mirror of
https://github.com/p2p-ld/nwb-linkml.git
synced 2024-09-19 23:44:28 +00:00
docs, but need to sleep, come back in morning
This commit is contained in:
parent
dd956b35c3
commit
2276a7b501
12 changed files with 956 additions and 40 deletions
1
.gitignore
vendored
1
.gitignore
vendored
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@ -162,3 +162,4 @@ cython_debug/
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nwb.schema.json
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__tmp__
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prof
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jupyter_execute
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@ -16,9 +16,11 @@ build:
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jobs:
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post_create_environment:
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- pip install poetry
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- pip install poetry-kernel
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- poetry config virtualenvs.create false
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post_install:
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- poetry install --no-root
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- poetry run python -m ipykernel install --name nwb-linkml_docs
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# Optionally build your docs in additional formats such as PDF and ePub
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# formats:
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|
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@ -16,7 +16,10 @@ help:
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serve:
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# env variable that makes it so we don't build all the models while in dev mode
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SPHINX_MINIMAL="True" sphinx-autobuild "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O) --watch ../nwb_linkml/src/nwb_linkml --watch ../nwb_schema_language/src/nwb_schema_language
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SPHINX_MINIMAL="True" sphinx-autobuild "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O) \
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--watch ../nwb_linkml/src/nwb_linkml \
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--watch ../nwb_schema_language/src/nwb_schema_language \
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--re-ignore ".*jupyter_execute.*"
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serve_fast:
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sphinx-autobuild -a "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O) --watch ../nwb_linkml/src/nwb_linkml --watch ../nwb_schema_language/src/nwb_schema_language
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15
docs/_static/css/custom.css
vendored
15
docs/_static/css/custom.css
vendored
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@ -5,3 +5,18 @@
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font-style: italic;
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border-radius: 4px;
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}
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/* make cell outputs brighter */
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.cell_output.docutils.container {
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filter: brightness(0.4) invert() saturate(5);
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z-index: 999;
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position:relative;
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}
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pre {
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font-size: 0.8em;
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}
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.hide.below-input span {
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color: var(--color-background-secondary);
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}
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@ -8,3 +8,9 @@ group
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namespaces
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schema
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```
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```{eval-rst}
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.. automodule:: nwb_linkml.adapters
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:members:
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:undoc-members:
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```
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14
docs/conf.py
14
docs/conf.py
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@ -27,7 +27,8 @@ extensions = [
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'sphinx.ext.intersphinx',
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'sphinx.ext.doctest',
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"sphinx_design",
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'myst_parser',
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#'myst_parser',
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"myst_nb",
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'sphinx_togglebutton'
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]
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@ -59,8 +60,10 @@ intersphinx_mapping = {
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'pandas': ('https://pandas.pydata.org/docs/', None),
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'pydantic': ('https://docs.pydantic.dev/latest/', None),
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'h5py': ('https://docs.h5py.org/en/stable/', None),
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'dask': ('https://docs.dask.org/en/stable/', None)
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'dask': ('https://docs.dask.org/en/stable/', None),
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'linkml': ('https://linkml.io/linkml/', None),
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'linkml_runtime': ('https://linkml.io/linkml/', None),
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'linkml-runtime': ('https://linkml.io/linkml/', None)
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}
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@ -92,9 +95,12 @@ add_module_names = False
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autodoc_default_options = {
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'exclude-members': 'NDArray,Shape',
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}
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# --------------------------------------------------
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# myst-nb
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nb_render_markdown_format = 'myst'
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nb_append_css = False
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# doctest
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107
docs/guide/quickstart.md
Normal file
107
docs/guide/quickstart.md
Normal file
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@ -0,0 +1,107 @@
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---
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file_format: mystnb
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kernelspec:
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name: nwb-linkml_docs
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mystnb:
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output_stderr: 'remove-warn'
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---
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# Quickstart
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## Reading Data
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To get the fun part out of the way, you can read ur data:
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```{code-cell}
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:tags: [hide-output]
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from pathlib import Path
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from rich.pretty import pprint, pretty_repr
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from rich.console import Console
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from nwb_linkml.io import HDF5IO
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# set up for pprinting in notebooks
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console = Console(width=100)
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print = console.print
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# find sample data file and read
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nwb_file = Path('../../nwb_linkml/tests/data/aibs.nwb')
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data = HDF5IO(nwb_file).read()
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print(data)
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```
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## Load and manipulate NWB schemas
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A {mod}`~nwb_linkml.providers.git` provider module can manage a repository to
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provide a given NWB namespace at a given version, and cast the
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schema into Pydantic models from {mod}`nwb_schema_language`.
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For the nwb-core schema, loading first just the namespaces file (without
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adjoining schema):
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```{code-cell}
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:tags: [hide-output]
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from nwb_linkml.providers.git import NWB_CORE_REPO
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from nwb_linkml.io.schema import load_namespaces
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namespace_file: 'Path' = NWB_CORE_REPO.provide_from_git('2.6.0')
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core_namespaces = load_namespaces(namespace_file)
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print(core_namespaces)
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```
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Or for a schema file...
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```{code-cell}
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:tags: [hide-output]
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from nwb_linkml.io.schema import load_schema_file
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base_schema_file = namespace_file.parent / 'nwb.base.yaml'
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nwb_core_base = load_schema_file(base_schema_file)
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print(nwb_core_base)
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```
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And additional {mod}`~nwb_linkml.adapters` are used to handle some of the
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implicit behavior in nwb schema files, like importing other namespaces
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at a specific version, and inter-schema class imports. Eg. the
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{class}`~nwb_linkml.adapters.NamespacesAdapter` finds the implicitly
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imported `hdmf-common` namespace (again provided by the git schema provider).
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```{code-cell}
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:tags: [hide-output]
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from nwb_linkml.adapters import NamespacesAdapter
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core_ns = NamespacesAdapter.from_yaml(namespace_file)
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print(core_ns.imported)
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```
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The classes in {mod}`nwb_schema_language` are just pydantic models, so they
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can be used like any other to create new, validated schemas.
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## Translating to LinkML
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{mod}`~nwb_linkml.adapters` handle the conversion from NWB schema language to
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LinkML.
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```{code-cell}
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:tags: [hide-output]
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core_linkml = core_ns.build()
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print(core_linkml)
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```
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The {class}`~nwb_linkml.adapters.BuildResult` class holds the LinkML representation
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of each of the schemas and their classes, which are now in {class}`linkml_runtime.linkml_model.SchemaDefinition`
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and `ClassDefinition` classes:
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```{code-cell}
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:tags: [hide-output]
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print(core_linkml.schemas[0])
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```
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@ -7,9 +7,10 @@ A translation of the [Neurodata Without Borders](https://www.nwb.org/) standard
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to [LinkML](https://linkml.io/).
