From 7e9354be5f0e2210f209ecf35cb141afa55f1eb6 Mon Sep 17 00:00:00 2001
From: roomrys
Date: Thu, 19 Dec 2024 17:52:41 +0000
Subject: [PATCH] deploy: 7991f14dcf31877f0363f1f2a4392586a04d6eee
---
.buildinfo | 2 +-
CODE_OF_CONDUCT.html | 36 +-
CONTRIBUTING.html | 44 +-
...642a87dad38e9d08625d98d4cf0ffd2b414281.png | Bin 0 -> 45294 bytes
...b9545d9a293bed86bd144682549fe750d7a34d.png | Bin 0 -> 52093 bytes
...a631a9de6f98afaf55b8f4f59ee8351db6feeb.png | Bin 0 -> 44455 bytes
...06868f157496f5fefdd2f4e8ad741179cb6e69.png | Bin 0 -> 70587 bytes
...4303852fcba727e88b0345cabc9999244acf84.png | Bin 0 -> 55940 bytes
...e1dc7a4c8f1ea2f81e7ea81aa3d61b9cc5c3a9.png | Bin 0 -> 24913 bytes
...97b24f30f433e554ae3059a3d226b457135a00.png | Bin 0 -> 34680 bytes
...d73bdc855130d58eaa29f55050031f80d0a148.png | Bin 0 -> 75959 bytes
...60ddf3eba8874e355ff047933d9a606da9318e.png | Bin 0 -> 14548 bytes
...00b1ab55b0a5571d0d2bb8b55ff041fe2e88f0.png | Bin 0 -> 169439 bytes
...1a4ec1072e73e79320eae51395ff6e3a9fe551.png | Bin 0 -> 96489 bytes
...a678d09aa630125b1a04b4b4429de3f8b4f1fc.png | Bin 0 -> 75337 bytes
...88b427d4c48b56a8bfa3f2b8e6edf7a74b37ef.png | Bin 0 -> 41697 bytes
_images/bonsai-connection.jpg | Bin 0 -> 113805 bytes
_images/bonsai-filecapture.jpg | Bin 0 -> 68990 bytes
_images/bonsai-predictcentroids.jpg | Bin 0 -> 76547 bytes
_images/bonsai-predictposeidentities.jpg | Bin 0 -> 85845 bytes
_images/bonsai-predictposes.jpg | Bin 0 -> 79334 bytes
_images/bonsai-workflow.jpg | Bin 0 -> 33481 bytes
...d937fc65e07bfc3c875c09ac3e2290aea8f4e7.png | Bin 0 -> 48824 bytes
...7c1961ff1a43b6b62847e515dadb3047025028.png | Bin 0 -> 29473 bytes
...0470e9c921794a84a0af190ce345f8321a14e9.png | Bin 0 -> 27526 bytes
...75704e720b95ba9694ecd512a2cc28d501fbab.png | Bin 0 -> 68307 bytes
_sources/api.rst | 13 +-
_sources/guides/bonsai.md | 75 +
_sources/guides/cli.md | 27 +-
_sources/guides/gui.md | 2 +-
_sources/guides/index.md | 5 +
_sources/guides/proofreading.md | 2 +
_sources/installation.md | 424 +-
..._and_inference_on_an_example_dataset.ipynb | 4 +-
.../_sphinx_javascript_frameworks_compat.js | 134 +
_static/basic.css | 56 +-
_static/bonsai-connection.jpg | Bin 0 -> 113805 bytes
_static/bonsai-filecapture.jpg | Bin 0 -> 68990 bytes
_static/bonsai-predictcentroids.jpg | Bin 0 -> 76547 bytes
_static/bonsai-predictposeidentities.jpg | Bin 0 -> 85845 bytes
_static/bonsai-predictposes.jpg | Bin 0 -> 79334 bytes
_static/bonsai-workflow.jpg | Bin 0 -> 33481 bytes
_static/css/tabs.css | 91 +
_static/doctools.js | 418 +-
_static/documentation_options.js | 4 +-
_static/jquery-3.6.0.js | 10881 ++++++++++++++++
_static/jquery.js | 4 +-
_static/language_data.js | 100 +-
...69c37c29e427902b24a333a5f9fcb2f0b3ac41.css | 2342 ++++
_static/searchtools.js | 821 +-
_static/sphinx_highlight.js | 144 +
_static/tabs.css | 89 +
_static/tabs.js | 145 +
api.html | 115 +-
api/sleap.info.align.html | 80 +-
api/sleap.info.feature_suggestions.html | 202 +-
api/sleap.info.labels.html | 24 +-
api/sleap.info.metrics.html | 94 +-
api/sleap.info.summary.html | 125 +-
