From 2e677ed0ded1f0ca7b0d116bbf07c7a5c39b8477 Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:08:01 -0700 Subject: [PATCH 01/19] Debug link checker --- .github/workflows/link-check.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/link-check.yml b/.github/workflows/link-check.yml index da67b85..824d52c 100644 --- a/.github/workflows/link-check.yml +++ b/.github/workflows/link-check.yml @@ -23,4 +23,4 @@ jobs: uses: lycheeverse/lychee-action@v2 with: # NOTE: Lychee (and sphinx) encounter issues with SSL certificates for INCF URLs, so use --insecure - args: --verbose --no-progress './content/**/*.md' './content/**/*.html' './content/**/*.rst' --insecure + args: --verbose --dump --no-progress './content/**/*.md' './content/**/*.html' './content/**/*.rst' --insecure From 017e490f8a6ebbd0f0e819156fd9fac39ca44e0e Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:11:56 -0700 Subject: [PATCH 02/19] Update link-check.yml --- .github/workflows/link-check.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/link-check.yml b/.github/workflows/link-check.yml index 824d52c..da67b85 100644 --- a/.github/workflows/link-check.yml +++ b/.github/workflows/link-check.yml @@ -23,4 +23,4 @@ jobs: uses: lycheeverse/lychee-action@v2 with: # NOTE: Lychee (and sphinx) encounter issues with SSL certificates for INCF URLs, so use --insecure - args: --verbose --dump --no-progress './content/**/*.md' './content/**/*.html' './content/**/*.rst' --insecure + args: --verbose --no-progress './content/**/*.md' './content/**/*.html' './content/**/*.rst' --insecure From 9483d263888c5a8d6c40fc91ade663a143e03874 Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:20:47 -0700 Subject: [PATCH 03/19] Fix Extract tutorials link --- content/tools/analysis/extract.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/content/tools/analysis/extract.md b/content/tools/analysis/extract.md index d0b34d7..b469029 100644 --- a/content/tools/analysis/extract.md +++ b/content/tools/analysis/extract.md @@ -23,5 +23,5 @@ EXTRACT (Tractable and Robust Automated Cell extraction Tool) is designed for ca ## Resources - [Source Code](https://github.com/schnitzer-lab/EXTRACT-public) -- [NWB Tutorials](https://github.com/schnitzer-lab/EXTRACT-public/tree/master/Learning%20materials/NWB%20Tutorials) +- [NWB Tutorials](https://github.com/schnitzer-lab/EXTRACT-public/tree/master/Learning-materials/Additional%20demos/NWB%20Demos) - [Publication](https://www.biorxiv.org/content/10.1101/2021.03.24.436279v2) From 9a1b6de4461a34f09b9eeab53168a6acda9289f3 Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:24:53 -0700 Subject: [PATCH 04/19] Fix links in cosyne 2019 --- content/events/cosyne-2019.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/content/events/cosyne-2019.md b/content/events/cosyne-2019.md index 325fcd9..be91e2c 100644 --- a/content/events/cosyne-2019.md +++ b/content/events/cosyne-2019.md @@ -29,9 +29,9 @@ resources: ## Overview -The [Neurodata Without Borders: Neurophysiology (NWB:N)](https://neurodatawithoutborders.github.io/) team held a tutorial on the NWB:N data standard and on using [PyNWB](https://neurodatawithoutborders.github.io/pynwb) and [MatNWB](https://neurodatawithoutborders.github.io/matnwbemb) at the Cosyne 2019 Workshops. +The [Neurodata Without Borders: Neurophysiology (NWB:N)](https://neurodatawithoutborders.github.io/) team held a tutorial on the NWB:N data standard and on using [PyNWB](https://pynwb.readthedocs.io/en/latest/) and [MatNWB](https://neurodatawithoutborders.github.io/matnwb) at the Cosyne 2019 Workshops. -The [NWB:N project](https://neurodatawithoutborders.github.io/) is an effort to standardize the description and storage of neurophysiology data and metadata. NWB:N enables data sharing and reuse and reduces the energy-barrier to applying data analytics both within and across labs. NWB:N is more than just a file format but it defines an [ecosystem](https://neurodatawithoutborders.github.io/overview) of tools, methods, and standards for storing, sharing, and analyzing complex neurophysiology data. +The [NWB:N project](https://neurodatawithoutborders.github.io/) is an effort to standardize the description