Add welcome notebook

notebooks/Welcome.ipynb

+{
+ "cells": [
+  {
+   "cell_type": "markdown",
+   "id": "0ef87507-4419-480b-9e05-2e1444af60d1",
+   "metadata": {},
+   "source": [
+    "<center><img src=\"https://s3.glicid.fr/nuts/workshop-banner.svg\"/></center>\n",
+    "\n",
+    "# Welcome to the NuTS workshop praticals\n",
+    "\n",
+    "Here is a list of the notebook that we will exercice during this workshop:\n",
+    "- [Machine learning using MNIST classification with fully connected neural network](machine-learning/notebooks/session_1a_fcnn.ipynb)\n",
+    "- [Machine learning using MNIST classification with a convolutional connected neural network](machine-learning/notebooks/session_1b_cnn.ipynb)\n",
+    "- [Machine learning using Seisbench and PhaseNet](machine-learning/notebooks/session_2_phasnet.ipynb)\n",
+    "\n",
+    "This jupyter environment is already already preconfigured for you and you juste have to click on the links above to open the notebooks and play with them.\n",
+    "You can download the notebook manually (with the file explorer on the left) or you can clone the [source files from the NuTS Gitlab repo](https://gitlab.univ-nantes.fr/nuts/tp).\n",
+    "If you wish to report an [issue you can also send us an email](mailto:gitlab-incoming+nuts-tp-machine-learning-18610-issue-@univ-nantes.fr) ✉️."
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "096bcfe7-b208-4567-b9ee-8290b8dc325e",
+   "metadata": {},
+   "source": [
+    "## Test your Jupyter environement"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 1,
+   "id": "87eeb059-2ba9-47b4-ad4d-3a50e9d75741",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "import psutil"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 2,
+   "id": "f07d76ac-e6d0-4fe5-8130-0fdd36ac815c",
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "CPU core:      32\n",
+      "CPU threads:   64\n",
+      "RAM total:     251.5 GB\n",
+      "RAM available: 243.2 GB\n"
+     ]
+    }
+   ],
+   "source": [
+    "print('CPU core:     ', psutil.cpu_count(logical=False))\n",
+    "print('CPU threads:  ', psutil.cpu_count(logical=True))\n",
+    "print('RAM total:    ', round(psutil.virtual_memory().total / 1024**3, 1), 'GB')\n",
+    "print('RAM available:', round(psutil.virtual_memory().available / 1024**3, 1), 'GB')"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "adc1930d-503c-4caf-b79a-c226b39ddf7d",
+   "metadata": {},
+   "source": [
+    "## Pytorch"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 3,
+   "id": "54da43ac-74ed-4505-996b-0c51f8d5dbb4",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "import torch"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 4,
+   "id": "7bc5a46e-caac-4ac6-94c8-efd317a9b8d2",
+   "metadata": {},
+   "outputs": [
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "Pytorch verison: 1.13.1\n",
+      "Using device: cuda\n",
+      "Cuda version: 11.7\n",
+      "\n",
+      "NVIDIA A100-PCIE-40GB\n",
+      "Memory Usage:\n",
+      "Allocated: 0.0 GB\n",
+      "Cached:    0.0 GB\n",
+      "\n",
+      "NVIDIA A100-PCIE-40GB\n",
+      "Memory Usage:\n",
+      "Allocated: 0.0 GB\n",
+      "Cached:    0.0 GB\n"
+     ]
+    }
+   ],
+   "source": [
+    "print('Pytorch verison:', torch.__version__)\n",
+    "\n",
+    "device = torch.device('cuda' if torch.cuda.is_available() else 'cpu')\n",
+    "print('Using device:', device)\n",
+    "\n",
+    "if device.type == 'cuda':\n",
+    "    print('Cuda version:', torch.version.cuda)\n",
+    "    for i in range(torch.cuda.device_count()):\n",
+    "        print()\n",
+    "        print(torch.cuda.get_device_name(i))\n",
+    "        print('Memory Usage:')\n",
+    "        print('Allocated:', round(torch.cuda.memory_allocated(i) / 1024 ** 3, 1), 'GB')\n",
