{
 "cells": [
  {
   "cell_type": "code",
   "execution_count": 1,
   "id": "28a48d50",
   "metadata": {
    "scrolled": true
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Requirement already satisfied: biopython in /home/lmasa/miniconda3/lib/python3.12/site-packages (1.83)\n",
      "Requirement already satisfied: numpy in /home/lmasa/miniconda3/lib/python3.12/site-packages (from biopython) (1.26.4)\n"
     ]
    }
   ],
   "source": [
    "!pip install biopython"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "id": "322cad3f",
   "metadata": {
    "scrolled": true
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Requirement already satisfied: geoparse in /home/lmasa/miniconda3/lib/python3.12/site-packages (2.0.4)\n",
      "Requirement already satisfied: numpy>=1.7 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from geoparse) (1.26.4)\n",
      "Requirement already satisfied: pandas>=0.17 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from geoparse) (2.2.2)\n",
      "Requirement already satisfied: requests>=2.21.0 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from geoparse) (2.31.0)\n",
      "Requirement already satisfied: tqdm>=4.31.1 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from geoparse) (4.65.0)\n",
      "Requirement already satisfied: python-dateutil>=2.8.2 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from pandas>=0.17->geoparse) (2.8.2)\n",
      "Requirement already satisfied: pytz>=2020.1 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from pandas>=0.17->geoparse) (2023.3.post1)\n",
      "Requirement already satisfied: tzdata>=2022.7 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from pandas>=0.17->geoparse) (2024.1)\n",
      "Requirement already satisfied: charset-normalizer<4,>=2 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from requests>=2.21.0->geoparse) (2.0.4)\n",
      "Requirement already satisfied: idna<4,>=2.5 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from requests>=2.21.0->geoparse) (3.4)\n",
      "Requirement already satisfied: urllib3<3,>=1.21.1 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from requests>=2.21.0->geoparse) (2.1.0)\n",
      "Requirement already satisfied: certifi>=2017.4.17 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from requests>=2.21.0->geoparse) (2024.2.2)\n",
      "Requirement already satisfied: six>=1.5 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from python-dateutil>=2.8.2->pandas>=0.17->geoparse) (1.16.0)\n"
     ]
    }
   ],
   "source": [
    "!pip install geoparse"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "id": "a84213b2",
   "metadata": {
    "scrolled": true
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Requirement already satisfied: geopandas in /home/lmasa/miniconda3/lib/python3.12/site-packages (0.14.4)\n",
      "Requirement already satisfied: fiona>=1.8.21 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from geopandas) (1.9.6)\n",
      "Requirement already satisfied: numpy>=1.22 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from geopandas) (1.26.4)\n",
      "Requirement already satisfied: packaging in /home/lmasa/miniconda3/lib/python3.12/site-packages (from geopandas) (23.1)\n",
      "Requirement already satisfied: pandas>=1.4.0 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from geopandas) (2.2.2)\n",
      "Requirement already satisfied: pyproj>=3.3.0 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from geopandas) (3.6.1)\n",
      "Requirement already satisfied: shapely>=1.8.0 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from geopandas) (2.0.4)\n",
      "Requirement already satisfied: attrs>=19.2.0 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from fiona>=1.8.21->geopandas) (23.1.0)\n",
      "Requirement already satisfied: certifi in /home/lmasa/miniconda3/lib/python3.12/site-packages (from fiona>=1.8.21->geopandas) (2024.2.2)\n",
      "Requirement already satisfied: click~=8.0 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from fiona>=1.8.21->geopandas) (8.1.7)\n",
      "Requirement already satisfied: click-plugins>=1.0 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from fiona>=1.8.21->geopandas) (1.1.1)\n",
      "Requirement already satisfied: cligj>=0.5 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from fiona>=1.8.21->geopandas) (0.7.2)\n",
      "Requirement already satisfied: six in /home/lmasa/miniconda3/lib/python3.12/site-packages (from fiona>=1.8.21->geopandas) (1.16.0)\n",
      "Requirement already satisfied: python-dateutil>=2.8.2 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from pandas>=1.4.0->geopandas) (2.8.2)\n",
      "Requirement already satisfied: pytz>=2020.1 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from pandas>=1.4.0->geopandas) (2023.3.post1)\n",
      "Requirement already satisfied: tzdata>=2022.7 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from pandas>=1.4.0->geopandas) (2024.1)\n"
     ]
    }
   ],
   "source": [
    "!pip install geopandas"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "id": "b0ac0c04-168b-4183-abb4-412383f9db05",
   "metadata": {
    "scrolled": true
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Requirement already satisfied: pyspark in /home/lmasa/miniconda3/lib/python3.12/site-packages (3.5.1)\n",
      "Requirement already satisfied: py4j==0.10.9.7 in /home/lmasa/miniconda3/lib/python3.12/site-packages (from pyspark) (0.10.9.7)\n"
     ]
    }
   ],
   "source": [
    "!pip install pyspark"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 1,
   "id": "8e7956d3",
   "metadata": {},
   "outputs": [],
   "source": [
    "import requests\n",
    "from Bio import Entrez\n",
    "import GEOparse\n",
    "import os\n",
    "import gzip\n",
    "import shutil\n",
    "import pandas as pd\n",
    "from os.path import join\n",
    "from collections import defaultdict\n",
    "import numpy as np\n",
    "import csv\n",
    "import download_files\n",
    "import polars as pl\n",
    "import mysql.connector\n",
    "from mysql.connector import errorcode"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "id": "11c53552",
   "metadata": {
    "scrolled": true
   },
   "outputs": [],
   "source": [
    "#disease names and ids \n",
    "diseases_tsv_file='../data/raw/data_01_neuro_diseases_final_disease_selected.tsv'\n",
    "disease_names=download_files.extract_tsv(diseases_tsv_file)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "id": "0af72d99-57be-48ae-bef7-a6692cc53ff2",
   "metadata": {
    "scrolled": true
   },
   "outputs": [],
   "source": [
    "#email and path to store the GDS files\n",
    "email_request='l.masa@alumnos.upm.es'\n",
    "gds_path=\"../data/gds\""
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "b6361761-21a1-412a-b342-6f5b0e0af402",
   "metadata": {
    "scrolled": true
   },
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "29-May-2024 10:08:57 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:08:57 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3864/soft/GDS3864.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS3864.soft.gz\n",
      "100%|██████████████████████████████████████████████████████████████████████████████████████████| 3.26M/3.26M [00:01<00:00, 1.71MB/s]\n",
      "29-May-2024 10:09:00 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:09:00 DEBUG downloader - Moving /tmp/tmp1n5w3mdb to /home/lmasa/GEO_Laura/Data/gds/GDS3864.soft.gz\n",
      "29-May-2024 10:09:00 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3864/soft/GDS3864.soft.gz\n",
      "29-May-2024 10:09:00 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS3864.soft.gz: \n",
      "29-May-2024 10:09:00 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - DATASET: GDS3864\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - SUBSET: GDS3864_1\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - SUBSET: GDS3864_2\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - SUBSET: GDS3864_3\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - SUBSET: GDS3864_4\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - SUBSET: GDS3864_5\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - SUBSET: GDS3864_6\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - SUBSET: GDS3864_7\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - SUBSET: GDS3864_8\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - SUBSET: GDS3864_9\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - SUBSET: GDS3864_10\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - SUBSET: GDS3864_11\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - SUBSET: GDS3864_12\n",
      "29-May-2024 10:09:00 DEBUG GEOparse - DATASET: GDS3864\n",
      "29-May-2024 10:09:03 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:09:03 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS1nnn/GDS1962/soft/GDS1962.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS1962.soft.gz\n",
      " 28%|█████████████████████████▏                                                                | 5.85M/20.9M [00:02<00:02, 6.26MB/s]29-May-2024 10:13:31 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:13:31 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS4nnn/GDS4879/soft/GDS4879.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS4879.soft.gz\n",
      "100%|██████████████████████████████████████████████████████████████████████████████████████████| 3.91M/3.91M [00:02<00:00, 1.93MB/s]\n",
      "29-May-2024 10:13:34 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:13:34 DEBUG downloader - Moving /tmp/tmpboa6aqc5 to /home/lmasa/GEO_Laura/Data/gds/GDS4879.soft.gz\n",
      "29-May-2024 10:13:34 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS4nnn/GDS4879/soft/GDS4879.soft.gz\n",
      "29-May-2024 10:13:34 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS4879.soft.gz: \n",
      "29-May-2024 10:13:34 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:13:34 DEBUG GEOparse - DATASET: GDS4879\n",
      "29-May-2024 10:13:34 DEBUG GEOparse - SUBSET: GDS4879_1\n",
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      "29-May-2024 10:13:34 DEBUG GEOparse - SUBSET: GDS4879_3\n",
      "29-May-2024 10:13:34 DEBUG GEOparse - SUBSET: GDS4879_4\n",
      "29-May-2024 10:13:34 DEBUG GEOparse - DATASET: GDS4879\n",
      "29-May-2024 10:13:37 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:13:37 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3345/soft/GDS3345.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS3345.soft.gz\n",
      "100%|██████████████████████████████████████████████████████████████████████████████████████████| 2.11M/2.11M [00:01<00:00, 1.33MB/s]\n",
      "29-May-2024 10:13:39 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:13:39 DEBUG downloader - Moving /tmp/tmpvp5786ab to /home/lmasa/GEO_Laura/Data/gds/GDS3345.soft.gz\n",
      "29-May-2024 10:13:39 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3345/soft/GDS3345.soft.gz\n",
      "29-May-2024 10:13:39 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS3345.soft.gz: \n",
      "29-May-2024 10:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:13:39 DEBUG GEOparse - DATASET: GDS3345\n",
      "29-May-2024 10:13:39 DEBUG GEOparse - SUBSET: GDS3345_1\n",
      "29-May-2024 10:13:39 DEBUG GEOparse - SUBSET: GDS3345_2\n",
      "29-May-2024 10:13:39 DEBUG GEOparse - SUBSET: GDS3345_3\n",
      "29-May-2024 10:13:39 DEBUG GEOparse - SUBSET: GDS3345_4\n",
      "29-May-2024 10:13:39 DEBUG GEOparse - DATASET: GDS3345\n",
      "29-May-2024 10:13:40 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:13:40 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3268/soft/GDS3268.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS3268.soft.gz\n",
      "100%|██████████████████████████████████████████████████████████████████████████████████████████| 25.5M/25.5M [00:03<00:00, 7.57MB/s]\n",
      "29-May-2024 10:13:45 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:13:45 DEBUG downloader - Moving /tmp/tmpldvkp0et to /home/lmasa/GEO_Laura/Data/gds/GDS3268.soft.gz\n",
      "29-May-2024 10:13:45 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3268/soft/GDS3268.soft.gz\n",
      "29-May-2024 10:13:45 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS3268.soft.gz: \n",
      "29-May-2024 10:13:45 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:13:45 DEBUG GEOparse - DATASET: GDS3268\n",
      "29-May-2024 10:13:45 DEBUG GEOparse - SUBSET: GDS3268_1\n",
      "29-May-2024 10:13:45 DEBUG GEOparse - SUBSET: GDS3268_2\n",
      "29-May-2024 10:13:45 DEBUG GEOparse - SUBSET: GDS3268_3\n",
      "29-May-2024 10:13:45 DEBUG GEOparse - SUBSET: GDS3268_4\n",
      "29-May-2024 10:13:45 DEBUG GEOparse - SUBSET: GDS3268_5\n",
      "29-May-2024 10:13:45 DEBUG GEOparse - SUBSET: GDS3268_6\n",
      "29-May-2024 10:13:45 DEBUG GEOparse - SUBSET: GDS3268_7\n",
      "29-May-2024 10:13:45 DEBUG GEOparse - SUBSET: GDS3268_8\n",
      "29-May-2024 10:13:45 DEBUG GEOparse - DATASET: GDS3268\n",
      "29-May-2024 10:13:46 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:13:46 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS2nnn/GDS2447/soft/GDS2447.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS2447.soft.gz\n",
      "100%|██████████████████████████████████████████████████████████████████████████████████████████| 2.06M/2.06M [00:01<00:00, 1.27MB/s]\n",
      "29-May-2024 10:13:49 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:13:49 DEBUG downloader - Moving /tmp/tmp5fkb1opz to /home/lmasa/GEO_Laura/Data/gds/GDS2447.soft.gz\n",
      "29-May-2024 10:13:49 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS2nnn/GDS2447/soft/GDS2447.soft.gz\n",
      "29-May-2024 10:13:49 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS2447.soft.gz: \n",
      "29-May-2024 10:13:49 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:13:49 DEBUG GEOparse - DATASET: GDS2447\n",
      "29-May-2024 10:13:49 DEBUG GEOparse - SUBSET: GDS2447_1\n",
      "29-May-2024 10:13:49 DEBUG GEOparse - SUBSET: GDS2447_2\n",
      "29-May-2024 10:13:49 DEBUG GEOparse - DATASET: GDS2447\n",
      "29-May-2024 10:15:57 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:15:57 INFO GEOparse - File already exist: using local version.\n",
      "29-May-2024 10:15:57 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS4879.soft.gz: \n",
      "29-May-2024 10:15:57 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:15:57 DEBUG GEOparse - DATASET: GDS4879\n",
      "29-May-2024 10:15:57 DEBUG GEOparse - SUBSET: GDS4879_1\n",
