3.604 μs (5%) 1.31 KiB (1%) 27
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 3.331 μs (5%) 1.31 KiB (1%) 27
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "linked"] 596.757 ns (5%) 1.19 KiB (1%) 12
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "standard"] 471.092 ns (5%) 896 bytes (1%) 10
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 796.856 ns (5%) 1.72 KiB (1%) 18
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 666.633 ns (5%) 1.41 KiB (1%) 16
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 42.459 μs (5%) 19.08 KiB (1%) 380
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 27.141 μs (5%) 13.55 KiB (1%) 269
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.176 μs (5%) 400 bytes (1%) 11
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.012 μs (5%) 400 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "evaluation", "linked"] 304.504 ns (5%) 384 bytes (1%) 6
["EpiLatentModels", "TransformLatentModel", "evaluation", "standard"] 319.781 ns (5%) 384 bytes (1%) 6
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 407.815 ns (5%) 704 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 410.920 ns (5%) 704 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 4.642 μs (5%) 3.84 KiB (1%) 81
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 4.633 μs (5%) 3.84 KiB (1%) 81
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 527.487 ns (5%) 192 bytes (1%) 3
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 542.450 ns (5%) 192 bytes (1%) 3
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "linked"] 2.124 μs (5%) 4.16 KiB (1%) 44
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "standard"] 1.650 μs (5%) 2.84 KiB (1%) 38
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.838 μs (5%) 10.00 KiB (1%) 51
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.363 μs (5%) 8.69 KiB (1%) 45
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 60.444 μs (5%) 35.58 KiB (1%) 689
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 41.458 μs (5%) 29.05 KiB (1%) 574
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.013 μs (5%) 1.22 KiB (1%) 27
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.789 μs (5%) 1.22 KiB (1%) 27
["EpiLatentModels", "broadcast_weekly", "evaluation", "linked"] 2.223 μs (5%) 4.52 KiB (1%) 47
["EpiLatentModels", "broadcast_weekly", "evaluation", "standard"] 1.688 μs (5%) 2.62 KiB (1%) 37
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.826 μs (5%) 7.69 KiB (1%) 57
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.523 μs (5%) 5.53 KiB (1%) 45
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 85.310 μs (5%) 41.95 KiB (1%) 771
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 47.339 μs (5%) 28.44 KiB (1%) 513
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.330 μs (5%) 1.81 KiB (1%) 49
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.620 μs (5%) 1.69 KiB (1%) 47
["EpiObsModels", "Ascertainment", "evaluation", "linked"] 3.622 μs (5%) 3.42 KiB (1%) 49
["EpiObsModels", "Ascertainment", "evaluation", "standard"] 3.584 μs (5%) 3.42 KiB (1%) 49
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 4.334 μs (5%) 3.77 KiB (1%) 56
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 4.252 μs (5%) 3.77 KiB (1%) 56
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 50.505 μs (5%) 41.55 KiB (1%) 965
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 34.495 μs (5%) 36.33 KiB (1%) 856
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.081 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.699 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "LatentDelay", "evaluation", "linked"] 17.242 μs (5%) 22.14 KiB (1%) 206
["EpiObsModels", "LatentDelay", "evaluation", "standard"] 17.392 μs (5%) 22.14 KiB (1%) 206
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 22.462 μs (5%) 22.36 KiB (1%) 211
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 21.511 μs (5%) 22.36 KiB (1%) 211
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 296.367 μs (5%) 317.86 KiB (1%) 7386
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 274.576 μs (5%) 312.64 KiB (1%) 7277
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 52.218 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 52.609 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "NegativeBinomialError", "evaluation", "linked"] 1.218 μs (5%) 336 bytes (1%) 5
["EpiObsModels", "NegativeBinomialError", "evaluation", "standard"] 1.199 μs (5%) 336 bytes (1%) 5
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.860 μs (5%) 560 bytes (1%) 10
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.750 μs (5%) 560 bytes (1%) 10
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.126 μs (5%) 38.83 KiB (1%) 959
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 30.898 μs (5%) 33.61 KiB (1%) 850
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.921 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.721 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "PoissonError", "evaluation", "linked"] 1.547 μs (5%) 1.80 KiB (1%) 22
