vitessce 3.6.0__py3-none-any.whl → 3.6.2__py3-none-any.whl

vitessce/__init__.py

@@ -27,11 +27,6 @@ from .constants import (
     BASE_URL_PLACEHOLDER,
 )
 
-from .config_converter import (
-    CellBrowserToAnndataZarrConverter,  # only exported for testing.
-    convert_cell_browser_project_to_anndata,
-)
-
 from .wrappers import AbstractWrapper
 
 # We allow installation without all of the dependencies that the widget requires.

vitessce/widget.py

@@ -2,21 +2,11 @@ import importlib.util
 from urllib.parse import quote_plus
 import json
 import sys
-
-# Widget dependencies
-import anywidget
-from traitlets import Unicode, Dict, List, Int, Bool
 import time
 import uuid
+import anywidget
+from traitlets import Unicode, Dict, List, Int, Bool
 
-# Server dependencies
-from uvicorn import Config, Server
-
-from starlette.applications import Starlette
-from starlette.middleware import Middleware
-from starlette.middleware.cors import CORSMiddleware
-from threading import Thread
-import socket
 
 MAX_PORT_TRIES = 1000
 DEFAULT_PORT = 8000
@@ -25,6 +15,10 @@ DEFAULT_PORT = 8000
 class BackgroundServer:
     # Reference: https://github.com/gosling-lang/gos/blob/main/gosling/data/_background_server.py#L10
     def __init__(self, routes):
+        from starlette.applications import Starlette
+        from starlette.middleware import Middleware
+        from starlette.middleware.cors import CORSMiddleware
+
         middleware = [
             Middleware(CORSMiddleware, allow_origins=[
                        '*'], allow_methods=["OPTIONS", "GET"], allow_headers=['Range'])
@@ -47,6 +41,9 @@ class BackgroundServer:
         return self
 
     def start(self, port=None, timeout=1, daemon=True, log_level="warning"):
+        from uvicorn import Config, Server
+        from threading import Thread
+
         if self.thread is not None:
             return self
 
@@ -87,6 +84,7 @@ data_server = VitessceDataServer()
 
 
 def is_port_in_use(port):
+    import socket
     with socket.socket(socket.AF_INET, socket.SOCK_STREAM) as s:
         return s.connect_ex(('localhost', port)) == 0
 
@@ -497,7 +495,8 @@ async function render(view) {
     const root = createRoot(view.el);
     // Marimo puts AnyWidgets in a Shadow Root, so we need to tell Emotion to
     // insert styles within the Shadow DOM.
-    const styleContainer = view.el.getRootNode();
+    const rootNode = view.el.getRootNode();
+    const styleContainer = rootNode === document ? undefined : rootNode;
     root.render(e(VitessceWidget, { model: view.model, styleContainer }));
 
     return () => {
@@ -601,7 +600,7 @@ class VitessceWidget(anywidget.AnyWidget):
 
     next_port = DEFAULT_PORT
 
-    js_package_version = Unicode('3.5.12').tag(sync=True)
+    js_package_version = Unicode('3.6.3').tag(sync=True)
     js_dev_mode = Bool(False).tag(sync=True)
     custom_js_url = Unicode('').tag(sync=True)
     plugin_esm = List(trait=Unicode(''), default_value=[]).tag(sync=True)
@@ -613,7 +612,7 @@ class VitessceWidget(anywidget.AnyWidget):
 
     store_urls = List(trait=Unicode(''), default_value=[]).tag(sync=True)
 
-    def __init__(self, config, height=600, theme='auto', uid=None, port=None, proxy=False, js_package_version='3.5.12', js_dev_mode=False, custom_js_url='', plugins=None, remount_on_uid_change=True, prefer_local=True, invoke_timeout=300000, invoke_batched=True, page_mode=False, page_esm=None):
+    def __init__(self, config, height=600, theme='auto', uid=None, port=None, proxy=False, js_package_version='3.6.3', js_dev_mode=False, custom_js_url='', plugins=None, remount_on_uid_change=True, prefer_local=True, invoke_timeout=300000, invoke_batched=True, page_mode=False, page_esm=None):
         """
         Construct a new Vitessce widget.
 
