updated: examples

rraadd88 · Nov 29, 2023 · 271b60a · 271b60a
1 parent ec66670
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diff --git a/examples/filter_image_by_intensity.ipynb b/examples/filter_image_by_intensity.ipynb
diff --git a/examples/io_read_nd2.ipynb → examples/io_read_nd2_2d.ipynb b/examples/io_read_nd2.ipynb → examples/io_read_nd2_2d.ipynb
@@ -70,27 +70,138 @@
     "f1 = nd2.ND2File(input_path)"
    ]
   },
+  {
+   "cell_type": "markdown",
+   "id": "1f85bab5-664c-4a43-9aa9-7dbd34676234",
+   "metadata": {
+    "tags": []
+   },
+   "source": [
+    "## Image info"
+   ]
+  },
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "94298d6c-e340-46e9-87dd-3ff4a68e2430",
+   "id": "f4fc8d29-ad63-4140-91b3-03c47b92b114",
+   "metadata": {
+    "scrolled": true,
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "print(('\\n'+'-'*50+'\\n').join([f\"{k}\\n{'-'*50}\\n{v}\" for k,v in f1.text_info.items()]))"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "a6c1c95c-61cd-43f9-9057-051d11fe7305",
    "metadata": {},
+   "source": [
+    "### Dimensions"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "73e6b318-a1f7-4ddf-a547-95aa7a370c27",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "print(f1.sizes)"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "a7d88097-2221-4a38-9b23-bbbbf37fb66e",
+   "metadata": {},
+   "source": [
+    "### Channel names"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "12d13301-abe6-4233-86f6-8b18b48b975b",
+   "metadata": {
+    "papermill": {
+     "duration": 0.007727,
+     "end_time": "2023-11-27T21:39:31.817738",
+     "exception": false,
+     "start_time": "2023-11-27T21:39:31.810011",
+     "status": "completed"
+    },
+    "tags": []
+   },
    "outputs": [],
    "source": [
     "channels={d.channel.index:d.channel.name.lower() for d in f1.metadata.channels}\n",
     "logging.info(channels)"
    ]
   },
+  {
+   "cell_type": "markdown",
+   "id": "e9730175-0bb8-4b67-a57c-afdb51f2a7c9",
+   "metadata": {},
+   "source": [
+    "### Dimension names"
+   ]
+  },
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "badcfe78-487f-400b-b826-7f3cba638a18",
-   "metadata": {},
+   "id": "5059c536-da03-4023-9160-7f534b4fe8ee",
+   "metadata": {
+    "papermill": {
+     "duration": 0.006059,
+     "end_time": "2023-11-27T21:39:31.825263",
+     "exception": false,
+     "start_time": "2023-11-27T21:39:31.819204",
+     "status": "completed"
+    },
+    "tags": []
+   },
    "outputs": [],
    "source": [
     "print(f1.metadata.contents)"
    ]
   },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "540ff76c-e188-462c-a199-e0895fd0cd37",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "## alt method for getting the lables\n",
+    "{getattr(f1.metadata.contents,s):s.replace('Count','') for s in dir(f1.metadata.contents) if not s.startswith('_')}"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "8b1d232c-fa84-4b36-bbba-ace46d6711ed",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "## alt method for getting the lables\n",
+    "{getattr(f1.attributes,k):k.replace('Count','') for k in dir(f1.attributes) if not k.startswith('_') and k.endswith('Count') and not k.startswith('component')}"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "826b70a0-37a4-4b4e-abd8-7e6e2b70c8bf",
+   "metadata": {},
+   "source": [
+    "## Save the 2D arrays"
+   ]
+  },
   {
    "cell_type": "code",
    "execution_count": null,