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```{admonition} Quick Links
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* [Purpose](purpose) - Why this package exists
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* [Overview](overview) - Overview of how it works
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* [API Docs](api) - Ok *really* how it works
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* [Quickstart](guide/quickstart) - Some stuff this package does
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* [Purpose](intro/purpose) - Why this package exists
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* [Overview](guide/overview) - Overview of how it works
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* [API Docs](api/nwb_linkml/index) - Ok *really* how it works
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```
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`nwb-linkml` is an independent implementation of the standard capable of:
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@ -22,31 +23,10 @@ to [LinkML](https://linkml.io/).
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* {feature}`Coming Soon` Export NWB to a Relational Database
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* {feature}`Coming Soon` Export NWB to a Triple Store
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## Samples
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### Reading
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```python
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from pathlib import Path
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from rich import print
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from nwb_linkml.io import HDF5IO
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# find sample data file and read
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nwb_file = Path('../nwb_linkml/tests/data/aibs.nwb')
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data = HDF5IO(nwb_file).read()
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print(data)
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```
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````{admonition} Model Print Output
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:class: dropdown
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```{literalinclude} read_output.txt
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:language: python
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```
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||||
````
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## Example Translation
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||||
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||||
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### TimeSeries
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## TimeSeries
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||||
(Abbreviated for clarity)
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||||
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@ -254,11 +234,8 @@ class TimeSeriesData(ConfiguredBaseModel):
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|||
|
||||
```
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||||
````
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`````
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||||
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||||
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||||
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||||
```{toctree}
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||||
:caption: Intro
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||||
:maxdepth: 3
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||||
|
|
@ -274,6 +251,7 @@ intro/translation
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|||
:maxdepth: 1
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||||
:hidden:
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||||
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||||
guide/quickstart
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||||
guide/overview
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||||
```
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||||
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|
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@ -302,6 +280,19 @@ api/nwb_linkml/schema/index
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|||
```
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||||
````
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||||
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||||
````{only} minimal
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||||
```{toctree}
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:caption: Notes
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:maxdepth: 3
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:hidden:
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||||
|
||||
_notes/linkml
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||||
_notes/pynwb
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_notes/schema
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_notes/translation
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||||
```
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||||
````
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||||
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```{toctree}
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:caption: Meta
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:hidden:
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|
|
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@ -17,4 +17,9 @@ NWB is
|
|||
|
||||
## Core Schema
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### Special Cases
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- `NWBFile` defines the storage layout
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- `hdmf-common` defines the base data types, which effectively are all special cases
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## PyNWB
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@ -21,7 +21,7 @@ def load_yaml(path:Path) -> dict:
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ns_dict = apply_postload(ns_dict)
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return ns_dict
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def _load_namespaces(path:Path|NamespaceRepo) -> Namespaces:
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def load_namespaces(path:Path|NamespaceRepo) -> Namespaces:
|
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"""Loads the NWB SCHEMA LANGUAGE namespaces (not the namespacesadapter)"""
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if isinstance(path, NamespaceRepo):
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path = path.provide_from_git()
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@ -32,6 +32,17 @@ def _load_namespaces(path:Path|NamespaceRepo) -> Namespaces:
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return namespaces
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def load_schema_file(path:Path, yaml:Optional[dict] = None) -> SchemaAdapter:
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"""
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Load a single schema file within an NWB namespace.
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.. note::
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This needs to be a separate function from loading a namespace because NWB
|
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doesn't define a schema file per se in its spec, aside from having
|
||||
a ``datasets`` and ``groups`` dictionary. We wanted to be as faithful to
|
||||
the spec as possible in that package, and so that's picked up here.
|
||||
|
||||
"""
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||||
if yaml is not None:
|
||||
source = yaml
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source = apply_postload(source)
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||||
|
|
@ -81,20 +92,21 @@ def load_namespace_adapter(
|
|||
"""
|
||||
if path is None:
|
||||
path = Path('..')
|
||||
elif isinstance(path, str):
|
||||
path = Path(path)
|
||||
|
||||
if isinstance(namespace, Path):
|
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path = namespace
|
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namespaces = _load_namespaces(path)
|
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namespaces = load_namespaces(path)
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elif isinstance(namespace, NamespaceRepo):
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path = namespace.provide_from_git(commit=version)
|
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namespaces = _load_namespaces(path)
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namespaces = load_namespaces(path)
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|
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elif isinstance(namespace, Namespaces):
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namespaces = namespace
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||||
else:
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raise ValueError(f"Namespace must be a path, namespace repo, or already loaded namespaces")
|
||||
|
||||
|
||||
if path.is_file():
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# given the namespace file itself, so find paths relative to its directory
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||||
path = path.parent
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||||
|
|
|
|||
769
poetry.lock
generated
769
poetry.lock
generated
|
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@ -32,6 +32,17 @@ files = [
|
|||
{file = "antlr4-python3-runtime-4.9.3.tar.gz", hash = "sha256:f224469b4168294902bb1efa80a8bf7855f24c99aef99cbefc1bcd3cce77881b"},
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "appnope"
|
||||
version = "0.1.3"
|
||||
description = "Disable App Nap on macOS >= 10.9"
|
||||
optional = false
|
||||
python-versions = "*"
|
||||
files = [
|
||||
{file = "appnope-0.1.3-py2.py3-none-any.whl", hash = "sha256:265a455292d0bd8a72453494fa24df5a11eb18373a60c7c0430889f22548605e"},
|
||||
{file = "appnope-0.1.3.tar.gz", hash = "sha256:02bd91c4de869fbb1e1c50aafc4098827a7a54ab2f39d9dcba6c9547ed920e24"},
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "arrow"
|
||||
version = "1.3.0"
|
||||
|
|
@ -51,6 +62,23 @@ types-python-dateutil = ">=2.8.10"
|
|||
doc = ["doc8", "sphinx (>=7.0.0)", "sphinx-autobuild", "sphinx-autodoc-typehints", "sphinx_rtd_theme (>=1.3.0)"]
|
||||
test = ["dateparser (==1.*)", "pre-commit", "pytest", "pytest-cov", "pytest-mock", "pytz (==2021.1)", "simplejson (==3.*)"]
|
||||
|
||||
[[package]]
|
||||
name = "asttokens"
|
||||
version = "2.4.0"
|
||||
description = "Annotate AST trees with source code positions"
|
||||
optional = false
|
||||
python-versions = "*"
|
||||
files = [
|
||||
{file = "asttokens-2.4.0-py2.py3-none-any.whl", hash = "sha256:cf8fc9e61a86461aa9fb161a14a0841a03c405fa829ac6b202670b3495d2ce69"},
|
||||
{file = "asttokens-2.4.0.tar.gz", hash = "sha256:2e0171b991b2c959acc6c49318049236844a5da1d65ba2672c4880c1c894834e"},
|
||||
]
|
||||
|
||||
[package.dependencies]
|
||||
six = ">=1.12.0"
|
||||
|
||||
[package.extras]
|
||||
test = ["astroid", "pytest"]
|
||||
|
||||
[[package]]
|
||||
name = "attrs"
|
||||
version = "23.1.0"
|
||||
|
|
@ -105,6 +133,17 @@ files = [
|
|||
[package.extras]
|
||||
dev = ["freezegun (>=1.0,<2.0)", "pytest (>=6.0)", "pytest-cov"]
|
||||
|
||||
[[package]]
|
||||
name = "backcall"
|
||||
version = "0.2.0"
|
||||
description = "Specifications for callback functions passed in to an API"
|
||||
optional = false
|
||||
python-versions = "*"
|
||||
files = [
|
||||
{file = "backcall-0.2.0-py2.py3-none-any.whl", hash = "sha256:fbbce6a29f263178a1f7915c1940bde0ec2b2a967566fe1c65c1dfb7422bd255"},
|
||||
{file = "backcall-0.2.0.tar.gz", hash = "sha256:5cbdbf27be5e7cfadb448baf0aa95508f91f2bbc6c6437cd9cd06e2a4c215e1e"},
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "beautifulsoup4"
|
||||
version = "4.12.2"
|
||||
|
|
@ -178,6 +217,70 @@ files = [
|
|||
{file = "certifi-2023.7.22.tar.gz", hash = "sha256:539cc1d13202e33ca466e88b2807e29f4c13049d6d87031a3c110744495cb082"},
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "cffi"
|
||||
version = "1.16.0"
|
||||
description = "Foreign Function Interface for Python calling C code."