api/sleap.info.trackcleaner.html | 52 +-
api/sleap.info.write_tracking_h5.html | 102 +-
api/sleap.instance.html | 532 +-
api/sleap.io.convert.html | 54 +-
api/sleap.io.dataset.html | 609 +-
api/sleap.io.format.adaptor.html | 100 +-
api/sleap.io.format.alphatracker.html | 138 +-
api/sleap.io.format.coco.html | 84 +-
api/sleap.io.format.csv.html | 86 +-
api/sleap.io.format.deeplabcut.html | 124 +-
api/sleap.io.format.deepposekit.html | 84 +-
api/sleap.io.format.dispatch.html | 24 +-
api/sleap.io.format.filehandle.html | 76 +-
api/sleap.io.format.genericjson.html | 88 +-
api/sleap.io.format.hdf5.html | 88 +-
api/sleap.io.format.labels_json.html | 100 +-
api/sleap.io.format.leap_matlab.html | 84 +-
api/sleap.io.format.main.html | 60 +-
api/sleap.io.format.ndx_pose.html | 98 +-
api/sleap.io.format.nix.html | 88 +-
api/sleap.io.format.sleap_analysis.html | 90 +-
api/sleap.io.format.text.html | 88 +-
api/sleap.io.legacy.html | 64 +-
api/sleap.io.pathutils.html | 68 +-
api/sleap.io.video.html | 424 +-
api/sleap.io.videowriter.html | 132 +-
api/sleap.io.visuals.html | 96 +-
api/sleap.message.html | 88 +-
api/sleap.nn.architectures.common.html | 66 +-
...leap.nn.architectures.encoder_decoder.html | 306 +-
api/sleap.nn.architectures.hourglass.html | 194 +-
api/sleap.nn.architectures.hrnet.html | 106 +-
api/sleap.nn.architectures.leap.html | 100 +-
....nn.architectures.pretrained_encoders.html | 92 +-
api/sleap.nn.architectures.resnet.html | 244 +-
api/sleap.nn.architectures.unet.html | 140 +-
api/sleap.nn.architectures.upsampling.html | 124 +-
api/sleap.nn.callbacks.html | 156 +-
api/sleap.nn.config.data.html | 158 +-
api/sleap.nn.config.model.html | 564 +-
api/sleap.nn.config.optimization.html | 312 +-
api/sleap.nn.config.outputs.html | 204 +-
api/sleap.nn.config.training_job.html | 132 +-
api/sleap.nn.config.utils.html | 56 +-
api/sleap.nn.data.augmentation.html | 198 +-
api/sleap.nn.data.confidence_maps.html | 200 +-
api/sleap.nn.data.dataset_ops.html | 232 +-
api/sleap.nn.data.edge_maps.html | 124 +-
api/sleap.nn.data.general.html | 124 +-
api/sleap.nn.data.grouping.html | 56 +-
api/sleap.nn.data.identity.html | 120 +-
api/sleap.nn.data.inference.html | 80 +-
api/sleap.nn.data.instance_centroids.html | 110 +-
api/sleap.nn.data.instance_cropping.html | 150 +-
api/sleap.nn.data.normalization.html | 176 +-
api/sleap.nn.data.offset_regression.html | 64 +-
api/sleap.nn.data.pipelines.html | 424 +-
api/sleap.nn.data.providers.html | 156 +-
api/sleap.nn.data.resizing.html | 206 +-
api/sleap.nn.data.training.html | 100 +-
api/sleap.nn.data.utils.html | 100 +-
api/sleap.nn.evals.html | 160 +-
api/sleap.nn.heads.html | 382 +-
api/sleap.nn.identity.html | 72 +-
api/sleap.nn.inference.html | 1106 +-
api/sleap.nn.losses.html | 106 +-
api/sleap.nn.model.html | 86 +-
api/sleap.nn.paf_grouping.html | 319 +-
api/sleap.nn.peak_finding.html | 163 +-
api/sleap.nn.system.html | 122 +-
api/sleap.nn.tracker.components.html | 171 +-
api/sleap.nn.tracker.kalman.html | 64 +-
api/sleap.nn.tracking.html | 265 +-
api/sleap.nn.training.html | 326 +-