      "29-May-2024 10:15:57 DEBUG GEOparse - SUBSET: GDS4879_2\n",
      "29-May-2024 10:15:57 DEBUG GEOparse - SUBSET: GDS4879_3\n",
      "29-May-2024 10:15:57 DEBUG GEOparse - SUBSET: GDS4879_4\n",
      "29-May-2024 10:15:57 DEBUG GEOparse - DATASET: GDS4879\n",
      "29-May-2024 10:16:00 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:16:00 INFO GEOparse - File already exist: using local version.\n",
      "29-May-2024 10:16:00 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS3345.soft.gz: \n",
      "29-May-2024 10:16:00 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:16:00 DEBUG GEOparse - DATASET: GDS3345\n",
      "29-May-2024 10:16:00 DEBUG GEOparse - SUBSET: GDS3345_1\n",
      "29-May-2024 10:16:00 DEBUG GEOparse - SUBSET: GDS3345_2\n",
      "29-May-2024 10:16:00 DEBUG GEOparse - SUBSET: GDS3345_3\n",
      "29-May-2024 10:16:00 DEBUG GEOparse - SUBSET: GDS3345_4\n",
      "29-May-2024 10:16:00 DEBUG GEOparse - DATASET: GDS3345\n",
      "29-May-2024 10:16:01 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:16:01 INFO GEOparse - File already exist: using local version.\n",
      "29-May-2024 10:16:01 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS3268.soft.gz: \n",
      "29-May-2024 10:16:01 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:16:01 DEBUG GEOparse - DATASET: GDS3268\n",
      "29-May-2024 10:16:01 DEBUG GEOparse - SUBSET: GDS3268_1\n",
      "29-May-2024 10:16:01 DEBUG GEOparse - SUBSET: GDS3268_2\n",
      "29-May-2024 10:16:01 DEBUG GEOparse - SUBSET: GDS3268_3\n",
      "29-May-2024 10:16:01 DEBUG GEOparse - SUBSET: GDS3268_4\n",
      "29-May-2024 10:16:01 DEBUG GEOparse - SUBSET: GDS3268_5\n",
      "29-May-2024 10:16:01 DEBUG GEOparse - SUBSET: GDS3268_6\n",
      "29-May-2024 10:16:01 DEBUG GEOparse - SUBSET: GDS3268_7\n",
      "29-May-2024 10:16:01 DEBUG GEOparse - SUBSET: GDS3268_8\n",
      "29-May-2024 10:16:01 DEBUG GEOparse - DATASET: GDS3268\n",
      "29-May-2024 10:16:03 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:16:03 INFO GEOparse - File already exist: using local version.\n",
      "29-May-2024 10:16:03 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS2447.soft.gz: \n",
      "29-May-2024 10:16:03 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:16:03 DEBUG GEOparse - DATASET: GDS2447\n",
      "29-May-2024 10:16:03 DEBUG GEOparse - SUBSET: GDS2447_1\n",
      "29-May-2024 10:16:03 DEBUG GEOparse - SUBSET: GDS2447_2\n",
      "29-May-2024 10:16:03 DEBUG GEOparse - DATASET: GDS2447\n",
      "29-May-2024 10:16:39 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:16:39 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS4nnn/GDS4522/soft/GDS4522.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS4522.soft.gz\n",
      "100%|██████████████████████████████████████████████████████████████████████████████████████████| 7.04M/7.04M [00:02<00:00, 2.55MB/s]\n",
      "29-May-2024 10:16:42 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:16:42 DEBUG downloader - Moving /tmp/tmpvykmsiq8 to /home/lmasa/GEO_Laura/Data/gds/GDS4522.soft.gz\n",
      "29-May-2024 10:16:42 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS4nnn/GDS4522/soft/GDS4522.soft.gz\n",
      "29-May-2024 10:16:42 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS4522.soft.gz: \n",
      "29-May-2024 10:16:42 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - DATASET: GDS4522\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_1\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_2\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_3\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_4\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_5\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_6\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_7\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_8\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_9\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_10\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_11\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_12\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_13\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_14\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_15\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_16\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_17\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_18\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_19\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_20\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_21\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_22\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_23\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_24\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_25\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_26\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_27\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_28\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_29\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_30\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_31\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_32\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_33\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - SUBSET: GDS4522_34\n",
      "29-May-2024 10:16:42 DEBUG GEOparse - DATASET: GDS4522\n",
      "29-May-2024 10:16:44 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:16:44 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3938/soft/GDS3938.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS3938.soft.gz\n",
      "100%|██████████████████████████████████████████████████████████████████████████████████████████| 2.88M/2.88M [00:02<00:00, 1.50MB/s]\n",
      "29-May-2024 10:16:47 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:16:47 DEBUG downloader - Moving /tmp/tmpl_rfhlfc to /home/lmasa/GEO_Laura/Data/gds/GDS3938.soft.gz\n",
      "29-May-2024 10:16:47 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3938/soft/GDS3938.soft.gz\n",
      "29-May-2024 10:16:47 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS3938.soft.gz: \n",
      "29-May-2024 10:16:47 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:16:47 DEBUG GEOparse - DATASET: GDS3938\n",
      "29-May-2024 10:16:47 DEBUG GEOparse - SUBSET: GDS3938_1\n",
      "29-May-2024 10:16:47 DEBUG GEOparse - SUBSET: GDS3938_2\n",
      "29-May-2024 10:16:47 DEBUG GEOparse - SUBSET: GDS3938_3\n",
      "29-May-2024 10:16:47 DEBUG GEOparse - SUBSET: GDS3938_4\n",
      "29-May-2024 10:16:47 DEBUG GEOparse - DATASET: GDS3938\n",
      "29-May-2024 10:16:51 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:16:51 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS4nnn/GDS4523/soft/GDS4523.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS4523.soft.gz\n",
      "100%|██████████████████████████████████████████████████████████████████████████████████████████| 7.09M/7.09M [00:02<00:00, 2.80MB/s]\n",
      "29-May-2024 10:16:54 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:16:54 DEBUG downloader - Moving /tmp/tmphrrn826s to /home/lmasa/GEO_Laura/Data/gds/GDS4523.soft.gz\n",
      "29-May-2024 10:16:54 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS4nnn/GDS4523/soft/GDS4523.soft.gz\n",
      "29-May-2024 10:16:54 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS4523.soft.gz: \n",
      "29-May-2024 10:16:54 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - DATASET: GDS4523\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_1\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_2\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_3\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_4\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_5\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_6\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_7\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_8\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_9\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_10\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_11\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_12\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_13\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_14\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_15\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_16\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_17\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_18\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_19\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_20\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_21\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_22\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_23\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_24\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_25\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_26\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_27\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_28\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_29\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_30\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_31\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_32\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_33\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_34\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_35\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_36\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - SUBSET: GDS4523_37\n",
      "29-May-2024 10:16:54 DEBUG GEOparse - DATASET: GDS4523\n",
      "29-May-2024 10:16:56 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:16:56 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3502/soft/GDS3502.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS3502.soft.gz\n",
      "100%|██████████████████████████████████████████████████████████████████████████████████████████| 6.98M/6.98M [00:03<00:00, 2.22MB/s]\n",
      "29-May-2024 10:16:59 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:16:59 DEBUG downloader - Moving /tmp/tmpjbt967em to /home/lmasa/GEO_Laura/Data/gds/GDS3502.soft.gz\n",
      "29-May-2024 10:16:59 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3502/soft/GDS3502.soft.gz\n",
      "29-May-2024 10:16:59 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS3502.soft.gz: \n",
      "29-May-2024 10:16:59 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - DATASET: GDS3502\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_1\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_2\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_3\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_4\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_5\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_6\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_7\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_8\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_9\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_10\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_11\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_12\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_13\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_14\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_15\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_16\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_17\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_18\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_19\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_20\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_21\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_22\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_23\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_24\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - SUBSET: GDS3502_25\n",
      "29-May-2024 10:16:59 DEBUG GEOparse - DATASET: GDS3502\n",
      "29-May-2024 10:17:01 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:17:01 INFO GEOparse - File already exist: using local version.\n",
      "29-May-2024 10:17:01 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS3345.soft.gz: \n",
      "29-May-2024 10:17:01 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:17:01 DEBUG GEOparse - DATASET: GDS3345\n",
      "29-May-2024 10:17:01 DEBUG GEOparse - SUBSET: GDS3345_1\n",
      "29-May-2024 10:17:01 DEBUG GEOparse - SUBSET: GDS3345_2\n",
      "29-May-2024 10:17:01 DEBUG GEOparse - SUBSET: GDS3345_3\n",
      "29-May-2024 10:17:01 DEBUG GEOparse - SUBSET: GDS3345_4\n",
      "29-May-2024 10:17:01 DEBUG GEOparse - DATASET: GDS3345\n",
      "29-May-2024 10:17:03 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:17:03 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS1nnn/GDS1917/soft/GDS1917.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS1917.soft.gz\n",
      "100%|██████████████████████████████████████████████████████████████████████████████████████████| 5.75M/5.75M [00:02<00:00, 2.51MB/s]\n",
      "29-May-2024 10:17:06 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:17:06 DEBUG downloader - Moving /tmp/tmpd2_2fbex to /home/lmasa/GEO_Laura/Data/gds/GDS1917.soft.gz\n",
      "29-May-2024 10:17:06 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS1nnn/GDS1917/soft/GDS1917.soft.gz\n",
      "29-May-2024 10:17:06 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS1917.soft.gz: \n",
      "29-May-2024 10:17:06 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:17:06 DEBUG GEOparse - DATASET: GDS1917\n",
      "29-May-2024 10:17:06 DEBUG GEOparse - SUBSET: GDS1917_1\n",
      "29-May-2024 10:17:06 DEBUG GEOparse - SUBSET: GDS1917_2\n",
      "29-May-2024 10:17:06 DEBUG GEOparse - DATASET: GDS1917\n",
      "29-May-2024 10:23:40 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:23:40 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS1nnn/GDS1956/soft/GDS1956.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS1956.soft.gz\n",
      "100%|██████████████████████████████████████████████████████████████████████████████████████████| 9.39M/9.39M [00:03<00:00, 3.26MB/s]\n",
      "29-May-2024 10:23:44 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:23:44 DEBUG downloader - Moving /tmp/tmpmcy5md5j to /home/lmasa/GEO_Laura/Data/gds/GDS1956.soft.gz\n",
      "29-May-2024 10:23:44 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS1nnn/GDS1956/soft/GDS1956.soft.gz\n",
      "29-May-2024 10:23:44 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS1956.soft.gz: \n",