|
||||
optional = false
|
||||
python-versions = ">=3.8"
|
||||
files = [
|
||||
{file = "cffi-1.16.0-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:6b3d6606d369fc1da4fd8c357d026317fbb9c9b75d36dc16e90e84c26854b088"},
|
||||
{file = "cffi-1.16.0-cp310-cp310-macosx_11_0_arm64.whl", hash = "sha256:ac0f5edd2360eea2f1daa9e26a41db02dd4b0451b48f7c318e217ee092a213e9"},
|
||||
{file = "cffi-1.16.0-cp310-cp310-manylinux_2_12_i686.manylinux2010_i686.manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:7e61e3e4fa664a8588aa25c883eab612a188c725755afff6289454d6362b9673"},
|
||||
{file = "cffi-1.16.0-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:a72e8961a86d19bdb45851d8f1f08b041ea37d2bd8d4fd19903bc3083d80c896"},
|
||||
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[package.dependencies]
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||||
[[package]]
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||||
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|
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[[package]]
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[package.extras]
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[[package]]
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name = "curies"
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@ -390,6 +512,44 @@ diagnostics = ["bokeh (>=2.4.2)", "jinja2 (>=2.10.3)"]
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[[package]]
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|
||||
|
||||
[[package]]
|
||||
name = "decorator"
|
||||
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|
||||
description = "Decorators for Humans"
|
||||
optional = false
|
||||
python-versions = ">=3.5"
|
||||
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|
||||
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[[package]]
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||||
name = "deprecated"
|
||||
version = "1.2.14"
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||||
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|
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[[package]]
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||||
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|
||||
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|
||||
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|
||||
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|
||||
|
||||
[[package]]
|
||||
name = "fastjsonschema"
|
||||
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|
||||
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|
||||
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||||
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|
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|
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|
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[package.extras]
|
||||
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|
||||
|
||||
[[package]]
|
||||
name = "fqdn"
|
||||
version = "1.5.1"
|
||||
|
|
@ -681,6 +869,77 @@ files = [
|
|||
{file = "iniconfig-2.0.0.tar.gz", hash = "sha256:2d91e135bf72d31a410b17c16da610a82cb55f6b0477d1a902134b24a455b8b3"},
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "ipykernel"
|
||||
version = "6.25.2"
|
||||
description = "IPython Kernel for Jupyter"
|
||||
optional = false
|
||||
python-versions = ">=3.8"
|
||||
files = [
|
||||
{file = "ipykernel-6.25.2-py3-none-any.whl", hash = "sha256:2e2ee359baba19f10251b99415bb39de1e97d04e1fab385646f24f0596510b77"},
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||||
{file = "ipykernel-6.25.2.tar.gz", hash = "sha256:f468ddd1f17acb48c8ce67fcfa49ba6d46d4f9ac0438c1f441be7c3d1372230b"},
|
||||
]
|
||||
|
||||
[package.dependencies]
|
||||
appnope = {version = "*", markers = "platform_system == \"Darwin\""}
|
||||
comm = ">=0.1.1"
|
||||
debugpy = ">=1.6.5"
|
||||
ipython = ">=7.23.1"
|
||||
jupyter-client = ">=6.1.12"
|
||||
jupyter-core = ">=4.12,<5.0.dev0 || >=5.1.dev0"
|
||||
matplotlib-inline = ">=0.1"
|
||||
nest-asyncio = "*"
|
||||
packaging = "*"
|
||||
psutil = "*"
|
||||
pyzmq = ">=20"
|
||||
tornado = ">=6.1"
|
||||
traitlets = ">=5.4.0"
|
||||
|
||||
[package.extras]
|
||||
cov = ["coverage[toml]", "curio", "matplotlib", "pytest-cov", "trio"]
|
||||
docs = ["myst-parser", "pydata-sphinx-theme", "sphinx", "sphinx-autodoc-typehints", "sphinxcontrib-github-alt", "sphinxcontrib-spelling", "trio"]
|
||||
pyqt5 = ["pyqt5"]
|
||||
pyside6 = ["pyside6"]
|
||||
test = ["flaky", "ipyparallel", "pre-commit", "pytest (>=7.0)", "pytest-asyncio", "pytest-cov", "pytest-timeout"]
|
||||
|
||||
[[package]]
|
||||
name = "ipython"
|
||||
version = "8.16.1"
|
||||
description = "IPython: Productive Interactive Computing"
|
||||
optional = false
|
||||
python-versions = ">=3.9"
|
||||
files = [
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{file = "ipython-8.16.1-py3-none-any.whl", hash = "sha256:0852469d4d579d9cd613c220af7bf0c9cc251813e12be647cb9d463939db9b1e"},
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{file = "ipython-8.16.1.tar.gz", hash = "sha256:ad52f58fca8f9f848e256c629eff888efc0528c12fe0f8ec14f33205f23ef938"},
|
||||
]
|
||||
|
||||
[package.dependencies]
|
||||
appnope = {version = "*", markers = "sys_platform == \"darwin\""}
|
||||
backcall = "*"
|
||||
colorama = {version = "*", markers = "sys_platform == \"win32\""}
|
||||
decorator = "*"
|
||||
jedi = ">=0.16"
|
||||
matplotlib-inline = "*"
|
||||
pexpect = {version = ">4.3", markers = "sys_platform != \"win32\""}
|
||||
pickleshare = "*"
|
||||
prompt-toolkit = ">=3.0.30,<3.0.37 || >3.0.37,<3.1.0"
|
||||