api/sleap.nn.utils.html | 88 +-
api/sleap.nn.viz.html | 88 +-
api/sleap.skeleton.html | 599 +-
api/sleap.util.html | 168 +-
datasets.html | 72 +-
docs/_static/bonsai-connection.jpg | Bin 0 -> 113805 bytes
docs/_static/bonsai-filecapture.jpg | Bin 0 -> 68990 bytes
docs/_static/bonsai-predictcentroids.jpg | Bin 0 -> 76547 bytes
docs/_static/bonsai-predictposeidentities.jpg | Bin 0 -> 85845 bytes
docs/_static/bonsai-predictposes.jpg | Bin 0 -> 79334 bytes
docs/_static/bonsai-workflow.jpg | Bin 0 -> 33481 bytes
docs/_static/css/tabs.css | 91 +
genindex.html | 145 +-
guides/bonsai.html | 512 +
guides/choosing-models.html | 30 +-
guides/cli.html | 81 +-
guides/colab.html | 28 +-
guides/custom-training.html | 24 +-
guides/gui.html | 52 +-
guides/index.html | 36 +-
guides/merging.html | 24 +-
guides/proofreading.html | 42 +-
guides/remote.html | 38 +-
guides/skeletons.html | 28 +-
guides/training.html | 24 +-
guides/troubleshooting-workflows.html | 24 +-
help.html | 58 +-
index.html | 48 +-
installation.html | 370 +-
notebooks/Analysis_examples.html | 68 +-
notebooks/Data_structures.html | 52 +-
.../Interactive_and_realtime_inference.html | 56 +-
.../Interactive_and_resumable_training.html | 68 +-
notebooks/Model_evaluation.html | 48 +-
notebooks/Post_inference_tracking.html | 48 +-
...g_and_inference_on_an_example_dataset.html | 66 +-
...ning_and_inference_using_Google_Drive.html | 58 +-
notebooks/analysis_example/README.html | 22 +-
notebooks/index.html | 50 +-
objects.inv | Bin 20518 -> 20650 bytes
overview.html | 24 +-
py-modindex.html | 25 +-
search.html | 20 +-
searchindex.js | 2 +-
tutorials/analysis.html | 28 +-
tutorials/assisted-labeling.html | 26 +-
tutorials/initial-labeling.html | 32 +-
tutorials/initial-training.html | 30 +-
tutorials/new-project.html | 32 +-
tutorials/proofreading.html | 26 +-
tutorials/tutorial.html | 24 +-
184 files changed, 26732 insertions(+), 5883 deletions(-)
create mode 100644 _images/1b0b6e7baba606deccb7311077642a87dad38e9d08625d98d4cf0ffd2b414281.png
create mode 100644 _images/35c10296694a5eb3635e87b56ab9545d9a293bed86bd144682549fe750d7a34d.png
create mode 100644 _images/3f78e9f7b93df6d2f3452d162ca631a9de6f98afaf55b8f4f59ee8351db6feeb.png
create mode 100644 _images/42e0a303da85179624b2247d2d06868f157496f5fefdd2f4e8ad741179cb6e69.png
create mode 100644 _images/4c35c39e8dcf293ab2362ab3534303852fcba727e88b0345cabc9999244acf84.png
create mode 100644 _images/507b37f5c35704f694d1e81f64e1dc7a4c8f1ea2f81e7ea81aa3d61b9cc5c3a9.png
create mode 100644 _images/6a87f28526a92715315c4766f197b24f30f433e554ae3059a3d226b457135a00.png
create mode 100644 _images/6dcf42bdd95e0ded30ed1fb43ad73bdc855130d58eaa29f55050031f80d0a148.png
create mode 100644 _images/7d06f5baca09a6bf3099c8ae1060ddf3eba8874e355ff047933d9a606da9318e.png
create mode 100644 _images/7e506e2f6407ee4d65215f596800b1ab55b0a5571d0d2bb8b55ff041fe2e88f0.png
create mode 100644 _images/b21d966bde1fb74635e96843f91a4ec1072e73e79320eae51395ff6e3a9fe551.png
create mode 100644 _images/b44ac03a6b1270ea102001c424a678d09aa630125b1a04b4b4429de3f8b4f1fc.png