+    "        print('Cached:   ', round(torch.cuda.memory_reserved(i) / 1024 ** 3, 1), 'GB')"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "55e02b91-907b-469a-b7e8-6de4d2c16599",
+   "metadata": {},
+   "source": [
+    "## Seisbench"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 5,
+   "id": "e2c6e92d-c58c-473d-bdd0-5dddc4580c0f",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "from seisbench.data import Iquique, ETHZ"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 6,
+   "id": "af776464-eb23-4308-bf43-8244928d5d6b",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "name": "stderr",
+     "output_type": "stream",
+     "text": [
+      "2023-05-19 17:45:22,994 | seisbench | WARNING | Check available storage and memory before downloading and general use of ETHZ dataset. Dataset size: waveforms.hdf5 ~22Gb, metadata.csv ~13Mb\n",
+      "2023-05-19 17:45:23,201 | seisbench | WARNING | Data set contains mixed sampling rate, but no sampling rate was specified for the dataset.get_waveforms will return mixed sampling rate waveforms.\n"
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "ETHZ - 36743 traces\n"
+     ]
+    },
+    {
+     "data": {
+      "text/html": [
+       "<div>\n",
+       "<style scoped>\n",
+       "    .dataframe tbody tr th:only-of-type {\n",
+       "        vertical-align: middle;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe tbody tr th {\n",
+       "        vertical-align: top;\n",
+       "    }\n",
+       "\n",
+       "    .dataframe thead th {\n",
+       "        text-align: right;\n",
+       "    }\n",
+       "</style>\n",
+       "<table border=\"1\" class=\"dataframe\">\n",
+       "  <thead>\n",
+       "    <tr style=\"text-align: right;\">\n",
+       "      <th></th>\n",
+       "      <th>index</th>\n",
+       "      <th>source_id</th>\n",
+       "      <th>source_origin_time</th>\n",
+       "      <th>source_origin_uncertainty_sec</th>\n",
+       "      <th>source_latitude_deg</th>\n",
+       "      <th>source_latitude_uncertainty_km</th>\n",
+       "      <th>source_longitude_deg</th>\n",
+       "      <th>source_longitude_uncertainty_km</th>\n",
+       "      <th>source_depth_km</th>\n",
+       "      <th>source_depth_uncertainty_km</th>\n",
+       "      <th>...</th>\n",
+       "      <th>trace_Pn_status</th>\n",
+       "      <th>trace_Pn_polarity</th>\n",
+       "      <th>trace_P_arrival_sample</th>\n",
+       "      <th>trace_P_status</th>\n",
+       "      <th>trace_P_polarity</th>\n",
+       "      <th>trace_Sn_arrival_sample</th>\n",
+       "      <th>trace_Sn_status</th>\n",
+       "      <th>trace_Sn_polarity</th>\n",
+       "      <th>trace_chunk</th>\n",
+       "      <th>trace_component_order</th>\n",
+       "    </tr>\n",
+       "  </thead>\n",
+       "  <tbody>\n",
+       "    <tr>\n",
+       "      <th>0</th>\n",
+       "      <td>0</td>\n",
+       "      <td>2020zmwrjy</td>\n",
+       "      <td>2020-12-27T02:46:42.620452Z</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>47.147641</td>\n",
+       "      <td>0.620493</td>\n",
+       "      <td>6.371343</td>\n",
+       "      <td>0.927755</td>\n",
+       "      <td>10.965625</td>\n",
+       "      <td>2.116958</td>\n",
+       "      <td>...</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td></td>\n",
+       "      <td>ZNE</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>1</th>\n",
+       "      <td>1</td>\n",
+       "      <td>2020zmwrjy</td>\n",
+       "      <td>2020-12-27T02:46:42.620452Z</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>47.147641</td>\n",
+       "      <td>0.620493</td>\n",
+       "      <td>6.371343</td>\n",
+       "      <td>0.927755</td>\n",
+       "      <td>10.965625</td>\n",
+       "      <td>2.116958</td>\n",