      "29-May-2024 10:23:44 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - DATASET: GDS1956\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - SUBSET: GDS1956_1\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - SUBSET: GDS1956_2\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - SUBSET: GDS1956_3\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - SUBSET: GDS1956_4\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - SUBSET: GDS1956_5\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - SUBSET: GDS1956_6\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - SUBSET: GDS1956_7\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - SUBSET: GDS1956_8\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - SUBSET: GDS1956_9\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - SUBSET: GDS1956_10\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - SUBSET: GDS1956_11\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - SUBSET: GDS1956_12\n",
      "29-May-2024 10:23:44 DEBUG GEOparse - DATASET: GDS1956\n",
      "29-May-2024 10:23:45 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:23:45 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDSnnn/GDS412/soft/GDS412.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS412.soft.gz\n",
      "100%|█████████████████████████████████████████████████████████████████████████████████████████████| 184k/184k [00:00<00:00, 204kB/s]\n",
      "29-May-2024 10:23:47 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:23:47 DEBUG downloader - Moving /tmp/tmp6jbesoyo to /home/lmasa/GEO_Laura/Data/gds/GDS412.soft.gz\n",
      "29-May-2024 10:23:47 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDSnnn/GDS412/soft/GDS412.soft.gz\n",
      "29-May-2024 10:23:47 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS412.soft.gz: \n",
      "29-May-2024 10:23:47 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:23:47 DEBUG GEOparse - DATASET: GDS412\n",
      "29-May-2024 10:23:47 DEBUG GEOparse - SUBSET: GDS412_1\n",
      "29-May-2024 10:23:47 DEBUG GEOparse - SUBSET: GDS412_2\n",
      "29-May-2024 10:23:47 DEBUG GEOparse - SUBSET: GDS412_3\n",
      "29-May-2024 10:23:47 DEBUG GEOparse - DATASET: GDS412\n",
      "29-May-2024 10:25:01 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:25:01 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS4nnn/GDS4218/soft/GDS4218.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS4218.soft.gz\n",
      "100%|███████████████████████████████████████████████████████████████████████████████████████████| 1.28M/1.28M [00:01<00:00, 875kB/s]\n",
      "29-May-2024 10:25:04 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:25:04 DEBUG downloader - Moving /tmp/tmpwxisu6m2 to /home/lmasa/GEO_Laura/Data/gds/GDS4218.soft.gz\n",
      "29-May-2024 10:25:04 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS4nnn/GDS4218/soft/GDS4218.soft.gz\n",
      "29-May-2024 10:25:04 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS4218.soft.gz: \n",
      "29-May-2024 10:25:04 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:25:04 DEBUG GEOparse - DATASET: GDS4218\n",
      "29-May-2024 10:25:04 DEBUG GEOparse - SUBSET: GDS4218_1\n",
      "29-May-2024 10:25:04 DEBUG GEOparse - SUBSET: GDS4218_2\n",
      "29-May-2024 10:25:04 DEBUG GEOparse - SUBSET: GDS4218_3\n",
      "29-May-2024 10:25:04 DEBUG GEOparse - SUBSET: GDS4218_4\n",
      "29-May-2024 10:25:04 DEBUG GEOparse - SUBSET: GDS4218_5\n",
      "29-May-2024 10:25:04 DEBUG GEOparse - SUBSET: GDS4218_6\n",
      "29-May-2024 10:25:04 DEBUG GEOparse - SUBSET: GDS4218_7\n",
      "29-May-2024 10:25:04 DEBUG GEOparse - SUBSET: GDS4218_8\n",
      "29-May-2024 10:25:04 DEBUG GEOparse - SUBSET: GDS4218_9\n",
      "29-May-2024 10:25:04 DEBUG GEOparse - SUBSET: GDS4218_10\n",
      "29-May-2024 10:25:04 DEBUG GEOparse - DATASET: GDS4218\n",
      "29-May-2024 10:25:07 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:25:07 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3920/soft/GDS3920.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS3920.soft.gz\n",
      "100%|██████████████████████████████████████████████████████████████████████████████████████████| 2.84M/2.84M [00:02<00:00, 1.47MB/s]\n",
      "29-May-2024 10:25:10 DEBUG downloader - Size validation passed\n",
      "29-May-2024 10:25:10 DEBUG downloader - Moving /tmp/tmpk0rzde4u to /home/lmasa/GEO_Laura/Data/gds/GDS3920.soft.gz\n",
      "29-May-2024 10:25:10 DEBUG downloader - Successfully downloaded ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS3nnn/GDS3920/soft/GDS3920.soft.gz\n",
      "29-May-2024 10:25:10 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/Data/gds/GDS3920.soft.gz: \n",
      "29-May-2024 10:25:10 DEBUG GEOparse - DATABASE: Geo\n",
      "29-May-2024 10:25:10 DEBUG GEOparse - DATASET: GDS3920\n",
      "29-May-2024 10:25:10 DEBUG GEOparse - SUBSET: GDS3920_1\n",
      "29-May-2024 10:25:10 DEBUG GEOparse - SUBSET: GDS3920_2\n",
      "29-May-2024 10:25:10 DEBUG GEOparse - DATASET: GDS3920\n",
      "29-May-2024 10:25:12 DEBUG utils - Directory /home/lmasa/GEO_Laura/Data/gds already exists. Skipping.\n",
      "29-May-2024 10:25:12 INFO GEOparse - Downloading ftp://ftp.ncbi.nlm.nih.gov/geo/datasets/GDS4nnn/GDS4152/soft/GDS4152.soft.gz to /home/lmasa/GEO_Laura/Data/gds/GDS4152.soft.gz\n",
      "  0%|                                                                                                   | 0.00/2.36M [00:00<?, ?B/s]"
     ]
    }
   ],
   "source": [
    "#query and download in the gds path\n",
    "disease_gds_prefiltered = download_files.download_and_save_gds(email_request, disease_names,gds_path)\n",
    "disease_gds_prefiltered"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "id": "4efc4c1b-47e5-4988-85fb-39be3881067e",
   "metadata": {},
   "outputs": [],
   "source": [
    "#download the disease and GDS relation before filtering\n",
    "disease_gds_prefiltered.to_csv('../results/prefilt_disease_gds.csv',index=False)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "id": "874f22aa",
   "metadata": {
    "scrolled": true
   },
   "outputs": [],
   "source": [
    "#decompress gds files\n",
    "download_files.decompress_gds_gz_files(gds_path)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 16,
   "id": "6393d39c-4005-42ef-aa89-f2db7903942f",
   "metadata": {},
   "outputs": [],
   "source": [
    "#read the disease and GDS relation before filtering\n",
    "disease_gds_prefiltered=pd.read_csv('../results/prefilt_disease_gds.csv')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 14,
   "id": "75698421-8c16-48c2-bbd1-30736c3ec42b",
   "metadata": {
    "scrolled": true
   },
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 14:13:36 INFO GEOparse - Parsing ../data/gds/GDS1050.soft: \n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - DATASET: GDS1050\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS1050_1\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS1050_2\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS1050_3\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS1050_4\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - DATASET: GDS1050\n",
      "30-Jun-2024 14:13:36 INFO GEOparse - Parsing ../data/gds/GDS4136.soft: \n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - DATASET: GDS4136\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_1\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_2\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_3\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_4\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_5\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_6\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_7\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_8\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_9\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_10\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_11\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_12\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_13\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_14\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_15\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_16\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_17\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_18\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_19\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_20\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_21\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_22\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - SUBSET: GDS4136_23\n",
      "30-Jun-2024 14:13:36 DEBUG GEOparse - DATASET: GDS4136\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS4150.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS4150\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4150_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4150_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4150_3\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4150_4\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4150_5\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4150_6\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4150_7\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4150_8\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS4150\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS563.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS563\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS563_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS563_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS563\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS5430.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS5430\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_3\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_4\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_5\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_6\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_7\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_8\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_9\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_10\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_11\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_12\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_13\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_14\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_15\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_16\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_17\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_18\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_19\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_20\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_21\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_22\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_23\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_24\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_25\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_26\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_27\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_28\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_29\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_30\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_31\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_32\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_33\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_34\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_35\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_36\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_37\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_38\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_39\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_40\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_41\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_42\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_43\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_44\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_45\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_46\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_47\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS5430_48\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS5430\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS4541.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS4541\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_3\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_4\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_5\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_6\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_7\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_8\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_9\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_10\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_11\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_12\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_13\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_14\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_15\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_16\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_17\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_18\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_19\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_20\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_21\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_22\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_23\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_24\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_25\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_26\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_27\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_28\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_29\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS4541_30\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS4541\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS612.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS612\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS612_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS612_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS612\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS2978.