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[SYSTEMDS-3546] Push down image pre-processing to blas/mkl #1843

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4430848
[ÂSYSTEMDS-3546] good start
anishsapkota Jun 13, 2023
b07c498
[SYSTEMDS-3546] initial mkl native binding tested
anishsapkota Jun 16, 2023
a222abb
image rotation using mkl lib initial implementation
anishsapkota Jul 14, 2023
4ce1d42
image rotation using mkl lib initial implementation
anishsapkota Jul 14, 2023
7698dfe
image rotation using mkl lib initial implementation
anishsapkota Jul 14, 2023
a8934f3
image rotation using mkl lib initial implementation
anishsapkota Jul 14, 2023
8f96891
Delete src/test/java/org/apache/sysds/test/functions/native directory
anishsapkota Jul 16, 2023
ce2cd82
image cutout and crop initial implementation / img rotate bug fixed
anishsapkota Jul 30, 2023
ac0bc85
image cutout and crop initial implementation / img rotate bug fixed
anishsapkota Jul 30, 2023
7da4708
OpenBlas Bug fixed, now all implementations works with both mkl and o…
anishsapkota Aug 20, 2023
495ea9f
Delete src/test/java/org/apache/sysds/test/functions/nativ/NativeBind…
anishsapkota Sep 6, 2023
2ef022d
implemented native methodes moved to new file systemds_img.cpp
anishsapkota Sep 9, 2023
73b9fa2
ImgNativeHelper created
anishsapkota Sep 9, 2023
59a7bf8
License added
anishsapkota Sep 9, 2023
85284e0
Âadded the missing compiled libs
anishsapkota Sep 9, 2023
aa81d73
static block added to ImgNativeHelper
anishsapkota Sep 9, 2023
46481b4
adjusted native lib path, another try
anishsapkota Sep 10, 2023
147cf94
Performance Eval added, ImgUtils now extends AutomatedTestBase
anishsapkota Sep 11, 2023
be7d6df
License added
anishsapkota Sep 11, 2023
5daaa79
Build block added to build.yml
anishsapkota Sep 11, 2023
5a525c9
build.yaml with relative path, another try
anishsapkota Sep 11, 2023
c500e11
added install openblas to build.yml
anishsapkota Sep 11, 2023
d481ec3
replaced mkl.h with <cblas.h>
anishsapkota Sep 11, 2023
eb70fd6
added java doc to ImgNativeHelper, trying relative path for System.lo…
anishsapkota Sep 11, 2023
4bc4c8e
added updated Performance Comparison
anishsapkota Sep 12, 2023
4043022
added <cstring.h> to ImgUtils.cpp to resolve memset error
anishsapkota Sep 12, 2023
1fb7fef
removed unnecessary code
anishsapkota Sep 12, 2023
7607565
changed blastype to openblas
anishsapkota Sep 12, 2023
5863f88
changed System.load() absolute path
anishsapkota Sep 12, 2023
6ff33e1
added install openblas section to entrypoint.sh
anishsapkota Sep 12, 2023
6d58859
removed absolute path
anishsapkota Sep 12, 2023
01601ff
added openblas check to build.sh, rollback build.yaml and entrypoint.sh
anishsapkota Sep 12, 2023
a82f0d0
removed sudo command, another try
anishsapkota Sep 12, 2023
675d47e
build was sucessfull, trying to load the built libs
anishsapkota Sep 12, 2023
ccb15e4
install intel mkl added to build.sh
anishsapkota Sep 13, 2023
d67b62b
adjusted install section to install one api base-kit
anishsapkota Sep 13, 2023
2c91906
removed sudo command from the build.sh
anishsapkota Sep 13, 2023
4b95b01
disabled user interaction during installation
anishsapkota Sep 13, 2023
a546189
oneApi clearly conflicts with current implementations like libmatrixd…
anishsapkota Sep 13, 2023
d590460
build was successful with older version of intel mkl, now running tests
