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FynnBe committed Mar 13, 2024
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12 changes: 6 additions & 6 deletions README.md
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Expand Up @@ -25,12 +25,12 @@ All bioimage.io description formats are defined as [Pydantic models](https://doc

| type | format version | documentation |
| --- | --- | --- |
| model | 0.5 </br> 0.4 | [model_spec_v0-5.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/model_spec_v0-5.md) </br> [model_spec_v0-4.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/model_spec_v0-4.md) |
| dataset | 0.3 </br> 0.2 | [dataset_spec_v0-3.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/dataset_spec_v0-3.md) </br> [dataset_spec_v0-2.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/dataset_spec_v0-2.md) |
| notebook | 0.3 </br> 0.2 | [notebook_spec_v0-3.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/notebook_spec_v0-3.md) </br> [notebook_spec_v0-2.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/notebook_spec_v0-2.md) |
| application | 0.3 </br> 0.2 | [application_spec_v0-3.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/application_spec_v0-3.md) </br> [application_spec_v0-2.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/application_spec_v0-2.md) |
| collection | 0.3 </br> 0.2 | [collection_spec_v0-3.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/collection_spec_v0-3.md) </br> [collection_spec_v0-2.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/collection_spec_v0-2.md) |
| generic | 0.3 </br> 0.2 | [generic_spec_v0-3.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/generic_spec_v0-3.md) </br> [generic_spec_v0-2.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/generic_spec_v0-2.md) |
| model | 0.5 </br> 0.4 | [model_descr_v0-5.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/user_docs/model_descr_v0-5.md) </br> [model_descr_v0-4.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/user_docs/model_descr_v0-4.md) |
| dataset | 0.3 </br> 0.2 | [dataset_descr_v0-3.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/user_docs/dataset_descr_v0-3.md) </br> [dataset_descr_v0-2.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/user_docs/dataset_descr_v0-2.md) |
| notebook | 0.3 </br> 0.2 | [notebook_descr_v0-3.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/user_docs/notebook_descr_v0-3.md) </br> [notebook_descr_v0-2.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/user_docs/notebook_descr_v0-2.md) |
| application | 0.3 </br> 0.2 | [application_descr_v0-3.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/user_docs/application_descr_v0-3.md) </br> [application_descr_v0-2.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/user_docs/application_descr_v0-2.md) |
| collection | 0.3 </br> 0.2 | [collection_descr_v0-3.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/user_docs/collection_descr_v0-3.md) </br> [collection_descr_v0-2.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/user_docs/collection_descr_v0-2.md) |
| generic | 0.3 </br> 0.2 | [generic_descr_v0-3.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/user_docs/generic_descr_v0-3.md) </br> [generic_descr_v0-2.md](https://github.com/bioimage-io/spec-bioimage-io/blob/gh-pages/user_docs/generic_descr_v0-2.md) |

## JSON schema

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4 changes: 2 additions & 2 deletions bioimageio/spec/_internal/constants.html
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Expand Up @@ -338,7 +338,7 @@ <h5>Inherited Members</h5>
<div class="attr variable">
<span class="name">KNOWN_GH_USERS</span><span class="annotation">: Set[str]</span> =
<input id="KNOWN_GH_USERS-view-value" class="view-value-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<label class="view-value-button pdoc-button" for="KNOWN_GH_USERS-view-value"></label><span class="default_value">{&#39;k-dominik&#39;, &#39;ivanhcenalmor&#39;, &#39;jansanrom&#39;, &#39;lenkaback&#39;, &#39;carlosuc3m&#39;, &#39;esgomezm&#39;, &#39;pedgomgal1&#39;, &#39;githubuser2&#39;, &#39;ctr26&#39;, &#39;constantinpape&#39;, &#39;cfusterbarcelo&#39;, &#39;oeway&#39;, &#39;aaitorg&#39;, &#39;fynnbe&#39;, &#39;danifranco&#39;, &#39;bioimageiobot&#39;, &#39;donglaiw&#39;, &#39;iarganda&#39;, &#39;clementcaporal&#39;}</span>
<label class="view-value-button pdoc-button" for="KNOWN_GH_USERS-view-value"></label><span class="default_value">{&#39;danifranco&#39;, &#39;jansanrom&#39;, &#39;lenkaback&#39;, &#39;ctr26&#39;, &#39;k-dominik&#39;, &#39;iarganda&#39;, &#39;fynnbe&#39;, &#39;pedgomgal1&#39;, &#39;githubuser2&#39;, &#39;ivanhcenalmor&#39;, &#39;carlosuc3m&#39;, &#39;esgomezm&#39;, &#39;aaitorg&#39;, &#39;bioimageiobot&#39;, &#39;clementcaporal&#39;, &#39;cfusterbarcelo&#39;, &#39;constantinpape&#39;, &#39;oeway&#39;, &#39;donglaiw&#39;}</span>


