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- Can limit ourselves to 8000 hsd samples (~1us for both ions/electrons)
- will do development to make slow-ions fit in the 1us window
- At 1MHz 8000 samples is 16GB/s so too big for one drp node with 4-6GB/s limit (especially with 2 hsd's per node)
- can reduce with fex by at least a factor of 8 (20 non-contiguous areas of 50 samples each, changing per-event) to get within 4GB/s per drp node (Taran confirmed that we can do this with the 1us window, factor of 8 applies to both electrons and ions)
- at 100kHz 8000 samples would work from a data volume perspective
- For the FZP 2048 samples from the piranha have one contiguous "blob" of ~200 pixels that should be used for the outer product, which changes on a per-event basis.
- find the highest pixel with a window with a fixed-size window
We want these 6 outer-products:
- electron-electron hsd-hsd outer product (symmetric, same hsd, can save a factor of 2)
- ion-ion hsd-hsd outer product (symmetric, same hsd, can save a factor of 2)
- electron-ion hsd-hsd outer product
- (most important) electron-fzp outer product (fzp is piranha: 2048)
- ion-fzp outer product (fzp is piranha: 2048)
- (most important) fzp-fzp outer product (symmetric, can save a factor of 2)
Performance with Fex Data
We tested the 6 outer products outlined above and accumulate the results back to the full size matrices (3 of 8000 x 8000, 2 of 8000 x 2048, and 1 2048 x 2048) on s3df. The performance per core is around 400 Hz. We scale this up to 1MHz with 2048 cores (18 milano nodes).
This script for this performance test is test_fast_outer_filling.py and was submitted with submit_s3df.sh
Performance with reduced full data
Numpy Outer Products
| Code Block | ||
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(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ python test_np_outer.py
a.shape=(2048,),b.shape=(59400,) dtype=<class 'numpy.int16'>
a,b min: 0.07 max: 0.09 avg: 0.08 rate:12.04Hz
b,b min: 2.03 max: 2.48 avg: 2.31 rate:0.43Hz
total min: 2.10 max: 2.57 avg: 2.40 rate:0.42Hz
(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ python test_np_outer.py
a.shape=(2048,),b.shape=(59400,) dtype=<class 'numpy.float32'>
a,b min: 0.14 max: 0.17 avg: 0.16 rate:6.31Hz
b,b min: 3.88 max: 4.64 avg: 4.36 rate:0.23Hz
total min: 4.02 max: 4.82 avg: 4.52 rate:0.22Hz
(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ python test_np_outer.py
a.shape=(2048,),b.shape=(59400,) dtype=<class 'numpy.float64'>
a,b min: 0.28 max: 0.33 avg: 0.31 rate:3.26Hz
b,b min: 7.45 max: 8.67 avg: 8.15 rate:0.12Hz
total min: 7.73 max: 9.00 avg: 8.46 rate:0.12Hz
(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ python test_np_outer.py
a.shape=(2048,),b.shape=(8000,) dtype=<class 'numpy.int16'>
a,b min: 0.01 max: 0.01 avg: 0.01 rate:77.62Hz
b,b min: 0.04 max: 0.05 avg: 0.05 rate:19.64Hz
total min: 0.06 max: 0.07 avg: 0.06 rate:15.68Hz
(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ python test_np_outer.py
a.shape=(2048,),b.shape=(8000,) dtype=<class 'numpy.float32'>
a,b min: 0.02 max: 0.03 avg: 0.03 rate:38.00Hz
b,b min: 0.09 max: 0.11 avg: 0.10 rate:9.87Hz
total min: 0.11 max: 0.14 avg: 0.13 rate:7.84Hz