anishsapkota Sep 13, 2023
779131a
trying to build excluding the conflicting libmatrixdnn.h
anishsapkota Sep 14, 2023
2b0e58c
libsystemds_mkl-Linux-x86_64.so shared object is missing, although sa…
anishsapkota Sep 14, 2023
f7dc92e
added LD_LIBRARY_PATH and additional infos for debuggin
anishsapkota Sep 14, 2023
3196436
added ls /opt/intel/oneapi/mkl/2023.2.0/lib/intel64
anishsapkota Sep 14, 2023
815012b
another try
anishsapkota Sep 14, 2023
b6d55e5
added other paths
anishsapkota Sep 14, 2023
0eae16a
removed install openblas section from build
anishsapkota Sep 14, 2023
d59e9ff
removed unnecessary tests
anishsapkota Sep 14, 2023
8a67519
install only necessary libsÂ
anishsapkota Sep 14, 2023
e9193ad
trying to locate libmkl_rt.so
anishsapkota Sep 14, 2023
d4fd12d
another try
anishsapkota Sep 14, 2023
8e69e9e
another try
anishsapkota Sep 14, 2023
bcfc0d1
another try
anishsapkota Sep 14, 2023
9b008ba
next
anishsapkota Sep 14, 2023
af3c850
anothe try
anishsapkota Sep 14, 2023
fc7f9a0
another try 2
anishsapkota Sep 14, 2023
6f1baa3
x
anishsapkota Sep 14, 2023
00118ca
add
anishsapkota Sep 14, 2023
9b669e2
x
anishsapkota Sep 14, 2023
54e37de
add
anishsapkota Sep 14, 2023
55213b0
another run
anishsapkota Sep 14, 2023
ab4f530
at
anishsapkota Sep 14, 2023
8a8224e
ar
anishsapkota Sep 14, 2023
408beec
aT
anishsapkota Sep 14, 2023
c9e3f4f
run
anishsapkota Sep 14, 2023
2a19cdb
add
anishsapkota Sep 14, 2023
20977fd
at
anishsapkota Sep 14, 2023
b8640b1
try
anishsapkota Sep 14, 2023
fc0a964
add
anishsapkota Sep 14, 2023
ee6cb79
run
anishsapkota Sep 14, 2023
62e1f6a
test
anishsapkota Sep 14, 2023
819b855
trx
anishsapkota Sep 14, 2023
bcd566f
works
anishsapkota Sep 14, 2023
335e597
Merge branch 'main' into systemds-3546
anishsapkota Sep 14, 2023
5bc2568
updated build.sh
anishsapkota Sep 14, 2023
98daf28
Merge remote-tracking branch 'origin/systemds-3546' into systemds-3546
anishsapkota Sep 14, 2023
c6f6378
update
anishsapkota Sep 14, 2023
b28ed8a
Âtrx
anishsapkota Sep 14, 2023
f4be3e3
add
anishsapkota Sep 14, 2023
5eaa7f6
Ârerun
anishsapkota Sep 14, 2023
55ac867
add
anishsapkota Sep 14, 2023
7d16884
libmkl_rt path added to conf file
anishsapkota Sep 14, 2023
1243e98
test
anishsapkota Sep 15, 2023
b8fd318
Merge branch 'main' into systemds-3546
anishsapkota Sep 15, 2023
6f4d069
removed mkl test
anishsapkota Sep 15, 2023
6fc5bad
added exception if non square images
anishsapkota Sep 15, 2023
2a0bc24
removed
anishsapkota Sep 15, 2023
3862c5b
Merge pull request #2 from anishsapkota/systemds-3546
anishsapkota Sep 15, 2023
c978a62
corrected javaTest.yaml
anishsapkota Sep 15, 2023
b43c633
Merge branch 'main' into main
anishsapkota Sep 15, 2023
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55 changes: 28 additions & 27 deletions .github/workflows/javaTests.yml
Original file line number Diff line number Diff line change
Expand Up @@ -69,6 +69,7 @@ jobs:
"**.functions.builtin.part2.**",
"**.functions.frame.**,**.functions.indexing.**,**.functions.io.**,**.functions.iogen.**",
"**.functions.dnn.**",
"**.functions.nativ.**",
"**.functions.paramserv.**",
"**.functions.recompile.**,**.functions.misc.**,**.functions.mlcontext.**",
"**.functions.nary.**,**.functions.quaternary.**",
Expand All @@ -81,39 +82,39 @@ jobs:
]
name: ${{ matrix.tests }}
steps:
- name: Checkout Repository
uses: actions/checkout@v4


