AutoOED: Automated Optimal Experiment Design Platform

Overview

Platform Python 3.7 License

AutoOED: Automated Optimal Experiment Design Platform

Paper | Website | Documentation | Contact

AutoOED is an optimal experiment design platform powered with automated machine learning to accelerate the discovery of optimal solutions. Our platform solves multi-objective optimization problems and automatically guides the design of experiment to be evaluated.

AutoOED is developed by Yunsheng Tian, Mina Konaković Luković, Timothy Erps, Michael Foshey and Wojciech Matusik from Computational Design & Fabrication Group at MIT Computer Science and Artificial Intelligence Laboratory. See our motivation behind this project in this article covered by MIT CSAIL Alliances Newsletter: New MIT CSAIL Open-Source Project Automates Experimental Design Optimization.

Overview

AutoOED is a powerful and easy-to-use tool written in Python for design parameter optimization with multiple objectives, which can be used for any kind of experiment settings (chemistry, material, physics, engineering, computer science…). AutoOED aims at improving the sample efficiency of optimization problems, i.e., using less number of samples to achieve the best performance, by applying state-of-the-art machine learning approaches, which is most powerful when the performance evaluation of your problem is expensive (for example, in terms of time or money).

One of the most important features of AutoOED is an intuitive graphical user interface (GUI), which is provided to visualize and guide the experiments for users with little or no experience with coding, machine learning, or optimization. Furthermore, a distributed system is integrated to enable parallelized experimental evaluations either by multiple processes on a single computer or by independent technicians in remote locations.

Installation

AutoOED can be installed either directly from the links to the executable files, or from source code. Source code is the most up-to-date version, while executable files are relatively stable. AutoOED generally works across all Windows/MacOS/Linux operating systems. After installation, there are some extra steps to take if you want to link your own evaluation programs to AutoOED for fully automatic experimentation.

Executable files

Please see the instructions in our documentation for directly installing executable files.

Source code

Step 1: General (Required)

Install by conda with pip:

conda env create -f environment.yml
conda activate autooed
pip install -r requirements_extra.txt

Or install purely by pip:

pip install -r requirements.txt
pip install -r requirements_extra.txt

Note: We recommend to install with Python 3.7, because we have not tested on other versions. If you cannot properly run the programs after installation, please check if the version of these packages match our specifications.

Step 2: Team Version using Windows (Optional)

If you plan to use team version of the software on windows, please run the following commands to replace the mysql connector package, otherwise the optimization will throw some error:

pip uninstall mysql-connector-python
pip install mysql-connector==2.2.9

And if you are using MySQL >= 8.0, you also need to change the authentication method to Legacy Authentication Method in MySQL installer.

Step 3: Custom Evaluation Programs (Optional)

There is some more work to do if you want to link your own evaluation programs to AutoOED to achieve fully automated experimentation, please see our documentation for more details.

Getting Started

After installing from source code, please run the following commands to start AutoOED for different versions respectively.

Personal version

The personal version of AutoOED has all the supported features except distributed collaboration. This version is cleaner and easier to work with, especially when the optimization and evaluation can be done on a single computer.

python run_personal.py

Team version

The team version enables distributed collaboration around the globe by leveraging a centralized MySQL database that can be connected through the Internet. Using this version, the scientist can focus on controlling the optimization and data analysis, while the technicians can evaluate in a distributed fashion and synchronize the evaluated results with other members of the team in real-time, through our provided simple and intuitive user interface. This version provides different software for different roles of a team (manager, scientist, and technician) with proper privilege control implemented. Below are the scripts for different roles respectively, but before running these scripts, please make sure that you have MySQL database management system pre-installed on your computer.

python run_team_manager.py
python run_team_scientist.py
python run_team_technician.py

For more detailed usage and information of AutoOED, please checkout our documentation.

Citation

If you find our work helpful to your research, please consider citing our paper.

@misc{tian2021autooed,
    title={AutoOED: Automated Optimal Experiment Design Platform},
    author={Yunsheng Tian and Mina Konaković Luković and Timothy Erps and Michael Foshey and Wojciech Matusik},
    year={2021},
    eprint={2104.05959},
    archivePrefix={arXiv},
    primaryClass={cs.AI}
}

Contributing

We highly welcome all kinds of contributions, including but not limited to bug fixes, new feature suggestions, more intuitive error messages, and so on.

Especially, the algorithmic part of our code repository is written in a clean and modular way, facilitating extensions and tailoring the code, serving as a testbed for machine learning researchers to easily develop and evaluate their own multi-objective Bayesian optimization algorithms. We are looking forward to supporting more powerful optimization algorithms on our platform.

Contact

If you experience any issues during installing or using the software, or if you want to contribute to AutoOED, please feel free to reach out to us either by creating issues on GitHub or sending emails to [email protected].

Comments
  • Tuning strategy

    Tuning strategy

    Many thanks for this promising work.

    Currently, I am applying AutoOED to explore the performance space in my project (3 variables to 2 objectives, and we don't know the objective function). However, the model prediction error increases as the evaluation add, please refer to the figure for more details. In this case, the ranges of 2 objectives are supposed to be limited in [-30, 30], can I constrain these ranges in the code? 1

    Moreover, I wonder how to select the tuning strategy for Gaussian Process, I have tried to change the hyperparameter nu but it didn't work. Could you please share some tunning experiences?

