Merge branch 'dev' into deprecate_image_mask_series

core/nwb.file.yaml

@@ -241,6 +241,18 @@ groups:
       - name: file_name
         dtype: text
         doc: Name of script file.
+    - name: was_generated_by
+      dtype: text
+      doc: Name and version of software package(s) used to generate data contained in
+       this NWB File. For each software package or library, include the name of the
+       software as the first value and the version as the second value.
+      dims:
+      - num_sources
+      - name, version
+      shape:
+      - null
+      - 2
+      quantity: '?'
     - name: stimulus
       dtype: text
       doc: Notes about stimuli, such as how and where they were presented.

docs/format/source/format_release_notes.rst

@@ -5,15 +5,17 @@ Release Notes
 
 2.8.0 (Upcoming)
 ------------------------
+
 Minor changes
 ^^^^^^^^^^^^^
 - Added support to set boundary metadata for ``SpatialSeries``. (#524)
 - Added columns ``waveform_mean_index`` and ``waveform_sd_index`` to ``Units`` to make the ``waveform_mean`` and
   ``waveform_sd`` columns ragged. This allows for a different number of waveform means/SDs per unit which is useful
   when each unit is associated with a different number of electrodes and there is a waveform mean/SD for each
   electrode and unit. (#576)
-- Deprecated ``ImageMaskSeries`` neurodata type. (#583)
+- Added optional ``was_generated_by`` attribute to ``NWBFile`` to store provenance information (#578)
 
+- Deprecated ``ImageMaskSeries`` neurodata type. (#583)
 
 2.7.0 (February 7, 2024)
 ------------------------

docs/format/source/software_process.rst

@@ -130,5 +130,5 @@ released version of nwb-schema. Starting with nwb-schema version 2.2.0, the dev
 and MatNWB include only publicly released versions of nwb-schema. For more details, see the
 [PyNWB software process documentation](https://pynwb.readthedocs.io/en/stable/software_process.html).
 
-The [NWB Extensions Versioning Guidelines](https://nwb-extensions.github.io/versioning_guidelines) are used to guide
+The [NWB Extensions Versioning Guidelines](https://www.nwb.org/versioning-guidelines) are used to guide
 versioning of the NWB core schema, as well as extensions to NWB.

docs/storage/.readthedocs.yaml

@@ -0,0 +1,27 @@
+# Read the Docs configuration file for https://nwb-storage.readthedocs.io/en/latest/
+ # See https://docs.readthedocs.io/en/stable/config-file/v2.html for details
+
+ # Required
+ version: 2
+
+ build:
+   os: ubuntu-22.04
+   tools:
+     python: "3.12"
+
+ # Build documentation in the docs/ directory with Sphinx
+ sphinx:
+   configuration: docs/storage/source/conf.py
+
+ # Optionally build your docs in additional formats such as PDF and ePub
+ formats: all
+
+ # Optionally set the version of Python and requirements required to build your docs
+ python:
+   install:
+     - requirements: requirements-doc.txt
+
+ # Optionally include all submodules
+ submodules:
+   include: all
+   recursive: true

docs/storage/source/conf.py

@@ -105,7 +105,7 @@
 html_theme_path = [sphinx_rtd_theme.get_html_theme_path()]
 
 def setup(app):
-   app.add_stylesheet("theme_overrides.css")  # overrides for wide tables in RTD theme
+   app.add_css_file("theme_overrides.css")  # overrides for wide tables in RTD theme
 
 # Theme options are theme-specific and customize the look and feel of a theme
 # further.  For a list of options available for each theme, see the