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS2978\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS2978_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS2978_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS2978\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS2190.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS2190\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS2190_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS2190_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS2190\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS1112.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS1112\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS1112_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS1112_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS1112\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS232.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS232\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS232_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS232_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS232\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS2613.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS2613\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS2613_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS2613_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS2613\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS214.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS214\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS214_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS214_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS214_3\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS214_4\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS214_5\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS214_6\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS214\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS2447.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS2447\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS2447_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS2447_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS2447\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS3281.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS3281\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS3281_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS3281_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS3281_3\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS3281_4\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS3281_5\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS3281_6\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS3281_7\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS3281_8\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS3281_9\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS3281\n",
      "30-Jun-2024 14:13:37 INFO GEOparse - Parsing ../data/gds/GDS1962.soft: \n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS1962\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS1962_1\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS1962_2\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS1962_3\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS1962_4\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS1962_5\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS1962_6\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS1962_7\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - SUBSET: GDS1962_8\n",
      "30-Jun-2024 14:13:37 DEBUG GEOparse - DATASET: GDS1962\n",
      "30-Jun-2024 14:13:38 INFO GEOparse - Parsing ../data/gds/GDS1816.soft: \n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATASET: GDS1816\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_1\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_2\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_3\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_4\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_5\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_6\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_7\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_8\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_9\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_10\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_11\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_12\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_13\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_14\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1816_15\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATASET: GDS1816\n",
      "30-Jun-2024 14:13:38 INFO GEOparse - Parsing ../data/gds/GDS2519.soft: \n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATASET: GDS2519\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS2519_1\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS2519_2\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS2519_3\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATASET: GDS2519\n",
      "30-Jun-2024 14:13:38 INFO GEOparse - Parsing ../data/gds/GDS2763.soft: \n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATASET: GDS2763\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS2763_1\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS2763_2\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS2763_3\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS2763_4\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS2763_5\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATASET: GDS2763\n",
      "30-Jun-2024 14:13:38 INFO GEOparse - Parsing ../data/gds/GDS1815.soft: \n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATASET: GDS1815\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_1\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_2\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_3\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_4\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_5\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_6\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_7\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_8\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_9\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_10\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_11\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_12\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_13\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_14\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1815_15\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATASET: GDS1815\n",
      "30-Jun-2024 14:13:38 INFO GEOparse - Parsing ../data/gds/GDS1975.soft: \n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATASET: GDS1975\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1975_1\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1975_2\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1975_3\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1975_4\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1975_5\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS1975_6\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATASET: GDS1975\n",
      "30-Jun-2024 14:13:38 INFO GEOparse - Parsing ../data/gds/GDS3920.soft: \n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATASET: GDS3920\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS3920_1\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - SUBSET: GDS3920_2\n",
      "30-Jun-2024 14:13:38 DEBUG GEOparse - DATASET: GDS3920\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS2432.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS2432\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2432_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2432_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS2432\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS2795.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS2795\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2795_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2795_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2795_3\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2795_4\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2795_5\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2795_6\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2795_7\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2795_8\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2795_9\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2795_10\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2795_11\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2795_12\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS2795\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS265.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS265\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS265_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS265_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS265_3\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS265_4\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS265\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS2853.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS2853\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2853_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2853_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2853_3\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2853_4\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2853_5\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS2853\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS610.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS610\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS610_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS610_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS610\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS264.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS264\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS264_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS264_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS264_3\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS264_4\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS264\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS1912.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS1912\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1912_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1912_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1912_3\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1912_4\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS1912\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS4353.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS4353\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS4353_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS4353_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS4353_3\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS4353_4\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS4353\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS2855.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS2855\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2855_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2855_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2855_3\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2855_4\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2855_5\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2855_6\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2855_7\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2855_8\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2855_9\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2855_10\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS2855_11\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS2855\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS1253.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS1253\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1253_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1253_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1253_3\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1253_4\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1253_5\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS1253\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS1956.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS1956\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1956_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1956_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1956_3\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1956_4\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1956_5\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1956_6\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1956_7\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1956_8\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1956_9\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1956_10\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1956_11\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS1956_12\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS1956\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS5646.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS5646\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS5646_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS5646_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS5646_3\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS5646_4\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS5646_5\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS5646_6\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS5646_7\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS5646_8\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS5646_9\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS5646_10\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS5646_11\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS5646_12\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS5646\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS3417.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS3417\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS3417_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS3417_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS3417_3\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS3417\n",