(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ python test_np_outer.py
a.shape=(2048,),b.shape=(8000,) dtype=<class 'numpy.float64'>
a,b min: 0.04 max: 0.05 avg: 0.05 rate:19.58Hz
b,b min: 0.17 max: 0.21 avg: 0.20 rate:5.00Hz
total min: 0.22 max: 0.27 avg: 0.25 rate:3.98Hz |
Pytorch Outer Products
| Code Block | ||
|---|---|---|
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(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ python test_np_outer.py
a.shape=torch.Size([2048]),b.shape=torch.Size([59400]) dtype=torch.int16
a,b min: 0.02 max: 0.04 avg: 0.03 rate:29.94Hz
b,b min: 0.35 max: 0.85 avg: 0.67 rate:1.49Hz
total min: 0.37 max: 0.89 avg: 0.71 rate:1.42Hz
(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ python test_np_outer.py
a.shape=torch.Size([2048]),b.shape=torch.Size([59400]) dtype=torch.float32
a,b min: 0.04 max: 0.07 avg: 0.06 rate:17.47Hz
b,b min: 0.59 max: 1.55 avg: 1.19 rate:0.84Hz
total min: 0.63 max: 1.62 avg: 1.25 rate:0.80Hz
(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ python test_np_outer.py
a.shape=torch.Size([2048]),b.shape=torch.Size([59400]) dtype=torch.float64
a,b min: 0.06 max: 0.13 avg: 0.10 rate:10.24Hz
b,b min: 1.06 max: 2.89 avg: 2.13 rate:0.47Hz
total min: 1.12 max: 3.02 avg: 2.23 rate:0.45Hz
(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ python test_np_outer.py
a.shape=torch.Size([2048]),b.shape=torch.Size([8000]) dtype=torch.int16
a,b min: 0.01 max: 0.02 avg: 0.01 rate:73.23Hz
b,b min: 0.02 max: 0.03 avg: 0.02 rate:45.16Hz
total min: 0.03 max: 0.04 avg: 0.04 rate:27.93Hz
(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ python test_np_outer.py
a.shape=torch.Size([2048]),b.shape=torch.Size([8000]) dtype=torch.float32
a,b min: 0.01 max: 0.02 avg: 0.02 rate:57.11Hz
b,b min: 0.02 max: 0.04 avg: 0.03 rate:30.44Hz
total min: 0.04 max: 0.06 avg: 0.05 rate:19.86Hz
(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ python test_np_outer.py
a.shape=torch.Size([2048]),b.shape=torch.Size([8000]) dtype=torch.float64
a,b min: 0.02 max: 0.03 avg: 0.02 rate:40.98Hz
b,b min: 0.03 max: 0.07 avg: 0.06 rate:17.91Hz
total min: 0.05 max: 0.10 avg: 0.08 rate:12.46Hz |
Python script with psana2
Note: Timing values shown below are from single precision variables
| Code Block | ||
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(ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ mpirun -n 3 python run_outer_products.py 0 1 2048 59400 nevent: 1 vls: (2048 mpirun -n 3 python run_outer_products.py 0 1 2048 59400 nevent: 1 vls: (2048,) inner: (59400,) outer: (59400,) dt:15.693s. load:0.037s calc:15.656s outer vls/wf:0.29s, wf/wf:6.68s add vls/wf:0.29s wf/wf:8.39s tt:15.693s. rate:0.06Hz nevent: 2 vls: (2048,) inner: (59400,) outer: (59400,) dt:10.523s. load:0.004s calc:10.519s outer vls/wf:0.29s, wf/wf:7.69s add vls/wf:0.09s wf/wf:2.45s tt:26.216s. rate:0.08Hz nevent: 3 vls: (2048,) inner: (59400,) outer: (59400,) dt:109.526s86s. load:0.003s04s calc:109.523s outer vls/wf:0.29s, wf/wf:7.70s add vls/wf:0.09s wf/wf:2.44s tt:36.742s82s tt:9.86s. rate:0.10Hz nevent: 2 vls: (2048,) outer: (59400,) dt:6.37s. load:0.00s calc:6.36s tt:16.22s. rate:0.08Hz12Hz nevent: 43 vls: (2048,) innerouter: (59400,) dt:6.37s. load:0.00s calc:6.36s tt:22.59s. rate:0.13Hz nevent: 4 vls: (2048,) outer: (59400,) dt:106.445s38s. load:0.003s00s calc:106.442s outer vls/wf:0.34s, wf/wf:7.57s add vls/wf:0.09s wf/wf:2.44s tt:47.187s38s tt:28.97s. rate:0.14Hz nevent: 5 vls: (2048,) outer: (59400,) dt:6.37s. load:0.00s calc:6.37s tt:35.34s. rate:0.08Hz14Hz nevent: 56 vls: (2048,) innerouter: (59400,) dt:6.34s. load:0.00s calc:6.33s tt:41.68s. rate:0.14Hz nevent: 7 vls: (2048,) outer: (59400,) dt:106.627s37s. load:0.003s00s calc:106.624s outer vls/wf:0.33s, wf/wf:7.74s add vls/wf:0.09s wf/wf:2.46s tt:57.814s36s tt:48.04s. rate:0.15Hz nevent: 8 vls: (2048,) outer: (59400,) dt:6.35s. load:0.00s calc:6.34s tt:54.39s. rate:0.09Hz15Hz nevent: 68 vlstt:56.44s. rate:0.00706kHz (2048,) inner: (59400ps-4.5.26) monarin@drp-srcf-eb003 (master *) tmolw8819 👁)$ mpirun -n 3 python run_outer_products.py 0 1 2048 8000 nevent: 1 vls: (2048,) outer: (594008000,) dt:100.420s30s. load:0.003s03s calc:100.417s outer vls/wf26s tt:0.30s.33s, wf/wfrate:7.56s add vls/wf:0.09s wf/wf:2.44s tt:68.234s3.39Hz nevent: 2 vls: (2048,) outer: (8000,) dt:0.17s. load:0.00s calc:0.16s tt:0.46s. rate:04.09Hz31Hz nevent: 73 vls: (2048,) inner outer: (8000,) dt:0.17s. load:0.00s calc:0.16s tt:0.63s. rate:4.76Hz nevent: 4 vls: (594002048,) outer: (594008000,) dt:100.580s17s. load:0.003s00s calc:100.577s outer vls/wf16s tt:0.35s, wf/wf:7.69s add vls/wf:0.09s wf/wf:2.45s tt:78.814s. rate:0.09Hz nevent: 880s. rate:5.01Hz nevent: 5 vls: (2048,) outer: (8000,) dt:0.17s. load:0.00s calc:0.16s tt:0.97s. rate:5.18Hz nevent: 6 vls: (2048,) outer: (8000,) inner dt:0.17s. load:0.00s calc:0.16s tt:1.13s. rate:5.30Hz nevent: 7 vls: (594002048,) outer: (594008000,) dt:100.469s17s. load:0.005s00s calc:10.463s outer vls/wf:0.33s, wf/wf:7.59s add vls/wf:0.09s wf/wf:2.46s tt:89.283s. rate:0.09Hz0.16s tt:1.30s. rate:5.39Hz nevent: 8 vls: (2048,) outer: (8000,) dt:0.17s. load:0.00s calc:0.16s tt:1.47s. rate:5.45Hz nevent: 8 tt:924.53516s29s. rate:0.011566894771298394kHz00054kHz |
Reducing wf length from 59400 to 8000, the 2 outer products ran 40x faster.
mona should test:
- the "sparse" outer product from fex
- full 8000x8000 (plus 8000x2048 for fzp):
- we can do 8000 samples from 2 hsd channels per drp node at 100kHz (3.2GB/s) from a data-volume perspective but need to check from a CPU perspective.
Memory Usage
the full-matrix memory usage with mpi: looks like 8GB for 60 cores for 8000 samples
Estimates of memory usage based on data types (float64, float32, and int16) of the variables:
| Code Block | ||
|---|---|---|
| ||
>>> b,vls,hsd=(8,2048,8000)
>>> ((vls*b*2)+(hsd*b*2)+(vls*hsd*b)+(hsd*hsd*b))/1e9
0.643232768
>>> b,vls,hsd=(4,2048,8000)
>>> ((vls*b*2)+(hsd*b*2)+(vls*hsd*b)+(hsd*hsd*b))/1e9
0.321616384
>>> b,vls,hsd=(2,2048,8000)
>>> ((vls*b*2)+(hsd*b*2)+(vls*hsd*b)+(hsd*hsd*b))/1e9
0.160808192 |
Observed memory usage
Single precision
1 core: 1.3GB
10 cores: 7.9GB (0.8GB per core)
50 cores: 17.3GB (0.35GB per core)
Double precision
50 cores: 50.8GB (1GB per core)
in future with 1MHz hopefully have a better detector for fzp that also runs at 1MHz
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