pygments = ">=2.4.0"
|
||||
stack-data = "*"
|
||||
traitlets = ">=5"
|
||||
|
||||
[package.extras]
|
||||
all = ["black", "curio", "docrepr", "exceptiongroup", "ipykernel", "ipyparallel", "ipywidgets", "matplotlib", "matplotlib (!=3.2.0)", "nbconvert", "nbformat", "notebook", "numpy (>=1.21)", "pandas", "pytest (<7)", "pytest (<7.1)", "pytest-asyncio", "qtconsole", "setuptools (>=18.5)", "sphinx (>=1.3)", "sphinx-rtd-theme", "stack-data", "testpath", "trio", "typing-extensions"]
|
||||
black = ["black"]
|
||||
doc = ["docrepr", "exceptiongroup", "ipykernel", "matplotlib", "pytest (<7)", "pytest (<7.1)", "pytest-asyncio", "setuptools (>=18.5)", "sphinx (>=1.3)", "sphinx-rtd-theme", "stack-data", "testpath", "typing-extensions"]
|
||||
kernel = ["ipykernel"]
|
||||
nbconvert = ["nbconvert"]
|
||||
nbformat = ["nbformat"]
|
||||
notebook = ["ipywidgets", "notebook"]
|
||||
parallel = ["ipyparallel"]
|
||||
qtconsole = ["qtconsole"]
|
||||
test = ["pytest (<7.1)", "pytest-asyncio", "testpath"]
|
||||
test-extra = ["curio", "matplotlib (!=3.2.0)", "nbformat", "numpy (>=1.21)", "pandas", "pytest (<7.1)", "pytest-asyncio", "testpath", "trio"]
|
||||
|
||||
[[package]]
|
||||
name = "isodate"
|
||||
version = "0.6.1"
|
||||
|
|
@ -709,6 +968,25 @@ files = [
|
|||
[package.dependencies]
|
||||
arrow = ">=0.15.0"
|
||||
|
||||
[[package]]
|
||||
name = "jedi"
|
||||
version = "0.19.1"
|
||||
description = "An autocompletion tool for Python that can be used for text editors."
|
||||
optional = false
|
||||
python-versions = ">=3.6"
|
||||
files = [
|
||||
{file = "jedi-0.19.1-py2.py3-none-any.whl", hash = "sha256:e983c654fe5c02867aef4cdfce5a2fbb4a50adc0af145f70504238f18ef5e7e0"},
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||||
{file = "jedi-0.19.1.tar.gz", hash = "sha256:cf0496f3651bc65d7174ac1b7d043eff454892c708a87d1b683e57b569927ffd"},
|
||||
]
|
||||
|
||||
[package.dependencies]
|
||||
parso = ">=0.8.3,<0.9.0"
|
||||
|
||||
[package.extras]
|
||||
docs = ["Jinja2 (==2.11.3)", "MarkupSafe (==1.1.1)", "Pygments (==2.8.1)", "alabaster (==0.7.12)", "babel (==2.9.1)", "chardet (==4.0.0)", "commonmark (==0.8.1)", "docutils (==0.17.1)", "future (==0.18.2)", "idna (==2.10)", "imagesize (==1.2.0)", "mock (==1.0.1)", "packaging (==20.9)", "pyparsing (==2.4.7)", "pytz (==2021.1)", "readthedocs-sphinx-ext (==2.1.4)", "recommonmark (==0.5.0)", "requests (==2.25.1)", "six (==1.15.0)", "snowballstemmer (==2.1.0)", "sphinx (==1.8.5)", "sphinx-rtd-theme (==0.4.3)", "sphinxcontrib-serializinghtml (==1.1.4)", "sphinxcontrib-websupport (==1.2.4)", "urllib3 (==1.26.4)"]
|
||||
qa = ["flake8 (==5.0.4)", "mypy (==0.971)", "types-setuptools (==67.2.0.1)"]
|
||||
testing = ["Django", "attrs", "colorama", "docopt", "pytest (<7.0.0)"]
|
||||
|
||||
[[package]]
|
||||
name = "jinja2"
|
||||
version = "3.1.2"
|
||||
|
|
@ -848,6 +1126,75 @@ files = [
|
|||
[package.dependencies]
|
||||
referencing = ">=0.28.0"
|
||||
|
||||
[[package]]
|
||||
name = "jupyter-cache"
|
||||
version = "0.6.1"
|
||||
description = "A defined interface for working with a cache of jupyter notebooks."
|
||||
optional = false
|
||||
python-versions = "~=3.8"
|
||||
files = [
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{file = "jupyter-cache-0.6.1.tar.gz", hash = "sha256:26f83901143edf4af2f3ff5a91e2d2ad298e46e2cee03c8071d37a23a63ccbfc"},
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{file = "jupyter_cache-0.6.1-py3-none-any.whl", hash = "sha256:2fce7d4975805c77f75bdfc1bc2e82bc538b8e5b1af27f2f5e06d55b9f996a82"},
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]
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||||
|
||||
[package.dependencies]
|
||||
attrs = "*"
|
||||
click = "*"
|
||||
importlib-metadata = "*"
|
||||
nbclient = ">=0.2,<0.8"
|
||||
nbformat = "*"
|
||||
pyyaml = "*"
|
||||
sqlalchemy = ">=1.3.12,<3"
|
||||
tabulate = "*"
|
||||
|
||||
[package.extras]
|
||||
cli = ["click-log"]
|
||||
code-style = ["pre-commit (>=2.12,<4.0)"]
|
||||
rtd = ["ipykernel", "jupytext", "myst-nb", "nbdime", "sphinx-book-theme", "sphinx-copybutton"]
|
||||
testing = ["coverage", "ipykernel", "jupytext", "matplotlib", "nbdime", "nbformat (>=5.1)", "numpy", "pandas", "pytest (>=6,<8)", "pytest-cov", "pytest-regressions", "sympy"]
|
||||
|
||||
[[package]]
|
||||
name = "jupyter-client"
|
||||
version = "8.4.0"
|
||||
description = "Jupyter protocol implementation and client libraries"
|
||||
optional = false
|
||||
python-versions = ">=3.8"
|
||||
files = [
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{file = "jupyter_client-8.4.0-py3-none-any.whl", hash = "sha256:6a2a950ec23a8f62f9e4c66acec7f0ea6c7d1f80ba0992e747b10c56ce2e6dbe"},
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{file = "jupyter_client-8.4.0.tar.gz", hash = "sha256:dc1b857d5d7d76ac101766c6e9b646bf18742721126e72e5d484c75a993cada2"},
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]
|
||||
|
||||
[package.dependencies]
|
||||
jupyter-core = ">=4.12,<5.0.dev0 || >=5.1.dev0"
|
||||
python-dateutil = ">=2.8.2"
|
||||
pyzmq = ">=23.0"
|
||||
tornado = ">=6.2"
|
||||
traitlets = ">=5.3"
|
||||
|
||||
[package.extras]
|
||||
docs = ["ipykernel", "myst-parser", "pydata-sphinx-theme", "sphinx (>=4)", "sphinx-autodoc-typehints", "sphinxcontrib-github-alt", "sphinxcontrib-spelling"]
|
||||
test = ["coverage", "ipykernel (>=6.14)", "mypy", "paramiko", "pre-commit", "pytest", "pytest-cov", "pytest-jupyter[client] (>=0.4.1)", "pytest-timeout"]
|
||||
|
||||
[[package]]
|
||||
name = "jupyter-core"
|
||||
version = "5.4.0"
|
||||
description = "Jupyter core package. A base package on which Jupyter projects rely."