@@ -748,7 +747,7 @@ class VitessceWidget(anywidget.AnyWidget):
 # Launch Vitessce using plain HTML representation (no ipywidgets)
 
 
-def ipython_display(config, height=600, theme='auto', base_url=None, host_name=None, uid=None, port=None, proxy=False, js_package_version='3.5.12', js_dev_mode=False, custom_js_url='', plugins=None, remount_on_uid_change=True, page_mode=False, page_esm=None):
+def ipython_display(config, height=600, theme='auto', base_url=None, host_name=None, uid=None, port=None, proxy=False, js_package_version='3.6.3', js_dev_mode=False, custom_js_url='', plugins=None, remount_on_uid_change=True, page_mode=False, page_esm=None):
     from IPython.display import display, HTML
     uid_str = "vitessce" + get_uid_str(uid)
 

{vitessce-3.6.0.dist-info → vitessce-3.6.2.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: vitessce
-Version: 3.6.0
+Version: 3.6.2
 Summary: Jupyter widget facilitating interactive visualization of spatial single-cell data with Vitessce
 Project-URL: repository, https://github.com/vitessce/vitessce-python
 Author-email: Mark Keller <mark_keller@hms.harvard.edu>
@@ -37,28 +37,26 @@ Classifier: Programming Language :: Python :: 3.11
 Classifier: Programming Language :: Python :: 3.12
 Classifier: Topic :: Multimedia :: Graphics
 Requires-Python: >=3.10
-Requires-Dist: anndata>=0.7.8
 Requires-Dist: black>=21.11b1
-Requires-Dist: jsonschema>=3.2
-Requires-Dist: negspy>=0.2.24
 Requires-Dist: numcodecs<0.16.0,>=0.5.7
 Requires-Dist: numpy>=1.21.2
-Requires-Dist: ome-zarr<0.10.3
 Requires-Dist: pandas>=1.1.2
-Requires-Dist: scanpy>=1.10.2
 Requires-Dist: scipy>=1.2.1
-Requires-Dist: tifffile>=2020.10.1
-Requires-Dist: tqdm>=4.1.0
 Requires-Dist: zarr<3,>=2.5.0
 Provides-Extra: all
 Requires-Dist: aiofiles>=0.6.0; extra == 'all'
+Requires-Dist: anndata>=0.7.8; extra == 'all'
 Requires-Dist: anywidget>=0.9.10; extra == 'all'
 Requires-Dist: fsspec; extra == 'all'
 Requires-Dist: generate-tiff-offsets>=0.1.9; extra == 'all'
 Requires-Dist: jupyter-server-proxy>=1.5.2; extra == 'all'
 Requires-Dist: kerchunk>=0.2.6; extra == 'all'
+Requires-Dist: negspy>=0.2.24; extra == 'all'
+Requires-Dist: ome-zarr<0.10.3; extra == 'all'
 Requires-Dist: oxc-py>=0.1.1; extra == 'all'
+Requires-Dist: scanpy>=1.10.2; extra == 'all'
 Requires-Dist: starlette>=0.14.0; extra == 'all'
+Requires-Dist: tifffile>=2020.10.1; extra == 'all'
 Requires-Dist: ujson>=4.0.1; extra == 'all'
 Requires-Dist: uvicorn>=0.17.0; extra == 'all'
 Provides-Extra: building
@@ -87,6 +85,7 @@ Requires-Dist: dask[dataframe]==2024.11.1; extra == 'notebook'
 Requires-Dist: marimo; extra == 'notebook'
 Requires-Dist: spatialdata>=0.3.0; extra == 'notebook'
 Requires-Dist: starlette>=0.42.0; extra == 'notebook'
+Requires-Dist: tqdm>=4.1.0; extra == 'notebook'
 Provides-Extra: testing
 Description-Content-Type: text/markdown
 