      "30-Jun-2024 14:13:39 INFO GEOparse - Parsing ../data/gds/GDS3069.soft: \n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS3069\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS3069_1\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS3069_2\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS3069_3\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS3069_4\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - SUBSET: GDS3069_5\n",
      "30-Jun-2024 14:13:39 DEBUG GEOparse - DATASET: GDS3069\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS1726.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS1726\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS1726_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS1726_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS1726\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS4523.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS4523\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_3\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_4\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_5\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_6\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_7\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_8\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_9\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_10\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_11\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_12\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_13\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_14\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_15\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_16\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_17\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_18\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_19\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_20\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_21\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_22\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_23\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_24\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_25\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_26\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_27\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_28\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_29\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_30\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_31\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_32\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_33\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_34\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_35\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_36\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4523_37\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS4523\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS611.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS611\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS611_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS611_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS611\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS270.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS270\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS270_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS270_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS270_3\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS270_4\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS270\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS5181.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS5181\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS5181_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS5181_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS5181\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS2419.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2419\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_3\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_4\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_5\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_6\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_7\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_8\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_9\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_10\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_11\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_12\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_13\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2419_14\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2419\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS4128.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS4128\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4128_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4128_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4128_3\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4128_4\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4128_5\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4128_6\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS4128\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS2191.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2191\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2191_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2191_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2191\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS2470.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2470\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2470_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2470_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2470\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS2374.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2374\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2374_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2374_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2374_3\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2374_4\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2374_5\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2374\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS3644.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS3644\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS3644_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS3644_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS3644_3\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS3644_4\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS3644_5\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS3644_6\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS3644_7\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS3644_8\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS3644_9\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS3644_10\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS3644_11\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS3644_12\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS3644\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS2821.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2821\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2821_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2821_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2821_3\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2821_4\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2821\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS1051.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS1051\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS1051_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS1051_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS1051_3\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS1051_4\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS1051\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS4012.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS4012\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4012_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS4012_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS4012\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS968.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS968\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_3\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_4\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_5\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_6\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_7\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_8\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_9\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_10\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_11\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_12\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_13\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_14\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_15\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_16\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_17\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_18\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_19\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_20\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_21\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_22\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_23\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_24\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_25\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_26\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_27\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_28\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_29\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_30\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_31\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_32\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_33\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_34\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_35\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_36\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_37\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_38\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_39\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_40\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_41\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_42\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_43\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_44\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_45\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_46\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_47\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_48\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_49\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_50\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_51\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_52\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_53\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_54\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_55\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_56\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_57\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_58\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_59\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_60\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_61\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_62\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_63\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS968_64\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS968\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS2779.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2779\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2779_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2779_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2779_3\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2779_4\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2779_5\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2779\n",
      "30-Jun-2024 14:13:40 INFO GEOparse - Parsing ../data/gds/GDS2736.soft: \n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2736\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2736_1\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2736_2\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2736_3\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2736_4\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2736_5\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2736_6\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2736_7\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2736_8\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2736_9\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - SUBSET: GDS2736_10\n",
      "30-Jun-2024 14:13:40 DEBUG GEOparse - DATASET: GDS2736\n",
      "30-Jun-2024 14:13:41 INFO GEOparse - Parsing ../data/gds/GDS1065.soft: \n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS1065\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1065_1\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1065_2\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1065_3\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1065_4\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1065_5\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1065_6\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS1065\n",
      "30-Jun-2024 14:13:41 INFO GEOparse - Parsing ../data/gds/GDS3110.soft: \n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS3110\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS3110_1\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS3110_2\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS3110_3\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS3110_4\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS3110_5\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS3110_6\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS3110\n",