|
||||
optional = false
|
||||
python-versions = ">=3.8"
|
||||
files = [
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{file = "jupyter_core-5.4.0-py3-none-any.whl", hash = "sha256:66e252f675ac04dcf2feb6ed4afb3cd7f68cf92f483607522dc251f32d471571"},
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||||
]
|
||||
|
||||
[package.dependencies]
|
||||
platformdirs = ">=2.5"
|
||||
pywin32 = {version = ">=300", markers = "sys_platform == \"win32\" and platform_python_implementation != \"PyPy\""}
|
||||
traitlets = ">=5.3"
|
||||
|
||||
[package.extras]
|
||||
docs = ["myst-parser", "sphinx-autodoc-typehints", "sphinxcontrib-github-alt", "sphinxcontrib-spelling", "traitlets"]
|
||||
test = ["ipykernel", "pre-commit", "pytest", "pytest-cov", "pytest-timeout"]
|
||||
|
||||
[[package]]
|
||||
name = "linkml"
|
||||
version = "1.6.1"
|
||||
|
|
@ -1038,6 +1385,20 @@ files = [
|
|||
{file = "MarkupSafe-2.1.3.tar.gz", hash = "sha256:af598ed32d6ae86f1b747b82783958b1a4ab8f617b06fe68795c7f026abbdcad"},
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||||
]
|
||||
|
||||
[[package]]
|
||||
name = "matplotlib-inline"
|
||||
version = "0.1.6"
|
||||
description = "Inline Matplotlib backend for Jupyter"
|
||||
optional = false
|
||||
python-versions = ">=3.5"
|
||||
files = [
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{file = "matplotlib-inline-0.1.6.tar.gz", hash = "sha256:f887e5f10ba98e8d2b150ddcf4702c1e5f8b3a20005eb0f74bfdbd360ee6f304"},
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{file = "matplotlib_inline-0.1.6-py3-none-any.whl", hash = "sha256:f1f41aab5328aa5aaea9b16d083b128102f8712542f819fe7e6a420ff581b311"},
|
||||
]
|
||||
|
||||
[package.dependencies]
|
||||
traitlets = "*"
|
||||
|
||||
[[package]]
|
||||
name = "mdit-py-plugins"
|
||||
version = "0.4.0"
|
||||
|
|
@ -1133,6 +1494,38 @@ files = [
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{file = "msgpack-1.0.7.tar.gz", hash = "sha256:572efc93db7a4d27e404501975ca6d2d9775705c2d922390d878fcf768d92c87"},
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]
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||||
|
||||
[[package]]
|
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name = "myst-nb"
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||||
version = "0.18.0"
|
||||
description = "A Jupyter Notebook Sphinx reader built on top of the MyST markdown parser."
|
||||
optional = false
|
||||
python-versions = ">=3.8"
|
||||
files = []
|
||||
develop = false
|
||||
|
||||
[package.dependencies]
|
||||
importlib_metadata = "*"
|
||||
ipykernel = "*"
|
||||
ipython = "*"
|
||||
jupyter-cache = ">=0.5,<0.7"
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||||
myst-parser = ">=0.18.0"
|
||||
nbclient = "*"
|
||||
nbformat = ">=5.0,<6.0"
|
||||
pyyaml = "*"
|
||||
sphinx = ">=4"
|
||||
typing-extensions = "*"
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||||
|
||||
[package.extras]
|
||||
code-style = ["pre-commit"]
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||||
rtd = ["alabaster", "altair", "bokeh", "coconut (>=1.4.3,<3.1.0)", "ipykernel (>=5.5,<7.0)", "ipywidgets", "jupytext (>=1.11.2,<1.16.0)", "matplotlib", "numpy", "pandas", "plotly", "sphinx-book-theme (>=0.3)", "sphinx-copybutton", "sphinx-design (>=0.4.0,<0.5.0)", "sphinxcontrib-bibtex", "sympy"]
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||||
testing = ["beautifulsoup4", "coverage (>=6.4,<8.0)", "ipykernel (>=5.5,<7.0)", "ipython (!=8.1.0,<8.17)", "ipywidgets (>=8)", "jupytext (>=1.11.2,<1.16.0)", "matplotlib (>=3.5.3,<3.6)", "nbdime", "numpy", "pandas", "pytest (>=7.1,<8.0)", "pytest-cov (>=3,<5)", "pytest-param-files (>=0.3.3,<0.4.0)", "pytest-regressions", "sympy (>=1.10.1)"]
|
||||
|
||||
[package.source]
|
||||
type = "git"
|
||||
url = "https://github.com/executablebooks/MyST-NB.git"
|
||||
reference = "HEAD"
|
||||
resolved_reference = "dab08074e9bb7a84c4752f6af3fe55bbc42d6cca"
|
||||
|
||||
[[package]]
|
||||
name = "myst-parser"
|
||||
version = "2.0.0"
|
||||
|
|
@ -1159,6 +1552,49 @@ rtd = ["ipython", "pydata-sphinx-theme (==v0.13.0rc4)", "sphinx-autodoc2 (>=0.4.
|
|||
testing = ["beautifulsoup4", "coverage[toml]", "pytest (>=7,<8)", "pytest-cov", "pytest-param-files (>=0.3.4,<0.4.0)", "pytest-regressions", "sphinx-pytest"]
|
||||
testing-docutils = ["pygments", "pytest (>=7,<8)", "pytest-param-files (>=0.3.4,<0.4.0)"]
|
||||
|
||||
[[package]]
|
||||
name = "nbclient"
|
||||
version = "0.7.4"
|
||||
description = "A client library for executing notebooks. Formerly nbconvert's ExecutePreprocessor."