and storage of neurophysiology data and metadata. NWB:N enables data sharing and reuse and reduces the energy-barrier to applying data analytics both within and across labs. NWB:N is more than just a file format but it defines an [ecosystem](https://neurodatawithoutborders.github.io/about-us/) of tools, methods, and standards for storing, sharing, and analyzing complex neurophysiology data. The team had recently released [NWB:N 2.0](https://neurodatawithoutborders.github.io/news), and was excited to teach the user-base and potential new users about NWB:N and the software tools. From b97cd9864a99826db54700ce7c14ff7ffc8fd34f Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:28:02 -0700 Subject: [PATCH 05/19] Fix links in cosyne 2019 --- content/events/cosyne-2019.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/content/events/cosyne-2019.md b/content/events/cosyne-2019.md index be91e2c..d3ca865 100644 --- a/content/events/cosyne-2019.md +++ b/content/events/cosyne-2019.md @@ -31,7 +31,7 @@ resources: The [Neurodata Without Borders: Neurophysiology (NWB:N)](https://neurodatawithoutborders.github.io/) team held a tutorial on the NWB:N data standard and on using [PyNWB](https://pynwb.readthedocs.io/en/latest/) and [MatNWB](https://neurodatawithoutborders.github.io/matnwb) at the Cosyne 2019 Workshops. -The [NWB:N project](https://neurodatawithoutborders.github.io/) is an effort to standardize the description and storage of neurophysiology data and metadata. NWB:N enables data sharing and reuse and reduces the energy-barrier to applying data analytics both within and across labs. NWB:N is more than just a file format but it defines an [ecosystem](https://neurodatawithoutborders.github.io/about-us/) of tools, methods, and standards for storing, sharing, and analyzing complex neurophysiology data. +The [NWB:N project](https://neurodatawithoutborders.github.io/) is an effort to standardize the description and storage of neurophysiology data and metadata. NWB:N enables data sharing and reuse and reduces the energy-barrier to applying data analytics both within and across labs. NWB:N is more than just a file format but it defines an [ecosystem](https://neurodatawithoutborders.github.io/about-nwb/) of tools, methods, and standards for storing, sharing, and analyzing complex neurophysiology data. The team had recently released [NWB:N 2.0](https://neurodatawithoutborders.github.io/news), and was excited to teach the user-base and potential new users about NWB:N and the software tools. From 03ddf55e865ed6bd96b9ec11b65fa1b9b5f3d88e Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:30:46 -0700 Subject: [PATCH 06/19] Fix link for hck09 report --- content/events/hck09-2020-remote.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/content/events/hck09-2020-remote.md b/content/events/hck09-2020-remote.md index 037a3f2..183c7c8 100644 --- a/content/events/hck09-2020-remote.md +++ b/content/events/hck09-2020-remote.md @@ -16,7 +16,7 @@ organizers: - "Oliver Rübel" registration: "Registration is now closed." resources: - "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/raw/master/HCK09_2020_Remote/report/Report___9th_NWB_Hackathon.pdf" + "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK09_2020_Remote/report/Report___9th_NWB_Hackathon.pdf" "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK09_2020_Remote" --- From e2c966d8680a05b6ddcde3abce4ec9a06f68291f Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:32:14 -0700 Subject: [PATCH 07/19] Fix link for report HCK06 --- content/events/hck06-2019-janelia.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/content/events/hck06-2019-janelia.md b/content/events/hck06-2019-janelia.md index d8e946e..6807b7f 100644 --- a/content/events/hck06-2019-janelia.md +++ b/content/events/hck06-2019-janelia.md @@ -15,7 +15,7 @@ organizers: - "Administrative Support: Janine Stevens" registration: "Registration is now closed." resources: - "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/raw/master/HCK06_2019_Janelia/report/Report___6th_NWB_N_Hackathon.pdf" + "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK06_2019_Janelia/report/Report___6th_NWB_N_Hackathon.pdf" "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK06_2019_Janelia" "Slides": "https://drive.google.com/drive/folders/18oG1rRJpluXQJJQaH4xbz6u58LXPiZbI?usp=sharing" --- From e519e0a92a90cbbe5362ce84d06083abb1c0503e Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:34:19 -0700 Subject: [PATCH 08/19] Fix broken pynapple link --- content/tools/analysis/pynapple.