- name: ${{ matrix.tests }}
uses: ./.github/action/
id: test
with:
test-to-run: ${{ matrix.tests }}

- name: Clean Github Artifact Name of Asterisks
run: |
ARTIFACT_NAME="transient_jacoco"
ARTIFACT_NAME+="-${{ matrix.os }}"
ARTIFACT_NAME+="-java-${{ matrix.java }}"
ARTIFACT_NAME+="-${{ matrix.javadist }}"
ARTIFACT_NAME+="-${{ matrix.tests }}"
ARTIFACT_NAME=${ARTIFACT_NAME//\*/x} # replace * with x
echo "ARTIFACT_NAME=$ARTIFACT_NAME" >> $GITHUB_ENV

- name: Save Java Test Coverage as Artifact
uses: actions/upload-artifact@v3
with:
name: ${{ env.ARTIFACT_NAME }}
path: target/jacoco.exec
retention-days: 1
- name: Checkout Repository
uses: actions/checkout@v4
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we need to revert here, since the change is only syntax.



- name: ${{ matrix.tests }}
uses: ./.github/action/
id: test
with:
test-to-run: ${{ matrix.tests }}

- name: Clean Github Artifact Name of Asterisks
run: |
ARTIFACT_NAME="transient_jacoco"
ARTIFACT_NAME+="-${{ matrix.os }}"
ARTIFACT_NAME+="-java-${{ matrix.java }}"
ARTIFACT_NAME+="-${{ matrix.javadist }}"
ARTIFACT_NAME+="-${{ matrix.tests }}"
ARTIFACT_NAME=${ARTIFACT_NAME//\*/x} # replace * with x
echo "ARTIFACT_NAME=$ARTIFACT_NAME" >> $GITHUB_ENV

- name: Save Java Test Coverage as Artifact
uses: actions/upload-artifact@v3
with:
name: ${{ env.ARTIFACT_NAME }}
path: target/jacoco.exec
retention-days: 1

determine_test_coverage:
name: Determine Test Coverage
runs-on: ubuntu-latest
needs: [
java_tests
]
]
steps:
- name: Checkout Repository
uses: actions/checkout@v4
Expand Down
7 changes: 3 additions & 4 deletions src/main/cpp/CMakeLists.txt
Original file line number Diff line number Diff line change
Expand Up @@ -31,8 +31,8 @@ option(USE_OPEN_BLAS "Whether to use OpenBLAS (Defaults to compiling with Intel
option(USE_INTEL_MKL "Whether to use Intel MKL (Defaults to compiling with Intel MKL)" OFF)

# Build a shared libraray
set(HEADER_FILES libmatrixdnn.h libmatrixmult.h systemds.h common.h)
set(SOURCE_FILES libmatrixdnn.cpp libmatrixmult.cpp systemds.cpp)
set(HEADER_FILES imgUtils.h libmatrixdnn.h libmatrixmult.h systemds.h common.h)
set(SOURCE_FILES imgUtils.cpp libmatrixdnn.cpp libmatrixmult.cpp systemds_img.cpp systemds.cpp)