    I will appreciate your help.

    Best

    opened by KangLiao929 9
  • There are some problems in program testing, I hope you have a look.

    There are some problems in program testing, I hope you have a look.

    Your project is very valuable. When I experience the relevant function, run_team_scientist.py, the basic method described in the documentation is that the whole program stops responding after the manual optimization is started and before the optimization is finished. I hope you can check it out.

    opened by jia-github-pro 3
  • Bump pillow from 9.0.0 to 9.0.1

    Bump pillow from 9.0.0 to 9.0.1

    Bumps pillow from 9.0.0 to 9.0.1.

    Release notes

    Sourced from pillow's releases.

    9.0.1

    https://pillow.readthedocs.io/en/stable/releasenotes/9.0.1.html

    Changes

    • In show_file, use os.remove to remove temporary images. CVE-2022-24303 #6010 [@​radarhere, @​hugovk]
    • Restrict builtins within lambdas for ImageMath.eval. CVE-2022-22817 #6009 [radarhere]
    Changelog

    Sourced from pillow's changelog.

    9.0.1 (2022-02-03)

    • In show_file, use os.remove to remove temporary images. CVE-2022-24303 #6010 [radarhere, hugovk]

    • Restrict builtins within lambdas for ImageMath.eval. CVE-2022-22817 #6009 [radarhere]

    Commits
    • 6deac9e 9.0.1 version bump
    • c04d812 Update CHANGES.rst [ci skip]
    • 4fabec3 Added release notes for 9.0.1
    • 02affaa Added delay after opening image with xdg-open
    • ca0b585 Updated formatting
    • 427221e In show_file, use os.remove to remove temporary images
    • c930be0 Restrict builtins within lambdas for ImageMath.eval
    • 75b69dd Dont need to pin for GHA
    • cd938a7 Autolink CWE numbers with sphinx-issues
    • 2e9c461 Add CVE IDs
    • See full diff in compare view

    Dependabot compatibility score

    Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting @dependabot rebase.


    Dependabot commands and options

    You can trigger Dependabot actions by commenting on this PR:

    • @dependabot rebase will rebase this PR
    • @dependabot recreate will recreate this PR, overwriting any edits that have been made to it
    • @dependabot merge will merge this PR after your CI passes on it
    • @dependabot squash and merge will squash and merge this PR after your CI passes on it
    • @dependabot cancel merge will cancel a previously requested merge and block automerging
    • @dependabot reopen will reopen this PR if it is closed
    • @dependabot close will close this PR and stop Dependabot recreating it. You can achieve the same result by closing it manually
    • @dependabot ignore this major version will close this PR and stop Dependabot creating any more for this major version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this minor version will close this PR and stop Dependabot creating any more for this minor version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this dependency will close this PR and stop Dependabot creating any more for this dependency (unless you reopen the PR or upgrade to it yourself)
    • @dependabot use these labels will set the current labels as the default for future PRs for this repo and language
    • @dependabot use these reviewers will set the current reviewers as the default for future PRs for this repo and language
    • @dependabot use these assignees will set the current assignees as the default for future PRs for this repo and language
    • @dependabot use this milestone will set the current milestone as the default for future PRs for this repo and language

    You can disable automated security fix PRs for this repo from the Security Alerts page.

    dependencies 
    opened by dependabot[bot] 1
  • Bump numpy from 1.20.0 to 1.21.0

    Bump numpy from 1.20.0 to 1.21.0

    Bumps numpy from 1.20.0 to 1.21.0.

    Release notes

    Sourced from numpy's releases.

    v1.21.0

    NumPy 1.21.0 Release Notes

    The NumPy 1.21.0 release highlights are

    • continued SIMD work covering more functions and platforms,
    • initial work on the new dtype infrastructure and casting,
    • universal2 wheels for Python 3.8 and Python 3.9 on Mac,
    • improved documentation,
    • improved annotations,
    • new PCG64DXSM bitgenerator for random numbers.

    In addition there are the usual large number of bug fixes and other improvements.

    The Python versions supported for this release are 3.7-3.9. Official support for Python 3.10 will be added when it is released.

    :warning: Warning: there are unresolved problems compiling NumPy 1.21.0 with gcc-11.1 .

    • Optimization level -O3 results in many wrong warnings when running the tests.
    • On some hardware NumPy will hang in an infinite loop.

    New functions

    Add PCG64DXSM BitGenerator

    Uses of the PCG64 BitGenerator in a massively-parallel context have been shown to have statistical weaknesses that were not apparent at the first release in numpy 1.17. Most users will never observe this weakness and are safe to continue to use PCG64. We have introduced a new PCG64DXSM BitGenerator that will eventually become the new default BitGenerator implementation used by default_rng in future releases. PCG64DXSM solves the statistical weakness while preserving the performance and the features of PCG64.

    See upgrading-pcg64 for more details.

    (gh-18906)

    Expired deprecations

    • The shape argument numpy.unravel_index cannot be passed as dims keyword argument anymore. (Was deprecated in NumPy 1.16.)