|
||||
optional = false
|
||||
python-versions = ">=3.7.0"
|
||||
files = [
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||||
{file = "nbclient-0.7.4-py3-none-any.whl", hash = "sha256:c817c0768c5ff0d60e468e017613e6eae27b6fa31e43f905addd2d24df60c125"},
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{file = "nbclient-0.7.4.tar.gz", hash = "sha256:d447f0e5a4cfe79d462459aec1b3dc5c2e9152597262be8ee27f7d4c02566a0d"},
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||||
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|
||||
|
||||
[package.dependencies]
|
||||
jupyter-client = ">=6.1.12"
|
||||
jupyter-core = ">=4.12,<5.0.dev0 || >=5.1.dev0"
|
||||
nbformat = ">=5.1"
|
||||
traitlets = ">=5.3"
|
||||
|
||||
[package.extras]
|
||||
dev = ["pre-commit"]
|
||||
docs = ["autodoc-traits", "mock", "moto", "myst-parser", "nbclient[test]", "sphinx (>=1.7)", "sphinx-book-theme", "sphinxcontrib-spelling"]
|
||||
test = ["flaky", "ipykernel", "ipython", "ipywidgets", "nbconvert (>=7.0.0)", "pytest (>=7.0)", "pytest-asyncio", "pytest-cov (>=4.0)", "testpath", "xmltodict"]
|
||||
|
||||
[[package]]
|
||||
name = "nbformat"
|
||||
version = "5.9.2"
|
||||
description = "The Jupyter Notebook format"
|
||||
optional = false
|
||||
python-versions = ">=3.8"
|
||||
files = [
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{file = "nbformat-5.9.2-py3-none-any.whl", hash = "sha256:1c5172d786a41b82bcfd0c23f9e6b6f072e8fb49c39250219e4acfff1efe89e9"},
|
||||
{file = "nbformat-5.9.2.tar.gz", hash = "sha256:5f98b5ba1997dff175e77e0c17d5c10a96eaed2cbd1de3533d1fc35d5e111192"},
|
||||
]
|
||||
|
||||
[package.dependencies]
|
||||
fastjsonschema = "*"
|
||||
jsonschema = ">=2.6"
|
||||
jupyter-core = "*"
|
||||
traitlets = ">=5.1"
|
||||
|
||||
[package.extras]
|
||||
docs = ["myst-parser", "pydata-sphinx-theme", "sphinx", "sphinxcontrib-github-alt", "sphinxcontrib-spelling"]
|
||||
test = ["pep440", "pre-commit", "pytest", "testpath"]
|
||||
|
||||
[[package]]
|
||||
name = "ndindex"
|
||||
version = "1.7"
|
||||
|
|
@ -1173,6 +1609,17 @@ files = [
|
|||
[package.extras]
|
||||
arrays = ["numpy"]
|
||||
|
||||
[[package]]
|
||||
name = "nest-asyncio"
|
||||
version = "1.5.8"
|
||||
description = "Patch asyncio to allow nested event loops"
|
||||
optional = false
|
||||
python-versions = ">=3.5"
|
||||
files = [
|
||||
{file = "nest_asyncio-1.5.8-py3-none-any.whl", hash = "sha256:accda7a339a70599cb08f9dd09a67e0c2ef8d8d6f4c07f96ab203f2ae254e48d"},
|
||||
{file = "nest_asyncio-1.5.8.tar.gz", hash = "sha256:25aa2ca0d2a5b5531956b9e273b45cf664cae2b145101d73b86b199978d48fdb"},
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "nptyping"
|
||||
version = "2.5.0"
|
||||
|
|
@ -1322,6 +1769,21 @@ files = [
|
|||
{file = "parse-1.19.1.tar.gz", hash = "sha256:cc3a47236ff05da377617ddefa867b7ba983819c664e1afe46249e5b469be464"},
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "parso"
|
||||
version = "0.8.3"
|
||||
description = "A Python Parser"
|
||||
optional = false
|
||||
python-versions = ">=3.6"
|
||||
files = [
|
||||
{file = "parso-0.8.3-py2.py3-none-any.whl", hash = "sha256:c001d4636cd3aecdaf33cbb40aebb59b094be2a74c556778ef5576c175e19e75"},
|
||||
{file = "parso-0.8.3.tar.gz", hash = "sha256:8c07be290bb59f03588915921e29e8a50002acaf2cdc5fa0e0114f91709fafa0"},
|
||||
]
|
||||
|
||||
[package.extras]
|
||||
qa = ["flake8 (==3.8.3)", "mypy (==0.782)"]
|
||||
testing = ["docopt", "pytest (<6.0.0)"]
|
||||
|
||||
[[package]]
|
||||
name = "partd"
|
||||
version = "1.4.1"
|
||||
|
|
@ -1340,6 +1802,46 @@ toolz = "*"
|
|||
[package.extras]
|
||||
complete = ["blosc", "numpy (>=1.9.0)", "pandas (>=0.19.0)", "pyzmq"]
|
||||
|
||||
[[package]]
|
||||
name = "pexpect"
|
||||
version = "4.8.0"
|
||||
description = "Pexpect allows easy control of interactive console applications."
|
||||
optional = false
|
||||
python-versions = "*"
|
||||
files = [
|
||||
{file = "pexpect-4.8.0-py2.py3-none-any.whl", hash = "sha256:0b48a55dcb3c05f3329815901ea4fc1537514d6ba867a152b581d69ae3710937"},
|
||||
{file = "pexpect-4.8.0.tar.gz", hash = "sha256:fc65a43959d153d0114afe13997d439c22823a27cefceb5ff35c2178c6784c0c"},
|
||||
]
|
||||
|
||||
[package.dependencies]
|
||||
ptyprocess = ">=0.5"
|
||||
|
||||
[[package]]
|
||||
name = "pickleshare"
|
||||
version = "0.7.5"
|
||||
description = "Tiny 'shelve'-like database with concurrency support"
|
||||
optional = false
|
||||
python-versions = "*"
|
||||
files = [
|
||||
{file = "pickleshare-0.7.5-py2.py3-none-any.whl", hash = "sha256:9649af414d74d4df115d5d718f82acb59c9d418196b7b4290ed47a12ce62df56"},
|
||||
{file = "pickleshare-0.7.5.tar.gz", hash = "sha256:87683d47965c1da65cdacaf31c8441d12b8044cdec9aca500cd78fc2c683afca"},
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "platformdirs"
|
||||
version = "3.11.0"
|
||||
description = "A small Python package for determining appropriate platform-specific dirs, e.g. a \"user data dir\"."
