deploy: 9ea8103

_sources/content/00_Download_Data.ipynb

@@ -2,7 +2,7 @@
  "cells": [
   {
    "cell_type": "markdown",
-   "id": "0fb642fa",
+   "id": "4cc7156f",
    "metadata": {},
    "source": [
     "# Download Data\n",
@@ -40,7 +40,7 @@
   {
    "cell_type": "code",
    "execution_count": 1,
-   "id": "c54fc665",
+   "id": "7e8f50ac",
    "metadata": {},
    "outputs": [
     {
@@ -63,84 +63,93 @@
      "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=3667c5f9-b8ce-449a-9652-00daf2b3213f\n",
+      "From (redirected): https://drive.google.com/uc?id=1SVPP1vd2UobKf1djztpi-DcYAFOFXQtF&confirm=t&uuid=be3ecd0a-fc84-4618-b5cf-53d7aff42baf\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]\r",
-      "  3%|▎         | 9.96M/315M [00:00<00:03, 99.6MB/s]"
+      "  3%|▎         | 9.44M/315M [00:00<00:03, 92.6MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      "  9%|▉         | 27.8M/315M [00:00<00:01, 146MB/s] \r",
-      " 15%|█▍        | 45.6M/315M [00:00<00:01, 160MB/s]"
+      "  9%|▉         | 28.3M/315M [00:00<00:01, 148MB/s] \r",
+      " 14%|█▍        | 43.5M/315M [00:00<00:01, 142MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 20%|██        | 63.4M/315M [00:00<00:01, 166MB/s]\r",
-      " 26%|██▌       | 82.3M/315M [00:00<00:01, 174MB/s]"
+      " 20%|█▉        | 61.3M/315M [00:00<00:01, 156MB/s]\r",
+      " 25%|██▍       | 77.1M/315M [00:00<00:01, 147MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 32%|███▏      | 100M/315M [00:00<00:01, 171MB/s] \r",
-      " 37%|███▋      | 117M/315M [00:00<00:01, 170MB/s]"
+      " 31%|███       | 96.5M/315M [00:00<00:01, 161MB/s]\r",
+      " 36%|███▌      | 113M/315M [00:00<00:01, 146MB/s] "
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 44%|████▎     | 137M/315M [00:00<00:01, 176MB/s]\r",
-      " 49%|████▉     | 155M/315M [00:00<00:00, 170MB/s]"
+      " 41%|████      | 128M/315M [00:00<00:01, 147MB/s]\r",
+      " 46%|████▌     | 143M/315M [00:01<00:01, 123MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 55%|█████▍    | 172M/315M [00:01<00:00, 172MB/s]\r",
-      " 61%|██████    | 191M/315M [00:01<00:00, 175MB/s]"
+      " 51%|█████     | 161M/315M [00:01<00:01, 137MB/s]\r",
+      " 56%|█████▌    | 176M/315M [00:01<00:01, 136MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 66%|██████▋   | 209M/315M [00:01<00:00, 175MB/s]\r",
-      " 73%|███████▎  | 228M/315M [00:01<00:00, 180MB/s]\r",
-      " 79%|███████▉  | 248M/315M [00:01<00:00, 186MB/s]"
+      " 61%|██████    | 192M/315M [00:01<00:00, 142MB/s]\r",
+      " 66%|██████▌   | 208M/315M [00:01<00:00, 147MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 85%|████████▌ | 268M/315M [00:01<00:00, 191MB/s]\r",
-      " 92%|█████████▏| 288M/315M [00:01<00:00, 189MB/s]"
+      " 71%|███████▏  | 224M/315M [00:01<00:00, 151MB/s]\r",
+      " 76%|███████▋  | 240M/315M [00:01<00:00, 148MB/s]"
      ]
     },
     {
      "name": "stderr",
      "output_type": "stream",
      "text": [
       "\r",
-      " 98%|█████████▊| 307M/315M [00:01<00:00, 187MB/s]\r",
-      "100%|██████████| 315M/315M [00:01<00:00, 176MB/s]\n",
+      " 82%|████████▏ | 257M/315M [00:01<00:00, 154MB/s]\r",
+      " 87%|████████▋ | 273M/315M [00:01<00:00, 142MB/s]"
+     ]
+    },