    ... (truncated)

    Commits
    • b235f9e Merge pull request #19283 from charris/prepare-1.21.0-release
    • 34aebc2 MAINT: Update 1.21.0-notes.rst
    • 493b64b MAINT: Update 1.21.0-changelog.rst
    • 07d7e72 MAINT: Remove accidentally created directory.
    • 032fca5 Merge pull request #19280 from charris/backport-19277
    • 7d25b81 BUG: Fix refcount leak in ResultType
    • fa5754e BUG: Add missing DECREF in new path
    • 61127bb Merge pull request #19268 from charris/backport-19264
    • 143d45f Merge pull request #19269 from charris/backport-19228
    • d80e473 BUG: Removed typing for == and != in dtypes
    • Additional commits viewable in compare view

    Dependabot compatibility score

    Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting @dependabot rebase.


    Dependabot commands and options

    You can trigger Dependabot actions by commenting on this PR:

    • @dependabot rebase will rebase this PR
    • @dependabot recreate will recreate this PR, overwriting any edits that have been made to it
    • @dependabot merge will merge this PR after your CI passes on it
    • @dependabot squash and merge will squash and merge this PR after your CI passes on it
    • @dependabot cancel merge will cancel a previously requested merge and block automerging
    • @dependabot reopen will reopen this PR if it is closed
    • @dependabot close will close this PR and stop Dependabot recreating it. You can achieve the same result by closing it manually
    • @dependabot ignore this major version will close this PR and stop Dependabot creating any more for this major version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this minor version will close this PR and stop Dependabot creating any more for this minor version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this dependency will close this PR and stop Dependabot creating any more for this dependency (unless you reopen the PR or upgrade to it yourself)
    • @dependabot use these labels will set the current labels as the default for future PRs for this repo and language
    • @dependabot use these reviewers will set the current reviewers as the default for future PRs for this repo and language
    • @dependabot use these assignees will set the current assignees as the default for future PRs for this repo and language
    • @dependabot use this milestone will set the current milestone as the default for future PRs for this repo and language

    You can disable automated security fix PRs for this repo from the Security Alerts page.

    dependencies 
    opened by dependabot[bot] 1
  • Bump pillow from 8.3.2 to 9.0.0

    Bump pillow from 8.3.2 to 9.0.0

    Bumps pillow from 8.3.2 to 9.0.0.

    Release notes

    Sourced from pillow's releases.

    9.0.0

    https://pillow.readthedocs.io/en/stable/releasenotes/9.0.0.html

    Changes

    ... (truncated)

    Changelog

    Sourced from pillow's changelog.

    9.0.0 (2022-01-02)

    • Restrict builtins for ImageMath.eval(). CVE-2022-22817 #5923 [radarhere]

    • Ensure JpegImagePlugin stops at the end of a truncated file #5921 [radarhere]

    • Fixed ImagePath.Path array handling. CVE-2022-22815, CVE-2022-22816 #5920 [radarhere]

    • Remove consecutive duplicate tiles that only differ by their offset #5919 [radarhere]

    • Improved I;16 operations on big endian #5901 [radarhere]

    • Limit quantized palette to number of colors #5879 [radarhere]

    • Fixed palette index for zeroed color in FASTOCTREE quantize #5869 [radarhere]

    • When saving RGBA to GIF, make use of first transparent palette entry #5859 [radarhere]

    • Pass SAMPLEFORMAT to libtiff #5848 [radarhere]

    • Added rounding when converting P and PA #5824 [radarhere]

    • Improved putdata() documentation and data handling #5910 [radarhere]

    • Exclude carriage return in PDF regex to help prevent ReDoS #5912 [hugovk]

    • Fixed freeing pointer in ImageDraw.Outline.transform #5909 [radarhere]

    • Added ImageShow support for xdg-open #5897 [m-shinder, radarhere]

    • Support 16-bit grayscale ImageQt conversion #5856 [cmbruns, radarhere]

    • Convert subsequent GIF frames to RGB or RGBA #5857 [radarhere]

    ... (truncated)

    Commits

    Dependabot compatibility score

    Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting @dependabot rebase.


    Dependabot commands and options

    You can trigger Dependabot actions by commenting on this PR:

    • @dependabot rebase will rebase this PR
    • @dependabot recreate will recreate this PR, overwriting any edits that have been made to it
    • @dependabot merge will merge this PR after your CI passes on it
    • @dependabot squash and merge will squash and merge this PR after your CI passes on it
    • @dependabot cancel merge will cancel a previously requested merge and block automerging
    • @dependabot reopen will reopen this PR if it is closed
    • @dependabot close will close this PR and stop Dependabot recreating it. You can achieve the same result by closing it manually
    • @dependabot ignore this major version will close this PR and stop Dependabot creating any more for this major version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this minor version will close this PR and stop Dependabot creating any more for this minor version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this dependency will close this PR and stop Dependabot creating any more for this dependency (unless you reopen the PR or upgrade to it yourself)
    • @dependabot use these labels will set the current labels as the default for future PRs for this repo and language
    • @dependabot use these reviewers will set the current reviewers as the default for future PRs for this repo and language
    • @dependabot use these assignees will set the current assignees as the default for future PRs for this repo and language
    • @dependabot use this milestone will set the current milestone as the default for future PRs for this repo and language

    You can disable automated security fix PRs for this repo from the Security Alerts page.

    dependencies 
    opened by dependabot[bot] 0
  • Bump pillow from 8.2.0 to 8.3.2

    Bump pillow from 8.2.0 to 8.3.2

    Bumps pillow from 8.2.0 to 8.3.2.