|
||||
optional = false
|
||||
python-versions = ">=3.7"
|
||||
files = [
|
||||
{file = "platformdirs-3.11.0-py3-none-any.whl", hash = "sha256:e9d171d00af68be50e9202731309c4e658fd8bc76f55c11c7dd760d023bda68e"},
|
||||
{file = "platformdirs-3.11.0.tar.gz", hash = "sha256:cf8ee52a3afdb965072dcc652433e0c7e3e40cf5ea1477cd4b3b1d2eb75495b3"},
|
||||
]
|
||||
|
||||
[package.extras]
|
||||
docs = ["furo (>=2023.7.26)", "proselint (>=0.13)", "sphinx (>=7.1.1)", "sphinx-autodoc-typehints (>=1.24)"]
|
||||
test = ["appdirs (==1.4.4)", "covdefaults (>=2.3)", "pytest (>=7.4)", "pytest-cov (>=4.1)", "pytest-mock (>=3.11.1)"]
|
||||
|
||||
[[package]]
|
||||
name = "pluggy"
|
||||
version = "1.3.0"
|
||||
|
|
@ -1405,6 +1907,73 @@ typing-extensions = ">=4.4.0,<5.0.0"
|
|||
docs = ["Sphinx[docs] (>=5.3.0,<6.0.0)", "myst-parser[docs] (>=0.18.1,<0.19.0)", "sphinx-autodoc-typehints[docs] (>=1.19.4,<2.0.0)", "sphinx-click[docs] (>=4.3.0,<5.0.0)", "sphinx-rtd-theme[docs] (>=1.0.0,<2.0.0)"]
|
||||
refresh = ["bioregistry[refresh] (>=0.8.0,<0.9.0)", "rdflib[refresh] (>=6.2.0,<7.0.0)", "requests[refresh] (>=2.28.1,<3.0.0)"]
|
||||
|
||||
[[package]]
|
||||
name = "prompt-toolkit"
|
||||
version = "3.0.39"
|
||||
description = "Library for building powerful interactive command lines in Python"
|
||||
optional = false
|
||||
python-versions = ">=3.7.0"
|
||||
files = [
|
||||
{file = "prompt_toolkit-3.0.39-py3-none-any.whl", hash = "sha256:9dffbe1d8acf91e3de75f3b544e4842382fc06c6babe903ac9acb74dc6e08d88"},
|
||||
{file = "prompt_toolkit-3.0.39.tar.gz", hash = "sha256:04505ade687dc26dc4284b1ad19a83be2f2afe83e7a828ace0c72f3a1df72aac"},
|
||||
]
|
||||
|
||||
[package.dependencies]
|
||||
wcwidth = "*"
|
||||
|
||||
[[package]]
|
||||
name = "psutil"
|
||||
version = "5.9.6"
|
||||
description = "Cross-platform lib for process and system monitoring in Python."
|
||||
optional = false
|
||||
python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*"
|
||||
files = [
|
||||
{file = "psutil-5.9.6-cp27-cp27m-macosx_10_9_x86_64.whl", hash = "sha256:fb8a697f11b0f5994550555fcfe3e69799e5b060c8ecf9e2f75c69302cc35c0d"},
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||||
{file = "psutil-5.9.6-cp27-cp27m-manylinux2010_i686.whl", hash = "sha256:91ecd2d9c00db9817a4b4192107cf6954addb5d9d67a969a4f436dbc9200f88c"},
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||||
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||||
{file = "psutil-5.9.6-cp27-cp27mu-manylinux2010_i686.whl", hash = "sha256:18cd22c5db486f33998f37e2bb054cc62fd06646995285e02a51b1e08da97017"},
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||||
{file = "psutil-5.9.6-cp27-cp27mu-manylinux2010_x86_64.whl", hash = "sha256:ca2780f5e038379e520281e4c032dddd086906ddff9ef0d1b9dcf00710e5071c"},
|
||||
{file = "psutil-5.9.6-cp27-none-win32.whl", hash = "sha256:70cb3beb98bc3fd5ac9ac617a327af7e7f826373ee64c80efd4eb2856e5051e9"},
|
||||
{file = "psutil-5.9.6-cp27-none-win_amd64.whl", hash = "sha256:51dc3d54607c73148f63732c727856f5febec1c7c336f8f41fcbd6315cce76ac"},
|
||||
{file = "psutil-5.9.6-cp36-abi3-macosx_10_9_x86_64.whl", hash = "sha256:c69596f9fc2f8acd574a12d5f8b7b1ba3765a641ea5d60fb4736bf3c08a8214a"},
|
||||
{file = "psutil-5.9.6-cp36-abi3-manylinux_2_12_i686.manylinux2010_i686.manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:92e0cc43c524834af53e9d3369245e6cc3b130e78e26100d1f63cdb0abeb3d3c"},
|
||||
{file = "psutil-5.9.6-cp36-abi3-manylinux_2_12_x86_64.manylinux2010_x86_64.manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:748c9dd2583ed86347ed65d0035f45fa8c851e8d90354c122ab72319b5f366f4"},
|
||||
{file = "psutil-5.9.6-cp36-cp36m-win32.whl", hash = "sha256:3ebf2158c16cc69db777e3c7decb3c0f43a7af94a60d72e87b2823aebac3d602"},
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||||
{file = "psutil-5.9.6-cp36-cp36m-win_amd64.whl", hash = "sha256:ff18b8d1a784b810df0b0fff3bcb50ab941c3b8e2c8de5726f9c71c601c611aa"},
|
||||
{file = "psutil-5.9.6-cp37-abi3-win32.whl", hash = "sha256:a6f01f03bf1843280f4ad16f4bde26b817847b4c1a0db59bf6419807bc5ce05c"},
|
||||
{file = "psutil-5.9.6-cp37-abi3-win_amd64.whl", hash = "sha256:6e5fb8dc711a514da83098bc5234264e551ad980cec5f85dabf4d38ed6f15e9a"},
|
||||
{file = "psutil-5.9.6-cp38-abi3-macosx_11_0_arm64.whl", hash = "sha256:daecbcbd29b289aac14ece28eca6a3e60aa361754cf6da3dfb20d4d32b6c7f57"},
|
||||
{file = "psutil-5.9.6.tar.gz", hash = "sha256:e4b92ddcd7dd4cdd3f900180ea1e104932c7bce234fb88976e2a3b296441225a"},
|
||||
]
|
||||
|
||||
[package.extras]
|
||||
test = ["enum34", "ipaddress", "mock", "pywin32", "wmi"]
|
||||
|
||||
[[package]]
|
||||
name = "ptyprocess"
|
||||
version = "0.7.0"
|
||||
description = "Run a subprocess in a pseudo terminal"
|
||||
optional = false
|
||||
python-versions = "*"
|
||||
files = [
|
||||
{file = "ptyprocess-0.7.0-py2.py3-none-any.whl", hash = "sha256:4b41f3967fce3af57cc7e94b888626c18bf37a083e3651ca8feeb66d492fef35"},
|
||||
{file = "ptyprocess-0.7.0.tar.gz", hash = "sha256:5c5d0a3b48ceee0b48485e0c26037c0acd7d29765ca3fbb5cb3831d347423220"},
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "pure-eval"
|
||||
version = "0.2.2"
|
||||
description = "Safely evaluate AST nodes without side effects"
|
||||
optional = false
|
||||
python-versions = "*"
|
||||
files = [
|
||||