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/content/tools/analysis/pynapple.md b/content/tools/analysis/pynapple.md index c014447..cca385c 100644 --- a/content/tools/analysis/pynapple.md +++ b/content/tools/analysis/pynapple.md @@ -31,6 +31,6 @@ Pynapple is a unified toolbox for integrated analysis of multiple data sources. ## Resources - [Documentation](https://pynapple-org.github.io/pynapple/) -- [DANDI Demo](https://pynapple-org.github.io/pynapple/generated/gallery/tutorial_pynapple_dandi/) +- [DANDI Demo](https://pynapple.org/examples/tutorial_pynapple_dandi.html) - [Source Code](https://github.com/pynapple-org/pynapple) - [Twitter](https://twitter.com/thepynapple) From e36969179ce501ffad1329a012c5bf33252c9d76 Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:37:54 -0700 Subject: [PATCH 09/19] Fix link to cebra tutorial --- content/tools/analysis/cebra.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/content/tools/analysis/cebra.md b/content/tools/analysis/cebra.md index 3dfaf96..38b5fef 100644 --- a/content/tools/analysis/cebra.md +++ b/content/tools/analysis/cebra.md @@ -26,6 +26,6 @@ CEBRA is a machine-learning method that can be used to compress time series in a - [Website](https://cebra.ai) - [Documentation](https://cebra.ai/docs/) -- [NWB Tutorial](https://stes.io/NeuroDataReHack2023/) +- [NWB Tutorial](https://cebra.ai/docs/demo_notebooks/Demo_dandi_NeuroDataReHack_2023.html) - [Publication](https://www.nature.com/articles/s41586-023-06031-6) - [Source Code](https://github.com/AdaptiveMotorControlLab/cebra) From 635e63fc403c99542bbe647cec6a77df48eee2c6 Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:42:51 -0700 Subject: [PATCH 10/19] Fix links in hck08 --- content/events/hck08-2020-remote.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/content/events/hck08-2020-remote.md b/content/events/hck08-2020-remote.md index 9184e52..443a33a 100644 --- a/content/events/hck08-2020-remote.md +++ b/content/events/hck08-2020-remote.md @@ -16,8 +16,8 @@ organizers: - "Oliver Rübel" registration: "Registration is now closed." resources: - "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/raw/master/HCK08_2020_Remote/report/Report___8th_NWB_Hackathon.pdf" - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK08_2020_Remote" + "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK08_2020_Remote/report/Report___8th_NWB_Hackathon.pdf" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK08_2020_Remote" --- ## Dates and Location From 8861e35b4a500c7141f64f97220cbfd1f899fae7 Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:49:56 -0700 Subject: [PATCH 11/19] Fix master link onf hck24 --- content/events/hck24-2025-janelia-ndrh.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/content/events/hck24-2025-janelia-ndrh.md b/content/events/hck24-2025-janelia-ndrh.md index db58461..426c1dc 100644 --- a/content/events/hck24-2025-janelia-ndrh.md +++ b/content/events/hck24-2025-janelia-ndrh.md @@ -16,7 +16,7 @@ resources: "Event Flyer": "https://drive.google.com/file/d/1ptsGRa1sEMh-je7L_ff3CgtRTj-X11lO/view?usp=sharing" "Slides from the 2024 NeuroDataReHack": "https://drive.google.com/drive/folders/1DAmQr4qWCamhj_2Zyke0kkHGvV8Kyq13?usp=sharing" "PyNWB Documentation": "https://pynwb.readthedocs.io/en/stable/install_users.html#installing-pynwb" - "MatNWB Documentation": "https://github.com/NeurodataWithoutBorders/matnwb/blob/master/README.md" + "MatNWB Documentation": "https://matnwb.readthedocs.io/en/latest/" --- ## Objective @@ -79,7 +79,7 @@ Bring a laptop with appropriate software installed. Python should be installed a instructions on how to install PyNWB, see [the PyNWB documentation](https://pynwb.readthedocs.io/en/stable/install_users.html#installing-pynwb). For instructions on how to install MatNWB, see -[the MatNWB documentation](https://github.com/NeurodataWithoutBorders/matnwb/blob/master/README.md) +[the MatNWB documentation](https://matnwb.readthedocs.io/en/latest/) ## Testimonials from NeuroDataReHack 2024 From 1520c43522f0bb6ff7de1e5280606ed23aefb8c0 Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:50:49 -0700 Subject: [PATCH 12/19] Fix MatNWB link for ndrh 2024 --- content/events/hck21-2024-janelia-ndrh.