From 7c12a1ac4cc4e25bb9ae52eaf59f40885502b850 Mon Sep 17 00:00:00 2001 From: Mackenzie Mathis Date: Sun, 8 Jan 2023 16:18:17 +0100 Subject: [PATCH 01/11] Update check_install.py --- dlclive/check_install/check_install.py | 20 +++++++++++++------- 1 file changed, 13 insertions(+), 7 deletions(-) diff --git a/dlclive/check_install/check_install.py b/dlclive/check_install/check_install.py index 2e75405..4e537b4 100755 --- a/dlclive/check_install/check_install.py +++ b/dlclive/check_install/check_install.py @@ -10,6 +10,10 @@ import sys import shutil import warnings +from dlclibrary.dlcmodelzoo.modelzoo_download import ( + download_huggingface_model, + MODELOPTIONS, +) from dlclive import benchmark_videos import urllib.request @@ -57,13 +61,15 @@ def main(display:bool=None): print('Tarball already downloaded, using cached version') else: print("Downloading full_dog model from the DeepLabCut Model Zoo...") - model_url = "http://deeplabcut.rowland.harvard.edu/models/DLC_Dog_resnet_50_iteration-0_shuffle-0.tar.gz" - urllib.request.urlretrieve(model_url, str(model_tarball), reporthook=urllib_pbar) - - print('Untarring compressed model') - model_file = tarfile.open(str(model_tarball)) - model_file.extractall(str(model_dir.parent)) - model_file.close() + model = 'superanimal_quadruped' + download_huggingface_model(model,model_dir) + #model_url = "http://deeplabcut.rowland.harvard.edu/models/DLC_Dog_resnet_50_iteration-0_shuffle-0.tar.gz" + #urllib.request.urlretrieve(model_url, str(model_tarball), reporthook=urllib_pbar) + + #print('Untarring compressed model') + #model_file = tarfile.open(str(model_tarball)) + # model_file.extractall(str(model_dir.parent)) + #model_file.close() # assert these things exist so we can give informative error messages assert Path(video_file).exists() From c99e36de1a36f0b7c5c0d9d7fe5882675b7dccea Mon Sep 17 00:00:00 2001 From: Mackenzie Mathis Date: Sun, 8 Jan 2023 16:19:22 +0100 Subject: [PATCH 02/11] Update poetry.lock --- poetry.lock | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/poetry.lock b/poetry.lock index 27a47aa..21ce0a0 100644 --- a/poetry.lock +++ b/poetry.lock @@ -77,7 +77,7 @@ param = ">=1.7.0" pyct = ">=0.4.4" [package.extras] -all = ["bokeh", "flake8", "holoviews", "keyring", "matplotlib", "nbsite (>=0.6.1)", "nbsmoke (>=0.2.6)", "numpy", "param (>=1.7.0)", "pyct (>=0.4.4)", "pytest (>=2.8.5)", "pytest-cov", "pytest-mpl", "rfc3986", "setuptools (>=30.3.0)", "sphinx-holoviz-theme", "twine", "wheel"] +all = ["dlclibrary","bokeh", "flake8", "holoviews", "keyring", "matplotlib", "nbsite (>=0.6.1)", "nbsmoke (>=0.2.6)", "numpy", "param (>=1.7.0)", "pyct (>=0.4.4)", "pytest (>=2.8.5)", "pytest-cov", "pytest-mpl", "rfc3986", "setuptools (>=30.3.0)", "sphinx-holoviz-theme", "twine", "wheel"] build = ["param (>=1.7.0)", "pyct (>=0.4.4)", "setuptools (>=30.3.0)", "wheel"] doc = ["bokeh", "holoviews", "matplotlib", "nbsite (>=0.6.1)", "numpy", "sphinx-holoviz-theme"] examples = ["bokeh", "holoviews", "matplotlib", "numpy"] From 8db98804f6ccaff44fbe3bdd92e3692535bb5136 Mon Sep 17 00:00:00 2001 From: Jessy Lauer <30733203+jeylau@users.noreply.github.com> Date: Thu, 12 Jan 2023 13:09:36 +0100 Subject: [PATCH 03/11] Add dlclibrary as a poetry dependency --- pyproject.toml | 1 + 1 file changed, 1 insertion(+) diff --git a/pyproject.toml b/pyproject.toml index c0a227b..1210fc9 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -37,6 +37,7 @@ tensorflow = "^2.7.0" pandas = "^1.3" tables = "^3.6" opencv-python-headless = "^4.5" +dlclibrary = "^0.0.2" [tool.poetry.dev-dependencies] From 6a6db30518dd9cc90960c805fedb112138e615e4 Mon Sep 17 00:00:00 2001 From: Jessy Lauer <30733203+jeylau@users.noreply.github.com> Date: Thu, 12 Jan 2023 14:04:15 +0100 Subject: [PATCH 04/11] Update poetry.lock --- poetry.lock | 14 +++++++++++++- 1 file changed, 13 insertions(+), 1 deletion(-) diff --git a/poetry.lock b/poetry.lock index 21ce0a0..e7a9126 100644 --- a/poetry.lock +++ b/poetry.lock @@ -77,13 +77,25 @@ param = ">=1.7.0" pyct = ">=0.4.4" [package.extras] -all = ["dlclibrary","bokeh", "flake8", "holoviews", "keyring", "matplotlib", "nbsite (>=0.6.1)", "nbsmoke (>=0.2.6)", "numpy", "param (>=1.7.0)", "pyct (>=0.4.4)", "pytest (>=2.8.5)", "pytest-cov", "pytest-mpl", "rfc3986", "setuptools (>=30.3.0)", "sphinx-holoviz-theme", "twine", "wheel"] +all = ["bokeh", "flake8", "holoviews", "keyring", "matplotlib", "nbsite (>=0.6.1)", "nbsmoke (>=0.2.6)", "numpy", "param (>=1.7.0)", "pyct (>=0.4.4)", "pytest (>=2.8.5)", "pytest-cov", "pytest-mpl", "rfc3986", "setuptools (>=30.3.0)", "sphinx-holoviz-theme", "twine", "wheel"] build = ["param (>=1.7.0)", "pyct (>=0.4.4)", "setuptools (>=30.3.0)", "wheel"] doc = ["bokeh", "holoviews", "matplotlib", "nbsite (>=0.6.1)", "numpy", "sphinx-holoviz-theme"] examples = ["bokeh", "holoviews", "matplotlib", "numpy"] tests = ["flake8", "keyring", "nbsmoke (>=0.2.6)", "pytest (>=2.8.5)", "pytest-cov", "rfc3986", "twine"] tests_extra = ["flake8", "keyring", "nbsmoke (>=0.2.6)", "pytest (>=2.8.5)", "pytest-cov", "pytest-mpl", "rfc3986", "twine"] +[[package]] +name = "dlclibrary" +version = "0.0.2" +description = "Lightweight library supporting universal functions for the DeepLabCut ecosystem" +category = "main" +optional = false +python-versions = "*" + +[package.dependencies] +huggingface-hub = "*" +"ruamel.yaml" = ">=0.15.0" + [[package]] name = "flatbuffers" version = "2.0" From b86c82980480dbe6aa79ecde3832c2a9951fca1e Mon Sep 17 00:00:00 2001 From: Jessy Lauer <30733203+jeylau@users.noreply.github.com> Date: Fri, 13 Jan 2023 13:18:14 +0100 Subject: [PATCH 05/11] Update poetry.lock --- poetry.lock | 1725 +++++++++++++++++++++++++++++---------------------- 1 file changed, 981 insertions(+), 744 deletions(-) diff --git a/poetry.lock b/poetry.lock index e7a9126..3322bea 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,13 +1,16 @@ +# This file is automatically @generated by Poetry and should not be changed by hand. + [[package]] name = "absl-py" -version = "1.0.0" +version = "1.4.0" description = "Abseil Python Common Libraries, see https://github.com/abseil/abseil-py." category = "main" optional = false python-versions = ">=3.6" - -[package.dependencies] -six = "*" +files = [ + {file = "absl-py-1.4.0.tar.gz", hash = "sha256:d2c244d01048ba476e7c080bd2c6df5e141d211de80223460d5b3b8a2a58433d"}, + {file = "absl_py-1.4.0-py3-none-any.whl", hash = "sha256:0d3fe606adfa4f7db64792dd4c7aee4ee0c38ab75dfd353b7a83ed3e957fcb47"}, +] [[package]] name = "astunparse" @@ -16,73 +19,171 @@ description = "An AST unparser for Python" category = "main" optional = false python-versions = "*" +files = [ + {file = "astunparse-1.6.3-py2.py3-none-any.whl", hash = "sha256:c2652417f2c8b5bb325c885ae329bdf3f86424075c4fd1a128674bc6fba4b8e8"}, + {file = "astunparse-1.6.3.tar.gz", hash = "sha256:5ad93a8456f0d084c3456d059fd9a92cce667963232cbf763eac3bc5b7940872"}, +] 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@@ testing = ["flake8 (<5)", "func-timeout", "jaraco.functools", "jaraco.itertools" [metadata] lock-version = "2.0" python-versions = ">=3.7.1,<3.11" -content-hash = "a1f1526009547df5bf29710649b9ef49a68fc7799e3bb86721f4caefa79e2fd1" +content-hash = "24628d261487324aa35603f3442d6f01af852bd502258f5c8af5aa5b7f394349" From 5f3e99424503b2fc53314c2e6a89c9a09bfbde3b Mon Sep 17 00:00:00 2001 From: Jessy Lauer <30733203+jeylau@users.noreply.github.com> Date: Fri, 13 Jan 2023 13:29:01 +0100 Subject: [PATCH 07/11] Pin tensorflow to <=2.10 --- pyproject.toml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/pyproject.toml b/pyproject.toml index 1210fc9..6be1535 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -33,7 +33,7 @@ colorcet = "^3.0.0" Pillow = ">=8.0.0" py-cpuinfo = ">=5.0.0" tqdm = "^4.62.3" -tensorflow = "^2.7.0" +tensorflow = "^2.7.0,<=2.10" pandas = "^1.3" tables = "^3.6" opencv-python-headless = "^4.5" From 7a604cd7368279ac4f6a70d94be6ca6bbba0fbd6 Mon Sep 17 00:00:00 2001 From: Alexander Mathis Date: Thu, 26 Jan 2023 20:20:23 +0100 Subject: [PATCH 08/11] Update pyproject.toml --- pyproject.toml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/pyproject.toml b/pyproject.toml index 6be1535..3529695 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -37,7 +37,7 @@ tensorflow = "^2.7.0,<=2.10" pandas = "^1.3" tables = "^3.6" opencv-python-headless = "^4.5" -dlclibrary = "^0.0.2" +dlclibrary = ">=0.0.2" [tool.poetry.dev-dependencies] From 4be5b4355a9f4fe33fabe68cd595fb1a84afa75c Mon Sep 17 00:00:00 2001 From: Jessy Lauer <30733203+jeylau@users.noreply.github.com> Date: Fri, 27 Jan 2023 13:06:25 +0100 Subject: [PATCH 09/11] Fix check_install test script --- dlclive/check_install/check_install.py | 30 ++++++++------------------ 1 file changed, 9 insertions(+), 21 deletions(-) diff --git a/dlclive/check_install/check_install.py b/dlclive/check_install/check_install.py index 4e537b4..6750b43 100755 --- a/dlclive/check_install/check_install.py +++ b/dlclive/check_install/check_install.py @@ -6,20 +6,17 @@ """ -import os import sys import shutil import warnings -from dlclibrary.dlcmodelzoo.modelzoo_download import ( - download_huggingface_model, - MODELOPTIONS, -) from dlclive import benchmark_videos import urllib.request import argparse from pathlib import Path -import tarfile +from dlclibrary.dlcmodelzoo.modelzoo_download import ( + download_huggingface_model, +) def urllib_pbar(count, blockSize, totalSize): @@ -29,6 +26,7 @@ def urllib_pbar(count, blockSize, totalSize): sys.stdout.write("\b"*len(outstr)) sys.stdout.flush() + def main(display:bool=None): parser = argparse.ArgumentParser( description="Test DLC-Live installation by downloading and evaluating a demo DLC project!") @@ -47,9 +45,7 @@ def main(display:bool=None): tmp_dir.mkdir(mode=0o775,exist_ok=True) video_file = str(tmp_dir / 'dog_clip.avi') - model_tarball = tmp_dir / 'DLC_Dog_resnet_50_iteration-0_shuffle-0.tar.gz' - model_dir = model_tarball.with_suffix('').with_suffix('') # remove two suffixes (tar.gz) - + model_dir = tmp_dir / 'DLC_Dog_resnet_50_iteration-0_shuffle-0' # download dog test video from github: print(f"Downloading Video to {video_file}") @@ -57,23 +53,15 @@ def main(display:bool=None): urllib.request.urlretrieve(url_link, video_file, reporthook=urllib_pbar) # download exported dog model from DeepLabCut Model Zoo - if Path(model_tarball).exists(): - print('Tarball already downloaded, using cached version') + if Path(model_dir / 'snapshot-75000.pb').exists(): + print('Model already downloaded, using cached version') else: print("Downloading full_dog model from the DeepLabCut Model Zoo...") - model = 'superanimal_quadruped' - download_huggingface_model(model,model_dir) - #model_url = "http://deeplabcut.rowland.harvard.edu/models/DLC_Dog_resnet_50_iteration-0_shuffle-0.tar.gz" - #urllib.request.urlretrieve(model_url, str(model_tarball), reporthook=urllib_pbar) - - #print('Untarring compressed model') - #model_file = tarfile.open(str(model_tarball)) - # model_file.extractall(str(model_dir.parent)) - #model_file.close() + download_huggingface_model("full_dog", model_dir) # assert these things exist so we can give informative error messages assert Path(video_file).exists() - assert Path(model_dir).exists() and Path(model_dir).is_dir() + assert Path(model_dir / 'snapshot-75000.pb').exists() # run benchmark videos print("\n Running inference...\n") From b124b988f1670e0060fae2a378989d7dfb3b6514 Mon Sep 17 00:00:00 2001 From: Jessy Lauer <30733203+jeylau@users.noreply.github.com> Date: Fri, 27 Jan 2023 15:33:31 +0100 Subject: [PATCH 10/11] Update poetry.lock --- poetry.lock | 813 ++++++++-------------------------------------------- 1 file changed, 117 insertions(+), 696 deletions(-) diff --git a/poetry.lock b/poetry.lock index 2add066..c2ad006 100644 --- a/poetry.lock +++ b/poetry.lock @@ -30,14 +30,14 @@ wheel = ">=0.23.0,<1.0" [[package]] name = "cachetools" -version 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b/dlclive/version.py index f9cff20..8a21dbb 100644 --- a/dlclive/version.py +++ b/dlclive/version.py @@ -7,5 +7,5 @@ """ -__version__ = "1.0.2" +__version__ = "1.0.3" VERSION = __version__ diff --git a/pyproject.toml b/pyproject.toml index 3529695..dd5ee40 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,6 +1,6 @@ [tool.poetry] name = "deeplabcut-live" -version = "1.0.2" +version = "1.0.3" description = "Class to load exported DeepLabCut networks and perform pose estimation on single frames (from a camera feed)" authors = ["A. & M. Mathis Labs "] license = "AGPL-3.0-or-later"