Skip to content
Merged
Show file tree
Hide file tree
Changes from all commits
Commits
File filter

Filter by extension

Filter by extension

Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
2 changes: 1 addition & 1 deletion .github/ISSUE_TEMPLATE/config.yml
Original file line number Diff line number Diff line change
@@ -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
2 changes: 1 addition & 1 deletion CONTRIBUTING.md
Original file line number Diff line number Diff line change
@@ -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 details.
2 changes: 1 addition & 1 deletion README.md
Original file line number Diff line number Diff line change
Expand Up @@ -32,7 +32,7 @@ also provides a tutorial environment and notebooks to learn the pipeline.

+ [Interactive tutorial on GitHub Codespaces](#interactive-tutorial)

+ [Documentation](https://datajoint.com/docs/elements/element-zstack)
+ [Documentation](https://docs.datajoint.com/elements/element-zstack/)


## Support
Expand Down
2 changes: 1 addition & 1 deletion docs/mkdocs.yaml
Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
# ---------------------- PROJECT SPECIFIC ---------------------------

site_name: DataJoint Documentation
site_url: http://localhost/docs/elements/element-zstack
site_url: https://docs.datajoint.com/elements/element-zstack/
repo_url: https://github.com/datajoint/element-zstack
repo_name: datajoint/element-zstack
nav:
Expand Down
4 changes: 2 additions & 2 deletions docs/src/.overrides/partials/nav.html
Original file line number Diff line number Diff line change
Expand Up @@ -14,7 +14,7 @@
{#-
Add DataJoint home link to navigation header, otherwise unchanged
-#}
<a href="https://datajoint.com/docs/elements/" title="DataJoint Elements">
<a href="https://docs.datajoint.com/elements/" title="DataJoint Elements">
⬅ Home
</a>
</label>
Expand All @@ -30,4 +30,4 @@
{% include "partials/nav-item.html" %}
{% endfor %}
</ul>
</nav>
</nav>
8 changes: 4 additions & 4 deletions docs/src/pipeline.md
Original file line number Diff line number Diff line change
Expand Up @@ -18,27 +18,27 @@ more detailed documentation on each table, see the API docs for the respective s

### `lab` schema

- For further details see the [lab schema API docs](https://datajoint.com/docs/elements/element-lab/latest/api/element_lab/lab/)
- For further details see the [lab schema API docs](https://docs.datajoint.com/elements/element-lab/latest/api/element_lab/lab/)

| Table | Description |
| --- | --- |
| Device | Scanner metadata |

### `subject` schema ([API docs](https://datajoint.com/docs/elements/element-animal/latest/api/element_animal/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.

| Table | Description |
| --- | --- |
| Subject | Basic information of the research subject |

### `session` schema ([API docs](https://datajoint.com/docs/elements/element-session/latest/api/element_session/session_with_datetime))
### `session` schema ([API docs](https://docs.datajoint.com/elements/element-session/latest/api/element_session/session_with_datetime/))

| Table | Description |
| --- | --- |
| Session | Unique experimental session identifier |

### `scan` schema ([API docs](https://datajoint.com/docs/elements/element-calcium-imaging/latest/api/element_calcium_imaging/scan))
### `scan` schema ([API docs](https://docs.datajoint.com/elements/element-calcium-imaging/latest/api/element_calcium_imaging/scan/))

| Table | Description |
| --- | --- |
Expand Down
2 changes: 1 addition & 1 deletion docs/src/tutorials/index.md
Original file line number Diff line number Diff line change
Expand Up @@ -11,7 +11,7 @@
+ The Element Z-stack 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.

## Example Export to BossDB

Expand Down