+       "      <td>...</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td></td>\n",
+       "      <td>ZNE</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>2</th>\n",
+       "      <td>2</td>\n",
+       "      <td>2020zmwrjy</td>\n",
+       "      <td>2020-12-27T02:46:42.620452Z</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>47.147641</td>\n",
+       "      <td>0.620493</td>\n",
+       "      <td>6.371343</td>\n",
+       "      <td>0.927755</td>\n",
+       "      <td>10.965625</td>\n",
+       "      <td>2.116958</td>\n",
+       "      <td>...</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td></td>\n",
+       "      <td>ZNE</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>3</th>\n",
+       "      <td>3</td>\n",
+       "      <td>2020zmwrjy</td>\n",
+       "      <td>2020-12-27T02:46:42.620452Z</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>47.147641</td>\n",
+       "      <td>0.620493</td>\n",
+       "      <td>6.371343</td>\n",
+       "      <td>0.927755</td>\n",
+       "      <td>10.965625</td>\n",
+       "      <td>2.116958</td>\n",
+       "      <td>...</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td></td>\n",
+       "      <td>ZNE</td>\n",
+       "    </tr>\n",
+       "    <tr>\n",
+       "      <th>4</th>\n",
+       "      <td>4</td>\n",
+       "      <td>2020zmwrjy</td>\n",
+       "      <td>2020-12-27T02:46:42.620452Z</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>47.147641</td>\n",
+       "      <td>0.620493</td>\n",
+       "      <td>6.371343</td>\n",
+       "      <td>0.927755</td>\n",
+       "      <td>10.965625</td>\n",
+       "      <td>2.116958</td>\n",
+       "      <td>...</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td>NaN</td>\n",
+       "      <td></td>\n",
+       "      <td>ZNE</td>\n",
+       "    </tr>\n",
+       "  </tbody>\n",
+       "</table>\n",
+       "<p>5 rows × 58 columns</p>\n",
+       "</div>"
+      ],
+      "text/plain": [
+       "   index   source_id           source_origin_time   \n",
+       "0      0  2020zmwrjy  2020-12-27T02:46:42.620452Z  \\\n",
+       "1      1  2020zmwrjy  2020-12-27T02:46:42.620452Z   \n",
+       "2      2  2020zmwrjy  2020-12-27T02:46:42.620452Z   \n",
+       "3      3  2020zmwrjy  2020-12-27T02:46:42.620452Z   \n",
+       "4      4  2020zmwrjy  2020-12-27T02:46:42.620452Z   \n",
+       "\n",
+       "   source_origin_uncertainty_sec  source_latitude_deg   \n",
+       "0                            NaN            47.147641  \\\n",
+       "1                            NaN            47.147641   \n",
+       "2                            NaN            47.147641   \n",
+       "3                            NaN            47.147641   \n",
+       "4                            NaN            47.147641   \n",
+       "\n",
+       "   source_latitude_uncertainty_km  source_longitude_deg   \n",
+       "0                        0.620493              6.371343  \\\n",
+       "1                        0.620493              6.371343   \n",
+       "2                        0.620493              6.371343   \n",
+       "3                        0.620493              6.371343   \n",
+       "4                        0.620493              6.371343   \n",
+       "\n",
+       "   source_longitude_uncertainty_km  source_depth_km   \n",
+       "0                         0.927755        10.965625  \\\n",
+       "1                         0.927755        10.965625   \n",
+       "2                         0.927755        10.965625   \n",
+       "3                         0.927755        10.965625   \n",
+       "4                         0.927755        10.965625   \n",
+       "\n",
+       "   source_depth_uncertainty_km  ... trace_Pn_status  trace_Pn_polarity   \n",