    Release notes

    Sourced from pillow's releases.

    8.3.2

    https://pillow.readthedocs.io/en/stable/releasenotes/8.3.2.html

    Security

    • CVE-2021-23437 Raise ValueError if color specifier is too long [hugovk, radarhere]

    • Fix 6-byte OOB read in FliDecode [wiredfool]

    Python 3.10 wheels

    • Add support for Python 3.10 #5569, #5570 [hugovk, radarhere]

    Fixed regressions

    • Ensure TIFF RowsPerStrip is multiple of 8 for JPEG compression #5588 [kmilos, radarhere]

    • Updates for ImagePalette channel order #5599 [radarhere]

    • Hide FriBiDi shim symbols to avoid conflict with real FriBiDi library #5651 [nulano]

    8.3.1

    https://pillow.readthedocs.io/en/stable/releasenotes/8.3.1.html

    Changes

    8.3.0

    https://pillow.readthedocs.io/en/stable/releasenotes/8.3.0.html

    Changes

    ... (truncated)

    Changelog

    Sourced from pillow's changelog.

    8.3.2 (2021-09-02)

    • CVE-2021-23437 Raise ValueError if color specifier is too long [hugovk, radarhere]

    • Fix 6-byte OOB read in FliDecode [wiredfool]

    • Add support for Python 3.10 #5569, #5570 [hugovk, radarhere]

    • Ensure TIFF RowsPerStrip is multiple of 8 for JPEG compression #5588 [kmilos, radarhere]

    • Updates for ImagePalette channel order #5599 [radarhere]

    • Hide FriBiDi shim symbols to avoid conflict with real FriBiDi library #5651 [nulano]

    8.3.1 (2021-07-06)

    • Catch OSError when checking if fp is sys.stdout #5585 [radarhere]

    • Handle removing orientation from alternate types of EXIF data #5584 [radarhere]

    • Make Image.array take optional dtype argument #5572 [t-vi, radarhere]

    8.3.0 (2021-07-01)

    • Use snprintf instead of sprintf. CVE-2021-34552 #5567 [radarhere]

    • Limit TIFF strip size when saving with LibTIFF #5514 [kmilos]

    • Allow ICNS save on all operating systems #4526 [baletu, radarhere, newpanjing, hugovk]

    • De-zigzag JPEG's DQT when loading; deprecate convert_dict_qtables #4989 [gofr, radarhere]

    • Replaced xml.etree.ElementTree #5565 [radarhere]

    ... (truncated)

    Commits
    • 8013f13 8.3.2 version bump
    • 23c7ca8 Update CHANGES.rst
    • 8450366 Update release notes
    • a0afe89 Update test case
    • 9e08eb8 Raise ValueError if color specifier is too long
    • bd5cf7d FLI tests for Oss-fuzz crash.
    • 94a0cf1 Fix 6-byte OOB read in FliDecode
    • cece64f Add 8.3.2 (2021-09-02) [CI skip]
    • e422386 Add release notes for Pillow 8.3.2
    • 08dcbb8 Pillow 8.3.2 supports Python 3.10 [ci skip]
    • Additional commits viewable in compare view

    Dependabot compatibility score

    Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting @dependabot rebase.


    Dependabot commands and options

    You can trigger Dependabot actions by commenting on this PR:

    • @dependabot rebase will rebase this PR
    • @dependabot recreate will recreate this PR, overwriting any edits that have been made to it
    • @dependabot merge will merge this PR after your CI passes on it
    • @dependabot squash and merge will squash and merge this PR after your CI passes on it
    • @dependabot cancel merge will cancel a previously requested merge and block automerging
    • @dependabot reopen will reopen this PR if it is closed
    • @dependabot close will close this PR and stop Dependabot recreating it. You can achieve the same result by closing it manually
    • @dependabot ignore this major version will close this PR and stop Dependabot creating any more for this major version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this minor version will close this PR and stop Dependabot creating any more for this minor version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this dependency will close this PR and stop Dependabot creating any more for this dependency (unless you reopen the PR or upgrade to it yourself)
    • @dependabot use these labels will set the current labels as the default for future PRs for this repo and language
    • @dependabot use these reviewers will set the current reviewers as the default for future PRs for this repo and language
    • @dependabot use these assignees will set the current assignees as the default for future PRs for this repo and language
    • @dependabot use this milestone will set the current milestone as the default for future PRs for this repo and language

    You can disable automated security fix PRs for this repo from the Security Alerts page.

    dependencies 
    opened by dependabot[bot] 0
  • Bump pillow from 8.1.1 to 8.2.0

    Bump pillow from 8.1.1 to 8.2.0

    Bumps pillow from 8.1.1 to 8.2.0.

    Release notes

    Sourced from pillow's releases.

    8.2.0

    https://pillow.readthedocs.io/en/stable/releasenotes/8.2.0.html

    Changes

    Dependencies

    Deprecations

    ... (truncated)

    Changelog

    Sourced from pillow's changelog.