# Build a shared libraray
add_library(systemds SHARED ${SOURCE_FILES} ${HEADER_FILES})
Expand Down Expand Up @@ -95,5 +95,4 @@ if (USE_OPEN_BLAS)
set_target_properties(systemds PROPERTIES LINK_FLAGS "${OpenMP_CXX_FLAGS} ${MATH_LIBRARIES}")
elseif(USE_INTEL_MKL)
set_target_properties(systemds PROPERTIES LINK_FLAGS "${MATH_LIBRARIES}")
endif()

endif()
9 changes: 9 additions & 0 deletions src/main/cpp/build.sh
Original file line number Diff line number Diff line change
Expand Up @@ -35,6 +35,7 @@ intel_mkl="libmkl_rt.so"
# GCC __float128 shared support library: libquadmath.so.0
openblas="libopenblas.so\|libgfortran.so\|libquadmath.so"

export DEBIAN_FRONTEND=noninteractive

if ! [ -x "$(command -v cmake)" ]; then
echo 'Error: cmake is not installed.' >&2
Expand All @@ -46,6 +47,14 @@ if ! [ -x "$(command -v patchelf)" ]; then
exit 1
fi

# Check if OpenBLAS is installed
if ! ldconfig -p | grep -q libopenblas; then
echo "OpenBLAS not found. Installing OpenBLAS..."

apt-get update
apt-get install libopenblas-dev -y
fi
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add comment on MKL install.


# configure and compile INTEL MKL
cmake . -B INTEL -DUSE_INTEL_MKL=ON -DCMAKE_BUILD_TYPE=Release -DCMAKE_CXX_COMPILER=g++ -DCMAKE_CXX_FLAGS="-DUSE_GNU_THREADING -m64"
cmake --build INTEL --target install --config Release
Expand Down
243 changes: 243 additions & 0 deletions src/main/cpp/imgUtils.cpp
Original file line number Diff line number Diff line change
@@ -0,0 +1,243 @@
/*
* Licensed to the Apache Software Foundation (ASF) under one
* or more contributor license agreements. See the NOTICE file
* distributed with this work for additional information
* regarding copyright ownership. The ASF licenses this file
* to you under the Apache License, Version 2.0 (the
* "License"); you may not use this file except in compliance
* with the License. You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing,
* software distributed under the License is distributed on an
* "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
* KIND, either express or implied. See the License for the
* specific language governing permissions and limitations
* under the License.
*/

#include <iostream>
#include <cmath>
#include <cstring>
#include "common.h"

using namespace std;

void printImage(const double* image, int rows, int cols) {
for (int i = 0; i < rows; i++) {
for (int j = 0; j < cols; j++) {
cout << image[i * cols + j] << " ";
}
cout << endl;
}
cout << "\n"<< endl;
}
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i suggest removing this debugging printImage.


void img_transform(const double* img_in, int orig_w, int orig_h, int out_w, int out_h, double a, double b, double c, double d,
double e, double f, double fill_value, double* img_out) {
double divisor = a * e - b * d;
if (divisor == 0) {
std::cout << "Inverse matrix does not exist! Returning input." << std::endl;
for (int i = 0; i < orig_h; i++) {
for (int j = 0; j < orig_w; j++) {
img_out[i * orig_w + j] = img_in[i * orig_w + j];
}
}
} else {
// Create the inverted transformation matrix
double T_inv[9];
T_inv[0] = e / divisor;
T_inv[1] = -b / divisor;
T_inv[2] = (b * f - c * e) / divisor;
T_inv[3] = -d / divisor;
T_inv[4] = a / divisor;
T_inv[5] = (c * d - a * f) / divisor;
T_inv[6] = 0.0;
T_inv[7] = 0.0;
T_inv[8] = 1.0;

// Create the coordinates of output pixel centers linearized in row-major order
double* coords = new double[2 * out_w * out_h];
for (int i = 0; i < out_h; i++) {
for (int j = 0; j < out_w; j++) {
coords[2 * (i * out_w + j)] = j + 0.5;
coords[2 * (i * out_w + j) + 1] = i + 0.5;
}
}

// Perform matrix multiplication to compute sampling pixel indices
double* transformed_coords = new double[2 * out_w * out_h];
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i do not know, but

can this be allocated as int?