      "30-Jun-2024 14:13:41 INFO GEOparse - Parsing ../data/gds/GDS1020.soft: \n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS1020\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1020_1\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1020_2\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1020_3\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1020_4\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1020_5\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1020_6\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1020_7\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS1020\n",
      "30-Jun-2024 14:13:41 INFO GEOparse - Parsing ../data/gds/GDS2865.soft: \n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS2865\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS2865_1\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS2865_2\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS2865\n",
      "30-Jun-2024 14:13:41 INFO GEOparse - Parsing ../data/gds/GDS810.soft: \n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS810\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS810_1\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS810_2\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS810_3\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS810_4\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS810\n",
      "30-Jun-2024 14:13:41 INFO GEOparse - Parsing ../data/gds/GDS1976.soft: \n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS1976\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1976_1\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1976_2\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1976_3\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1976_4\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1976_5\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1976_6\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS1976\n",
      "30-Jun-2024 14:13:41 INFO GEOparse - Parsing ../data/gds/GDS4135.soft: \n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS4135\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4135_1\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4135_2\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4135_3\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4135_4\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4135_5\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS4135\n",
      "30-Jun-2024 14:13:41 INFO GEOparse - Parsing ../data/gds/GDS1331.soft: \n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS1331\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1331_1\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1331_2\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS1331_3\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS1331\n",
      "30-Jun-2024 14:13:41 INFO GEOparse - Parsing ../data/gds/GDS609.soft: \n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS609\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS609_1\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS609_2\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS609\n",
      "30-Jun-2024 14:13:41 INFO GEOparse - Parsing ../data/gds/GDS4431.soft: \n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS4431\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_1\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_2\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_3\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_4\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_5\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_6\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_7\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_8\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_9\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_10\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_11\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_12\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_13\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_14\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_15\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_16\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_17\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_18\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_19\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_20\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_21\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_22\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_23\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_24\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_25\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_26\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_27\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_28\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_29\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_30\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_31\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_32\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_33\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - SUBSET: GDS4431_34\n",
      "30-Jun-2024 14:13:41 DEBUG GEOparse - DATASET: GDS4431\n",
      "30-Jun-2024 14:13:42 INFO GEOparse - Parsing ../data/gds/GDS4470.soft: \n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS4470\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_1\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_2\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_3\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_4\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_5\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_6\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_7\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_8\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_9\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_10\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_11\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_12\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_13\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_14\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_15\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_16\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_17\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_18\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_19\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_20\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_21\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_22\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_23\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_24\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_25\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_26\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_27\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_28\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_29\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_30\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_31\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_32\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_33\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_34\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_35\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_36\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_37\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_38\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_39\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_40\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_41\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_42\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_43\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_44\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_45\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_46\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_47\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_48\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_49\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_50\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_51\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_52\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_53\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_54\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4470_55\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS4470\n",
      "30-Jun-2024 14:13:42 INFO GEOparse - Parsing ../data/gds/GDS2153.soft: \n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS2153\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS2153_1\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS2153_2\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS2153\n",
      "30-Jun-2024 14:13:42 INFO GEOparse - Parsing ../data/gds/GDS4154.soft: \n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS4154\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_1\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_2\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_3\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_4\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_5\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_6\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_7\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_8\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_9\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_10\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_11\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_12\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_13\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_14\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4154_15\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS4154\n",
      "30-Jun-2024 14:13:42 INFO GEOparse - Parsing ../data/gds/GDS1917.soft: \n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS1917\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS1917_1\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS1917_2\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS1917\n",
      "30-Jun-2024 14:13:42 INFO GEOparse - Parsing ../data/gds/GDS4152.soft: \n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS4152\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4152_1\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4152_2\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4152_3\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4152_4\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS4152\n",
      "30-Jun-2024 14:13:42 INFO GEOparse - Parsing ../data/gds/GDS4854.soft: \n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS4854\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_1\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_2\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_3\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_4\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_5\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_6\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_7\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_8\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_9\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_10\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_11\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_12\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_13\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_14\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_15\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_16\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_17\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_18\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_19\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_20\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_21\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4854_22\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS4854\n",
      "30-Jun-2024 14:13:42 INFO GEOparse - Parsing ../data/gds/GDS4218.soft: \n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS4218\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4218_1\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4218_2\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4218_3\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4218_4\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4218_5\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4218_6\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4218_7\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4218_8\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4218_9\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4218_10\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS4218\n",
      "30-Jun-2024 14:13:42 INFO GEOparse - Parsing ../data/gds/GDS412.soft: \n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS412\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS412_1\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS412_2\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS412_3\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS412\n",
      "30-Jun-2024 14:13:42 INFO GEOparse - Parsing ../data/gds/GDS4522.soft: \n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS4522\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_1\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_2\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_3\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_4\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_5\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_6\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_7\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_8\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_9\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_10\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_11\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_12\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_13\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_14\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_15\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_16\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_17\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_18\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_19\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_20\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_21\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_22\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_23\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_24\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_25\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_26\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_27\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_28\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_29\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_30\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_31\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_32\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_33\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - SUBSET: GDS4522_34\n",