+       "0                     2.116958  ...             NaN                NaN  \\\n",
+       "1                     2.116958  ...             NaN                NaN   \n",
+       "2                     2.116958  ...             NaN                NaN   \n",
+       "3                     2.116958  ...             NaN                NaN   \n",
+       "4                     2.116958  ...             NaN                NaN   \n",
+       "\n",
+       "   trace_P_arrival_sample trace_P_status trace_P_polarity   \n",
+       "0                     NaN            NaN              NaN  \\\n",
+       "1                     NaN            NaN              NaN   \n",
+       "2                     NaN            NaN              NaN   \n",
+       "3                     NaN            NaN              NaN   \n",
+       "4                     NaN            NaN              NaN   \n",
+       "\n",
+       "   trace_Sn_arrival_sample trace_Sn_status trace_Sn_polarity trace_chunk   \n",
+       "0                      NaN             NaN               NaN              \\\n",
+       "1                      NaN             NaN               NaN               \n",
+       "2                      NaN             NaN               NaN               \n",
+       "3                      NaN             NaN               NaN               \n",
+       "4                      NaN             NaN               NaN               \n",
+       "\n",
+       "  trace_component_order  \n",
+       "0                   ZNE  \n",
+       "1                   ZNE  \n",
+       "2                   ZNE  \n",
+       "3                   ZNE  \n",
+       "4                   ZNE  \n",
+       "\n",
+       "[5 rows x 58 columns]"
+      ]
+     },
+     "execution_count": 6,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "# data = Iquique()\n",
+    "data = ETHZ()\n",
+    "\n",
+    "print(data)\n",
+    "\n",
+    "data.metadata.head()"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "bbd05dfd-14a5-4d13-bd86-bf74b3b7f009",
+   "metadata": {},
+   "source": [
+    "## ObsPy API / HTTP proxy error"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 7,
+   "id": "bafe58a4-396c-42da-9754-e60d31f382fa",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [],
+   "source": [
+    "from obspy.clients.fdsn import Client"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": 8,
+   "id": "d4ff92bf-8137-4389-af95-48ff8a958e1f",
+   "metadata": {
+    "tags": []
+   },
+   "outputs": [
+    {
+     "data": {
+      "text/plain": [
+       "FDSN Webservice Client (base url: http://eida.ethz.ch)\n",
+       "Available Services: 'dataselect' (v1.1.1), 'event' (v1.2.4), 'station' (v1.1.4), 'available_event_catalogs', 'available_event_contributors', 'eida-auth'\n",
+       "\n",
+       "Use e.g. client.help('dataselect') for the\n",
+       "parameter description of the individual services\n",
+       "or client.help() for parameter description of\n",
+       "all webservices."
+      ]
+     },
+     "execution_count": 8,
+     "metadata": {},
+     "output_type": "execute_result"
+    }
+   ],
+   "source": [
+    "Client('ETH')"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "b4f41f45-c6b5-4ae1-9506-c6981f91343d",
+   "metadata": {},
+   "source": [
+    "<center><img src=\"https://s3.glicid.fr/nuts/workshop-footer.svg\"/></center>"
+   ]
+  }
+ ],
+ "metadata": {
+  "kernelspec": {
+   "display_name": "Python 3 (ipykernel)",
+   "language": "python",
+   "name": "python3"
+  },
+  "language_info": {
+   "codemirror_mode": {
+    "name": "ipython",
+    "version": 3
+   },
+   "file_extension": ".py",
+   "mimetype": "text/x-python",
+   "name": "python",
+   "nbconvert_exporter": "python",
+   "pygments_lexer": "ipython3",
+   "version": "3.10.6"
+  }
+ },
+ "nbformat": 4,
+ "nbformat_minor": 5
+}