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/content/events/hck21-2024-janelia-ndrh.md b/content/events/hck21-2024-janelia-ndrh.md index a2a3f24..d3fc3a3 100644 --- a/content/events/hck21-2024-janelia-ndrh.md +++ b/content/events/hck21-2024-janelia-ndrh.md @@ -60,7 +60,7 @@ Resources to help participants prepare for the event: ## What to Bring -Bring a laptop with appropriate software installed. Python should be installed and MATLAB is optional. For instructions on how to install PyNWB, see [the PyNWB documentation](https://pynwb.readthedocs.io/en/stable/install_users.html#installing-pynwb). For instructions on how to install MatNWB, see [the MatNWB documentation](https://github.com/NeurodataWithoutBorders/matnwb/blob/master/README.md). +Bring a laptop with appropriate software installed. Python should be installed and MATLAB is optional. For instructions on how to install PyNWB, see [the PyNWB documentation](https://pynwb.readthedocs.io/en/stable/install_users.html#installing-pynwb). For instructions on how to install MatNWB, see [the MatNWB documentation](https://matnwb.readthedocs.io/en/latest/). ## Past Events From 1c45c47341cde91c0e55ed9aedfb2266e4b062da Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:54:02 -0700 Subject: [PATCH 13/19] Fix links in hck13 --- content/events/hck13-2022-janelia.md | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/content/events/hck13-2022-janelia.md b/content/events/hck13-2022-janelia.md index 302c32f..618276d 100644 --- a/content/events/hck13-2022-janelia.md +++ b/content/events/hck13-2022-janelia.md @@ -13,9 +13,9 @@ organizers: - "Administrative Support: Janine Stevens" registration: "Registration is now closed." resources: - "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/raw/master/HCK13_2022_Janelia/report/Report___13th_NWB_and_User_Days_at_HHMI_Janelia.pdf" - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK13_2022_Janelia" - "Tutorial Materials": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK13_2022_Janelia/projects" + "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK13_2022_Janelia/report/Report___13th_NWB_and_User_Days_at_HHMI_Janelia.pdf" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK13_2022_Janelia" + "Tutorial Materials": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK13_2022_Janelia/projects" --- ## Dates and Location @@ -45,7 +45,7 @@ Recordings of talks were made available on the [NWB Youtube channel](https://www * Create the outline for your project at the hackathon. * Bring any example data sets needed for your project with you to the hackathon. For any lab-specific data (i.e., data not in NWB) you should know how to read the data using Python or MATLAB and ideally have scripts ready for reading the data. -* Bring your laptop with appropriate software installed. For instructions on how to install PyNWB see [http://pynwb.readthedocs.io/en/latest/getting_started.html#installation](http://pynwb.readthedocs.io/en/latest/getting_started.html#installation) +* Bring your laptop with appropriate software installed. For instructions on how to install PyNWB see [https://pynwb.readthedocs.io/en/latest/install_users.html](https://pynwb.readthedocs.io/en/latest/install_users.html) ## Additional Organizational Support From 1665305f141a912d675217b98fd176e0544207a0 Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 15:55:42 -0700 Subject: [PATCH 14/19] Fix links in HCK14 --- content/events/hck14-2022-seattle-rh.md | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/content/events/hck14-2022-seattle-rh.md b/content/events/hck14-2022-seattle-rh.md index 1feb0fe..c827d02 100644 --- a/content/events/hck14-2022-seattle-rh.md +++ b/content/events/hck14-2022-seattle-rh.md @@ -16,8 +16,8 @@ organizers: - "Stephanie Albin" registration: "Registration is now closed." resources: - "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/raw/master/HCK14_2022_Seattle_RH/report/Report_Neurodata_Rehack_v2.pdf" - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK14_2022_Seattle_RH" + "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK14_2022_Seattle_RH/report/Report_Neurodata_Rehack_v2.pdf" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK14_2022_Seattle_RH" "Allen Institute Event Page": "https://alleninstitute.org/what-we-do/brain-science/events-training/2022-neurodatarehack-hackathon/" --- @@ -71,7 +71,7 @@ Recordings of talks were made available on the [NWB Youtube channel](https://www ## What to bring? * Create the outline for your project at the hackathon. -* Bring your laptop with appropriate software installed. For instructions on how to install PyNWB, see [the PyNWB documentation](http://pynwb.readthedocs.io/en/latest/getting_started.html#installation). For instructions on how to install MatNWB, see [the MatNWB documentation](https://github.com/NeurodataWithoutBorders/matnwb/blob/master/README.md) +* Bring your laptop with appropriate software installed. For instructions on how to install PyNWB, see [the PyNWB documentation](https://pynwb.readthedocs.io/en/latest/install_users.html). For instructions on how to install MatNWB, see [the MatNWB documentation](https://matnwb.readthedocs.io/en/latest/) ## Additional Organizational Support From 3fdef9a28d410efc29e82e825e9183592c35f32a Mon Sep 17 00:00:00 2001 From: Oliver Ruebel Date: Fri, 2 May 2025 16:01:54 -0700 Subject: [PATCH 15/19] Fix links to master instead of main branch for hackathons --- content/events/cosyne-2019.md | 6 +++--- content/events/docuthon-2022-september.md | 2 +- content/events/docuthon-2022-spring.md | 2 +- content/events/hck04-2018-seattle.md | 2 +- content/events/hck05-2018-berkeley.md | 4 ++-- content/events/hck06-2019-janelia.md | 6 +++--- content/events/hck07-2020-seattle.md | 2 +- content/events/hck09-2020-remote.md | 2 +- content/events/hck10-2021-remote.md | 4 ++-- content/events/hck11-2021-remote.md | 4 ++-- content/events/hck12-2022-remote.md | 4 ++-- content/events/hck13-2022-janelia.md | 4 ++-- 12 files changed, 21 insertions(+), 21 deletions(-) diff --git a/content/events/cosyne-2019.md b/content/events/cosyne-2019.md index d3ca865..7744474 100644 --- a/content/events/cosyne-2019.md +++ b/content/events/cosyne-2019.md @@ -16,9 +16,9 @@ registration: "Registration is now closed." resources: "NWB:N 2.0: Overview": "https://drive.google.com/open?id=1Dq7zhQ4weiGv-3m6zD11ZrHQcObuddik" "Electrophysiology tutorial slides": "https://docs.google.com/presentation/d/1Q03wU6NzMTOwuWaZIANtldNT-8ZKeM0fk3b0mEI-JFc/edit?usp=sharing" - "Python jupyter notebook": "http://htmlpreview.github.io/?https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/master/Cosyne_2019/cosyne_NWB_tutorial_2019_python.html" - "MATLAB code": "http://htmlpreview.github.io/?https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/master/Cosyne_2019/cosyne_NWB_tutorial_2019_matlab.html" - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/Cosyne_2019" + "Python jupyter notebook": "http://htmlpreview.github.io/?https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/Cosyne_2019/cosyne_NWB_tutorial_2019_python.html" + "MATLAB code": "http://htmlpreview.github.io/?https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/Cosyne_2019/cosyne_NWB_tutorial_2019_matlab.html" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/Cosyne_2019" --- ## Dates and Location diff --git a/content/events/docuthon-2022-september.md b/content/events/docuthon-2022-september.md index ce0b056..0e984c5 100644 --- a/content/events/docuthon-2022-september.md +++ b/content/events/docuthon-2022-september.md @@ -15,7 +15,7 @@ organizers: - "Matthew Avaylon" registration: "Registration is now closed." resources: - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/Docuthon_2022_09" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/Docuthon_2022_09" --- ## Dates and Location diff --git a/content/events/docuthon-2022-spring.md b/content/events/docuthon-2022-spring.md index 