["EpiObsModels", "PoissonError", "evaluation", "standard"] 1.226 μs (5%) 1.38 KiB (1%) 18
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.482 μs (5%) 7.75 KiB (1%) 31
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.813 μs (5%) 4.52 KiB (1%) 25
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 139.292 μs (5%) 91.00 KiB (1%) 1913
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 25.217 μs (5%) 29.25 KiB (1%) 712
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.179 μs (5%) 176 bytes (1%) 2
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.219 μs (5%) 176 bytes (1%) 2
["EpiObsModels", "PrefixObservationModel", "evaluation", "linked"] 1.734 μs (5%) 1.44 KiB (1%) 26
["EpiObsModels", "PrefixObservationModel", "evaluation", "standard"] 1.704 μs (5%) 1.44 KiB (1%) 26
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.901 μs (5%) 1.66 KiB (1%) 31
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.855 μs (5%) 1.66 KiB (1%) 31
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 22.983 μs (5%) 13.16 KiB (1%) 289
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 8.793 μs (5%) 7.94 KiB (1%) 180
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 673.594 ns (5%) 96 bytes (1%) 2
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 492.835 ns (5%) 96 bytes (1%) 2
["EpiObsModels", "StackObservationModels", "evaluation", "linked"] 7.121 μs (5%) 5.48 KiB (1%) 93
["EpiObsModels", "StackObservationModels", "evaluation", "standard"] 7.071 μs (5%) 5.48 KiB (1%) 93
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 8.085 μs (5%) 5.83 KiB (1%) 100
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 8.012 μs (5%) 5.83 KiB (1%) 100
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 61.376 μs (5%) 51.73 KiB (1%) 1080
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 42.610 μs (5%) 46.52 KiB (1%) 971
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.448 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 6.216 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "ascertainment_dayofweek", "evaluation", "linked"] 4.447 μs (5%) 8.88 KiB (1%) 75
["EpiObsModels", "ascertainment_dayofweek", "evaluation", "standard"] 4.238 μs (5%) 7.62 KiB (1%) 67
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 5.604 μs (5%) 15.88 KiB (1%) 83
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 5.288 μs (5%) 14.62 KiB (1%) 75
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 81.874 μs (5%) 60.41 KiB (1%) 1139
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 64.201 μs (5%) 53.94 KiB (1%) 1022
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.706 μs (5%) 544 bytes (1%) 11
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.490 μs (5%) 544 bytes (1%) 11
["EpiObsModels", "observation_error", "missing obs", "evaluation", "linked"] 1.590 μs (5%) 2.97 KiB (1%) 31
["EpiObsModels", "observation_error", "missing obs", "evaluation", "standard"] 1.065 μs (5%) 1.41 KiB (1%) 21
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.173 μs (5%) 4.03 KiB (1%) 38
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.654 μs (5%) 2.47 KiB (1%) 28
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 29.566 μs (5%) 24.73 KiB (1%) 490
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 14.087 μs (5%) 17.28 KiB (1%) 352
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.364 μs (5%) 144 bytes (1%) 2
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.049 μs (5%) 144 bytes (1%) 2
["EpiObsModels", "observation_error", "no missing obs", "evaluation", "linked"] 445.081 ns (5%) 288 bytes (1%) 5
["EpiObsModels", "observation_error", "no missing obs", "evaluation", "standard"] 415.530 ns (5%) 288 bytes (1%) 5
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 574.826 ns (5%) 512 bytes (1%) 10
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 531.000 ns (5%) 512 bytes (1%) 10
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 24.556 μs (5%) 18.72 KiB (1%) 414
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 10.810 μs (5%) 12.83 KiB (1%) 286
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.970 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.686 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "linked"] 1.832 μs (5%) 2.05 KiB (1%) 27
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "standard"] 1.689 μs (5%) 1.73 KiB (1%) 25
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.674 μs (5%) 2.22 KiB (1%) 26
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.500 μs (5%) 1.91 KiB (1%) 24
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 39.665 μs (5%) 23.89 KiB (1%) 499
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 23.504 μs (5%) 17.69 KiB (1%) 369
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.301 μs (5%) 112 bytes (1%) 2
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.022 μs (5%) 112 bytes (1%) 2