</div>
Expand All @@ -362,7 +362,7 @@ <h5>Inherited Members</h5>
<section id="KNOWN_INVALID_GH_USERS">
<div class="attr variable">
<span class="name">KNOWN_INVALID_GH_USERS</span><span class="annotation">: Set[str]</span> =
<span class="default_value">{&#39;lmescu&#39;, &#39;arratemunoz&#39;}</span>
<span class="default_value">{&#39;arratemunoz&#39;, &#39;lmescu&#39;}</span>


</div>
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12 changes: 6 additions & 6 deletions bioimageio/spec/_internal/io.html
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Expand Up @@ -1237,7 +1237,7 @@ <h5>Inherited Members</h5>
<div class="attr function">

<span class="def">def</span>
<span class="name">get_absolute</span><span class="signature pdoc-code multiline">(<span class="param"> <span class="bp">self</span>,</span><span class="param"> <span class="n">root</span><span class="p">:</span> <span class="n"><a href="root_url.html#RootHttpUrl">bioimageio.spec._internal.root_url.RootHttpUrl</a></span> <span class="o">|</span> <span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span> <span class="o">|</span> <span class="n">pydantic_core</span><span class="o">.</span><span class="n">_pydantic_core</span><span class="o">.</span><span class="n">Url</span></span><span class="return-annotation">) -> <span class="n">Union</span><span class="p">[</span><span class="n">Annotated</span><span class="p">[</span><span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span><span class="p">,</span> <span class="n">PathType</span><span class="p">(</span><span class="n">path_type</span><span class="o">=</span><span class="s1">&#39;file&#39;</span><span class="p">),</span> <span class="n">Predicate</span><span class="p">(</span><span class="n">func</span><span class="o">=&lt;</span><span class="n">function</span> <span class="n">PurePath</span><span class="o">.</span><span class="n">is_absolute</span> <span class="n">at</span> <span class="mh">0x7f3428a45940</span><span class="o">&gt;</span><span class="p">)],</span> <span class="n">Annotated</span><span class="p">[</span><span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span><span class="p">,</span> <span class="n">PathType</span><span class="p">(</span><span class="n">path_type</span><span class="o">=</span><span class="s1">&#39;dir&#39;</span><span class="p">),</span> <span class="n">Predicate</span><span class="p">(</span><span class="n">func</span><span class="o">=&lt;</span><span class="n">function</span> <span class="n">PurePath</span><span class="o">.</span><span class="n">is_absolute</span> <span class="n">at</span> <span class="mh">0x7f3428a45940</span><span class="o">&gt;</span><span class="p">)],</span> <span class="n"><a href="url.html#HttpUrl">bioimageio.spec._internal.url.HttpUrl</a></span><span class="p">]</span>:</span></span>
<span class="name">get_absolute</span><span class="signature pdoc-code multiline">(<span class="param"> <span class="bp">self</span>,</span><span class="param"> <span class="n">root</span><span class="p">:</span> <span class="n"><a href="root_url.html#RootHttpUrl">bioimageio.spec._internal.root_url.RootHttpUrl</a></span> <span class="o">|</span> <span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span> <span class="o">|</span> <span class="n">pydantic_core</span><span class="o">.</span><span class="n">_pydantic_core</span><span class="o">.</span><span class="n">Url</span></span><span class="return-annotation">) -> <span class="n">Union</span><span class="p">[</span><span class="n">Annotated</span><span class="p">[</span><span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span><span class="p">,</span> <span class="n">PathType</span><span class="p">(</span><span class="n">path_type</span><span class="o">=</span><span class="s1">&#39;file&#39;</span><span class="p">),</span> <span class="n">Predicate</span><span class="p">(</span><span class="n">func</span><span class="o">=&lt;</span><span class="n">function</span> <span class="n">PurePath</span><span class="o">.</span><span class="n">is_absolute</span> <span class="n">at</span> <span class="mh">0x7f1c25245940</span><span class="o">&gt;</span><span class="p">)],</span> <span class="n">Annotated</span><span class="p">[</span><span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span><span class="p">,</span> <span class="n">PathType</span><span class="p">(</span><span class="n">path_type</span><span class="o">=</span><span class="s1">&#39;dir&#39;</span><span class="p">),</span> <span class="n">Predicate</span><span class="p">(</span><span class="n">func</span><span class="o">=&lt;</span><span class="n">function</span> <span class="n">PurePath</span><span class="o">.</span><span class="n">is_absolute</span> <span class="n">at</span> <span class="mh">0x7f1c25245940</span><span class="o">&gt;</span><span class="p">)],</span> <span class="n"><a href="url.html#HttpUrl">bioimageio.spec._internal.url.HttpUrl</a></span><span class="p">]</span>:</span></span>

