From b1c40ebe7ef0879ed0babbf816f3b0616d6d3981 Mon Sep 17 00:00:00 2001 From: Madu01 Date: Tue, 27 Jun 2023 22:55:18 -0300 Subject: [PATCH 01/19] [ADD] (Issue #1) : adding docker --- cccp-spngp.py | 2 -- concrete-spngp.py | 1 - datasets/requirements.txt | 3 +++ dockerfile | 21 +++++++++++++++++++++ energy-spngp.py | 3 --- makefile | 14 ++++++++++++++ 6 files changed, 38 insertions(+), 6 deletions(-) create mode 100644 datasets/requirements.txt create mode 100644 dockerfile create mode 100644 makefile diff --git a/cccp-spngp.py b/cccp-spngp.py index ad4ec0c..5052d28 100644 --- a/cccp-spngp.py +++ b/cccp-spngp.py @@ -1,9 +1,7 @@ import numpy as np import pandas as pd -import matplotlib.pyplot as plt from learnspngp import build, query, build_bins from spngp import structure -import sys np.random.seed(58) diff --git a/concrete-spngp.py b/concrete-spngp.py index 579a82f..c1bbe9b 100644 --- a/concrete-spngp.py +++ b/concrete-spngp.py @@ -2,7 +2,6 @@ import pandas as pd from learnspngp import build, query, build_bins from spngp import structure -import sys np.random.seed(58) diff --git a/datasets/requirements.txt b/datasets/requirements.txt new file mode 100644 index 0000000..199ad9e --- /dev/null +++ b/datasets/requirements.txt @@ -0,0 +1,3 @@ +numpy==1.23 +pandas==1.5 +torch==2.0 diff --git a/dockerfile b/dockerfile new file mode 100644 index 0000000..aa35d9a --- /dev/null +++ b/dockerfile @@ -0,0 +1,21 @@ +FROM ubuntu:20.04 + +WORKDIR /app + +ENV TZ="America/Sao_Paulo" + +RUN ln -snf /usr/share/zoneinfo/$TZ /etc/localtime && echo $TZ > /etc/timezone + +RUN apt update -y \ + && dpkg --configure -a && apt install -y python3-pip libpq-dev python-dev ant make + +COPY makefile makefile +COPY datasets datasets +COPY cccp-spngp.py . +COPY concrete-spngp.py . +COPY energy-spngp.py . +COPY learnspngp.py . +COPY spngp.py . + +RUN pip3 install --upgrade pip \ + && pip3 install -r datasets/requirements.txt \ No newline at end of file diff --git a/energy-spngp.py b/energy-spngp.py index 89d3bdd..1dd53a4 100644 --- a/energy-spngp.py +++ b/energy-spngp.py @@ -1,10 +1,7 @@ import numpy as np import pandas as pd -import matplotlib.pyplot as plt from learnspngp import build, query, build_bins from spngp import structure -import sklearn.preprocessing as preprocessing -import sys np.random.seed(58) diff --git a/makefile b/makefile new file mode 100644 index 0000000..6777753 --- /dev/null +++ b/makefile @@ -0,0 +1,14 @@ +start: + docker build -t image-spngp . + docker run --name container-spngp + +init: + docker exec -it container-spngp bash + clear + echo "Welcome to container" + +results: + python3 cccp-spngp.py + python3 energy-spngp.py + python3 concrete-spngp.py + From 0affa67cb750bfa09e333c2130c3c3f9d987ee2b Mon Sep 17 00:00:00 2001 From: Madu01 Date: Wed, 28 Jun 2023 00:31:09 -0300 Subject: [PATCH 02/19] [ADD] (Issue #2) : adding CI and test --- .github/workflows/ci.yml | 27 +++++++++++++++++++++++++++ datasets/requirements.txt | 3 +++ tests/fileTest.py | 7 +++++++ 3 files changed, 37 insertions(+) create mode 100644 .github/workflows/ci.yml create mode 100644 datasets/requirements.txt create mode 100644 tests/fileTest.py diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml new file mode 100644 index 0000000..dc2eac2 --- /dev/null +++ b/.github/workflows/ci.yml @@ -0,0 +1,27 @@ +name: CI + +on: + pull_request: + branches: [main] + +jobs: + build: + runs-on: ubuntu-latest + strategy: + matrix: + python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"] + + steps: + - uses: actions/checkout@v3 + - name: Set up Python ${{ matrix.python-version }} + uses: actions/setup-python@v4 + with: + python-version: ${{ matrix.python-version }} + - name: Install dependencies + run: | + pip3 install --upgrade pip + pip3 install pytest + pip3 install -r datasets/requirements.txt + - name: Test with pytest + run: | + pytest \ No newline at end of file diff --git a/datasets/requirements.txt b/datasets/requirements.txt new file mode 100644 index 0000000..c010d0f --- /dev/null +++ b/datasets/requirements.txt @@ -0,0 +1,3 @@ +numpy==1.23 +pandas==1.5 +torch==2.0 \ No newline at end of file diff --git a/tests/fileTest.py b/tests/fileTest.py new file mode 100644 index 0000000..e0fc838 --- /dev/null +++ b/tests/fileTest.py @@ -0,0 +1,7 @@ +# simple test to test on CI +def functionSum(x): + return x + 1 + + +def test_functionSum(): + assert functionSum(12) == 13 \ No newline at end of file From f7bd8a5278613820ab95f5a0ad72963add667316 Mon Sep 17 00:00:00 2001 From: Madu01 Date: Wed, 28 Jun 2023 00:43:59 -0300 Subject: [PATCH 03/19] [ADD] (Issue #2) : adding build in CI --- .github/workflows/ci.yml | 14 ++++++++++++++ 1 file changed, 14 insertions(+) diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index dc2eac2..7e43cec 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -17,11 +17,25 @@ jobs: uses: actions/setup-python@v4 with: python-version: ${{ matrix.python-version }} + - name: Install dependencies run: | pip3 install --upgrade pip pip3 install pytest pip3 install -r datasets/requirements.txt + + - name: Install build + run: python3 -m pip install build --user + + - name: Build a binary wheel and a source tarball + run: >- + python -m + build + --sdist + --wheel + --outdir dist/ + . + - name: Test with pytest run: | pytest \ No newline at end of file From 978623d8269371c62bb7c312f24b8c381c8a1f41 Mon Sep 17 00:00:00 2001 From: Madu01 <64814266+Madu01@users.noreply.github.com> Date: Wed, 28 Jun 2023 01:00:29 -0300 Subject: [PATCH 04/19] Update ci.yml --- .github/workflows/ci.yml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index 7e43cec..999b9d9 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -2,7 +2,7 @@ name: CI on: pull_request: - branches: [main] + branches: [master] jobs: build: @@ -38,4 +38,4 @@ jobs: - name: Test with pytest run: | - pytest \ No newline at end of file + pytest From 4aaa4f4e07c1329df38286793fed921890055606 Mon Sep 17 00:00:00 2001 From: Madu01 <64814266+Madu01@users.noreply.github.com> Date: Wed, 28 Jun 2023 01:04:56 -0300 Subject: [PATCH 05/19] Create main.yml --- .github/workflows/main.yml | 35 +++++++++++++++++++++++++++++++++++ 1 file changed, 35 insertions(+) create mode 100644 .github/workflows/main.yml diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml new file mode 100644 index 0000000..e97084b --- /dev/null +++ b/.github/workflows/main.yml @@ -0,0 +1,35 @@ +name: CI + +on: + pull_request: + branches: [main] + +jobs: + build: + runs-on: ubuntu-latest + strategy: + matrix: + python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"] + + steps: + - uses: actions/checkout@v3 + - name: Set up Python ${{ matrix.python-version }} + uses: actions/setup-python@v4 + with: + python-version: ${{ matrix.python-version }} + + - name: Install dependencies + run: | + pip3 install --upgrade pip + pip3 install pytest + pip3 install -r datasets/requirements.txt + + - name: Install build + run: python3 -m pip install build --user + + - name: Build a binary wheel and a source tarball + run: python -m build + + - name: Test with pytest + run: | + pytest From d1d9fc4990bc95e04f4f4c73db7ab13fd24c4648 Mon Sep 17 00:00:00 2001 From: Madu01 <64814266+Madu01@users.noreply.github.com> Date: Wed, 28 Jun 2023 01:08:03 -0300 Subject: [PATCH 06/19] Update ci.yml --- .github/workflows/ci.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index 999b9d9..5b08a4a 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -12,7 +12,7 @@ jobs: python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"] steps: - - uses: actions/checkout@v3 + - uses: actions/checkout@v3.1.0 - name: Set up Python ${{ matrix.python-version }} uses: actions/setup-python@v4 with: From a9821cf98f866200e162c32d18a7337518e050cc Mon Sep 17 00:00:00 2001 From: Madu01 <64814266+Madu01@users.noreply.github.com> Date: Wed, 28 Jun 2023 01:08:38 -0300 Subject: [PATCH 07/19] Delete main.yml --- .github/workflows/main.yml | 35 ----------------------------------- 1 file changed, 35 deletions(-) delete mode 100644 .github/workflows/main.yml diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml deleted file mode 100644 index e97084b..0000000 --- a/.github/workflows/main.yml +++ /dev/null @@ -1,35 +0,0 @@ -name: CI - -on: - pull_request: - branches: [main] - -jobs: - build: - runs-on: ubuntu-latest - strategy: - matrix: - python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"] - - steps: - - uses: actions/checkout@v3 - - name: Set up Python ${{ matrix.python-version }} - uses: actions/setup-python@v4 - with: - python-version: ${{ matrix.python-version }} - - - name: Install dependencies - run: | - pip3 install --upgrade pip - pip3 install pytest - pip3 install -r datasets/requirements.txt - - - name: Install build - run: python3 -m pip install build --user - - - name: Build a binary wheel and a source tarball - run: python -m build - - - name: Test with pytest - run: | - pytest From 991a0ce9c864f0d8131bc77525ecb9e0025efff1 Mon Sep 17 00:00:00 2001 From: Madu01 <64814266+Madu01@users.noreply.github.com> Date: Wed, 28 Jun 2023 01:23:43 -0300 Subject: [PATCH 08/19] del workflow --- .github/workflows/ci.yml | 41 ---------------------------------------- 1 file changed, 41 deletions(-) delete mode 100644 .github/workflows/ci.yml diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml deleted file mode 100644 index 5b08a4a..0000000 --- a/.github/workflows/ci.yml +++ /dev/null @@ -1,41 +0,0 @@ -name: CI - -on: - pull_request: - branches: [master] - -jobs: - build: - runs-on: ubuntu-latest - strategy: - matrix: - python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"] - - steps: - - uses: actions/checkout@v3.1.0 - - name: Set up Python ${{ matrix.python-version }} - uses: actions/setup-python@v4 - with: - python-version: ${{ matrix.python-version }} - - - name: Install dependencies - run: | - pip3 install --upgrade pip - pip3 install pytest - pip3 install -r datasets/requirements.txt - - - name: Install build - run: python3 -m pip install build --user - - - name: Build a binary wheel and a source tarball - run: >- - python -m - build - --sdist - --wheel - --outdir dist/ - . - - - name: Test with pytest - run: | - pytest From 9ce51506a18546cf8a8f92689fff6793bf575a0c Mon Sep 17 00:00:00 2001 From: Madu01 <64814266+Madu01@users.noreply.github.com> Date: Wed, 28 Jun 2023 01:25:40 -0300 Subject: [PATCH 09/19] [ADD] (Issue #2) : test CI --- .github/workflows/ci.yml | 35 +++++++++++++++++++++++++++++++++++ 1 file changed, 35 insertions(+) create mode 100644 .github/workflows/ci.yml diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml new file mode 100644 index 0000000..e97084b --- /dev/null +++ b/.github/workflows/ci.yml @@ -0,0 +1,35 @@ +name: CI + +on: + pull_request: + branches: [main] + +jobs: + build: + runs-on: ubuntu-latest + strategy: + matrix: + python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"] + + steps: + - uses: actions/checkout@v3 + - name: Set up Python ${{ matrix.python-version }} + uses: actions/setup-python@v4 + with: + python-version: ${{ matrix.python-version }} + + - name: Install dependencies + run: | + pip3 install --upgrade pip + pip3 install pytest + pip3 install -r datasets/requirements.txt + + - name: Install build + run: python3 -m pip install build --user + + - name: Build a binary wheel and a source tarball + run: python -m build + + - name: Test with pytest + run: | + pytest From a6b360e4d6c20ea91b32237b76a839455e86f050 Mon Sep 17 00:00:00 2001 From: Madu01 <64814266+Madu01@users.noreply.github.com> Date: Wed, 28 Jun 2023 01:55:21 -0300 Subject: [PATCH 10/19] Fix in CI --- .github/workflows/ci.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index e97084b..35ec42f 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -2,7 +2,7 @@ name: CI on: pull_request: - branches: [main] + branches: [master] jobs: build: From 0470ff43565d8beaafc400fca41d526b76a37753 Mon Sep 17 00:00:00 2001 From: Madu01 <64814266+Madu01@users.noreply.github.com> Date: Wed, 28 Jun 2023 17:50:09 -0300 Subject: [PATCH 11/19] Update ci.yml --- .github/workflows/ci.yml | 15 ++++++++++----- 1 file changed, 10 insertions(+), 5 deletions(-) diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index 35ec42f..0527b11 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -2,14 +2,14 @@ name: CI on: pull_request: - branches: [master] + branches: [main] jobs: build: runs-on: ubuntu-latest strategy: matrix: - python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"] + python-version: ["3.10"] steps: - uses: actions/checkout@v3 @@ -25,11 +25,16 @@ jobs: pip3 install -r datasets/requirements.txt - name: Install build - run: python3 -m pip install build --user + run: python3 -m pip install --upgrade build - name: Build a binary wheel and a source tarball - run: python -m build + run: >- + python -m + build + --sdist + --wheel + --outdir dist/ - name: Test with pytest run: | - pytest + pytest test.py From 769a37dc2bebc6290eaa51c39471dd49e9bd8e3b Mon Sep 17 00:00:00 2001 From: Madu01 <64814266+Madu01@users.noreply.github.com> Date: Wed, 28 Jun 2023 17:50:53 -0300 Subject: [PATCH 12/19] Fix in ci.yml --- .github/workflows/ci.