Benchmark Group List

Here's a list of all the benchmark groups executed by this job:

  • ["EpiAwareUtils"]
  • ["EpiInfModels", "DirectInfections", "evaluation"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiInfModels", "ExpGrowthRate", "evaluation"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "AR", "evaluation"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "evaluation"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "CombineLatentModels", "evaluation"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "ConcatLatentModels", "evaluation"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "DiffLatentModel", "evaluation"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "HierarchicalNormal", "evaluation"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "Intercept", "evaluation"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "PrefixLatentModel", "evaluation"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RandomWalk", "evaluation"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "evaluation"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "TransformLatentModel", "evaluation"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "evaluation"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_weekly", "evaluation"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "Ascertainment", "evaluation"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "LatentDelay", "evaluation"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "NegativeBinomialError", "evaluation"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PoissonError", "evaluation"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PrefixObservationModel", "evaluation"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "StackObservationModels", "evaluation"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "evaluation"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]

Julia versioninfo

Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-04 10:41 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
      Ubuntu 22.04.4 LTS
  uname: Linux 6.5.0-1023-azure #24~22.04.1-Ubuntu SMP Wed Jun 12 19:55:26 UTC 2024 x86_64 x86_64
  CPU: AMD EPYC 7763 64-Core Processor: 
              speed         user         nice          sys         idle          irq
       #1  3233 MHz       4486 s          0 s        441 s      11831 s          0 s
       #2  3244 MHz       4294 s          0 s        384 s      12069 s          0 s
       #3  2445 MHz       5677 s          0 s        589 s      10491 s          0 s
       #4  2604 MHz       3100 s          0 s        430 s      13220 s          0 s
  Memory: 15.606491088867188 GB (13409.078125 MB free)
  Uptime: 1680.64 sec
  Load Avg:  1.03  1.02  0.96
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 4 virtual cores)

Baseline result

Benchmark Report for /home/runner/work/Rt-without-renewal/Rt-without-renewal

Job Properties

  • Time of benchmark: 22 Jul 2024 - 18:19
  • Package commit: d4d46d
  • Julia commit: 48d4fd
  • Julia command flags: None
  • Environment variables: None

Results

Below is a table of this job's results, obtained by running the benchmarks.
The values listed in the ID column have the structure [parent_group, child_group, ..., key], and can be used to
index into the BaseBenchmarks suite to retrieve the corresponding benchmarks.
The percentages accompanying time and memory values in the below table are noise tolerances. The "true"
time/memory value for a given benchmark is expected to fall within this percentage of the reported value.
An empty cell means that the value was zero.