5937059..9c1ccf5 100644 --- a/content/events/docuthon-2022-spring.md +++ b/content/events/docuthon-2022-spring.md @@ -15,7 +15,7 @@ organizers: - "Matthew Avaylon" registration: "Registration is now closed." resources: - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/Docuthon_2022" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/Docuthon_2022" "NWB Documentation Survey": "https://forms.gle/TadZBRKJpwEWeErv8" --- diff --git a/content/events/hck04-2018-seattle.md b/content/events/hck04-2018-seattle.md index b6fa3f5..d4dcd9d 100644 --- a/content/events/hck04-2018-seattle.md +++ b/content/events/hck04-2018-seattle.md @@ -15,7 +15,7 @@ organizers: - "Justin Kiggins" registration: "Registration is now closed." resources: - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK04_2018_Seattle" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK04_2018_Seattle" --- ## Dates and Location diff --git a/content/events/hck05-2018-berkeley.md b/content/events/hck05-2018-berkeley.md index c92ece3..6c42764 100644 --- a/content/events/hck05-2018-berkeley.md +++ b/content/events/hck05-2018-berkeley.md @@ -14,8 +14,8 @@ organizers: - "Kristofer Bouchard" registration: "Registration is now closed." resources: - "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/raw/master/HCK05_2018_Berkeley/report/report-5th-nwbn-hackathon-at-lbnl.pdf" - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK05_2018_Berkeley" + "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK05_2018_Berkeley/report/report-5th-nwbn-hackathon-at-lbnl.pdf" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK05_2018_Berkeley" --- ## Dates and Location diff --git a/content/events/hck06-2019-janelia.md b/content/events/hck06-2019-janelia.md index 6807b7f..32a2fd5 100644 --- a/content/events/hck06-2019-janelia.md +++ b/content/events/hck06-2019-janelia.md @@ -16,7 +16,7 @@ organizers: registration: "Registration is now closed." resources: "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK06_2019_Janelia/report/Report___6th_NWB_N_Hackathon.pdf" - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK06_2019_Janelia" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK06_2019_Janelia" "Slides": "https://drive.google.com/drive/folders/18oG1rRJpluXQJJQaH4xbz6u58LXPiZbI?usp=sharing" --- @@ -45,8 +45,8 @@ The slides for the talks presented during the User Days are available [here.](ht Ben Dichter's electrophysiology tutorial (Day 1): -* [python jupyter notebook](http://htmlpreview.github.io/?https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/master/HCK06_2019_Janelia/NWB_tutorial_2019_python.html) -* [matlab code](http://htmlpreview.github.io/?https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/master/HCK06_2019_Janelia/NWB_tutorial_2019_matlab.html) +* [python jupyter notebook](http://htmlpreview.github.io/?https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK06_2019_Janelia/NWB_tutorial_2019_python.html) +* [matlab code](http://htmlpreview.github.io/?https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK06_2019_Janelia/NWB_tutorial_2019_matlab.html) Tom Davidson's 'early adopter experiences' talk (Day 1): diff --git a/content/events/hck07-2020-seattle.md b/content/events/hck07-2020-seattle.md index e1a171d..aa1037f 100644 --- a/content/events/hck07-2020-seattle.md +++ b/content/events/hck07-2020-seattle.md @@ -13,7 +13,7 @@ organizers: - "Program Chair: Oliver Ruebel (Lawrence Berkeley National Laboratory)" registration: "Registration for this event is closed." resources: - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK07_2020_Seattle" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK07_2020_Seattle" --- ## Dates and Location diff --git a/content/events/hck09-2020-remote.md b/content/events/hck09-2020-remote.md index 183c7c8..c9eebe0 100644 --- a/content/events/hck09-2020-remote.md +++ b/content/events/hck09-2020-remote.md @@ -17,7 +17,7 @@ organizers: registration: "Registration is now closed." resources: "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK09_2020_Remote/report/Report___9th_NWB_Hackathon.pdf" - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK09_2020_Remote" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK09_2020_Remote" --- ## Dates