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index 0527b11..75c2dfa 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -2,7 +2,7 @@ name: CI on: pull_request: - branches: [main] + branches: [master] jobs: build: From cce68be0ec1cf27fe79f4f3540d36d0695c6255e Mon Sep 17 00:00:00 2001 From: Madu01 Date: Wed, 28 Jun 2023 18:00:57 -0300 Subject: [PATCH 13/19] update in requirements --- .github/workflows/ci.yml | 15 ++++++++++----- .gitignore | 2 ++ datasets/requirements.txt | 2 +- tests/fileTest.py => test.py | 1 - 4 files changed, 13 insertions(+), 7 deletions(-) rename tests/fileTest.py => test.py (99%) diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index e97084b..b9755b6 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -2,14 +2,14 @@ name: CI on: pull_request: - branches: [main] + branches: [master] jobs: build: runs-on: ubuntu-latest strategy: matrix: - python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"] + python-version: ["3.10"] steps: - uses: actions/checkout@v3 @@ -25,11 +25,16 @@ jobs: pip3 install -r datasets/requirements.txt - name: Install build - run: python3 -m pip install build --user + run: python3 -m pip install --upgrade build - name: Build a binary wheel and a source tarball - run: python -m build + run: >- + python -m + build + --sdist + --wheel + --outdir dist/ - name: Test with pytest run: | - pytest + pytest test.py \ No newline at end of file diff --git a/.gitignore b/.gitignore index c18dd8d..b30addb 100644 --- a/.gitignore +++ b/.gitignore @@ -1 +1,3 @@ __pycache__/ +.pytest_cache + diff --git a/datasets/requirements.txt b/datasets/requirements.txt index 199ad9e..a90d227 100644 --- a/datasets/requirements.txt +++ b/datasets/requirements.txt @@ -1,3 +1,3 @@ numpy==1.23 pandas==1.5 -torch==2.0 +torch==2.0.1 diff --git a/tests/fileTest.py b/test.py similarity index 99% rename from tests/fileTest.py rename to test.py index e0fc838..9f13075 100644 --- a/tests/fileTest.py +++ b/test.py @@ -2,6 +2,5 @@ def functionSum(x): return x + 1 - def test_functionSum(): assert functionSum(12) == 13 \ No newline at end of file From d3619d31f4d27cafafed068d3a05fb23b4fd643c Mon Sep 17 00:00:00 2001 From: Madu01 <64814266+Madu01@users.noreply.github.com> Date: Wed, 28 Jun 2023 18:01:53 -0300 Subject: [PATCH 14/19] Update requirements.txt --- datasets/requirements.txt | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/datasets/requirements.txt b/datasets/requirements.txt index c010d0f..a90d227 100644 --- a/datasets/requirements.txt +++ b/datasets/requirements.txt @@ -1,3 +1,3 @@ numpy==1.23 pandas==1.5 -torch==2.0 \ No newline at end of file +torch==2.0.1 From a859ca7066021d3c91ace7e0f44c1a05e26f90fe Mon Sep 17 00:00:00 2001 From: Madu01 Date: Wed, 28 Jun 2023 18:03:50 -0300 Subject: [PATCH 15/19] update in test --- tests/fileTest.py => test.py | 0 1 file changed, 0 insertions(+), 0 deletions(-) rename tests/fileTest.py => test.py (100%) diff --git a/tests/fileTest.py b/test.py similarity index 100% rename from tests/fileTest.py rename to test.py From 32eecab9e1c5a2a6dd8a2746c5a66acb8c3d8b11 Mon Sep 17 00:00:00 2001 From: Madu01 Date: Wed, 28 Jun 2023 18:10:22 -0300 Subject: [PATCH 16/19] add build --- cccp-spngp.py | 2 - energy-spngp.py | 3 - setup.py | 20 ++ src/__init__.py | 0 src/energy-spngp.py | 49 +++ src/energy.csv | 769 ++++++++++++++++++++++++++++++++++++++++++++ 6 files changed, 838 insertions(+), 5 deletions(-) create mode 100644 setup.py create mode 100644 src/__init__.py create mode 100644 src/energy-spngp.py create mode 100644 src/energy.csv diff --git a/cccp-spngp.py b/cccp-spngp.py index ad4ec0c..5052d28 100644 --- a/cccp-spngp.py +++ b/cccp-spngp.py @@ -1,9 +1,7 @@ import numpy as np import pandas as pd -import matplotlib.pyplot as plt from learnspngp import build, query, build_bins from spngp import structure -import sys np.random.seed(58) diff --git a/energy-spngp.py b/energy-spngp.py index 89d3bdd..1dd53a4 100644 --- a/energy-spngp.py +++ b/energy-spngp.py @@ -1,10 +1,7 @@ import numpy as np import pandas as pd -import matplotlib.pyplot as plt from learnspngp import build, query, build_bins from spngp import structure -import sklearn.preprocessing as preprocessing -import sys np.random.seed(58) diff --git a/setup.py b/setup.py new file mode 100644 index 0000000..936a068 --- /dev/null +++ b/setup.py @@ -0,0 +1,20 @@ +from setuptools import setup, find_packages + +VERSION = '0.0.1' +DESCRIPTION = 'First package of the SPNGP project' +# Setting up +setup( + # 'name' deve corresponder ao nome da pasta 'verysimplemodule' + name="projectspngp", + version=VERSION, + author="Maria Eduarda Barbosa", + author_email="m4dud01@gmail.com", + description=DESCRIPTION, + packages=find_packages(), + keywords=['python', 'first package'], + classifiers= [ + "Development Status :: 3 - Alpha", + "Intended Audience :: Developers", + "Programming Language :: Python :: 3.10", + ], +) \ No newline at end of file diff --git a/src/__init__.py b/src/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/src/energy-spngp.py b/src/energy-spngp.py new file mode 100644 index 0000000..1dd53a4 --- /dev/null +++ b/src/energy-spngp.py @@ -0,0 +1,49 @@ +import numpy as np +import pandas as pd +from learnspngp import build, query, build_bins +from spngp import structure + +np.random.seed(58) + +data = pd.read_csv('datasets/energy/energy.csv') +data = pd.DataFrame(data).dropna() +dmean, dstd = data.mean(), data.std() +data = (data-dmean)/dstd + +target_index = 9 # 8 or 9 + +# GPSPN on full data +train = data.sample(frac=0.8, random_state=58) +test = data.drop(train.index) +x, y = train.iloc[:, :-2].values, train.iloc[:, target_index].values.reshape(-1,1) + +opts = { + 'min_samples': 0, + 'X': x, + 'qd': 3, + 'max_depth': 3, + 'max_samples': 10**10, + 'log': True, + 'min_samples': 0, + 'jump': True, + 'reduce_branching': True +} +root_region, gps_ = build_bins(**opts) +#sys.exit() +root, gps = structure(root_region, gp_types=['rbf']) + +for i, gp in enumerate(gps): + idx = query(x, gp.mins, gp.maxs) + gp.x, gp.y = x[idx], y[idx] + print(f"Training GP {i+1}/{len(gps)} ({len(idx)})") + gp.init(steps=30, cuda=True) + +root.update() + +for smudge in np.arange(0, 0.5, 0.05): + mu_s, cov_s = root.forward(test.iloc[:, 0:-2].values, smudge=smudge) + mu_s = (mu_s.ravel() * dstd.iloc[target_index]) + dmean.iloc[target_index] + mu_t = (test.iloc[:, target_index]*dstd.iloc[target_index]) + dmean.iloc[target_index] + sqe = (mu_s - mu_t.values)**2 + rmse = np.sqrt(sqe.sum()/len(test)) + print(f"SPN-GP (smudge={round(smudge, 4)}) \t RMSE: {rmse}") \ No newline at end of file diff --git a/src/energy.csv b/src/energy.csv new file mode 100644 index 0000000..cb51ee8 --- /dev/null +++ b/src/energy.csv @@ -0,0 +1,769 @@ +Relative Compactness,Surface Area,Wall Area,Roof Area,Overall Height,Orientation,Glazing Area,Glazing Area Distribution,Heating Load,Cooling Load +0.98,514.5,294,110.25,7,2,0,0,15.55,21.33 +0.98,514.5,294,110.25,7,3,0,0,15.55,21.33 +0.98,514.5,294,110.25,7,4,0,0,15.55,21.33 +0.98,514.5,294,110.25,7,5,0,0,15.55,21.33 +0.9,563.5,318.5,122.5,7,2,0,0,20.84,28.28 +0.9,563.5,318.5,122.5,7,3,0,0,21.46,25.38 +0.9,563.5,318.5,122.5,7,4,0,0,20.71,25.16 +0.9,563.5,318.5,122.5,7,5,0,0,19.68,29.6 +0.86,588,294,147,7,2,0,0,19.5,27.3 +0.86,588,294,147,7,3,0,0,19.95,21.97 +0.86,588,294,147,7,4,0,0,19.34,23.49 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setup, find_packages + +VERSION = '0.0.1' +DESCRIPTION = 'First package of the SPNGP project' +# Setting up +setup( + # 'name' deve corresponder ao nome da pasta 'verysimplemodule' + name="projectspngp", + version=VERSION, + author="Maria Eduarda Barbosa", + author_email="m4dud01@gmail.com", + description=DESCRIPTION, + packages=find_packages(), + keywords=['python', 'first package'], + classifiers= [ + "Development Status :: 3 - Alpha", + "Intended Audience :: Developers", + "Programming Language :: Python :: 3.10", + ], +) \ No newline at end of file diff --git a/src/__init__.py b/src/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/src/energy-spngp.py b/src/energy-spngp.py new file mode 100644 index 0000000..1dd53a4 --- /dev/null +++ b/src/energy-spngp.py @@ -0,0 +1,49 @@ +import numpy as np +import pandas as pd +from learnspngp import build, query, build_bins +from spngp import structure + +np.random.seed(58) + +data = pd.read_csv('datasets/energy/energy.csv') +data = pd.DataFrame(data).dropna() +dmean, dstd = data.mean(), data.std() +data = (data-dmean)/dstd + +target_index = 9 # 8 or 9 + +# GPSPN on full data +train = data.sample(frac=0.8, random_state=58) +test = data.drop(train.index) +x, y = train.iloc[:, :-2].values, train.iloc[:, target_index].values.reshape(-1,1) + +opts = { + 'min_samples': 0, + 'X': x, + 'qd': 3, + 'max_depth': 3, + 'max_samples': 10**10, + 'log': True, + 'min_samples': 0, + 'jump': True, + 'reduce_branching': True +} +root_region, gps_ = build_bins(**opts) +#sys.exit() +root, gps = structure(root_region, gp_types=['rbf']) + +for i, gp in enumerate(gps): + idx = query(x, gp.mins, gp.maxs) + gp.x, gp.y = x[idx], y[idx] + print(f"Training GP {i+1}/{len(gps)} ({len(idx)})") + gp.init(steps=30, cuda=True) + +root.update() + +for smudge in np.arange(0, 0.5, 0.05): + mu_s, cov_s = root.forward(test.iloc[:, 0:-2].values, smudge=smudge) + mu_s = (mu_s.ravel() * dstd.iloc[target_index]) + dmean.iloc[target_index] + mu_t = (test.iloc[:, target_index]*dstd.iloc[target_index]) + dmean.iloc[target_index] + sqe = (mu_s - mu_t.values)**2 + rmse = np.sqrt(sqe.sum()/len(test)) + print(f"SPN-GP (smudge={round(smudge, 4)}) \t RMSE: {rmse}") \ No newline at end of file diff --git a/src/energy.csv b/src/energy.csv new file mode 100644 index 0000000..cb51ee8 --- /dev/null +++ b/src/energy.csv @@ -0,0 +1,769 @@ +Relative Compactness,Surface Area,Wall Area,Roof