ID time GC time memory allocations
["EpiAwareUtils", "censored_pmf"] 1.084 μs (5%) 352 bytes (1%) 4
["EpiInfModels", "DirectInfections", "evaluation", "linked"] 310.039 ns (5%) 432 bytes (1%) 7
["EpiInfModels", "DirectInfections", "evaluation", "standard"] 313.182 ns (5%) 432 bytes (1%) 7
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 434.588 ns (5%) 784 bytes (1%) 13
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 439.065 ns (5%) 784 bytes (1%) 13
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 9.418 μs (5%) 5.62 KiB (1%) 115
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.508 μs (5%) 5.62 KiB (1%) 115
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 558.562 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 573.250 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "ExpGrowthRate", "evaluation", "linked"] 251.499 ns (5%) 256 bytes (1%) 4
["EpiInfModels", "ExpGrowthRate", "evaluation", "standard"] 240.687 ns (5%) 256 bytes (1%) 4
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 310.020 ns (5%) 512 bytes (1%) 9
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 308.833 ns (5%) 512 bytes (1%) 9
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 9.328 μs (5%) 5.64 KiB (1%) 114
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 9.408 μs (5%) 5.64 KiB (1%) 114
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 534.963 ns (5%) 272 bytes (1%) 6
["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 538.021 ns (5%) 272 bytes (1%) 6
["EpiLatentModels", "AR", "evaluation", "linked"] 2.104 μs (5%) 3.84 KiB (1%) 45
["EpiLatentModels", "AR", "evaluation", "standard"] 1.633 μs (5%) 2.80 KiB (1%) 38
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.463 μs (5%) 11.69 KiB (1%) 55
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.966 μs (5%) 10.12 KiB (1%) 46
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 106.713 μs (5%) 55.31 KiB (1%) 1113
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 69.761 μs (5%) 40.64 KiB (1%) 818
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 17.022 μs (5%) 8.44 KiB (1%) 225
["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 15.780 μs (5%) 7.31 KiB (1%) 207
["EpiLatentModels", "BroadcastLatentModel", "evaluation", "linked"] 1.560 μs (5%) 3.05 KiB (1%) 34
["EpiLatentModels", "BroadcastLatentModel", "evaluation", "standard"] 1.292 μs (5%) 2.17 KiB (1%) 30
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.054 μs (5%) 5.16 KiB (1%) 41
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.663 μs (5%) 4.28 KiB (1%) 37
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.167 μs (5%) 24.41 KiB (1%) 447
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 28.924 μs (5%) 16.86 KiB (1%) 333
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 3.002 μs (5%) 1.00 KiB (1%) 27
["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.751 μs (5%) 1.00 KiB (1%) 27
["EpiLatentModels", "CombineLatentModels", "evaluation", "linked"] 62.017 μs (5%) 52.27 KiB (1%) 580
["EpiLatentModels", "CombineLatentModels", "evaluation", "standard"] 58.090 μs (5%) 37.69 KiB (1%) 536
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 129.513 μs (5%) 119.19 KiB (1%) 1184
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 122.510 μs (5%) 89.31 KiB (1%) 1092
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 191.330 μs (5%) 107.81 KiB (1%) 1710
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 147.698 μs (5%) 79.61 KiB (1%) 1378
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 17.603 μs (5%) 8.58 KiB (1%) 226
["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 16.251 μs (5%) 7.45 KiB (1%) 208
["EpiLatentModels", "ConcatLatentModels", "evaluation", "linked"] 12.844 μs (5%) 30.39 KiB (1%) 214
["EpiLatentModels", "ConcatLatentModels", "evaluation", "standard"] 9.017 μs (5%) 21.95 KiB (1%) 184
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 13.626 μs (5%) 34.09 KiB (1%) 224
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 10.230 μs (5%) 25.66 KiB (1%) 194
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 75.562 μs (5%) 56.38 KiB (1%) 719
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 53.962 μs (5%) 42.72 KiB (1%) 580
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.141 μs (5%) 2.19 KiB (1%) 52
["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.888 μs (5%) 2.19 KiB (1%) 52
["EpiLatentModels", "DiffLatentModel", "evaluation", "linked"] 1.845 μs (5%) 4.17 KiB (1%) 37
["EpiLatentModels", "DiffLatentModel", "evaluation", "standard"] 1.406 μs (5%) 2.48 KiB (1%) 31
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.082 μs (5%) 12.62 KiB (1%) 45
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.598 μs (5%) 10.94 KiB (1%) 39
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 62.107 μs (5%) 38.81 KiB (1%) 748
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 43.572 μs (5%) 31.91 KiB (1%) 633
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.645 μs (5%) 2.22 KiB (1%) 51
["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 6.634 μs (5%) 2.22 KiB (1%) 51
["EpiLatentModels", "HierarchicalNormal", "evaluation", "linked"] 421.598 ns (5%) 1.00 KiB (1%) 8
["EpiLatentModels", "HierarchicalNormal", "evaluation", "standard"] 360.200 ns (5%) 864 bytes (1%) 7
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.331 μs (5%) 5.28 KiB (1%) 14
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 907.333 ns (5%) 5.12 KiB (1%) 13
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 42.160 μs (5%) 19.83 KiB (1%) 376
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 26.710 μs (5%) 14.45 KiB (1%) 266
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.260 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.059 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "Intercept", "evaluation", "linked"] 262.543 ns (5%) 336 bytes (1%) 5
["EpiLatentModels", "Intercept", "evaluation", "standard"] 260.856 ns (5%) 336 bytes (1%) 5