<label class="view-source-button" for="RelativePath.get_absolute-view-source"><span>View Source</span></label>

Expand Down Expand Up @@ -1355,7 +1355,7 @@ <h5>Inherited Members</h5>
<div class="attr function">

<span class="def">def</span>
<span class="name">get_absolute</span><span class="signature pdoc-code multiline">(<span class="param"> <span class="bp">self</span>,</span><span class="param"> <span class="n">root</span><span class="p">:</span> <span class="n"><a href="root_url.html#RootHttpUrl">bioimageio.spec._internal.root_url.RootHttpUrl</a></span> <span class="o">|</span> <span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span> <span class="o">|</span> <span class="n">pydantic_core</span><span class="o">.</span><span class="n">_pydantic_core</span><span class="o">.</span><span class="n">Url</span></span><span class="return-annotation">) -> <span class="n">Union</span><span class="p">[</span><span class="n">Annotated</span><span class="p">[</span><span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span><span class="p">,</span> <span class="n">PathType</span><span class="p">(</span><span class="n">path_type</span><span class="o">=</span><span class="s1">&#39;file&#39;</span><span class="p">),</span> <span class="n">Predicate</span><span class="p">(</span><span class="n">func</span><span class="o">=&lt;</span><span class="n">function</span> <span class="n">PurePath</span><span class="o">.</span><span class="n">is_absolute</span> <span class="n">at</span> <span class="mh">0x7f3428a45940</span><span class="o">&gt;</span><span class="p">)],</span> <span class="n"><a href="url.html#HttpUrl">bioimageio.spec._internal.url.HttpUrl</a></span><span class="p">]</span>:</span></span>
<span class="name">get_absolute</span><span class="signature pdoc-code multiline">(<span class="param"> <span class="bp">self</span>,</span><span class="param"> <span class="n">root</span><span class="p">:</span> <span class="n"><a href="root_url.html#RootHttpUrl">bioimageio.spec._internal.root_url.RootHttpUrl</a></span> <span class="o">|</span> <span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span> <span class="o">|</span> <span class="n">pydantic_core</span><span class="o">.</span><span class="n">_pydantic_core</span><span class="o">.</span><span class="n">Url</span></span><span class="return-annotation">) -> <span class="n">Union</span><span class="p">[</span><span class="n">Annotated</span><span class="p">[</span><span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span><span class="p">,</span> <span class="n">PathType</span><span class="p">(</span><span class="n">path_type</span><span class="o">=</span><span class="s1">&#39;file&#39;</span><span class="p">),</span> <span class="n">Predicate</span><span class="p">(</span><span class="n">func</span><span class="o">=&lt;</span><span class="n">function</span> <span class="n">PurePath</span><span class="o">.</span><span class="n">is_absolute</span> <span class="n">at</span> <span class="mh">0x7f1c25245940</span><span class="o">&gt;</span><span class="p">)],</span> <span class="n"><a href="url.html#HttpUrl">bioimageio.spec._internal.url.HttpUrl</a></span><span class="p">]</span>:</span></span>