and Location diff --git a/content/events/hck10-2021-remote.md b/content/events/hck10-2021-remote.md index cd9613e..ac3bf31 100644 --- a/content/events/hck10-2021-remote.md +++ b/content/events/hck10-2021-remote.md @@ -14,8 +14,8 @@ organizers: - "Program Committee: Ryan Ly, Benjamin Dichter, Andrew Tritt, Pam Baker, Oliver Rübel, Satrajit S Ghosh, Yaroslav O. Halchenko" registration: "Registration is now closed." resources: - "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/raw/master/HCK10_2021_Remote/report/Report___10th_NWB_and_DANDI_Hackathon.pdf" - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK10_2021_Remote" + "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK10_2021_Remote/report/Report___10th_NWB_and_DANDI_Hackathon.pdf" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK10_2021_Remote" --- ## Dates and Location diff --git a/content/events/hck11-2021-remote.md b/content/events/hck11-2021-remote.md index db4a0df..c29c850 100644 --- a/content/events/hck11-2021-remote.md +++ b/content/events/hck11-2021-remote.md @@ -16,8 +16,8 @@ organizers: - "Oliver Ruebel" registration: "Registration is now closed." resources: - "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/raw/master/HCK11_2021_Remote/report/Report___11th_NWB_User_Days_at_INCF.pdf" - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK11_2021_Remote" + "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK11_2021_Remote/report/Report___11th_NWB_User_Days_at_INCF.pdf" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK11_2021_Remote" "INCF Event Page": "https://www.incf.org/neurodata-without-borders-nwb-user-training-workshop" --- diff --git a/content/events/hck12-2022-remote.md b/content/events/hck12-2022-remote.md index 06babbe..d70f4d3 100644 --- a/content/events/hck12-2022-remote.md +++ b/content/events/hck12-2022-remote.md @@ -14,8 +14,8 @@ organizers: - "Program Committee: Ryan Ly, Benjamin Dichter, Matthew Avaylon, Andrew Tritt, Pam Baker, Oliver Rübel, Satrajit S Ghosh, Yaroslav O. Halchenko" registration: "Registration is now closed." resources: - "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/raw/master/HCK12_2022_Remote/report/Report___12th_NWB_and_DANDI_Hackathon.pdf" - "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK12_2022_Remote" + "Final Report (PDF)": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/blob/main/HCK12_2022_Remote/report/Report___12th_NWB_and_DANDI_Hackathon.pdf" + "GitHub Repository": "https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK12_2022_Remote" --- ## Dates and Location diff --git a/content/events/hck13-2022-janelia.md b/content/events/hck13-2022-janelia.md index 618276d..d66d9b9 100644 --- a/content/events/hck13-2022-janelia.md +++ b/content/events/hck13-2022-janelia.md @@ -33,8 +33,8 @@ Note: This event was meant to foster community and collaboration around NWB, not ## Tutorial Materials -* [BEADL Tutorial](https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK13_2022_Janelia/projects/beadl_tutorial) -* [NeuroConv Tutorial](https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/master/HCK13_2022_Janelia/projects/neuroconv_tutorial) +* [BEADL Tutorial](https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK13_2022_Janelia/projects/beadl_tutorial) +* [NeuroConv Tutorial](https://github.com/NeurodataWithoutBorders/nwb_hackathons/tree/main/HCK13_2022_Janelia/projects/neuroconv_tutorial) ## Resources From c73070f1e169aec3407d1e6fe259a5dbabf20703 Mon Sep 17 00:00:00 2001 From: Ryan Ly Date: Wed, 14 May 2025 22:26:30 -0700 Subject: [PATCH 16/19] Update content/events/cosyne-2019.md --- content/events/cosyne-2019.