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 352.822 ns (5%) 640 bytes (1%) 10
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 350.142 ns (5%) 640 bytes (1%) 10
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 4.364 μs (5%) 3.53 KiB (1%) 76
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 4.331 μs (5%) 3.53 KiB (1%) 76
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 462.650 ns (5%) 240 bytes (1%) 3
["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 464.959 ns (5%) 240 bytes (1%) 3
["EpiLatentModels", "PrefixLatentModel", "evaluation", "linked"] 1.829 μs (5%) 3.47 KiB (1%) 30
["EpiLatentModels", "PrefixLatentModel", "evaluation", "standard"] 1.665 μs (5%) 3.00 KiB (1%) 27
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.942 μs (5%) 7.75 KiB (1%) 36
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.389 μs (5%) 7.28 KiB (1%) 33
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 45.145 μs (5%) 22.16 KiB (1%) 397
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 29.074 μs (5%) 16.47 KiB (1%) 285
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.248 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.073 μs (5%) 656 bytes (1%) 11
["EpiLatentModels", "RandomWalk", "evaluation", "linked"] 914.219 ns (5%) 1.86 KiB (1%) 18
["EpiLatentModels", "RandomWalk", "evaluation", "standard"] 795.194 ns (5%) 1.42 KiB (1%) 16
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.799 μs (5%) 8.73 KiB (1%) 25
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.534 μs (5%) 8.30 KiB (1%) 23
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 46.588 μs (5%) 26.19 KiB (1%) 487
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 29.906 μs (5%) 20.53 KiB (1%) 376
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 3.626 μs (5%) 1.31 KiB (1%) 27
["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 3.381 μs (5%) 1.31 KiB (1%) 27
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "linked"] 583.050 ns (5%) 1.19 KiB (1%) 12
["EpiLatentModels", "RecordExpectedLatent", "evaluation", "standard"] 481.635 ns (5%) 896 bytes (1%) 10
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 784.680 ns (5%) 1.72 KiB (1%) 18
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 655.257 ns (5%) 1.41 KiB (1%) 16
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 42.319 μs (5%) 19.08 KiB (1%) 380
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 26.561 μs (5%) 13.55 KiB (1%) 269
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.160 μs (5%) 400 bytes (1%) 11
["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 964.765 ns (5%) 400 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "evaluation", "linked"] 305.816 ns (5%) 384 bytes (1%) 6
["EpiLatentModels", "TransformLatentModel", "evaluation", "standard"] 307.311 ns (5%) 384 bytes (1%) 6
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 404.460 ns (5%) 704 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 396.900 ns (5%) 704 bytes (1%) 11
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 4.586 μs (5%) 3.84 KiB (1%) 81
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 4.606 μs (5%) 3.84 KiB (1%) 81
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 521.141 ns (5%) 192 bytes (1%) 3
["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 524.832 ns (5%) 192 bytes (1%) 3
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "linked"] 3.079 μs (5%) 4.16 KiB (1%) 44
["EpiLatentModels", "broadcast_dayofweek", "evaluation", "standard"] 1.627 μs (5%) 2.84 KiB (1%) 38
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.819 μs (5%) 10.00 KiB (1%) 51
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.423 μs (5%) 8.69 KiB (1%) 45
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 59.872 μs (5%) 35.58 KiB (1%) 689
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 40.786 μs (5%) 29.05 KiB (1%) 574
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.180 μs (5%) 1.22 KiB (1%) 27
["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.958 μs (5%) 1.22 KiB (1%) 27
["EpiLatentModels", "broadcast_weekly", "evaluation", "linked"] 2.215 μs (5%) 4.52 KiB (1%) 47
["EpiLatentModels", "broadcast_weekly", "evaluation", "standard"] 1.661 μs (5%) 2.62 KiB (1%) 37
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 2.914 μs (5%) 7.69 KiB (1%) 57
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.288 μs (5%) 5.53 KiB (1%) 45
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 84.299 μs (5%) 41.95 KiB (1%) 771
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 47.620 μs (5%) 28.44 KiB (1%) 513
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.352 μs (5%) 1.81 KiB (1%) 49
["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.620 μs (5%) 1.69 KiB (1%) 47
["EpiObsModels", "Ascertainment", "evaluation", "linked"] 3.432 μs (5%) 3.42 KiB (1%) 49
["EpiObsModels", "Ascertainment", "evaluation", "standard"] 3.414 μs (5%) 3.42 KiB (1%) 49
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 4.312 μs (5%) 3.77 KiB (1%) 56
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 4.212 μs (5%) 3.77 KiB (1%) 56
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 50.105 μs (5%) 41.55 KiB (1%) 965
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 34.495 μs (5%) 36.33 KiB (1%) 856
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.768 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.529 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "LatentDelay", "evaluation", "linked"] 29.766 μs (5%) 29.86 KiB (1%) 410
["EpiObsModels", "LatentDelay", "evaluation", "standard"] 29.516 μs (5%) 29.86 KiB (1%) 410
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 30.116 μs (5%) 32.09 KiB (1%) 316
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 28.844 μs (5%) 32.09 KiB (1%) 316
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 567.427 μs (5%) 371.16 KiB (1%) 8659
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 539.935 μs (5%) 365.94 KiB (1%) 8550