Area,Overall Height,Orientation,Glazing Area,Glazing Area Distribution,Heating Load,Cooling Load +0.98,514.5,294,110.25,7,2,0,0,15.55,21.33 +0.98,514.5,294,110.25,7,3,0,0,15.55,21.33 +0.98,514.5,294,110.25,7,4,0,0,15.55,21.33 +0.98,514.5,294,110.25,7,5,0,0,15.55,21.33 +0.9,563.5,318.5,122.5,7,2,0,0,20.84,28.28 +0.9,563.5,318.5,122.5,7,3,0,0,21.46,25.38 +0.9,563.5,318.5,122.5,7,4,0,0,20.71,25.16 +0.9,563.5,318.5,122.5,7,5,0,0,19.68,29.6 +0.86,588,294,147,7,2,0,0,19.5,27.3 +0.86,588,294,147,7,3,0,0,19.95,21.97 +0.86,588,294,147,7,4,0,0,19.34,23.49 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+0.64,784,343,220.5,3.5,2,0.4,5,17.69,20.82 +0.64,784,343,220.5,3.5,3,0.4,5,18.19,20.21 +0.64,784,343,220.5,3.5,4,0.4,5,18.16,20.71 +0.64,784,343,220.5,3.5,5,0.4,5,17.88,21.4 +0.62,808.5,367.5,220.5,3.5,2,0.4,5,16.54,16.88 +0.62,808.5,367.5,220.5,3.5,3,0.4,5,16.44,17.11 +0.62,808.5,367.5,220.5,3.5,4,0.4,5,16.48,16.61 +0.62,808.5,367.5,220.5,3.5,5,0.4,5,16.64,16.03 From d2ad98b3b6eae2215dc46e828da7559e77077fe8 Mon Sep 17 00:00:00 2001 From: Madu01 <64814266+Madu01@users.noreply.github.com> Date: Thu, 29 Jun 2023 16:43:25 -0300 Subject: [PATCH 18/19] Doc Run the docker --- readme.md | 18 ++++++++++++++++++ 1 file changed, 18 insertions(+) diff --git a/readme.md b/readme.md index 95f2003..d6345bf 100644 --- a/readme.md +++ b/readme.md @@ -28,6 +28,24 @@ Following is a summary of the results: | concrete | 8 | 1030 | **4.84** | 6.25 | | ccpp | 4 | 9568 | **3.68** | 4.11 | +## Run the project with docker + +### first steps + +- You need download docker + +### start docker container + +Run the docker container + +``` make start ``` + +### Install dependencies and exec docker + +To install the dependencies and enter the container + +``` make init ``` + ## :mortar_board: Credits This code is a part of a MSc thesis written by Yevgen "Eugene" Zainchkovskyy at DTU Compute, department of Applied Mathematics and Computer Science at the Technical University of Denmark with an industrial partner Alipes Capital ApS. The work was carried out under supervision of Ole Winther, Professor at Section for Cognitive Systems, DTU Compute and Carsten Stahlhut, PhD, Principal Data Scientist, Novo Nordisk A/S (former Head of Quants at Alipes Capital). From cf1d6f51495f63e87b567a6fedd96b36d8fc3dd7 Mon Sep 17 00:00:00 2001 From: Madu01 <64814266+Madu01@users.noreply.github.com> Date: Thu, 29 Jun 2023 16:46:30 -0300 Subject: [PATCH 19/19] Fix in readme.md --- readme.md | 5 +++++ 1 file changed, 5 insertions(+) diff --git a/readme.md b/readme.md index d6345bf..00ed75e 100644 --- a/readme.md +++ b/readme.md @@ -45,6 +45,11 @@ Run the docker container To install the dependencies and enter the container ``` make init ``` +### Results + +Process the results + +```make results``` ## :mortar_board: Credits This code is a part of a MSc thesis written by Yevgen "Eugene" Zainchkovskyy at DTU Compute, department of Applied Mathematics and Computer Science at the Technical University of Denmark with an industrial partner Alipes Capital ApS. The work was carried out under supervision of Ole Winther, Professor at Section for Cognitive Systems, DTU Compute and Carsten Stahlhut, PhD, Principal Data Scientist, Novo Nordisk A/S (former Head of Quants at Alipes Capital).