diff --git a/.github/ISSUE_TEMPLATE/config.yml b/.github/ISSUE_TEMPLATE/config.yml index b3d197d..7436854 100644 --- a/.github/ISSUE_TEMPLATE/config.yml +++ b/.github/ISSUE_TEMPLATE/config.yml @@ -1,5 +1,5 @@ blank_issues_enabled: false contact_links: - name: DataJoint Contribution Guideline - url: https://datajoint.com/docs/community/contribute/ + url: https://docs.datajoint.com/about/contribute/ about: Please make sure to review the DataJoint Contribution Guidelines \ No newline at end of file diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md index 2bd0f49..61a342d 100644 --- a/CONTRIBUTING.md +++ b/CONTRIBUTING.md @@ -1,5 +1,5 @@ # Contribution Guidelines This project follows the -[DataJoint Contribution Guidelines](https://datajoint.com/docs/about/contribute/). +[DataJoint Contribution Guidelines](https://docs.datajoint.com/about/contribute/). Please reference the link for more full details. diff --git a/README.md b/README.md index 9807c49..47fed0a 100644 --- a/README.md +++ b/README.md @@ -34,7 +34,7 @@ environment and notebooks to learn the pipeline. + [Interactive tutorial on GitHub Codespaces](https://github.com/datajoint/element-optogenetics#interactive-tutorial) -+ [Documentation](https://datajoint.com/docs/elements/element-optogenetics) ++ [Documentation](https://docs.datajoint.com/elements/element-optogenetics/) ## Support diff --git a/docs/mkdocs.yaml b/docs/mkdocs.yaml index a5643a5..abc34af 100644 --- a/docs/mkdocs.yaml +++ b/docs/mkdocs.yaml @@ -1,7 +1,7 @@ # ---------------------- PROJECT SPECIFIC --------------------------- site_name: DataJoint Documentation -site_url: http://localhost/docs/elements/element-optogenetics +site_url: https://docs.datajoint.com/elements/element-optogenetics/ repo_url: https://github.com/datajoint/element-optogenetics repo_name: datajoint/element-optogenetics nav: diff --git a/docs/src/.overrides/partials/nav.html b/docs/src/.overrides/partials/nav.html index fea49d7..faac796 100644 --- a/docs/src/.overrides/partials/nav.html +++ b/docs/src/.overrides/partials/nav.html @@ -14,7 +14,7 @@ {#- Add DataJoint home link to navigation header, otherwise unchanged -#} - + ⬅ Home @@ -30,4 +30,4 @@ {% include "partials/nav-item.html" %} {% endfor %} - + \ No newline at end of file diff --git a/docs/src/pipeline.md b/docs/src/pipeline.md index c7f908d..9a57d45 100644 --- a/docs/src/pipeline.md +++ b/docs/src/pipeline.md @@ -13,7 +13,7 @@ documentation on each table, see the API docs for the respective schemas. | --- | --- | | Device | Pulse generator device | -## `subject` schema ([API docs](https://datajoint.com/docs/elements/element-animal/latest/api/element_animal/subject/#element_animal.subject.Subject)) +## `subject` schema ([API docs](https://docs.datajoint.com/elements/element-animal/latest/api/element_animal/subject/)) - Although not required, most choose to connect the `Session` table to a `Subject` table. @@ -29,7 +29,7 @@ documentation on each table, see the API docs for the respective schemas. | --- | --- | | Implantation | Location of an implanted device | -## `session` schema ([API docs](https://datajoint.com/docs/elements/element-session/latest/api/element_session/session_with_id)) +## `session` schema ([API docs](https://docs.datajoint.com/elements/element-session/latest/api/element_session/session_with_id/)) | Table | Description | | --- | --- | diff --git a/docs/src/tutorials/index.md b/docs/src/tutorials/index.md index 2f26dcd..8fab6b6 100644 --- a/docs/src/tutorials/index.md +++ b/docs/src/tutorials/index.md @@ -11,4 +11,4 @@ + The Workflow Optogenetics described above can be modified for a user's specific experimental requirements and thereby used in active projects. + The GitHub Codespace and Dev Container is configured for tutorials and prototyping. -We recommend users to configure a database specifically for production pipelines. Instructions for a local installation of the integrated development environment with a database can be found on the [User Guide](https://datajoint.com/docs/elements/user-guide/) page. +We recommend users to configure a database specifically for production pipelines. Instructions for a local installation of the integrated development environment with a database can be found on the [User Guide](https://docs.datajoint.com/elements/user-guide/) page. diff --git a/element_optogenetics/version.py b/element_optogenetics/version.py index bc510a2..61d05bb 100644 --- a/element_optogenetics/version.py +++ b/element_optogenetics/version.py @@ -1,2 +1,3 @@ """Package metadata""" + __version__ = "0.2.0" diff --git a/notebooks/tutorial.ipynb b/notebooks/tutorial.ipynb index d832dc6..8a8af42 100644 --- a/notebooks/tutorial.ipynb +++ b/notebooks/tutorial.ipynb @@ -697,7 +697,9 @@ "metadata": {}, "outputs": [], "source": [ - "session_key = dict(subject=\"subject1\", session_id=0, session_datetime=\"2023-01-01 00:00:00\")" + "session_key = dict(\n", + " subject=\"subject1\", session_id=0, session_datetime=\"2023-01-01 00:00:00\"\n", + ")" ] }, {