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 50.976 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 50.526 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "NegativeBinomialError", "evaluation", "linked"] 1.223 μs (5%) 336 bytes (1%) 5
["EpiObsModels", "NegativeBinomialError", "evaluation", "standard"] 1.206 μs (5%) 336 bytes (1%) 5
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.863 μs (5%) 560 bytes (1%) 10
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.739 μs (5%) 560 bytes (1%) 10
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 45.666 μs (5%) 38.83 KiB (1%) 959
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 30.668 μs (5%) 33.61 KiB (1%) 850
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.829 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.631 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "PoissonError", "evaluation", "linked"] 1.565 μs (5%) 1.80 KiB (1%) 22
["EpiObsModels", "PoissonError", "evaluation", "standard"] 1.247 μs (5%) 1.38 KiB (1%) 18
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 3.604 μs (5%) 7.75 KiB (1%) 31
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 2.864 μs (5%) 4.52 KiB (1%) 25
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 139.602 μs (5%) 91.00 KiB (1%) 1913
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 24.236 μs (5%) 29.25 KiB (1%) 712
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.701 μs (5%) 176 bytes (1%) 2
["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 4.267 μs (5%) 176 bytes (1%) 2
["EpiObsModels", "PrefixObservationModel", "evaluation", "linked"] 1.697 μs (5%) 1.44 KiB (1%) 26
["EpiObsModels", "PrefixObservationModel", "evaluation", "standard"] 1.655 μs (5%) 1.44 KiB (1%) 26
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.901 μs (5%) 1.66 KiB (1%) 31
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.837 μs (5%) 1.66 KiB (1%) 31
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 23.024 μs (5%) 13.27 KiB (1%) 291
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 8.934 μs (5%) 8.05 KiB (1%) 182
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.304 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.094 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "StackObservationModels", "evaluation", "linked"] 7.301 μs (5%) 5.48 KiB (1%) 93
["EpiObsModels", "StackObservationModels", "evaluation", "standard"] 7.341 μs (5%) 5.48 KiB (1%) 93
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 8.105 μs (5%) 5.83 KiB (1%) 100
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 7.975 μs (5%) 5.83 KiB (1%) 100
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 59.311 μs (5%) 51.73 KiB (1%) 1080
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 41.338 μs (5%) 46.52 KiB (1%) 971
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 6.364 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 6.047 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "ascertainment_dayofweek", "evaluation", "linked"] 4.488 μs (5%) 8.88 KiB (1%) 75
["EpiObsModels", "ascertainment_dayofweek", "evaluation", "standard"] 4.237 μs (5%) 7.62 KiB (1%) 67
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 5.751 μs (5%) 15.88 KiB (1%) 83
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 5.367 μs (5%) 14.62 KiB (1%) 75
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 80.461 μs (5%) 60.41 KiB (1%) 1139
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 62.407 μs (5%) 53.94 KiB (1%) 1022
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 5.751 μs (5%) 544 bytes (1%) 11
["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 5.527 μs (5%) 544 bytes (1%) 11
["EpiObsModels", "observation_error", "missing obs", "evaluation", "linked"] 1.415 μs (5%) 2.67 KiB (1%) 33
["EpiObsModels", "observation_error", "missing obs", "evaluation", "standard"] 919.342 ns (5%) 1.11 KiB (1%) 23
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.955 μs (5%) 3.56 KiB (1%) 39
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.391 μs (5%) 2.00 KiB (1%) 29
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 29.375 μs (5%) 24.22 KiB (1%) 486
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 13.926 μs (5%) 16.77 KiB (1%) 348
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.314 μs (5%) 144 bytes (1%) 2
["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.051 μs (5%) 144 bytes (1%) 2
["EpiObsModels", "observation_error", "no missing obs", "evaluation", "linked"] 452.515 ns (5%) 288 bytes (1%) 5
["EpiObsModels", "observation_error", "no missing obs", "evaluation", "standard"] 416.285 ns (5%) 288 bytes (1%) 5
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 582.464 ns (5%) 512 bytes (1%) 10
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 531.995 ns (5%) 512 bytes (1%) 10
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 24.436 μs (5%) 18.72 KiB (1%) 414
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 10.800 μs (5%) 12.83 KiB (1%) 286
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 1.954 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 1.702 μs (5%) 96 bytes (1%) 2
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "linked"] 1.815 μs (5%) 2.05 KiB (1%) 27
["EpiObsModels", "observation_error", "partially missing obs", "evaluation", "standard"] 1.678 μs (5%) 1.73 KiB (1%) 25
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "linked"] 1.678 μs (5%) 2.22 KiB (1%) 26
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)", "standard"] 1.525 μs (5%) 1.91 KiB (1%) 24
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()", "linked"] 39.504 μs (5%) 23.89 KiB (1%) 499
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()", "standard"] 23.314 μs (5%) 17.69 KiB (1%) 369
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "linked"] 2.293 μs (5%) 112 bytes (1%) 2
["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)", "standard"] 2.043 μs (5%) 112 bytes (1%) 2