      "30-Jun-2024 14:13:42 DEBUG GEOparse - DATASET: GDS4522\n",
      "30-Jun-2024 14:13:43 INFO GEOparse - Parsing ../data/gds/GDS262.soft: \n",
      "30-Jun-2024 14:13:43 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 14:13:43 DEBUG GEOparse - DATASET: GDS262\n",
      "30-Jun-2024 14:13:43 DEBUG GEOparse - SUBSET: GDS262_1\n",
      "30-Jun-2024 14:13:43 DEBUG GEOparse - SUBSET: GDS262_2\n",
      "30-Jun-2024 14:13:43 DEBUG GEOparse - SUBSET: GDS262_3\n",
      "30-Jun-2024 14:13:43 DEBUG GEOparse - SUBSET: GDS262_4\n",
      "30-Jun-2024 14:13:43 DEBUG GEOparse - SUBSET: GDS262_5\n",
      "30-Jun-2024 14:13:43 DEBUG GEOparse - SUBSET: GDS262_6\n",
      "30-Jun-2024 14:13:43 DEBUG GEOparse - DATASET: GDS262\n"
     ]
    }
   ],
   "source": [
    "#filter the GDS by specific criteria \n",
    "diseases_gds_filtered=download_files.filter_gds(gds_path, disease_gds_prefiltered)\n",
    "disease_gds_filtered.to_csv('../results/disease_gds.csv',index=False)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "id": "c30a82fb-cf96-4b6d-ac9b-8a6f6b768c1b",
   "metadata": {},
   "outputs": [],
   "source": [
    "disease_gds_filtered=pd.read_csv('../results/disease_gds.csv')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 8,
   "id": "9ae8f0a3-82d9-49bf-a1c0-d4041fd0da1f",
   "metadata": {
    "scrolled": true
   },
   "outputs": [],
   "source": [
    "#remove the GDS that do not accomplish the criteria\n",
    "gds_ids = disease_gds_filtered['gds_id'].tolist()\n",
    "for filename in os.listdir(gds_path):\n",
    "    if filename.startswith(\"GDS\") and filename.endswith(\".soft\"):\n",
    "        gds_id = filename.split(\".\")[0]  # get the GDS id of each file\n",
    "        if gds_id not in gds_ids:\n",
    "            file_path = os.path.join(gds_path, filename)\n",
    "            os.remove(file_path)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 6,
   "id": "99e2e6ab-0b82-4619-aa66-d41c62ce3c6f",
   "metadata": {},
   "outputs": [],
   "source": [
    "gpl_path=\"../data/gpl\""
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "id": "4e747732",
   "metadata": {
    "scrolled": true
   },
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:04 INFO GEOparse - Parsing ../data/gds/GDS1050.soft: \n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - DATASET: GDS1050\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS1050_1\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS1050_2\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS1050_3\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS1050_4\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - DATASET: GDS1050\n",
      "30-Jun-2024 13:39:04 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:04 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:04 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:04 INFO GEOparse - Parsing ../data/gds/GDS4136.soft: \n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - DATASET: GDS4136\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_1\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_2\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_3\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_4\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_5\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_6\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_7\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_8\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_9\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_10\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_11\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_12\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_13\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_14\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_15\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_16\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_17\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_18\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_19\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_20\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_21\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_22\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - SUBSET: GDS4136_23\n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - DATASET: GDS4136\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS1050 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:04 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:04 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:04 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:04 DEBUG GEOparse - ANNOTATION: \n",
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:05 INFO GEOparse - Parsing ../data/gds/GDS4150.soft: \n",
      "30-Jun-2024 13:39:05 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:05 DEBUG GEOparse - DATASET: GDS4150\n",
      "30-Jun-2024 13:39:05 DEBUG GEOparse - SUBSET: GDS4150_1\n",
      "30-Jun-2024 13:39:05 DEBUG GEOparse - SUBSET: GDS4150_2\n",
      "30-Jun-2024 13:39:05 DEBUG GEOparse - SUBSET: GDS4150_3\n",
      "30-Jun-2024 13:39:05 DEBUG GEOparse - SUBSET: GDS4150_4\n",
      "30-Jun-2024 13:39:05 DEBUG GEOparse - SUBSET: GDS4150_5\n",
      "30-Jun-2024 13:39:05 DEBUG GEOparse - SUBSET: GDS4150_6\n",
      "30-Jun-2024 13:39:05 DEBUG GEOparse - SUBSET: GDS4150_7\n",
      "30-Jun-2024 13:39:05 DEBUG GEOparse - SUBSET: GDS4150_8\n",
      "30-Jun-2024 13:39:05 DEBUG GEOparse - DATASET: GDS4150\n",
      "30-Jun-2024 13:39:05 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:05 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:05 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:05 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS4136 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:06 INFO GEOparse - Parsing ../data/gds/GDS563.soft: \n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - DATASET: GDS563\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS563_1\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS563_2\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - DATASET: GDS563\n",
      "30-Jun-2024 13:39:06 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:06 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:06 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL8300.annot.gz: \n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS4150 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:06 INFO GEOparse - Parsing ../data/gds/GDS5430.soft: \n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - DATASET: GDS5430\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_1\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_2\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_3\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_4\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_5\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_6\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_7\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_8\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_9\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_10\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_11\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_12\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_13\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_14\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_15\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_16\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_17\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_18\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_19\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_20\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_21\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_22\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_23\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_24\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_25\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_26\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_27\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_28\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_29\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_30\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_31\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_32\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_33\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_34\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_35\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_36\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_37\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_38\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_39\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_40\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_41\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_42\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_43\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_44\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_45\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_46\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_47\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - SUBSET: GDS5430_48\n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - DATASET: GDS5430\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL8300 for GDS GDS563 to /home/lmasa/GEO_Laura/data/gpl/GPL8300\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:06 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:06 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:06 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:06 DEBUG GEOparse - ANNOTATION: \n",
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:07 INFO GEOparse - Parsing ../data/gds/GDS4541.soft: \n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - DATASET: GDS4541\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_1\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_2\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_3\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_4\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_5\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_6\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_7\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_8\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_9\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_10\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_11\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_12\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_13\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_14\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_15\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_16\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_17\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_18\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_19\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_20\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_21\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_22\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_23\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_24\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_25\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_26\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_27\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_28\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_29\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS4541_30\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - DATASET: GDS4541\n",
      "30-Jun-2024 13:39:07 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:07 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:07 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS5430 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:07 INFO GEOparse - Parsing ../data/gds/GDS612.soft: \n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - DATASET: GDS612\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS612_1\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS612_2\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - DATASET: GDS612\n",
      "30-Jun-2024 13:39:07 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:07 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:07 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL95.annot.gz: \n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:07 INFO GEOparse - Parsing ../data/gds/GDS2978.soft: \n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - DATASET: GDS2978\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS2978_1\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS2978_2\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - DATASET: GDS2978\n",
      "30-Jun-2024 13:39:07 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:07 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:07 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS4541 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n",
      "Downloaded GPL GPL95 for GDS GDS612 to /home/lmasa/GEO_Laura/data/gpl/GPL95\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:07 INFO GEOparse - Parsing ../data/gds/GDS2190.soft: \n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - DATASET: GDS2190\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS2190_1\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - SUBSET: GDS2190_2\n",
      "30-Jun-2024 13:39:07 DEBUG GEOparse - DATASET: GDS2190\n",