{vitessce-3.6.0.dist-info → vitessce-3.6.2.dist-info}/RECORD

@@ -1,4 +1,4 @@
-vitessce/__init__.py,sha256=03pAJROyDfo6EErBx8Oqb9Emqol1QKQ_9zKhkwuQ36Q,1781
+vitessce/__init__.py,sha256=GWGahpQMOGFotQXilRccGT0Bnn3OyoCQUCUphW_DtTI,1632
 vitessce/config.py,sha256=vZX4k-kS3zspYVT08PRuLSBeB-tU4GJgbN93z1Ed1iY,81228
 vitessce/config_converter.py,sha256=IRPnGPGaETvJbYZNUv2pe54SHHHsDY9VWo3JRjSI5FM,14681
 vitessce/constants.py,sha256=nBMH55TcnSavcpvYE-epyx3cJ0iDS31eHsL_1e9qb9M,15360
@@ -8,7 +8,7 @@ vitessce/repr.py,sha256=qMmefmZ3E-3sRVxeI5q1DTZnfuwbXKiA85eyqk5MCT4,2287
 vitessce/responses.py,sha256=Z6Wo4AXN-RyzmxMPhSuhpIsHTItHM4GyIgMLGoVEYcU,339
 vitessce/routes.py,sha256=U8T-L-3QCD_tAbPF8LsUlSMhPWNbyzbLNUnxP9Z9s9o,2140
 vitessce/utils.py,sha256=obzjj65qsagu60_yuhGc-0jmHO-BW0Y-bDs0FgrBqLY,981
-vitessce/widget.py,sha256=TJjpOBCSS9EBd-klEStvd_NCWejHG0QUROmI3b_7lrQ,33146
+vitessce/widget.py,sha256=IGeYExc4XuSc4c23hwLGHxQUvT1hD--v33ensjzzF28,33210
 vitessce/wrappers.py,sha256=3ZNldH2uDhOzUl8ahil7GxnPcr0nKwqfrjjbgS2IL0Y,75010
 vitessce/data_utils/__init__.py,sha256=3mWi1lMjoj4_dNbhMOvyE-HEJu0qpMzcmkhfz_5T6n8,361
 vitessce/data_utils/anndata.py,sha256=iLa5-bRezHgBzL_XCHO7w0pc0RQ4urzZbDsqJbBYeCk,10668
@@ -18,7 +18,7 @@ vitessce/data_utils/ome.py,sha256=aK-iGNgjUmUMsWgdZhW78VrtMBKMW_jIQDYnsupq6BE,54
 vitessce/widget_plugins/__init__.py,sha256=lto2GXnc7KwjIoT-jvzyRYLj0XTJG3uxoX45Hc9EcWA,82
 vitessce/widget_plugins/demo_plugin.py,sha256=14S7nOxdlKSxIHw9DUcNCN83NE_U1EMPy2D4k0FDues,1797
 vitessce/widget_plugins/spatial_query.py,sha256=CYxvmMT1Je_jguikPROQxlegkPgIIzemKGbZSJfZMyI,12314
-vitessce-3.6.0.dist-info/METADATA,sha256=LHEQzRra80wKjvCJnln_yQMvmULNcZsbsohcmaUlKL0,9756
-vitessce-3.6.0.dist-info/WHEEL,sha256=qtCwoSJWgHk21S1Kb4ihdzI2rlJ1ZKaIurTj_ngOhyQ,87
-vitessce-3.6.0.dist-info/licenses/LICENSE,sha256=sNNpI0PQ57AW8_XnTAjU5Yw8YBA_DRNkVHrHYpCIhRU,1067
-vitessce-3.6.0.dist-info/RECORD,,
+vitessce-3.6.2.dist-info/METADATA,sha256=oFYSpxrfXHugNhDmIB_EBdJhIZBSRgCTKdxq5cLhAIQ,9826
+vitessce-3.6.2.dist-info/WHEEL,sha256=qtCwoSJWgHk21S1Kb4ihdzI2rlJ1ZKaIurTj_ngOhyQ,87
+vitessce-3.6.2.dist-info/licenses/LICENSE,sha256=sNNpI0PQ57AW8_XnTAjU5Yw8YBA_DRNkVHrHYpCIhRU,1067
+vitessce-3.6.2.dist-info/RECORD,,