Benchmark Group List

Here's a list of all the benchmark groups executed by this job:

  • ["EpiAwareUtils"]
  • ["EpiInfModels", "DirectInfections", "evaluation"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "DirectInfections", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiInfModels", "ExpGrowthRate", "evaluation"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiInfModels", "ExpGrowthRate", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "AR", "evaluation"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "AR", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "evaluation"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "BroadcastLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "CombineLatentModels", "evaluation"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "CombineLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "ConcatLatentModels", "evaluation"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "ConcatLatentModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "DiffLatentModel", "evaluation"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "DiffLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "HierarchicalNormal", "evaluation"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "HierarchicalNormal", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "Intercept", "evaluation"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "Intercept", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "PrefixLatentModel", "evaluation"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "PrefixLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RandomWalk", "evaluation"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RandomWalk", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "evaluation"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "RecordExpectedLatent", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "TransformLatentModel", "evaluation"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "TransformLatentModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "evaluation"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiLatentModels", "broadcast_weekly", "evaluation"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiLatentModels", "broadcast_weekly", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "Ascertainment", "evaluation"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "Ascertainment", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "LatentDelay", "evaluation"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "LatentDelay", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "NegativeBinomialError", "evaluation"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "NegativeBinomialError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PoissonError", "evaluation"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PoissonError", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "PrefixObservationModel", "evaluation"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "PrefixObservationModel", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "StackObservationModels", "evaluation"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "StackObservationModels", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "evaluation"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "ascertainment_dayofweek", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "no missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "evaluation"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoForwardDiff(chunksize=0)"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff()"]
  • ["EpiObsModels", "observation_error", "partially missing obs", "gradient", "ADTypes.AutoReverseDiff(compile=true)"]

Julia versioninfo

Julia Version 1.10.4
Commit 48d4fd48430 (2024-06-04 10:41 UTC)
Build Info:
  Official https://julialang.org/ release
Platform Info:
  OS: Linux (x86_64-linux-gnu)
      Ubuntu 22.04.4 LTS
  uname: Linux 6.5.0-1023-azure #24~22.04.1-Ubuntu SMP Wed Jun 12 19:55:26 UTC 2024 x86_64 x86_64
  CPU: AMD EPYC 7763 64-Core Processor: 
              speed         user         nice          sys         idle          irq
       #1  2496 MHz       9240 s          0 s        870 s      20656 s          0 s
       #2  3158 MHz       8113 s          0 s        763 s      21879 s          0 s
       #3  3243 MHz       8469 s          0 s        896 s      21401 s          0 s
       #4  3271 MHz       4828 s          0 s        710 s      25218 s          0 s
  Memory: 15.606491088867188 GB (13239.37890625 MB free)
  Uptime: 3083.85 sec
  Load Avg:  1.0  1.02  1.0
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-15.0.7 (ORCJIT, znver3)
Threads: 1 default, 0 interactive, 1 GC (on 4 virtual cores)

