deploy: 908a916

_sources/content/00_Download_Data.ipynb

@@ -2,7 +2,7 @@
  "cells": [
   {
    "cell_type": "markdown",
-   "id": "34c7605b",
+   "id": "c009ceea",
    "metadata": {},
    "source": [
     "# Download Data\n",
@@ -40,7 +40,7 @@
   {
    "cell_type": "code",
    "execution_count": 1,
-   "id": "9362ba0d",
+   "id": "0f41cf5f",
    "metadata": {},
    "outputs": [
     {
@@ -63,7 +63,7 @@
      "text": [
       "Downloading...\n",
       "From (original): https://drive.google.com/uc?id=1SVPP1vd2UobKf1djztpi-DcYAFOFXQtF\n",
-      "From (redirected): https://drive.google.com/uc?id=1SVPP1vd2UobKf1djztpi-DcYAFOFXQtF&confirm=t&uuid=9774bffd-740c-41f3-9397-feda8a5c4892\n",
+      "From (redirected): https://drive.google.com/uc?id=1SVPP1vd2UobKf1djztpi-DcYAFOFXQtF&confirm=t&uuid=74e32a11-b046-4d4d-9508-1d1463aaf0ea\n",
       "To: /home/runner/work/multi-echo-data-analysis/multi-echo-data-analysis/data/multi-echo-data-analysis/sub-04570.zip\n",
       "\r",
       "  0%|          | 0.00/315M [00:00<?, ?B/s]"
@@ -74,127 +74,104 @@
      "output_type": "stream",
      "text": [
       "\r",
-      "  2%|▏         | 4.72M/315M [00:00<00:24, 12.8MB/s]\r",
-      "  6%|▌         | 17.3M/315M [00:00<00:07, 41.6MB/s]"
+      "  2%|▏         | 4.72M/315M [00:00<00:22, 13.5MB/s]\r",
+      "  8%|▊         | 26.2M/315M [00:00<00:04, 71.7MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 11%|█         | 34.1M/315M [00:00<00:04, 62.0MB/s]"
+      " 13%|█▎        | 39.3M/315M [00:00<00:04, 63.7MB/s]\r",
+      " 16%|█▌        | 50.9M/315M [00:00<00:04, 65.1MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 14%|█▎        | 42.5M/315M [00:00<00:05, 51.4MB/s]\r",
-      " 20%|██        | 63.4M/315M [00:01<00:02, 84.4MB/s]"
+      " 22%|██▏       | 67.6M/315M [00:01<00:03, 67.6MB/s]\r",
+      " 28%|██▊       | 89.1M/315M [00:01<00:02, 96.3MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 24%|██▍       | 75.0M/315M [00:01<00:02, 83.8MB/s]\r",
-      " 27%|██▋       | 85.5M/315M [00:01<00:02, 85.2MB/s]"
+      " 32%|███▏      | 102M/315M [00:01<00:02, 73.8MB/s] \r",
+      " 38%|███▊      | 118M/315M [00:01<00:02, 83.2MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 32%|███▏      | 101M/315M [00:01<00:02, 86.1MB/s] \r",
-      " 35%|███▌      | 111M/315M [00:01<00:02, 86.4MB/s]"
+      " 43%|████▎     | 135M/315M [00:01<00:02, 82.6MB/s]\r",
+      " 48%|████▊     | 152M/315M [00:01<00:01, 94.4MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 38%|███▊      | 121M/315M [00:01<00:02, 83.5MB/s]\r",
-      " 45%|████▌     | 143M/315M [00:01<00:01, 116MB/s] "
+      " 53%|█████▎    | 167M/315M [00:02<00:01, 106MB/s] "
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 50%|████▉     | 156M/315M [00:01<00:01, 100MB/s]\r",
-      " 53%|█████▎    | 167M/315M [00:02<00:01, 101MB/s]"
+      " 57%|█████▋    | 179M/315M [00:02<00:02, 66.4MB/s]\r",
+      " 62%|██████▏   | 196M/315M [00:02<00:01, 81.9MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
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-      " 61%|██████    | 192M/315M [00:02<00:01, 100MB/s]"
+      " 66%|██████▌   | 207M/315M [00:02<00:01, 74.5MB/s]\r",
+      " 72%|███████▏  | 227M/315M [00:02<00:00, 90.9MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 65%|██████▍   | 203M/315M [00:02<00:01, 97.8MB/s]\r",
-      " 70%|██████▉   | 219M/315M [00:02<00:00, 103MB/s] "
+      " 76%|███████▌  | 239M/315M [00:03<00:00, 87.1MB/s]\r",
+      " 80%|████████  | 252M/315M [00:03<00:00, 89.2MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 74%|███████▍  | 234M/315M [00:02<00:00, 114MB/s]\r",
-      " 78%|███████▊  | 246M/315M [00:02<00:00, 92.9MB/s]"
+      " 86%|████████▌ | 269M/315M [00:03<00:00, 95.0MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 82%|████████▏ | 257M/315M [00:02<00:00, 96.3MB/s]\r",
-      " 86%|████████▌ | 269M/315M [00:03<00:00, 96.5MB/s]"
-     ]
-    },
-    {
-     "name": "stderr",
-     "output_type": "stream",
-     "text": [
-      "\r",
-      " 91%|█████████ | 286M/315M [00:03<00:00, 103MB/s] \r",
-      " 96%|█████████▌| 303M/315M [00:03<00:00, 101MB/s]"
-     ]
-    },
-    {
-     "name": "stderr",
-     "output_type": "stream",
-     "text": [
-      "\r",
-      "100%|██████████| 315M/315M [00:03<00:00, 91.0MB/s]\n"
-     ]
-    },
-    {
-     "name": "stdout",
-     "output_type": "stream",
-     "text": [
-      "patool: Extracting ./../data/multi-echo-data-analysis/sub-04570.zip ...\n"
+      " 91%|█████████ | 286M/315M [00:03<00:00, 90.9MB/s]\r",
+      " 98%|█████████▊| 309M/315M [00:03<00:00, 119MB/s] \r",
+      "100%|██████████| 315M/315M [00:03<00:00, 86.1MB/s]\n"
      ]
     },
     {
      "name": "stdout",
      "output_type": "stream",
      "text": [
+      "patool: Extracting ./../data/multi-echo-data-analysis/sub-04570.zip ...\n",
       "patool: running /usr/bin/7z x -y -o./../data/multi-echo-data-analysis -- ./../data/multi-echo-data-analysis/sub-04570.zip\n"
      ]
     },