    8.2.0 (2021-04-01)

    • Added getxmp() method #5144 [UrielMaD, radarhere]

    • Add ImageShow support for GraphicsMagick #5349 [latosha-maltba, radarhere]

    • Do not load transparent pixels from subsequent GIF frames #5333 [zewt, radarhere]

    • Use LZW encoding when saving GIF images #5291 [raygard]

    • Set all transparent colors to be equal in quantize() #5282 [radarhere]

    • Allow PixelAccess to use Python int when parsing x and y #5206 [radarhere]

    • Removed Image._MODEINFO #5316 [radarhere]

    • Add preserve_tone option to autocontrast #5350 [elejke, radarhere]

    • Fixed linear_gradient and radial_gradient I and F modes #5274 [radarhere]

    • Add support for reading TIFFs with PlanarConfiguration=2 #5364 [kkopachev, wiredfool, nulano]

    • Deprecated categories #5351 [radarhere]

    • Do not premultiply alpha when resizing with Image.NEAREST resampling #5304 [nulano]

    • Dynamically link FriBiDi instead of Raqm #5062 [nulano]

    • Allow fewer PNG palette entries than the bit depth maximum when saving #5330 [radarhere]

    • Use duration from info dictionary when saving WebP #5338 [radarhere]

    • Stop flattening EXIF IFD into getexif() #4947 [radarhere, kkopachev]

    ... (truncated)

    Commits
    • e0e353c 8.2.0 version bump
    • ee635be Merge pull request #5377 from hugovk/security-and-release-notes
    • 694c84f Fix typo [ci skip]
    • 8febdad Review, typos and lint
    • fea4196 Reorder, roughly alphabetic
    • 496245a Fix BLP DOS -- CVE-2021-28678
    • 22e9bee Fix DOS in PSDImagePlugin -- CVE-2021-28675
    • ba65f0b Fix Memory DOS in ImageFont
    • bb6c11f Fix FLI DOS -- CVE-2021-28676
    • 5a5e6db Fix EPS DOS on _open -- CVE-2021-28677
    • Additional commits viewable in compare view

    Dependabot compatibility score

    Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting @dependabot rebase.


    Dependabot commands and options

    You can trigger Dependabot actions by commenting on this PR:

    • @dependabot rebase will rebase this PR
    • @dependabot recreate will recreate this PR, overwriting any edits that have been made to it
    • @dependabot merge will merge this PR after your CI passes on it
    • @dependabot squash and merge will squash and merge this PR after your CI passes on it
    • @dependabot cancel merge will cancel a previously requested merge and block automerging
    • @dependabot reopen will reopen this PR if it is closed
    • @dependabot close will close this PR and stop Dependabot recreating it. You can achieve the same result by closing it manually
    • @dependabot ignore this major version will close this PR and stop Dependabot creating any more for this major version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this minor version will close this PR and stop Dependabot creating any more for this minor version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this dependency will close this PR and stop Dependabot creating any more for this dependency (unless you reopen the PR or upgrade to it yourself)
    • @dependabot use these labels will set the current labels as the default for future PRs for this repo and language
    • @dependabot use these reviewers will set the current reviewers as the default for future PRs for this repo and language
    • @dependabot use these assignees will set the current assignees as the default for future PRs for this repo and language
    • @dependabot use this milestone will set the current milestone as the default for future PRs for this repo and language

    You can disable automated security fix PRs for this repo from the Security Alerts page.

    dependencies 
    opened by dependabot[bot] 0
  • Bump pyyaml from 5.3.1 to 5.4

    Bump pyyaml from 5.3.1 to 5.4

    Bumps pyyaml from 5.3.1 to 5.4.

    Changelog

    Sourced from pyyaml's changelog.

    5.4 (2021-01-19)

    Commits
    • 58d0cb7 5.4 release
    • a60f7a1 Fix compatibility with Jython
    • ee98abd Run CI on PR base branch changes
    • ddf2033 constructor.timezone: _copy & deepcopy
    • fc914d5 Avoid repeatedly appending to yaml_implicit_resolvers
    • a001f27 Fix for CVE-2020-14343
    • fe15062 Add 3.9 to appveyor file for completeness sake
    • 1e1c7fb Add a newline character to end of pyproject.toml
    • 0b6b7d6 Start sentences and phrases for capital letters
    • c976915 Shell code improvements
    • Additional commits viewable in compare view

    Dependabot compatibility score

    Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting @dependabot rebase.


    Dependabot commands and options

    You can trigger Dependabot actions by commenting on this PR:

    • @dependabot rebase will rebase this PR
    • @dependabot recreate will recreate this PR, overwriting any edits that have been made to it
    • @dependabot merge will merge this PR after your CI passes on it
    • @dependabot squash and merge will squash and merge this PR after your CI passes on it
    • @dependabot cancel merge will cancel a previously requested merge and block automerging
    • @dependabot reopen will reopen this PR if it is closed
    • @dependabot close will close this PR and stop Dependabot recreating it. You can achieve the same result by closing it manually
    • @dependabot ignore this major version will close this PR and stop Dependabot creating any more for this major version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this minor version will close this PR and stop Dependabot creating any more for this minor version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this dependency will close this PR and stop Dependabot creating any more for this dependency (unless you reopen the PR or upgrade to it yourself)
    • @dependabot use these labels will set the current labels as the default for future PRs for this repo and language
    • @dependabot use these reviewers will set the current reviewers as the default for future PRs for this repo and language
    • @dependabot use these assignees will set the current assignees as the default for future PRs for this repo and language
    • @dependabot use this milestone will set the current milestone as the default for future PRs for this repo and language

    You can disable automated security fix PRs for this repo from the Security Alerts page.

    dependencies 
    opened by dependabot[bot] 0
  • Bump pillow from 7.2.0 to 8.1.1

    Bump pillow from 7.2.0 to 8.1.1

    Bumps pillow from 7.2.0 to 8.1.1.

