unimore/hpc-2022-g3

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Progetti svolti di laboratorio di High Performance Computing

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Stefano Pigozzi 1cc6f1e4f9 Change `DATA_TYPE` to float Co-authored-by: Caterina Gazzotti <270321@studenti.unimore.it> Co-authored-by: Fabio Zanichelli <274956@studenti.unimore.it>		2022-12-11 15:57:26 +01:00
.idea	Remove `-DEXTRALARGE_DATASET` from CLion's runConfigs as it was moved into the Makefile	2022-11-16 01:45:15 +01:00
.media	Create contributors' documentation	2022-11-14 16:22:11 +01:00
common	init commit	2022-11-11 13:23:45 +01:00
OpenMP	Change `DATA_TYPE` to float	2022-12-11 15:57:26 +01:00
.clang-format	Make CLion formatting work	2022-11-15 19:40:17 +01:00
.gitignore	init commit	2022-11-11 13:23:45 +01:00
CONTRIBUTING.md	Update CONTRIBUTING with the `bench` target	2022-11-16 17:44:49 +01:00
README.md	Improve README	2022-11-17 20:59:38 +01:00

README.md

 **Stefano Pigozzi** + **Caterina Gazzotti** + **Fabio Zanichelli** | Topic OpenMP | High Performance Computing Laboratory | Unimore

C code optimization using OpenMP

Assignment #1

Every team is called to optimize (parallellize) the execution time of the assigned applications on multi-processor system.

Expected outcomes

Repository of the code (github/gitlab is ok, or .zip )

Oral presentation (5 min + 5 min Q&A) of your work

Assigned application

Group 3: OpenMP/linear-algebra/kernels/atax

Developed features

Workaround for unavailable M_PI
Enabled POLYBENCH_TIME by default
Enabled extra warnings by default
Applied the maximum level of compiler optimizations
Replaced tmp array with a iteration-local variable
Created static OpenMP parallelizations to most for loops in the program:
Gated parallelizations behind flags, allowing their configurations at compile time:
Made the parallelization thread count configurable at compile time
Allowed the addition of CFLAGS from make calls
Disabled make output
Created make bench target to run a script performing multiple parametrized tests on the code to determine the best optimizations
Moved polybench_start_instruments to include the init_array function

Results

$ make bench
Flags: -DMINI_DATASET
.........................  Average of 25 runs:  1.35e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_INIT_ARRAY_1
.........................  Average of 25 runs:  1.92e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_INIT_ARRAY_2
.........................  Average of 25 runs:  2.16e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2
.........................  Average of 25 runs:  2.61e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  1.9e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  2.12e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  2.36e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  2.58e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  1.72e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  1.91e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  2.12e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  2.32e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  1.92e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  2.11e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  2.3e-05 seconds
Flags: -DMINI_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  2.6e-05 seconds
Flags: -DSMALL_DATASET
.........................  Average of 25 runs:  0.00751 seconds
Flags: -DSMALL_DATASET -DTOGGLE_INIT_ARRAY_1
.........................  Average of 25 runs:  0.00752 seconds
Flags: -DSMALL_DATASET -DTOGGLE_INIT_ARRAY_2
.........................  Average of 25 runs:  0.00279 seconds
Flags: -DSMALL_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2
.........................  Average of 25 runs:  0.0028 seconds
Flags: -DSMALL_DATASET -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  0.00761 seconds
Flags: -DSMALL_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  0.00761 seconds
Flags: -DSMALL_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  0.00289 seconds
Flags: -DSMALL_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  0.00293 seconds
Flags: -DSMALL_DATASET -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.00707 seconds
Flags: -DSMALL_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.00703 seconds
Flags: -DSMALL_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.00228 seconds
Flags: -DSMALL_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.00227 seconds
Flags: -DSMALL_DATASET -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.00707 seconds
Flags: -DSMALL_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.00706 seconds
Flags: -DSMALL_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.00228 seconds
Flags: -DSMALL_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.00228 seconds
Flags: -DSTANDARD_DATASET
.........................  Average of 25 runs:  0.419 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_INIT_ARRAY_1
.........................  Average of 25 runs:  0.419 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_INIT_ARRAY_2
.........................  Average of 25 runs:  0.162 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2
.........................  Average of 25 runs:  0.162 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  0.42 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  0.42 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  0.162 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  0.162 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.386 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.386 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.128 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.128 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.386 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.386 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.128 seconds
Flags: -DSTANDARD_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.129 seconds
Flags: -DLARGE_DATASET
.........................  Average of 25 runs:  1.83 seconds
Flags: -DLARGE_DATASET -DTOGGLE_INIT_ARRAY_1
.........................  Average of 25 runs:  1.83 seconds
Flags: -DLARGE_DATASET -DTOGGLE_INIT_ARRAY_2
.........................  Average of 25 runs:  0.707 seconds
Flags: -DLARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2
.........................  Average of 25 runs:  0.707 seconds
Flags: -DLARGE_DATASET -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  1.82 seconds
Flags: -DLARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  1.82 seconds
Flags: -DLARGE_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  0.704 seconds
Flags: -DLARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  0.703 seconds
Flags: -DLARGE_DATASET -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  1.64 seconds
Flags: -DLARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  1.64 seconds
Flags: -DLARGE_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.527 seconds
Flags: -DLARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.527 seconds
Flags: -DLARGE_DATASET -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  1.63 seconds
Flags: -DLARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  1.64 seconds
Flags: -DLARGE_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.527 seconds
Flags: -DLARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  0.525 seconds
Flags: -DEXTRALARGE_DATASET
.........................  Average of 25 runs:  4.24 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_INIT_ARRAY_1
.........................  Average of 25 runs:  4.23 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_INIT_ARRAY_2
.........................  Average of 25 runs:  1.65 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2
.........................  Average of 25 runs:  1.65 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  4.22 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  4.16 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  1.62 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1
.........................  Average of 25 runs:  1.62 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  3.69 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  3.68 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  1.2 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  1.2 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  3.67 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  3.67 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  1.19 seconds
Flags: -DEXTRALARGE_DATASET -DTOGGLE_INIT_ARRAY_1 -DTOGGLE_INIT_ARRAY_2 -DTOGGLE_KERNEL_ATAX_1 -DTOGGLE_KERNEL_ATAX_2
.........................  Average of 25 runs:  1.19 seconds

Validation

Compiler used: gcc
Jetson Nano used: 8

To reproduce the obtained results:

Clone the repository on a Jetson Nano:

$ git clone https://github.com/Steffo99/unimore-hpc-1

Access our group's assigned folder:

$ cd unimore-hpc-1/OpenMP/linear-algebra/kernels/atax

Checkout the exact commit the tests were executed on:

$ git checkout 28479dfb4b730fb50a50e6da02b9b1fe4fb298db

Run the benchmarking script:
```
$ make bench
```