for (int i = 0; i < out_w * out_h; i++) {
double x = coords[2 * i];
double y = coords[2 * i + 1];
transformed_coords[2 * i] = std::floor(T_inv[0] * x + T_inv[1] * y + T_inv[2]) + 1;
transformed_coords[2 * i + 1] = std::floor(T_inv[3] * x + T_inv[4] * y + T_inv[5]) + 1;
}

// Fill output image
for (int i = 0; i < out_h; i++) {
for (int j = 0; j < out_w; j++) {
int inx = static_cast<int>(transformed_coords[2 * (i * out_w + j)]) - 1;
int iny = static_cast<int>(transformed_coords[2 * (i * out_w + j) + 1]) - 1;
if (inx >= 0 && inx < orig_w && iny >= 0 && iny < orig_h) {
img_out[i * out_w + j] = img_in[iny * orig_w + inx];
} else {
img_out[i * out_w + j] = fill_value;
}
}
}

delete[] coords;
delete[] transformed_coords;
}
}

void imageRotate(double* img_in, int rows, int cols, double radians, double fill_value, double* img_out) {

// Translation matrix for moving the origin to the center of the image
double t1_data[] = {
1, 0, static_cast<double>(-cols)/2,
0, 1, static_cast<double>(-rows)/2,
0, 0, 1
};
double* t1 = t1_data;
// Translation matrix for moving the origin back to the top left corner
double t2_data[] = {
1, 0, static_cast<double>(cols)/2,
0, 1, static_cast<double>(rows)/2,
0, 0, 1
};
double* t2 = t2_data;
// The rotation matrix around the origin
double rot_data[] = {
cos(radians), sin(radians), 0,
-sin(radians), cos(radians), 0,
0, 0, 1
};
double* rot = rot_data;

// Combined transformation matrix
double m_data1[3*3];
cblas_dgemm(CblasRowMajor, CblasNoTrans, CblasNoTrans, 3, 3, 3, 1.0, t2, 3, rot, 3, 0.0, m_data1, 3);
double m_data2[3*3];
cblas_dgemm(CblasRowMajor, CblasNoTrans, CblasNoTrans, 3, 3, 3, 1.0, m_data1, 3, t1, 3, 0.0, m_data2, 3);
double* m = m_data2;
// Transform image
img_transform(img_in,rows,cols,rows,cols,m[0], m[1], m[2], m[3], m[4], m[5], fill_value, img_out);
}

double* imageCutout(double* img_in, int rows, int cols, int x, int y, int width, int height, double fill_value) {
// Allocate memory for the output image using MKL
double* img_out = new double[rows * cols];

if (width < 1 || height < 1) {
// Invalid width or height, return the input image as it is
cblas_dcopy(rows * cols, img_in, 1, img_out, 1);
} else {
int end_x = x + width - 1;
int end_y = y + height - 1;

int start_x = std::max(1, x);
int start_y = std::max(1, y);
end_x = std::min(cols, end_x);
end_y = std::min(rows, end_y);

// Copy the input image to the output image using MKL
cblas_dcopy(rows * cols, img_in, 1, img_out, 1);

// Fill the cutout region with the fill_value
for (int i = start_y - 1; i < end_y; ++i) {
for (int j = start_x - 1; j < end_x; ++j) {
img_out[i * cols + j] = fill_value;
}
}
}

return img_out;
}

double* imageCrop(double* img_in, int orig_w, int orig_h, int w, int h, int x_offset, int y_offset) {
// Allocate memory for the output image
double* img_out = new double[w * h];

int start_h = (std::ceil((orig_h - h) / 2)) + y_offset - 1 ;
int end_h = (start_h + h - 1);
int start_w = (std::ceil((orig_w - w) / 2)) + x_offset - 1;
int end_w = (start_w + w - 1);

// Create a mask to identify the cropped region
double* mask = new double[orig_w * orig_h];
double* temp_mask = new double[w * h];