_sources/content/01_Optimal_Combination_with_t2smap.ipynb

@@ -2,7 +2,7 @@
  "cells": [
   {
    "cell_type": "markdown",
-   "id": "23526fd0",
+   "id": "2cfbb70d",
    "metadata": {},
    "source": [
     "# Optimal combination with `t2smap`\n",
@@ -13,16 +13,9 @@
   {
    "cell_type": "code",
    "execution_count": 1,
-   "id": "76603f32",
+   "id": "d8effc7e",
    "metadata": {},
    "outputs": [
-    {
-     "name": "stderr",
-     "output_type": "stream",
-     "text": [
-      "Matplotlib is building the font cache; this may take a moment.\n"
-     ]
-    },
     {
      "name": "stdout",
      "output_type": "stream",
@@ -61,7 +54,7 @@
   {
    "cell_type": "code",
    "execution_count": 2,
-   "id": "e946e01e",
+   "id": "5fa33370",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -98,7 +91,7 @@
   {
    "cell_type": "code",
    "execution_count": 3,
-   "id": "0a26f63e",
+   "id": "1f7c3a3b",
    "metadata": {},
    "outputs": [
     {
@@ -165,7 +158,7 @@
   {
    "cell_type": "code",
    "execution_count": 4,
-   "id": "14e07063",
+   "id": "9cc57be3",
    "metadata": {},
    "outputs": [
     {
@@ -191,7 +184,7 @@
   {
    "cell_type": "code",
    "execution_count": 5,
-   "id": "599d551a",
+   "id": "77acf695",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -209,7 +202,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "0ad9f024",
+   "id": "6909f447",
    "metadata": {},
    "source": [
     "```{glue:figure} figure_t2starmap\n",
@@ -223,7 +216,7 @@
   {
    "cell_type": "code",
    "execution_count": 6,
-   "id": "3ad5e829",
+   "id": "0fc1ada6",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -241,7 +234,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "4a6b1dff",
+   "id": "fe45c4f1",
    "metadata": {},
    "source": [
     "```{glue:figure} figure_s0map\n",
@@ -255,7 +248,7 @@
   {
    "cell_type": "code",
    "execution_count": 7,
-   "id": "a0bdb73f",
+   "id": "e8216048",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -314,7 +307,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "daefdd43",
+   "id": "c553a6e7",
    "metadata": {},
    "source": [
     "```{glue:figure} figure_t2smap_epi_plots\n",
@@ -328,7 +321,7 @@
   {
    "cell_type": "code",
    "execution_count": 8,
-   "id": "a5a8a471",
+   "id": "ec9e5186",
    "metadata": {},
    "outputs": [
     {
@@ -392,7 +385,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "043a8e72",
+   "id": "8920d818",
    "metadata": {},
    "source": [
     "```{glue:figure} figure_t2smap_t2snr\n",
@@ -406,7 +399,7 @@
   {
    "cell_type": "code",
    "execution_count": 9,
-   "id": "931de2c2",
+   "id": "ba8ea28e",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -421,7 +414,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "2af30d35",
+   "id": "d8f7a5ed",
    "metadata": {},
    "source": [
     "```{glue:figure} figure_echo2_carpet\n",
@@ -435,7 +428,7 @@
   {
    "cell_type": "code",
    "execution_count": 10,
-   "id": "b59b487e",
+   "id": "d1802379",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -449,7 +442,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "8c7361a4",
+   "id": "a17435f7",
    "metadata": {},
    "source": [
     "```{glue:figure} figure_optcom_carpet\n",