    Release notes

    Sourced from pillow's releases.

    8.1.1

    https://pillow.readthedocs.io/en/stable/releasenotes/8.1.1.html

    8.1.0

    https://pillow.readthedocs.io/en/stable/releasenotes/8.1.0.html

    Changes

    Dependencies

    Deprecations

    ... (truncated)

    Changelog

    Sourced from pillow's changelog.

    8.1.1 (2021-03-01)

    • Use more specific regex chars to prevent ReDoS. CVE-2021-25292 [hugovk]

    • Fix OOB Read in TiffDecode.c, and check the tile validity before reading. CVE-2021-25291 [wiredfool]

    • Fix negative size read in TiffDecode.c. CVE-2021-25290 [wiredfool]

    • Fix OOB read in SgiRleDecode.c. CVE-2021-25293 [wiredfool]

    • Incorrect error code checking in TiffDecode.c. CVE-2021-25289 [wiredfool]

    • PyModule_AddObject fix for Python 3.10 #5194 [radarhere]

    8.1.0 (2021-01-02)

    • Fix TIFF OOB Write error. CVE-2020-35654 #5175 [wiredfool]

    • Fix for Read Overflow in PCX Decoding. CVE-2020-35653 #5174 [wiredfool, radarhere]

    • Fix for SGI Decode buffer overrun. CVE-2020-35655 #5173 [wiredfool, radarhere]

    • Fix OOB Read when saving GIF of xsize=1 #5149 [wiredfool]

    • Makefile updates #5159 [wiredfool, radarhere]

    • Add support for PySide6 #5161 [hugovk]

    • Use disposal settings from previous frame in APNG #5126 [radarhere]

    • Added exception explaining that repr_png saves to PNG #5139 [radarhere]

    • Use previous disposal method in GIF load_end #5125 [radarhere]

    ... (truncated)

    Commits
    • 741d874 8.1.1 version bump
    • 179cd1c Added 8.1.1 release notes to index
    • 7d29665 Update CHANGES.rst [ci skip]
    • d25036f Credits
    • 973a4c3 Release notes for 8.1.1
    • 521dab9 Use more specific regex chars to prevent ReDoS
    • 8b8076b Fix for CVE-2021-25291
    • e25be1e Fix negative size read in TiffDecode.c
    • f891baa Fix OOB read in SgiRleDecode.c
    • cbfdde7 Incorrect error code checking in TiffDecode.c
    • Additional commits viewable in compare view

    Dependabot compatibility score

    Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting @dependabot rebase.


    Dependabot commands and options

    You can trigger Dependabot actions by commenting on this PR:

    • @dependabot rebase will rebase this PR
    • @dependabot recreate will recreate this PR, overwriting any edits that have been made to it
    • @dependabot merge will merge this PR after your CI passes on it
    • @dependabot squash and merge will squash and merge this PR after your CI passes on it
    • @dependabot cancel merge will cancel a previously requested merge and block automerging
    • @dependabot reopen will reopen this PR if it is closed
    • @dependabot close will close this PR and stop Dependabot recreating it. You can achieve the same result by closing it manually
    • @dependabot ignore this major version will close this PR and stop Dependabot creating any more for this major version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this minor version will close this PR and stop Dependabot creating any more for this minor version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this dependency will close this PR and stop Dependabot creating any more for this dependency (unless you reopen the PR or upgrade to it yourself)
    • @dependabot use these labels will set the current labels as the default for future PRs for this repo and language
    • @dependabot use these reviewers will set the current reviewers as the default for future PRs for this repo and language
    • @dependabot use these assignees will set the current assignees as the default for future PRs for this repo and language
    • @dependabot use this milestone will set the current milestone as the default for future PRs for this repo and language

    You can disable automated security fix PRs for this repo from the Security Alerts page.

    dependencies 
    opened by dependabot[bot] 0
  • Bump pillow from 9.0.0 to 9.3.0

    Bump pillow from 9.0.0 to 9.3.0

    Bumps pillow from 9.0.0 to 9.3.0.

    Release notes

    Sourced from pillow's releases.

    9.3.0

    https://pillow.readthedocs.io/en/stable/releasenotes/9.3.0.html

    Changes

    ... (truncated)

    Changelog

    Sourced from pillow's changelog.

    9.3.0 (2022-10-29)

    • Limit SAMPLESPERPIXEL to avoid runtime DOS #6700 [wiredfool]

    • Initialize libtiff buffer when saving #6699 [radarhere]

    • Inline fname2char to fix memory leak #6329 [nulano]

    • Fix memory leaks related to text features #6330 [nulano]

    • Use double quotes for version check on old CPython on Windows #6695 [hugovk]

    • Remove backup implementation of Round for Windows platforms #6693 [cgohlke]

    • Fixed set_variation_by_name offset #6445 [radarhere]

    • Fix malloc in _imagingft.c:font_setvaraxes #6690 [cgohlke]

    • Release Python GIL when converting images using matrix operations #6418 [hmaarrfk]

    • Added ExifTags enums #6630 [radarhere]

    • Do not modify previous frame when calculating delta in PNG #6683 [radarhere]

    • Added support for reading BMP images with RLE4 compression #6674 [npjg, radarhere]

    • Decode JPEG compressed BLP1 data in original mode #6678 [radarhere]

    • Added GPS TIFF tag info #6661 [radarhere]

    • Added conversion between RGB/RGBA/RGBX and LAB #6647 [radarhere]

    • Do not attempt normalization if mode is already normal #6644 [radarhere]

    ... (truncated)

    Commits

    Dependabot compatibility score

    Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting @dependabot rebase.