// Set mask elements to 0 outside the cropped region and 1 inside
memset(mask, 0, orig_w * orig_h * sizeof(double));
for(int i = 0; i < h * w; i++) {
temp_mask[i] = 1;
}

for (int i = start_h; i <= end_h; ++i) {
for (int j = start_w; j <= end_w; ++j) {
mask[i * orig_w + j] = temp_mask[(i - start_h) * w + (j - start_w)];
}
}

// Apply the mask to crop the image
for (int i = 0; i < h; ++i) {
for (int j = 0; j < w; ++j) {
img_out[i * w + j] = img_in[(start_h + i) * orig_w + (start_w + j)] * mask[(start_h + i) * orig_w + (start_w + j)];
}
}

// Free memory for the mask
delete[] mask;
delete[] temp_mask;

return img_out;
}

void img_translate(double* img_in, double offset_x, double offset_y,
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cast the offsets in the first line rather than every call to offset_x and y, and maybe consider changing the API to use int offsets.

int in_w, int in_h, int out_w, int out_h, double fill_value, double* img_out) {
int w = out_w;
int h = out_h;

offset_x = round(offset_x);
offset_y = round(offset_y);


int start_x = 0 - static_cast<int>(offset_x);
int start_y = 0 - static_cast<int>(offset_y);
int end_x = std::max(w, out_w) - static_cast<int>(offset_x);
int end_y = std::max(h, out_h) - static_cast<int>(offset_y);

if (start_x < 0)
start_x = 0;
if (start_y < 0)
start_y = 0;

if (w < end_x)
end_x = w;
if (h < end_y)
end_y = h;

if (out_w < end_x + static_cast<int>(offset_x))
end_x = out_w - static_cast<int>(offset_x);
if (out_h < end_y + static_cast<int>(offset_y))
end_y = out_h - static_cast<int>(offset_y);

for (int y = 0; y < out_h; ++y) {
for (int x = 0; x < out_w; ++x) {
img_out[y * out_w + x] = fill_value;
}
}

if (start_x < end_x && start_y < end_y) {
for (int y = start_y + static_cast<int>(offset_y); y < end_y + static_cast<int>(offset_y); ++y) {
int x_in = (start_x > 0) ? start_x + static_cast<int>(offset_x): start_x;
int y_in = (start_y > 0 ) ? y : y - static_cast<int>(offset_y);
cblas_dcopy(end_x - start_x, &img_in[(x_in) + (y_in) * in_w],
1, &img_out[y * out_w + start_x + static_cast<int>(offset_x)], 1);
}
}
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indentation.

}

38 changes: 38 additions & 0 deletions src/main/cpp/imgUtils.h
Original file line number Diff line number Diff line change
@@ -0,0 +1,38 @@
/*
* Licensed to the Apache Software Foundation (ASF) under one
* or more contributor license agreements. See the NOTICE file
* distributed with this work for additional information
* regarding copyright ownership. The ASF licenses this file
* to you under the Apache License, Version 2.0 (the
* "License"); you may not use this file except in compliance
* with the License. You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing,
* software distributed under the License is distributed on an
* "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
* KIND, either express or implied. See the License for the
* specific language governing permissions and limitations
* under the License.
*/

#ifndef IMAGE_UTILS_H
#define IMAGE_UTILS_H
#include <cmath>

void printImage(const double* image, int rows, int cols);
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consider removing


void m_img_transform(const double* img_in, int orig_w, int orig_h, int out_w, int out_h, double a, double b, double c, double d,
double e, double f, double fill_value, double* img_out);

void imageRotate(double* img_in, int rows, int cols, double radians, double fill_value, double* img_out);

double* imageCutout(double* img_in, int rows, int cols, int x, int y, int width, int height, double fill_value);

double* imageCrop(double* img_in, int orig_w, int orig_h, int w, int h, int x_offset, int y_offset);

void img_translate(double* img_in, double offset_x, double offset_y,
int in_w, int in_h, int out_w, int out_h, double fill_value, double* img_out);

#endif /* IMAGE_UTILS_H */
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maybe not add these?

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