YAXArrays.jl
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JuliaDataCubes
Add test case for repetitive values in batchextraction
This is a first testitem for the extraction of multiple pixels from the same site.
Currently using a Table with a column with repeating values just goes through and returns a YAXArray with a repetitive site Axis. I would propose to return a dataset which has as cubes the different entries in the :site column and as axis values the longitude and latitude combinations. This would also make working with Shapefiles much nicer, because you could use the CubeTable interface to generate the subsetting table.
This is a nice workflow, which could be enhanced by returning a cube per unique polygon value and it would also be good to have the ability to subset with all parts of the CubeTable at the same time.
julia> freqmasklarge = cubefromshape(freqpath, getAxis("Y",allcube), getAxis("X", allcube), wrap=nothing)
julia> ctlarge = CubeTable(polygons = freqmasklarge)
julia> ctlargefiltered = TableOperations.filter.(x-> !ismissing(x.polygons),ctlarge)
julia> allcube[ctlargefiltered[1]]
Benchmark result
Judge result
Benchmark Report for /home/runner/work/YAXArrays.jl/YAXArrays.jl
Job Properties
- Time of benchmarks:
- Target: 12 Oct 2022 - 15:32
- Baseline: 12 Oct 2022 - 15:33
- Package commits:
- Target: f9fc21
- Baseline: cd8cc6
- Julia commits:
- Target: 36034a
- Baseline: 36034a
- 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 |
|---|---|---|
["mapslices", "small"] |
0.01 (5%) :white_check_mark: | 0.16 (1%) :white_check_mark: |
Benchmark Group List
Here's a list of all the benchmark groups executed by this job:
["mapslices"]
Julia versioninfo
Target
Julia Version 1.8.2
Commit 36034abf260 (2022-09-29 15:21 UTC)
Platform Info:
OS: Linux (x86_64-linux-gnu)
Ubuntu 20.04.5 LTS
uname: Linux 5.15.0-1020-azure #25~20.04.1-Ubuntu SMP Thu Sep 1 19:20:56 UTC 2022 x86_64 x86_64
CPU: Intel(R) Xeon(R) Platinum 8171M CPU @ 2.60GHz:
speed user nice sys idle irq
#1 2095 MHz 938 s 0 s 153 s 1266 s 0 s
#2 2095 MHz 1183 s 0 s 272 s 917 s 0 s
Memory: 6.781253814697266 GB (4721.01171875 MB free)
Uptime: 242.34 sec
Load Avg: 1.47 1.07 0.47
WORD_SIZE: 64
LIBM: libopenlibm
LLVM: libLLVM-13.0.1 (ORCJIT, skylake-avx512)
Threads: 1 on 2 virtual cores
Baseline
Julia Version 1.8.2
Commit 36034abf260 (2022-09-29 15:21 UTC)
Platform Info:
OS: Linux (x86_64-linux-gnu)
Ubuntu 20.04.5 LTS
uname: Linux 5.15.0-1020-azure #25~20.04.1-Ubuntu SMP Thu Sep 1 19:20:56 UTC 2022 x86_64 x86_64
CPU: Intel(R) Xeon(R) Platinum 8171M CPU @ 2.60GHz:
speed user nice sys idle irq
#1 2095 MHz 1274 s 0 s 166 s 1298 s 0 s
#2 2095 MHz 1220 s 0 s 274 s 1259 s 0 s
Memory: 6.781253814697266 GB (4667.93359375 MB free)
Uptime: 280.46 sec
Load Avg: 1.26 1.06 0.49
WORD_SIZE: 64
LIBM: libopenlibm
LLVM: libLLVM-13.0.1 (ORCJIT, skylake-avx512)
Threads: 1 on 2 virtual cores
Target result
Benchmark Report for /home/runner/work/YAXArrays.jl/YAXArrays.jl
Job Properties
- Time of benchmark: 12 Oct 2022 - 15:32
- Package commit: f9fc21
- Julia commit: 36034a
- 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 |
|---|---|---|---|---|
["mapslices", "small"] |
200.970 ms (5%) | 1.931 ms | 326.03 MiB (1%) | 91534 |
Benchmark Group List
Here's a list of all the benchmark groups executed by this job:
["mapslices"]
Julia versioninfo
Julia Version 1.8.2
Commit 36034abf260 (2022-09-29 15:21 UTC)
Platform Info:
OS: Linux (x86_64-linux-gnu)
Ubuntu 20.04.5 LTS
uname: Linux 5.15.0-1020-azure #25~20.04.1-Ubuntu SMP Thu Sep 1 19:20:56 UTC 2022 x86_64 x86_64
CPU: Intel(R) Xeon(R) Platinum 8171M CPU @ 2.60GHz:
speed user nice sys idle irq
#1 2095 MHz 938 s 0 s 153 s 1266 s 0 s
#2 2095 MHz 1183 s 0 s 272 s 917 s 0 s
Memory: 6.781253814697266 GB (4721.01171875 MB free)
Uptime: 242.34 sec
Load Avg: 1.47 1.07 0.47
WORD_SIZE: 64
LIBM: libopenlibm
LLVM: libLLVM-13.0.1 (ORCJIT, skylake-avx512)
Threads: 1 on 2 virtual cores
Baseline result
Benchmark Report for /home/runner/work/YAXArrays.jl/YAXArrays.jl
Job Properties
- Time of benchmark: 12 Oct 2022 - 15:33
- Package commit: cd8cc6
- Julia commit: 36034a
- 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 |
|---|---|---|---|---|
["mapslices", "small"] |
14.483 s (5%) | 986.022 ms | 1.93 GiB (1%) | 30746014 |
Benchmark Group List
Here's a list of all the benchmark groups executed by this job:
["mapslices"]
Julia versioninfo
Julia Version 1.8.2
Commit 36034abf260 (2022-09-29 15:21 UTC)
Platform Info:
OS: Linux (x86_64-linux-gnu)
Ubuntu 20.04.5 LTS
uname: Linux 5.15.0-1020-azure #25~20.04.1-Ubuntu SMP Thu Sep 1 19:20:56 UTC 2022 x86_64 x86_64
CPU: Intel(R) Xeon(R) Platinum 8171M CPU @ 2.60GHz:
speed user nice sys idle irq
#1 2095 MHz 1274 s 0 s 166 s 1298 s 0 s
#2 2095 MHz 1220 s 0 s 274 s 1259 s 0 s
Memory: 6.781253814697266 GB (4667.93359375 MB free)
Uptime: 280.46 sec
Load Avg: 1.26 1.06 0.49
WORD_SIZE: 64
LIBM: libopenlibm
LLVM: libLLVM-13.0.1 (ORCJIT, skylake-avx512)
Threads: 1 on 2 virtual cores
Runtime information
| Runtime Info | |
|---|---|
| BLAS #threads | 1 |
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: 2095.210
BogoMIPS: 4190.42
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: Mitigation: VMX unsupported
Vulnerability L1tf: Mitigation; PTE Inversion
Vulnerability Mds: Mitigation; Clear CPU buffers; SMT Host state unknown
Vulnerability Meltdown: Mitigation; PTI
Vulnerability Mmio stale data: Vulnerable: Clear CPU buffers attempted, no microcode; SMT Host state unknown
Vulnerability Retbleed: Vulnerable
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
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 |
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