<label class="view-source-button" for="RelativeFilePath.get_absolute-view-source"><span>View Source</span></label>

Expand Down Expand Up @@ -1475,7 +1475,7 @@ <h5>Inherited Members</h5>
<div class="attr function">

<span class="def">def</span>
<span class="name">get_absolute</span><span class="signature pdoc-code multiline">(<span class="param"> <span class="bp">self</span>,</span><span class="param"> <span class="n">root</span><span class="p">:</span> <span class="n"><a href="root_url.html#RootHttpUrl">bioimageio.spec._internal.root_url.RootHttpUrl</a></span> <span class="o">|</span> <span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span> <span class="o">|</span> <span class="n">pydantic_core</span><span class="o">.</span><span class="n">_pydantic_core</span><span class="o">.</span><span class="n">Url</span></span><span class="return-annotation">) -> <span class="n">Union</span><span class="p">[</span><span class="n">Annotated</span><span class="p">[</span><span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span><span class="p">,</span> <span class="n">PathType</span><span class="p">(</span><span class="n">path_type</span><span class="o">=</span><span class="s1">&#39;dir&#39;</span><span class="p">),</span> <span class="n">Predicate</span><span class="p">(</span><span class="n">func</span><span class="o">=&lt;</span><span class="n">function</span> <span class="n">PurePath</span><span class="o">.</span><span class="n">is_absolute</span> <span class="n">at</span> <span class="mh">0x7f3428a45940</span><span class="o">&gt;</span><span class="p">)],</span> <span class="n"><a href="url.html#HttpUrl">bioimageio.spec._internal.url.HttpUrl</a></span><span class="p">]</span>:</span></span>
<span class="name">get_absolute</span><span class="signature pdoc-code multiline">(<span class="param"> <span class="bp">self</span>,</span><span class="param"> <span class="n">root</span><span class="p">:</span> <span class="n"><a href="root_url.html#RootHttpUrl">bioimageio.spec._internal.root_url.RootHttpUrl</a></span> <span class="o">|</span> <span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span> <span class="o">|</span> <span class="n">pydantic_core</span><span class="o">.</span><span class="n">_pydantic_core</span><span class="o">.</span><span class="n">Url</span></span><span class="return-annotation">) -> <span class="n">Union</span><span class="p">[</span><span class="n">Annotated</span><span class="p">[</span><span class="n">pathlib</span><span class="o">.</span><span class="n">Path</span><span class="p">,</span> <span class="n">PathType</span><span class="p">(</span><span class="n">path_type</span><span class="o">=</span><span class="s1">&#39;dir&#39;</span><span class="p">),</span> <span class="n">Predicate</span><span class="p">(</span><span class="n">func</span><span class="o">=&lt;</span><span class="n">function</span> <span class="n">PurePath</span><span class="o">.</span><span class="n">is_absolute</span> <span class="n">at</span> <span class="mh">0x7f1c25245940</span><span class="o">&gt;</span><span class="p">)],</span> <span class="n"><a href="url.html#HttpUrl">bioimageio.spec._internal.url.HttpUrl</a></span><span class="p">]</span>:</span></span>

