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mtsch / Ripserer.jl

Flexible and efficient persistent homology computation.
https://mtsch.github.io/Ripserer.jl/dev/
MIT License
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CompatHelper: bump compat for "MLJModelInterface" to "1.0" #147

Closed github-actions[bot] closed 3 years ago

github-actions[bot] commented 3 years ago

This pull request changes the compat entry for the MLJModelInterface package from ^0.3.5, 0.4 to ^0.3.5, 0.4, 1.0.

This keeps the compat entries for earlier versions.

Note: I have not tested your package with this new compat entry. It is your responsibility to make sure that your package tests pass before you merge this pull request.

github-actions[bot] commented 3 years ago
Benchmark result # Judge result # Benchmark Report for */home/runner/work/Ripserer.jl/Ripserer.jl* ## Job Properties * Time of benchmarks: - Target: 14 Apr 2021 - 02:51 - Baseline: 14 Apr 2021 - 02:55 * Package commits: - Target: 43ca92 - Baseline: 9c5641 * Julia commits: - Target: f9720d - Baseline: f9720d * 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 :x:), while a ratio less than `1.0` denotes a possible improvement (marked with :white_check_mark:). 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 | |----------------------------------------------------|------------|--------------| ## Benchmark Group List Here's a list of all the benchmark groups executed by this job: - `["alpha"]` - `["cubical"]` - `["homology"]` - `["rips", "dense"]` - `["rips", "sparse"]` ## Julia versioninfo ### Target ``` Julia Version 1.6.0 Commit f9720dc2eb (2021-03-24 12:55 UTC) Platform Info: OS: Linux (x86_64-pc-linux-gnu) Ubuntu 20.04.2 LTS uname: Linux 5.4.0-1043-azure #45-Ubuntu SMP Fri Mar 19 17:33:38 UTC 2021 x86_64 x86_64 CPU: Intel(R) Xeon(R) Platinum 8171M CPU @ 2.60GHz: speed user nice sys idle irq #1 2095 MHz 2691 s 1 s 195 s 2933 s 0 s #2 2095 MHz 684 s 1 s 178 s 4960 s 0 s Memory: 6.791343688964844 GB (2960.80078125 MB free) Uptime: 588.0 sec Load Avg: 1.06 0.83 0.4 WORD_SIZE: 64 LIBM: libopenlibm LLVM: libLLVM-11.0.1 (ORCJIT, skylake-avx512) ``` ### Baseline ``` Julia Version 1.6.0 Commit f9720dc2eb (2021-03-24 12:55 UTC) Platform Info: OS: Linux (x86_64-pc-linux-gnu) Ubuntu 20.04.2 LTS uname: Linux 5.4.0-1043-azure #45-Ubuntu SMP Fri Mar 19 17:33:38 UTC 2021 x86_64 x86_64 CPU: Intel(R) Xeon(R) Platinum 8171M CPU @ 2.60GHz: speed user nice sys idle irq #1 2095 MHz 3340 s 1 s 222 s 4271 s 0 s #2 2095 MHz 2028 s 1 s 232 s 5580 s 0 s Memory: 6.791343688964844 GB (2936.86328125 MB free) Uptime: 790.0 sec Load Avg: 1.2 1.02 0.57 WORD_SIZE: 64 LIBM: libopenlibm LLVM: libLLVM-11.0.1 (ORCJIT, skylake-avx512) ``` --- # Target result # Benchmark Report for */home/runner/work/Ripserer.jl/Ripserer.jl* ## Job Properties * Time of benchmark: 14 Apr 2021 - 2:51 * Package commit: 43ca92 * Julia commit: f9720d * 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 | |----------------------------------------------------|--------------:|-----------:|----------------:|------------:| | `["alpha", "klein500.pts"]` | 22.699 s (5%) | 981.079 ms | 4.21 GiB (1%) | 43018268 | | `["alpha", "torus10k.pts"]` | 6.176 s (5%) | 127.900 ms | 1.17 GiB (1%) | 11367440 | | `["cubical", "bonsai64.dipha"]` | 7.311 s (5%) | 366.334 ms | 934.60 MiB (1%) | 13602651 | | `["cubical", "lena2048.dipha"]` | 8.026 s (5%) | 464.636 ms | 2.26 GiB (1%) | 26665858 | | `["homology", "klein200.pts"]` | 3.180 s (5%) | 89.544 ms | 370.89 MiB (1%) | 6213374 | | `["homology", "lena1024.dipha"]` | 7.572 s (5%) | 199.892 ms | 988.09 MiB (1%) | 13901915 | | `["homology", "sphere100.pts"]` | 1.559 s (5%) | 12.283 ms | 120.05 MiB (1%) | 1610151 | | `["rips", "dense", "dragon2000.pts"]` | 2.970 s (5%) | 33.310 ms | 292.19 MiB (1%) | 25253 | | `["rips", "dense", "fract-r.dist"]` | 20.352 s (5%) | 323.178 ms | 1.78 GiB (1%) | 18737 | | `["rips", "dense", "o3_1024.pts"]` | 6.645 s (5%) | 86.729 ms | 466.63 MiB (1%) | 3186798 | | `["rips", "sparse", "alpha_4_sphere_2000.spdist"]` | 9.628 s (5%) | 116.012 ms | 716.05 MiB (1%) | 6393337 | | `["rips", "sparse", "dragon2000.pts"]` | 3.227 s (5%) | 7.496 ms | 321.69 MiB (1%) | 7474 | | `["rips", "sparse", "fract-r.dist"]` | 22.627 s (5%) | 326.634 ms | 1.79 GiB (1%) | 4173 | | `["rips", "sparse", "o3_1024.pts"]` | 2.863 s (5%) | 32.713 ms | 282.21 MiB (1%) | 4265 | ## Benchmark Group List Here's a list of all the benchmark groups executed by this job: - `["alpha"]` - `["cubical"]` - `["homology"]` - `["rips", "dense"]` - `["rips", "sparse"]` ## Julia versioninfo ``` Julia Version 1.6.0 Commit f9720dc2eb (2021-03-24 12:55 UTC) Platform Info: OS: Linux (x86_64-pc-linux-gnu) Ubuntu 20.04.2 LTS uname: Linux 5.4.0-1043-azure #45-Ubuntu SMP Fri Mar 19 17:33:38 UTC 2021 x86_64 x86_64 CPU: Intel(R) Xeon(R) Platinum 8171M CPU @ 2.60GHz: speed user nice sys idle irq #1 2095 MHz 2691 s 1 s 195 s 2933 s 0 s #2 2095 MHz 684 s 1 s 178 s 4960 s 0 s Memory: 6.791343688964844 GB (2960.80078125 MB free) Uptime: 588.0 sec Load Avg: 1.06 0.83 0.4 WORD_SIZE: 64 LIBM: libopenlibm LLVM: libLLVM-11.0.1 (ORCJIT, skylake-avx512) ``` --- # Baseline result # Benchmark Report for */home/runner/work/Ripserer.jl/Ripserer.jl* ## Job Properties * Time of benchmark: 14 Apr 2021 - 2:55 * Package commit: 9c5641 * Julia commit: f9720d * 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 | |----------------------------------------------------|--------------:|-----------:|----------------:|------------:| | `["alpha", "klein500.pts"]` | 22.606 s (5%) | 987.657 ms | 4.21 GiB (1%) | 43018270 | | `["alpha", "torus10k.pts"]` | 6.061 s (5%) | 130.632 ms | 1.17 GiB (1%) | 11367440 | | `["cubical", "bonsai64.dipha"]` | 7.477 s (5%) | 381.772 ms | 934.60 MiB (1%) | 13602652 | | `["cubical", "lena2048.dipha"]` | 8.286 s (5%) | 472.446 ms | 2.26 GiB (1%) | 26665858 | | `["homology", "klein200.pts"]` | 3.146 s (5%) | 117.195 ms | 370.89 MiB (1%) | 6213374 | | `["homology", "lena1024.dipha"]` | 7.666 s (5%) | 351.629 ms | 988.07 MiB (1%) | 13901911 | | `["homology", "sphere100.pts"]` | 1.513 s (5%) | 12.762 ms | 120.05 MiB (1%) | 1610152 | | `["rips", "dense", "dragon2000.pts"]` | 2.977 s (5%) | 33.085 ms | 292.19 MiB (1%) | 25253 | | `["rips", "dense", "fract-r.dist"]` | 20.278 s (5%) | 326.963 ms | 1.78 GiB (1%) | 18737 | | `["rips", "dense", "o3_1024.pts"]` | 6.450 s (5%) | 86.457 ms | 466.63 MiB (1%) | 3186798 | | `["rips", "sparse", "alpha_4_sphere_2000.spdist"]` | 9.801 s (5%) | 125.843 ms | 716.06 MiB (1%) | 6393338 | | `["rips", "sparse", "dragon2000.pts"]` | 3.209 s (5%) | 7.706 ms | 321.69 MiB (1%) | 7474 | | `["rips", "sparse", "fract-r.dist"]` | 22.647 s (5%) | 328.730 ms | 1.79 GiB (1%) | 4173 | | `["rips", "sparse", "o3_1024.pts"]` | 2.910 s (5%) | 32.567 ms | 282.21 MiB (1%) | 4265 | ## Benchmark Group List Here's a list of all the benchmark groups executed by this job: - `["alpha"]` - `["cubical"]` - `["homology"]` - `["rips", "dense"]` - `["rips", "sparse"]` ## Julia versioninfo ``` Julia Version 1.6.0 Commit f9720dc2eb (2021-03-24 12:55 UTC) Platform Info: OS: Linux (x86_64-pc-linux-gnu) Ubuntu 20.04.2 LTS uname: Linux 5.4.0-1043-azure #45-Ubuntu SMP Fri Mar 19 17:33:38 UTC 2021 x86_64 x86_64 CPU: Intel(R) Xeon(R) Platinum 8171M CPU @ 2.60GHz: speed user nice sys idle irq #1 2095 MHz 3340 s 1 s 222 s 4271 s 0 s #2 2095 MHz 2028 s 1 s 232 s 5580 s 0 s Memory: 6.791343688964844 GB (2936.86328125 MB free) Uptime: 790.0 sec Load Avg: 1.2 1.02 0.57 WORD_SIZE: 64 LIBM: libopenlibm LLVM: libLLVM-11.0.1 (ORCJIT, skylake-avx512) ``` --- # Runtime information | Runtime Info | | |:--|:--| | BLAS #threads | 2 | | `BLAS.vendor()` | `openblas64` | | `Sys.CPU_THREADS` | 2 | `lscpu` output: Architecture: x86_64 CPU op-mode(s): 32-bit, 64-bit Byte Order: Little Endian Address sizes: 46 bits physical, 48 bits virtual CPU(s): 2 On-line CPU(s) list: 0,1 Thread(s) per core: 1 Core(s) per socket: 2 Socket(s): 1 NUMA node(s): 1 Vendor ID: GenuineIntel CPU family: 6 Model: 85 Model name: Intel(R) Xeon(R) Platinum 8171M CPU @ 2.60GHz Stepping: 4 CPU MHz: 2095.078 BogoMIPS: 4190.15 Hypervisor vendor: Microsoft Virtualization type: full L1d cache: 64 KiB L1i cache: 64 KiB L2 cache: 2 MiB L3 cache: 35.8 MiB NUMA node0 CPU(s): 0,1 Vulnerability Itlb multihit: KVM: Vulnerable Vulnerability L1tf: Mitigation; PTE Inversion Vulnerability Mds: Mitigation; Clear CPU buffers; SMT Host state unknown Vulnerability Meltdown: Mitigation; PTI Vulnerability Spec store bypass: Vulnerable Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization Vulnerability Spectre v2: Mitigation; Full generic retpoline, STIBP disabled, RSB filling Vulnerability Srbds: Not affected Vulnerability Tsx async abort: Mitigation; Clear CPU buffers; SMT Host state unknown Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 ss ht syscall nx pdpe1gb rdtscp lm constant_tsc rep_good nopl xtopology cpuid pni pclmulqdq ssse3 fma cx16 pcid sse4_1 sse4_2 movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm abm 3dnowprefetch invpcid_single pti fsgsbase bmi1 hle avx2 smep bmi2 erms invpcid rtm mpx avx512f avx512dq rdseed adx smap clflushopt avx512cd avx512bw avx512vl xsaveopt xsavec xsaves md_clear | Cpu Property | Value | |:------------------ |:------------------------------------------------------- | | Brand | Intel(R) Xeon(R) Platinum 8171M CPU @ 2.60GHz | | Vendor | :Intel | | Architecture | :Skylake | | Model | Family: 0x06, Model: 0x55, Stepping: 0x04, Type: 0x00 | | Cores | 2 physical cores, 2 logical cores (on executing CPU) | | | No Hyperthreading hardware capability detected | | Clock Frequencies | Not supported by CPU | | Data Cache | Level 1:3 : (32, 1024, 36608) kbytes | | | 64 byte cache line size | | Address Size | 48 bits virtual, 46 bits physical | | SIMD | 512 bit = 64 byte max. SIMD vector size | | Time Stamp Counter | TSC is accessible via `rdtsc` | | | TSC increased at every clock cycle (non-invariant TSC) | | Perf. Monitoring | Performance Monitoring Counters (PMC) are not supported | | Hypervisor | Yes, Microsoft |