+    {
+     "name": "stderr",
+     "output_type": "stream",
+     "text": [
+      "\r",
+      " 92%|█████████▏| 290M/315M [00:02<00:00, 144MB/s]\r",
+      " 97%|█████████▋| 305M/315M [00:02<00:00, 144MB/s]\r",
+      "100%|██████████| 315M/315M [00:02<00:00, 145MB/s]\n",
       "INFO patool: Extracting ./../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": "1bf5b78b",
+   "id": "a389ac51",
    "metadata": {},
    "source": [
     "# Optimal combination with `t2smap`\n",
@@ -13,7 +13,7 @@
   {
    "cell_type": "code",
    "execution_count": 1,
-   "id": "6561813c",
+   "id": "90659d6b",
    "metadata": {},
    "outputs": [
     {
@@ -54,7 +54,7 @@
   {
    "cell_type": "code",
    "execution_count": 2,
-   "id": "db0d9428",
+   "id": "0a844410",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -91,7 +91,7 @@
   {
    "cell_type": "code",
    "execution_count": 3,
-   "id": "007a118a",
+   "id": "08fbd243",
    "metadata": {},
    "outputs": [
     {
@@ -158,7 +158,7 @@
   {
    "cell_type": "code",
    "execution_count": 4,
-   "id": "580d0cb8",
+   "id": "8fdeff65",
    "metadata": {},
    "outputs": [
     {
@@ -184,7 +184,7 @@
   {
    "cell_type": "code",
    "execution_count": 5,
-   "id": "5692b9b1",
+   "id": "926db23f",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -202,7 +202,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "6f0e197b",
+   "id": "2a2a8139",
    "metadata": {},
    "source": [
     "```{glue:figure} figure_t2starmap\n",
@@ -216,7 +216,7 @@
   {
    "cell_type": "code",
    "execution_count": 6,
-   "id": "fe47a28d",
+   "id": "d058caeb",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -234,7 +234,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "516f7cbd",
+   "id": "da384db7",
    "metadata": {},
    "source": [
     "```{glue:figure} figure_s0map\n",
@@ -248,7 +248,7 @@
   {
    "cell_type": "code",
    "execution_count": 7,
-   "id": "3c842c34",
+   "id": "af480620",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -307,7 +307,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "bbe69475",
+   "id": "0526d0d5",
    "metadata": {},
    "source": [
     "```{glue:figure} figure_t2smap_epi_plots\n",
@@ -321,7 +321,7 @@
   {
    "cell_type": "code",
    "execution_count": 8,
-   "id": "d426ba5b",
+   "id": "7a588210",
    "metadata": {},
    "outputs": [
     {
@@ -385,7 +385,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "25b04728",
+   "id": "854ef453",
    "metadata": {},
    "source": [
     "```{glue:figure} figure_t2smap_t2snr\n",
@@ -399,7 +399,7 @@
   {
    "cell_type": "code",
    "execution_count": 9,
-   "id": "a8458fb7",
+   "id": "eb6301f6",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -414,7 +414,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "1fe5edfa",
+   "id": "08ed78c4",
    "metadata": {},
    "source": [
     "```{glue:figure} figure_echo2_carpet\n",
@@ -428,7 +428,7 @@
   {
    "cell_type": "code",
    "execution_count": 10,
-   "id": "d00baa4e",
+   "id": "5deedbf3",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -442,7 +442,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "375eb62b",
+   "id": "1fba0862",
    "metadata": {},
    "source": [
     "```{glue:figure} figure_optcom_carpet\n",