Runtime information

Runtime Info
BLAS #threads 2
BLAS.vendor() lbt
Sys.CPU_THREADS 4

lscpu output:

Architecture:                       x86_64
CPU op-mode(s):                     32-bit, 64-bit
Address sizes:                      48 bits physical, 48 bits virtual
Byte Order:                         Little Endian
CPU(s):                             4
On-line CPU(s) list:                0-3
Vendor ID:                          AuthenticAMD
Model name:                         AMD EPYC 7763 64-Core Processor
CPU family:                         25
Model:                              1
Thread(s) per core:                 2
Core(s) per socket:                 2
Socket(s):                          1
Stepping:                           1
BogoMIPS:                           4890.84
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 nopl tsc_reliable nonstop_tsc cpuid extd_apicid aperfmperf pni pclmulqdq ssse3 fma cx16 pcid sse4_1 sse4_2 movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm cmp_legacy svm cr8_legacy abm sse4a misalignsse 3dnowprefetch osvw topoext invpcid_single vmmcall fsgsbase bmi1 avx2 smep bmi2 erms invpcid rdseed adx smap clflushopt clwb sha_ni xsaveopt xsavec xgetbv1 xsaves clzero xsaveerptr rdpru arat npt nrip_save tsc_scale vmcb_clean flushbyasid decodeassists pausefilter pfthreshold v_vmsave_vmload umip vaes vpclmulqdq rdpid fsrm
Virtualization:                     AMD-V
Hypervisor vendor:                  Microsoft
Virtualization type:                full
L1d cache:                          64 KiB (2 instances)
L1i cache:                          64 KiB (2 instances)
L2 cache:                           1 MiB (2 instances)
L3 cache:                           32 MiB (1 instance)
NUMA node(s):                       1
NUMA node0 CPU(s):                  0-3
Vulnerability Gather data sampling: 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 Retbleed:             Not affected
Vulnerability Spec rstack overflow: Vulnerable: Safe RET, no microcode
Vulnerability Spec store bypass:    Vulnerable
Vulnerability Spectre v1:           Mitigation; usercopy/swapgs barriers and __user pointer sanitization
Vulnerability Spectre v2:           Mitigation; Retpolines; STIBP disabled; RSB filling; PBRSB-eIBRS Not affected; BHI Not affected
Vulnerability Srbds:                Not affected
Vulnerability Tsx async abort:      Not affected
Cpu Property Value
Brand AMD EPYC 7763 64-Core Processor
Vendor :AMD
Architecture :Unknown
Model Family: 0xaf, Model: 0x01, Stepping: 0x01, Type: 0x00
Cores 16 physical cores, 16 logical cores (on executing CPU)
No Hyperthreading hardware capability detected
Clock Frequencies Not supported by CPU
Data Cache Level 1:3 : (32, 512, 32768) kbytes
64 byte cache line size
Address Size 48 bits virtual, 48 bits physical
SIMD 256 bit = 32 byte max. SIMD vector size
Time Stamp Counter TSC is accessible via rdtsc
TSC runs at constant rate (invariant from clock frequency)
Perf. Monitoring Performance Monitoring Counters (PMC) are not supported
Hypervisor Yes, Microsoft

SamuelBrand1
SamuelBrand1 approved these changes Jul 23, 2024
View reviewed changes
Copy link
Collaborator

@SamuelBrand1 SamuelBrand1 left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

Like the extra tests.

@seabbs seabbs added this pull request to the merge queue Jul 23, 2024
Merged via the queue into main with commit db599a2 Jul 23, 2024
11 checks passed
@seabbs seabbs deleted the from-missing-to-index-padding branch July 23, 2024 17:04
This was referenced Jul 24, 2024
Merged
Closed
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Reviewers

@SamuelBrand1 SamuelBrand1 SamuelBrand1 approved these changes

Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

Successfully merging this pull request may close these issues.

Integration benchmarks of Ascertainment fail in certain combinations
3 participants
@seabbs @codecov-commenter @SamuelBrand1