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/content/events/cosyne-2019.md b/content/events/cosyne-2019.md index 7744474..637ce18 100644 --- a/content/events/cosyne-2019.md +++ b/content/events/cosyne-2019.md @@ -29,7 +29,7 @@ resources: ## Overview -The [Neurodata Without Borders: Neurophysiology (NWB:N)](https://neurodatawithoutborders.github.io/) team held a tutorial on the NWB:N data standard and on using [PyNWB](https://pynwb.readthedocs.io/en/latest/) and [MatNWB](https://neurodatawithoutborders.github.io/matnwb) at the Cosyne 2019 Workshops. +The [Neurodata Without Borders: Neurophysiology (NWB:N)](https://neurodatawithoutborders.github.io/) team held a tutorial on the NWB:N data standard and on using [PyNWB](https://pynwb.readthedocs.io) and [MatNWB](https://neurodatawithoutborders.github.io/matnwb) at the Cosyne 2019 Workshops. The [NWB:N project](https://neurodatawithoutborders.github.io/) is an effort to standardize the description and storage of neurophysiology data and metadata. NWB:N enables data sharing and reuse and reduces the energy-barrier to applying data analytics both within and across labs. NWB:N is more than just a file format but it defines an [ecosystem](https://neurodatawithoutborders.github.io/about-nwb/) of tools, methods, and standards for storing, sharing, and analyzing complex neurophysiology data. From 2157a47951402d2fa4ccd125bf38f292b1c90f78 Mon Sep 17 00:00:00 2001 From: Ryan Ly Date: Wed, 14 May 2025 22:27:32 -0700 Subject: [PATCH 17/19] Update content/events/hck14-2022-seattle-rh.md --- content/events/hck14-2022-seattle-rh.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/content/events/hck14-2022-seattle-rh.md b/content/events/hck14-2022-seattle-rh.md index c827d02..0be445c 100644 --- a/content/events/hck14-2022-seattle-rh.md +++ b/content/events/hck14-2022-seattle-rh.md @@ -71,7 +71,7 @@ Recordings of talks were made available on the [NWB Youtube channel](https://www ## What to bring? * Create the outline for your project at the hackathon. -* Bring your laptop with appropriate software installed. For instructions on how to install PyNWB, see [the PyNWB documentation](https://pynwb.readthedocs.io/en/latest/install_users.html). For instructions on how to install MatNWB, see [the MatNWB documentation](https://matnwb.readthedocs.io/en/latest/) +* Bring your laptop with appropriate software installed. For instructions on how to install PyNWB, see [the PyNWB documentation](https://pynwb.readthedocs.io/en/latest/install_users.html). For instructions on how to install MatNWB, see [the MatNWB documentation](https://matnwb.readthedocs.io) ## Additional Organizational Support From 8aaeb35d4e9ff9aabc54983877825119fb74ee01 Mon Sep 17 00:00:00 2001 From: Ryan Ly Date: Wed, 14 May 2025 22:27:47 -0700 Subject: [PATCH 18/19] Update content/events/hck24-2025-janelia-ndrh.md --- content/events/hck24-2025-janelia-ndrh.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/content/events/hck24-2025-janelia-ndrh.md b/content/events/hck24-2025-janelia-ndrh.md index a7e5fb1..6e27d80 100644 --- a/content/events/hck24-2025-janelia-ndrh.md +++ b/content/events/hck24-2025-janelia-ndrh.md @@ -16,7 +16,7 @@ resources: "Event Flyer": "https://drive.google.com/file/d/1ptsGRa1sEMh-je7L_ff3CgtRTj-X11lO/view?usp=sharing" "Slides from the 2024 NeuroDataReHack": "https://drive.google.com/drive/folders/1DAmQr4qWCamhj_2Zyke0kkHGvV8Kyq13?usp=sharing" "PyNWB Documentation": "https://pynwb.readthedocs.io/en/stable/install_users.html#installing-pynwb" - "MatNWB Documentation": "https://matnwb.readthedocs.io/en/latest/" + "MatNWB Documentation": "https://matnwb.readthedocs.io" aliases: - /nwb_hackathons/HCK24_2025_Janelia_NDRH --- From 05564ce5f9c2a9a51b1dd6f002701aae57c9011f Mon Sep 17 00:00:00 2001 From: Ryan Ly Date: Wed, 14 May 2025 22:28:03 -0700 Subject: [PATCH 19/19] Update content/events/hck24-2025-janelia-ndrh.md --- content/events/hck24-2025-janelia-ndrh.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/content/events/hck24-2025-janelia-ndrh.md b/content/events/hck24-2025-janelia-ndrh.md index 6e27d80..0dea4f4 100644 --- a/content/events/hck24-2025-janelia-ndrh.md +++ b/content/events/hck24-2025-janelia-ndrh.md @@ -81,7 +81,7 @@ Bring a laptop with appropriate software installed. Python should be installed a instructions on how to install PyNWB, see [the PyNWB documentation](https://pynwb.readthedocs.io/en/stable/install_users.html#installing-pynwb). For instructions on how to install MatNWB, see -[the MatNWB documentation](https://matnwb.readthedocs.io/en/latest/) +[the MatNWB documentation](https://matnwb.readthedocs.io) ## Testimonials from NeuroDataReHack 2024