{file = "pure_eval-0.2.2-py3-none-any.whl", hash = "sha256:01eaab343580944bc56080ebe0a674b39ec44a945e6d09ba7db3cb8cec289350"},
|
||||
{file = "pure_eval-0.2.2.tar.gz", hash = "sha256:2b45320af6dfaa1750f543d714b6d1c520a1688dec6fd24d339063ce0aaa9ac3"},
|
||||
]
|
||||
|
||||
[package.extras]
|
||||
tests = ["pytest"]
|
||||
|
||||
[[package]]
|
||||
name = "py-cpuinfo"
|
||||
version = "9.0.0"
|
||||
|
|
@ -1416,6 +1985,17 @@ files = [
|
|||
{file = "py_cpuinfo-9.0.0-py3-none-any.whl", hash = "sha256:859625bc251f64e21f077d099d4162689c762b5d6a4c3c97553d56241c9674d5"},
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "pycparser"
|
||||
version = "2.21"
|
||||
description = "C parser in Python"
|
||||
optional = false
|
||||
python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
|
||||
files = [
|
||||
{file = "pycparser-2.21-py2.py3-none-any.whl", hash = "sha256:8ee45429555515e1f6b185e78100aea234072576aa43ab53aefcae078162fca9"},
|
||||
{file = "pycparser-2.21.tar.gz", hash = "sha256:e644fdec12f7872f86c58ff790da456218b10f863970249516d60a5eaca77206"},
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "pydantic"
|
||||
version = "2.4.2"
|
||||
|
|
@ -1726,6 +2306,29 @@ files = [
|
|||
[package.dependencies]
|
||||
sortedcontainers = "*"
|
||||
|
||||
[[package]]
|
||||
name = "pywin32"
|
||||
version = "306"
|
||||
description = "Python for Window Extensions"
|
||||
optional = false
|
||||
python-versions = "*"
|
||||
files = [
|
||||
{file = "pywin32-306-cp310-cp310-win32.whl", hash = "sha256:06d3420a5155ba65f0b72f2699b5bacf3109f36acbe8923765c22938a69dfc8d"},
|
||||
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||||
{file = "pywin32-306-cp311-cp311-win32.whl", hash = "sha256:e65028133d15b64d2ed8f06dd9fbc268352478d4f9289e69c190ecd6818b6407"},
|
||||
{file = "pywin32-306-cp311-cp311-win_amd64.whl", hash = "sha256:a7639f51c184c0272e93f244eb24dafca9b1855707d94c192d4a0b4c01e1100e"},
|
||||
{file = "pywin32-306-cp311-cp311-win_arm64.whl", hash = "sha256:70dba0c913d19f942a2db25217d9a1b726c278f483a919f1abfed79c9cf64d3a"},
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||||
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||||
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||||
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||||
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|
||||
{file = "pywin32-306-cp39-cp39-win32.whl", hash = "sha256:e25fd5b485b55ac9c057f67d94bc203f3f6595078d1fb3b458c9c28b7153a802"},
|
||||
{file = "pywin32-306-cp39-cp39-win_amd64.whl", hash = "sha256:39b61c15272833b5c329a2989999dcae836b1eed650252ab1b7bfbe1d59f30f4"},
|
||||
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|
||||
|
||||
[[package]]
|
||||
name = "pyyaml"
|
||||
version = "6.0.1"
|
||||
|
|
@ -1775,6 +2378,111 @@ files = [
|
|||
{file = "PyYAML-6.0.1.tar.gz", hash = "sha256:bfdf460b1736c775f2ba9f6a92bca30bc2095067b8a9d77876d1fad6cc3b4a43"},
|
||||
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|
||||
|
||||
[[package]]
|
||||
name = "pyzmq"
|
||||
version = "25.1.1"
|
||||
description = "Python bindings for 0MQ"
|
||||
optional = false
|
||||
python-versions = ">=3.6"
|
||||
files = [
|
||||
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[package.dependencies]
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||||
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[[package]]
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|
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||||
{file = "traitlets-5.11.2.tar.gz", hash = "sha256:7564b5bf8d38c40fa45498072bf4dc5e8346eb087bbf1e2ae2d8774f6a0f078e"},
|
||||
]
|
||||
|
||||
[package.extras]
|
||||
docs = ["myst-parser", "pydata-sphinx-theme", "sphinx"]
|
||||
test = ["argcomplete (>=3.0.3)", "mypy (>=1.5.1)", "pre-commit", "pytest (>=7.0,<7.5)", "pytest-mock", "pytest-mypy-testing"]
|
||||
|
||||
[[package]]
|
||||
name = "types-python-dateutil"
|
||||
version = "2.8.19.14"
|
||||
|
|
@ -2631,6 +3387,17 @@ files = [
|
|||
[package.extras]
|
||||
watchmedo = ["PyYAML (>=3.10)"]
|
||||
|
||||
[[package]]
|
||||
name = "wcwidth"
|
||||
version = "0.2.8"
|
||||
description = "Measures the displayed width of unicode strings in a terminal"
|
||||
optional = false
|
||||
python-versions = "*"
|
||||
files = [
|
||||
{file = "wcwidth-0.2.8-py2.py3-none-any.whl", hash = "sha256:77f719e01648ed600dfa5402c347481c0992263b81a027344f3e1ba25493a704"},
|
||||
{file = "wcwidth-0.2.8.tar.gz", hash = "sha256:8705c569999ffbb4f6a87c6d1b80f324bd6db952f5eb0b95bc07517f4c1813d4"},
|
||||
]
|
||||
|
||||
[[package]]
|
||||
name = "webcolors"
|
||||
version = "1.13"
|
||||
|
|
@ -2762,4 +3529,4 @@ testing = ["big-O", "jaraco.functools", "jaraco.itertools", "more-itertools", "p
|
|||
[metadata]
|
||||
lock-version = "2.0"
|
||||
python-versions = ">=3.11,<3.13"
|
||||
content-hash = "ff4389164e6c41667acfe292fb4898303c356cf07d1dfb0d3ac6d6a29da8a738"
|
||||
content-hash = "6e7b415ca1cd1531804b1879fe7a1296d35546a80e5eba89bc19ce83450d07e0"
|
||||
|
|
|
|||
|
|
@ -22,6 +22,7 @@ nwb-linkml = { path = './nwb_linkml', develop = true }
|
|||
nwb_schema_language = { path = './nwb_schema_language', develop = true }
|
||||
sphinx-design = "^0.5.0"
|
||||
sphinx-togglebutton = "^0.3.2"
|
||||
myst-nb = { git = "https://github.com/executablebooks/MyST-NB.git" }
|
||||
|
||||
|
||||
[build-system]
|
||||
|
|
|
|||
Loading…
Reference in a new issue