Merge pull request #4 from Aco-Hub/cy/assets

Update presentation assets

Author: C-Achard

.gitignore

@@ -35,4 +35,5 @@ htmlcov/
 
 # DATA folder
 DATA/
-book/_build/
+book/_build/
+book/tracked/

book/_static/images/logo_round.png

@@ -262,15 +262,21 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 58,
+   "execution_count": 69,
    "id": "9bf2e196",
    "metadata": {},
    "outputs": [
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
-      "INFO:napari_ctc_io.reader:Loaded tracks from C:\\Users\\Cyril\\Desktop\\Code\\tumorscope\\DATA\\tracked\\man_track.txt\n",
+      "INFO:napari_ctc_io.reader:Loaded tracks from C:\\Users\\Cyril\\Desktop\\Code\\tumorscope\\DATA\\tracked\\man_track.txt\n"
+     ]
+    },
+    {
+     "name": "stderr",
+     "output_type": "stream",
+     "text": [
       "INFO:napari_ctc_io.reader:Running CTC format checks\n",
       "WARNING:napari_ctc_io.reader:1 non-connected masks at t=1.\n",
       "WARNING:napari_ctc_io.reader:1 non-connected masks at t=2.\n",
@@ -401,7 +407,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 59,
+   "execution_count": 70,
    "id": "185c7bf1",
    "metadata": {},
    "outputs": [],
@@ -423,7 +429,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 60,
+   "execution_count": 71,
    "id": "cc41fefb",
    "metadata": {},
    "outputs": [],
@@ -444,7 +450,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 61,
+   "execution_count": 72,
    "id": "5f36ef88",
    "metadata": {},
    "outputs": [],
@@ -454,7 +460,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 62,
+   "execution_count": 73,
    "id": "4f46f63d",
    "metadata": {},
    "outputs": [
@@ -489,7 +495,7 @@
         }
        ],
        "conversionMethod": "pd.DataFrame",
-       "ref": "2e0ec2cc-c458-4677-87bc-790c67f820af",
+       "ref": "34736d26-a2d1-49e1-9b23-c5740b24207e",
        "rows": [
         [
          "0",
@@ -972,7 +978,7 @@
        "[23183 rows x 4 columns]"
       ]
      },
-     "execution_count": 62,
+     "execution_count": 73,
      "metadata": {},
      "output_type": "execute_result"
     }
@@ -991,15 +997,25 @@
   },
   {
    "cell_type": "code",
-   "execution_count": null,
+   "execution_count": 75,
    "id": "ac2cb037",
    "metadata": {},
-   "outputs": [],
+   "outputs": [
+    {
+     "name": "stderr",
+     "output_type": "stream",
+     "text": [
+      "Saving masks: 100%|██████████| 162/162 [00:03<00:00, 49.56it/s]\n"
+     ]
+    }
+   ],
    "source": [
     "from tqdm import tqdm\n",
     "import tifffile\n",
     "\n",
     "outdir = Path(\"./tracked\")\n",
+    "if not outdir.exists():\n",
+    "    outdir.mkdir(parents=False, exist_ok=True)\n",
     "\n",
     "filtered_tracks_df.to_csv(outdir / \"man_track.txt\", index=False, header=False, sep=\" \")\n",
     "for i, m in tqdm(enumerate(masks), total=len(masks), desc=\"Saving masks\"):\n",