    Dependabot commands and options

    You can trigger Dependabot actions by commenting on this PR:

    • @dependabot rebase will rebase this PR
    • @dependabot recreate will recreate this PR, overwriting any edits that have been made to it
    • @dependabot merge will merge this PR after your CI passes on it
    • @dependabot squash and merge will squash and merge this PR after your CI passes on it
    • @dependabot cancel merge will cancel a previously requested merge and block automerging
    • @dependabot reopen will reopen this PR if it is closed
    • @dependabot close will close this PR and stop Dependabot recreating it. You can achieve the same result by closing it manually
    • @dependabot ignore this major version will close this PR and stop Dependabot creating any more for this major version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this minor version will close this PR and stop Dependabot creating any more for this minor version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this dependency will close this PR and stop Dependabot creating any more for this dependency (unless you reopen the PR or upgrade to it yourself)
    • @dependabot use these labels will set the current labels as the default for future PRs for this repo and language
    • @dependabot use these reviewers will set the current reviewers as the default for future PRs for this repo and language
    • @dependabot use these assignees will set the current assignees as the default for future PRs for this repo and language
    • @dependabot use this milestone will set the current milestone as the default for future PRs for this repo and language

    You can disable automated security fix PRs for this repo from the Security Alerts page.

    dependencies 
    opened by dependabot[bot] 0
  • Bump numpy from 1.20.0 to 1.22.0

    Bump numpy from 1.20.0 to 1.22.0

    Bumps numpy from 1.20.0 to 1.22.0.

    Release notes

    Sourced from numpy's releases.

    v1.22.0

    NumPy 1.22.0 Release Notes

    NumPy 1.22.0 is a big release featuring the work of 153 contributors spread over 609 pull requests. There have been many improvements, highlights are:

    • Annotations of the main namespace are essentially complete. Upstream is a moving target, so there will likely be further improvements, but the major work is done. This is probably the most user visible enhancement in this release.
    • A preliminary version of the proposed Array-API is provided. This is a step in creating a standard collection of functions that can be used across application such as CuPy and JAX.
    • NumPy now has a DLPack backend. DLPack provides a common interchange format for array (tensor) data.
    • New methods for quantile, percentile, and related functions. The new methods provide a complete set of the methods commonly found in the literature.
    • A new configurable allocator for use by downstream projects.

    These are in addition to the ongoing work to provide SIMD support for commonly used functions, improvements to F2PY, and better documentation.

    The Python versions supported in this release are 3.8-3.10, Python 3.7 has been dropped. Note that 32 bit wheels are only provided for Python 3.8 and 3.9 on Windows, all other wheels are 64 bits on account of Ubuntu, Fedora, and other Linux distributions dropping 32 bit support. All 64 bit wheels are also linked with 64 bit integer OpenBLAS, which should fix the occasional problems encountered by folks using truly huge arrays.

    Expired deprecations

    Deprecated numeric style dtype strings have been removed

    Using the strings "Bytes0", "Datetime64", "Str0", "Uint32", and "Uint64" as a dtype will now raise a TypeError.

    (gh-19539)

    Expired deprecations for loads, ndfromtxt, and mafromtxt in npyio

    numpy.loads was deprecated in v1.15, with the recommendation that users use pickle.loads instead. ndfromtxt and mafromtxt were both deprecated in v1.17 - users should use numpy.genfromtxt instead with the appropriate value for the usemask parameter.

    (gh-19615)

    ... (truncated)

    Commits

    Dependabot compatibility score

    Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting @dependabot rebase.


    Dependabot commands and options

    You can trigger Dependabot actions by commenting on this PR:

    • @dependabot rebase will rebase this PR
    • @dependabot recreate will recreate this PR, overwriting any edits that have been made to it
    • @dependabot merge will merge this PR after your CI passes on it
    • @dependabot squash and merge will squash and merge this PR after your CI passes on it
    • @dependabot cancel merge will cancel a previously requested merge and block automerging
    • @dependabot reopen will reopen this PR if it is closed
    • @dependabot close will close this PR and stop Dependabot recreating it. You can achieve the same result by closing it manually
    • @dependabot ignore this major version will close this PR and stop Dependabot creating any more for this major version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this minor version will close this PR and stop Dependabot creating any more for this minor version (unless you reopen the PR or upgrade to it yourself)
    • @dependabot ignore this dependency will close this PR and stop Dependabot creating any more for this dependency (unless you reopen the PR or upgrade to it yourself)
    • @dependabot use these labels will set the current labels as the default for future PRs for this repo and language
    • @dependabot use these reviewers will set the current reviewers as the default for future PRs for this repo and language
    • @dependabot use these assignees will set the current assignees as the default for future PRs for this repo and language
    • @dependabot use this milestone will set the current milestone as the default for future PRs for this repo and language

    You can disable automated security fix PRs for this repo from the Security Alerts page.

    dependencies 
    opened by dependabot[bot] 0
Owner
Yunsheng Tian
PhD student @ MIT CSAIL
Yunsheng Tian
Lightweight Machine Learning Experiment Logging 📖

Simple logging of statistics, model checkpoints, plots and other objects for your Machine Learning Experiments (MLE). Furthermore, the MLELogger comes with smooth multi-seed result aggregation and combination of multi-configuration runs. For a quickstart checkout the notebook blog ??