create mode 100644 _images/b63ef4ea81a463798c2aa2540688b427d4c48b56a8bfa3f2b8e6edf7a74b37ef.png
create mode 100644 _images/bonsai-connection.jpg
create mode 100644 _images/bonsai-filecapture.jpg
create mode 100644 _images/bonsai-predictcentroids.jpg
create mode 100644 _images/bonsai-predictposeidentities.jpg
create mode 100644 _images/bonsai-predictposes.jpg
create mode 100644 _images/bonsai-workflow.jpg
create mode 100644 _images/ca67ed7d78a0a607f47eea0f22d937fc65e07bfc3c875c09ac3e2290aea8f4e7.png
create mode 100644 _images/d2b61f464140b9d880c782c1347c1961ff1a43b6b62847e515dadb3047025028.png
create mode 100644 _images/d8517178d972bc0703903cfab70470e9c921794a84a0af190ce345f8321a14e9.png
create mode 100644 _images/dc4bfaee117747c1eeba0b62c375704e720b95ba9694ecd512a2cc28d501fbab.png
create mode 100644 _sources/guides/bonsai.md
create mode 100644 _static/_sphinx_javascript_frameworks_compat.js
create mode 100644 _static/bonsai-connection.jpg
create mode 100644 _static/bonsai-filecapture.jpg
create mode 100644 _static/bonsai-predictcentroids.jpg
create mode 100644 _static/bonsai-predictposeidentities.jpg
create mode 100644 _static/bonsai-predictposes.jpg
create mode 100644 _static/bonsai-workflow.jpg
create mode 100644 _static/css/tabs.css
create mode 100644 _static/jquery-3.6.0.js
create mode 100644 _static/mystnb.4510f1fc1dee50b3e5859aac5469c37c29e427902b24a333a5f9fcb2f0b3ac41.css
create mode 100644 _static/sphinx_highlight.js
create mode 100644 _static/tabs.css
create mode 100644 _static/tabs.js
create mode 100644 docs/_static/bonsai-connection.jpg
create mode 100644 docs/_static/bonsai-filecapture.jpg
create mode 100644 docs/_static/bonsai-predictcentroids.jpg
create mode 100644 docs/_static/bonsai-predictposeidentities.jpg
create mode 100644 docs/_static/bonsai-predictposes.jpg
create mode 100644 docs/_static/bonsai-workflow.jpg
create mode 100644 docs/_static/css/tabs.css
create mode 100644 guides/bonsai.html
diff --git a/.buildinfo b/.buildinfo
index 82e156059..344c2f8f3 100644
--- a/.buildinfo
+++ b/.buildinfo
@@ -1,4 +1,4 @@
# Sphinx build info version 1
# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
-config: 9d36406655356348384633483bebff27
+config: 061a3cab3e5ef79e32ad32ceda8f5410
tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/CODE_OF_CONDUCT.html b/CODE_OF_CONDUCT.html
index 0a812695b..0b9108aa1 100644
--- a/CODE_OF_CONDUCT.html
+++ b/CODE_OF_CONDUCT.html
@@ -3,13 +3,13 @@
-
+
-
+
- Contributor Covenant Code of Conduct — SLEAP (v1.3.3)
+ Contributor Covenant Code of Conduct — SLEAP (v1.4.1)
@@ -32,8 +32,8 @@
-
-
+
+
@@ -42,22 +42,19 @@
+
+
-
-
-
-
-
-
+
@@ -163,6 +160,7 @@
Run training and inference on Colab
Creating a custom training profile
Running SLEAP remotely
+Using Bonsai with SLEAP
Notebooks
@@ -333,13 +331,13 @@ Contents
-Contributor Covenant Code of Conduct
+Contributor Covenant Code of Conduct
-Our Pledge
+Our Pledge