<label class="view-source-button" for="RelativeDirectory.get_absolute-view-source"><span>View Source</span></label>

Expand Down Expand Up @@ -1997,7 +1997,7 @@ <h5>Inherited Members</h5>
</div>
<div id="OpenedBioimageioYaml.original_root" class="classattr">
<div class="attr variable">
<span class="name">original_root</span><span class="annotation">: Union[Annotated[pathlib.Path, PathType(path_type=&#39;dir&#39;), Predicate(func=&lt;function PurePath.is_absolute at 0x7f3428a45940&gt;)], <a href="root_url.html#RootHttpUrl">bioimageio.spec._internal.root_url.RootHttpUrl</a>]</span>
<span class="name">original_root</span><span class="annotation">: Union[Annotated[pathlib.Path, PathType(path_type=&#39;dir&#39;), Predicate(func=&lt;function PurePath.is_absolute at 0x7f1c25245940&gt;)], <a href="root_url.html#RootHttpUrl">bioimageio.spec._internal.root_url.RootHttpUrl</a>]</span>


</div>
Expand Down Expand Up @@ -2065,7 +2065,7 @@ <h5>Inherited Members</h5>
</div>
<div id="DownloadedFile.original_root" class="classattr">
<div class="attr variable">
<span class="name">original_root</span><span class="annotation">: Union[Annotated[pathlib.Path, PathType(path_type=&#39;dir&#39;), Predicate(func=&lt;function PurePath.is_absolute at 0x7f3428a45940&gt;)], <a href="root_url.html#RootHttpUrl">bioimageio.spec._internal.root_url.RootHttpUrl</a>]</span>
<span class="name">original_root</span><span class="annotation">: Union[Annotated[pathlib.Path, PathType(path_type=&#39;dir&#39;), Predicate(func=&lt;function PurePath.is_absolute at 0x7f1c25245940&gt;)], <a href="root_url.html#RootHttpUrl">bioimageio.spec._internal.root_url.RootHttpUrl</a>]</span>


</div>
Expand Down Expand Up @@ -2284,7 +2284,7 @@ <h5>Inherited Members</h5>

<div id="FileDescr.source" class="classattr">
<div class="attr variable">
<span class="name">source</span><span class="annotation">: Annotated[Union[Annotated[pathlib.Path, PathType(path_type=&#39;file&#39;)], <a href="#RelativeFilePath">RelativeFilePath</a>, <a href="url.html#HttpUrl">bioimageio.spec._internal.url.HttpUrl</a>, Annotated[pydantic_core._pydantic_core.Url, UrlConstraints(max_length=2083, allowed_schemes=[&#39;http&#39;, &#39;https&#39;], host_required=None, default_host=None, default_port=None, default_path=None)]], AfterValidator(func=&lt;function wo_special_file_name at 0x7f34254aaf20&gt;), PlainSerializer(func=&lt;function _package at 0x7f34254e42c0&gt;, return_type=PydanticUndefined, when_used=&#39;unless-none&#39;)]</span>
<span class="name">source</span><span class="annotation">: Annotated[Union[Annotated[pathlib.Path, PathType(path_type=&#39;file&#39;)], <a href="#RelativeFilePath">RelativeFilePath</a>, <a href="url.html#HttpUrl">bioimageio.spec._internal.url.HttpUrl</a>, Annotated[pydantic_core._pydantic_core.Url, UrlConstraints(max_length=2083, allowed_schemes=[&#39;http&#39;, &#39;https&#39;], host_required=None, default_host=None, default_port=None, default_path=None)]], AfterValidator(func=&lt;function wo_special_file_name at 0x7f1c21c3ef20&gt;), PlainSerializer(func=&lt;function _package at 0x7f1c21c782c0&gt;, return_type=PydanticUndefined, when_used=&#39;unless-none&#39;)]</span>


</div>
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