Robert Lange 65 Dec 8, 2022
ClearML - Auto-Magical Suite of tools to streamline your ML workflow. Experiment Manager, MLOps and Data-Management

ClearML - Auto-Magical Suite of tools to streamline your ML workflow Experiment Manager, MLOps and Data-Management ClearML Formerly known as Allegro T

ClearML 4k Jan 9, 2023
Automatically create Faiss knn indices with the most optimal similarity search parameters.

It selects the best indexing parameters to achieve the highest recalls given memory and query speed constraints.

Criteo 419 Jan 1, 2023
Optimal Randomized Canonical Correlation Analysis

ORCCA Optimal Randomized Canonical Correlation Analysis This project is for the python version of ORCCA algorithm. It depends on Numpy for matrix calc

Yinsong Wang 1 Nov 21, 2021
A data preprocessing package for time series data. Design for machine learning and deep learning.

A data preprocessing package for time series data. Design for machine learning and deep learning.

Allen Chiang 152 Jan 7, 2023
To design and implement the Identification of Iris Flower species using machine learning using Python and the tool Scikit-Learn.

To design and implement the Identification of Iris Flower species using machine learning using Python and the tool Scikit-Learn.

Astitva Veer Garg 1 Jan 11, 2022
A Python Automated Machine Learning tool that optimizes machine learning pipelines using genetic programming.

Master status: Development status: Package information: TPOT stands for Tree-based Pipeline Optimization Tool. Consider TPOT your Data Science Assista

Epistasis Lab at UPenn 8.9k Jan 9, 2023
Automated Machine Learning with scikit-learn

auto-sklearn auto-sklearn is an automated machine learning toolkit and a drop-in replacement for a scikit-learn estimator. Find the documentation here

AutoML-Freiburg-Hannover 6.7k Jan 7, 2023
MLBox is a powerful Automated Machine Learning python library.

MLBox is a powerful Automated Machine Learning python library. It provides the following features: Fast reading and distributed data preprocessing/cle

Axel 1.4k Jan 6, 2023
AtsPy: Automated Time Series Models in Python (by @firmai)

Automated Time Series Models in Python (AtsPy) SSRN Report Easily develop state of the art time series models to forecast univariate data series. Simp

Derek Snow 465 Jan 2, 2023
Automated Machine Learning Pipeline with Feature Engineering and Hyper-Parameters Tuning

The mljar-supervised is an Automated Machine Learning Python package that works with tabular data. I

MLJAR 2.4k Jan 2, 2023
Automated modeling and machine learning framework FEDOT

This repository contains FEDOT - an open-source framework for automated modeling and machine learning (AutoML). It can build custom modeling pipelines for different real-world processes in an automated way using an evolutionary approach. FEDOT supports classification (binary and multiclass), regression, clustering, and time series prediction tasks.

National Center for Cognitive Research of ITMO University 148 Jul 5, 2021
Automated machine learning: Review of the state-of-the-art and opportunities for healthcare

Automated machine learning: Review of the state-of-the-art and opportunities for healthcare

null 42 Dec 23, 2022
Hypernets: A General Automated Machine Learning framework to simplify the development of End-to-end AutoML toolkits in specific domains.

A General Automated Machine Learning framework to simplify the development of End-to-end AutoML toolkits in specific domains.

DataCanvas 216 Dec 23, 2022
Automated Machine Learning Pipeline for tabular data. Designed for predictive maintenance applications, failure identification, failure prediction, condition monitoring, etc.

Automated Machine Learning Pipeline for tabular data. Designed for predictive maintenance applications, failure identification, failure prediction, condition monitoring, etc.

Amplo 10 May 15, 2022
Python Automated Machine Learning library for tabular data.

Simple but powerful Automated Machine Learning library for tabular data. It uses efficient in-memory SAP HANA algorithms to automate routine Data Scie

Daniel Khromov 47 Dec 17, 2022
a distributed deep learning platform

Apache SINGA Distributed deep learning system http://singa.apache.org Quick Start Installation Examples Issues JIRA tickets Code Analysis: Mailing Lis

The Apache Software Foundation 2.7k Jan 5, 2023
Apache Liminal is an end-to-end platform for data engineers & scientists, allowing them to build, train and deploy machine learning models in a robust and agile way

Apache Liminals goal is to operationalise the machine learning process, allowing data scientists to quickly transition from a successful experiment to an automated pipeline of model training, validation, deployment and inference in production. Liminal provides a Domain Specific Language to build ML workflows on top of Apache Airflow.

The Apache Software Foundation 121 Dec 28, 2022
Model factory is a ML training platform to help engineers to build ML models at scale

Model Factory Machine learning today is powering many businesses today, e.g., search engine, e-commerce, news or feed recommendation. Training high qu

null 16 Sep 23, 2022