In the interest of fostering an open and welcoming environment, we as contributors and maintainers pledge to make participation in our project and our community a harassment-free experience for everyone, regardless of age, body size, disability, ethnicity, gender identity and expression, level of experience, nationality, personal appearance, race, religion, or sexual identity and orientation.
-Our Standards
+Our Standards
Examples of behavior that contributes to creating a positive environment include:
-Scope
+Scope
This Code of Conduct applies both within project spaces and in public spaces when an individual is representing the project or its community. Examples of representing a project or community include using an official project e-mail address, posting via an official social media account, or acting as an appointed representative at an online or offline event. Representation of a project may be further defined and clarified by project maintainers.
-Enforcement
+Enforcement
Instances of abusive, harassing, or otherwise unacceptable behavior may be reported by contacting the project team at talmo@ salk. edu . All complaints will be reviewed and investigated and will result in a response that is deemed necessary and appropriate to the circumstances. The project team is obligated to maintain confidentiality with regard to the reporter of an incident. Further details of specific enforcement policies may be posted separately.
Project maintainers who do not follow or enforce the Code of Conduct in good faith may face temporary or permanent repercussions as determined by other members of the project’s leadership.
@@ -436,7 +434,7 @@ Attribution
diff --git a/CONTRIBUTING.html b/CONTRIBUTING.html
index 3e6261c52..fa15f0b81 100644
--- a/CONTRIBUTING.html
+++ b/CONTRIBUTING.html
@@ -3,13 +3,13 @@
-
+
-
+
- Contributing to SLEAP — SLEAP (v1.3.3)
+ Contributing to SLEAP — SLEAP (v1.4.1)
@@ -32,8 +32,8 @@
-
-
+
+
@@ -42,22 +42,19 @@
+
+
-
-
-
-
-
-
+
@@ -163,6 +160,7 @@
Run training and inference on Colab
Creating a custom training profile
Running SLEAP remotely
+Using Bonsai with SLEAP
Notebooks
@@ -339,11 +337,11 @@ Contents
-Contributing to SLEAP
+Contributing to SLEAP
As our community grows it is important to adhere to a set of contribution guidelines. These guidelines may change as needed. Please feel free to propose changes to source code in a pull request!
-Table Of Contents
-
+Table Of Contents
+
Code of Conduct
Contributing
@@ -356,21 +354,21 @@ Table Of Contents
-Contributing
+Contributing
Github has made it easy to separate issues from discussions. Generally speaking, if something warrants a pull request (e.g. bug fixes, TODOs) it should be submitted as an issue. Conversely, general questions about usage and improvement ideas should go into discussions. These both act as staging areas before adding the items to the SLEAP Roadmap. Once added to the Roadmap, items can be given priority, status, assignee(s), etc.
-Discussions
+Discussions
This is a place to go to ask questions and propose new ideas.
3 categories: Help, Ideas, General
@@ -383,8 +381,8 @@ Discussions
@@ -502,7 +500,7 @@ Thank you for contributing to SLEAP!