      "30-Jun-2024 13:39:08 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:08 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:08 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS2978 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:08 INFO GEOparse - Parsing ../data/gds/GDS1112.soft: \n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - DATASET: GDS1112\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - SUBSET: GDS1112_1\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - SUBSET: GDS1112_2\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - DATASET: GDS1112\n",
      "30-Jun-2024 13:39:08 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:08 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:08 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL8300.annot.gz: \n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS2190 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:08 INFO GEOparse - Parsing ../data/gds/GDS232.soft: \n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - DATASET: GDS232\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - SUBSET: GDS232_1\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - SUBSET: GDS232_2\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - DATASET: GDS232\n",
      "30-Jun-2024 13:39:08 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:08 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:08 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL74.annot.gz: \n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:08 INFO GEOparse - Parsing ../data/gds/GDS2613.soft: \n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - DATASET: GDS2613\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - SUBSET: GDS2613_1\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - SUBSET: GDS2613_2\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - DATASET: GDS2613\n",
      "30-Jun-2024 13:39:08 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:08 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:08 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL8300.annot.gz: \n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL8300 for GDS GDS1112 to /home/lmasa/GEO_Laura/data/gpl/GPL8300\n",
      "Downloaded GPL GPL74 for GDS GDS232 to /home/lmasa/GEO_Laura/data/gpl/GPL74\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:08 INFO GEOparse - Parsing ../data/gds/GDS214.soft: \n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - DATASET: GDS214\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - SUBSET: GDS214_1\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - SUBSET: GDS214_2\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - SUBSET: GDS214_3\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - SUBSET: GDS214_4\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - SUBSET: GDS214_5\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - SUBSET: GDS214_6\n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - DATASET: GDS214\n",
      "30-Jun-2024 13:39:08 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:08 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:08 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL246.annot.gz: \n",
      "30-Jun-2024 13:39:08 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:08 INFO GEOparse - Parsing ../data/gds/GDS2447.soft: \n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - DATASET: GDS2447\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS2447_1\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS2447_2\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - DATASET: GDS2447\n",
      "30-Jun-2024 13:39:09 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:09 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:09 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL1426.annot.gz: \n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL8300 for GDS GDS2613 to /home/lmasa/GEO_Laura/data/gpl/GPL8300\n",
      "Downloaded GPL GPL246 for GDS GDS214 to /home/lmasa/GEO_Laura/data/gpl/GPL246\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:09 INFO GEOparse - Parsing ../data/gds/GDS3281.soft: \n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - DATASET: GDS3281\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS3281_1\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS3281_2\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS3281_3\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS3281_4\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS3281_5\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS3281_6\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS3281_7\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS3281_8\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS3281_9\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - DATASET: GDS3281\n",
      "30-Jun-2024 13:39:09 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:09 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:09 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL1426 for GDS GDS2447 to /home/lmasa/GEO_Laura/data/gpl/GPL1426\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:09 INFO GEOparse - Parsing ../data/gds/GDS1962.soft: \n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - DATASET: GDS1962\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS1962_1\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS1962_2\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS1962_3\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS1962_4\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS1962_5\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS1962_6\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS1962_7\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - SUBSET: GDS1962_8\n",
      "30-Jun-2024 13:39:09 DEBUG GEOparse - DATASET: GDS1962\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS3281 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:10 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:10 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:10 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:10 DEBUG GEOparse - ANNOTATION: \n",
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:11 INFO GEOparse - Parsing ../data/gds/GDS1816.soft: \n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - DATASET: GDS1816\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_1\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_2\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_3\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_4\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_5\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_6\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_7\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_8\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_9\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_10\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_11\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_12\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_13\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_14\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS1816_15\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - DATASET: GDS1816\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS1962 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:11 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:11 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:11 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL97.annot.gz: \n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:11 INFO GEOparse - Parsing ../data/gds/GDS2519.soft: \n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - DATASET: GDS2519\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS2519_1\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS2519_2\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - SUBSET: GDS2519_3\n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - DATASET: GDS2519\n",
      "30-Jun-2024 13:39:11 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:11 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:11 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:11 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL97 for GDS GDS1816 to /home/lmasa/GEO_Laura/data/gpl/GPL97\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:12 INFO GEOparse - Parsing ../data/gds/GDS2763.soft: \n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - DATASET: GDS2763\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS2763_1\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS2763_2\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS2763_3\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS2763_4\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS2763_5\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - DATASET: GDS2763\n",
      "30-Jun-2024 13:39:12 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:12 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:12 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS2519 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:12 INFO GEOparse - Parsing ../data/gds/GDS1815.soft: \n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - DATASET: GDS1815\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_1\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_2\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_3\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_4\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_5\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_6\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_7\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_8\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_9\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_10\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_11\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_12\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_13\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_14\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1815_15\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - DATASET: GDS1815\n",
      "30-Jun-2024 13:39:12 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:12 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:12 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS2763 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:12 INFO GEOparse - Parsing ../data/gds/GDS1975.soft: \n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - DATASET: GDS1975\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1975_1\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1975_2\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1975_3\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1975_4\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1975_5\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - SUBSET: GDS1975_6\n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - DATASET: GDS1975\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS1815 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:12 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:12 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:12 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:12 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:13 INFO GEOparse - Parsing ../data/gds/GDS3920.soft: \n",
      "30-Jun-2024 13:39:13 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:13 DEBUG GEOparse - DATASET: GDS3920\n",
      "30-Jun-2024 13:39:13 DEBUG GEOparse - SUBSET: GDS3920_1\n",
      "30-Jun-2024 13:39:13 DEBUG GEOparse - SUBSET: GDS3920_2\n",
      "30-Jun-2024 13:39:13 DEBUG GEOparse - DATASET: GDS3920\n",
      "30-Jun-2024 13:39:13 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:13 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:13 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:13 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS1975 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:13 INFO GEOparse - Parsing ../data/gds/GDS2432.soft: \n",
      "30-Jun-2024 13:39:13 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:13 DEBUG GEOparse - DATASET: GDS2432\n",
      "30-Jun-2024 13:39:13 DEBUG GEOparse - SUBSET: GDS2432_1\n",
      "30-Jun-2024 13:39:13 DEBUG GEOparse - SUBSET: GDS2432_2\n",
      "30-Jun-2024 13:39:13 DEBUG GEOparse - DATASET: GDS2432\n",
      "30-Jun-2024 13:39:13 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:13 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:13 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:13 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS3920 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:14 INFO GEOparse - Parsing ../data/gds/GDS2795.soft: \n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - DATASET: GDS2795\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - SUBSET: GDS2795_1\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - SUBSET: GDS2795_2\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - SUBSET: GDS2795_3\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - SUBSET: GDS2795_4\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - SUBSET: GDS2795_5\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - SUBSET: GDS2795_6\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - SUBSET: GDS2795_7\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - SUBSET: GDS2795_8\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - SUBSET: GDS2795_9\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - SUBSET: GDS2795_10\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - SUBSET: GDS2795_11\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - SUBSET: GDS2795_12\n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - DATASET: GDS2795\n",
      "30-Jun-2024 13:39:14 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:14 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:14 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:14 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS2432 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:15 INFO GEOparse - Parsing ../data/gds/GDS265.soft: \n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATASET: GDS265\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS265_1\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS265_2\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS265_3\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS265_4\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATASET: GDS265\n",
      "30-Jun-2024 13:39:15 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:15 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:15 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL95.annot.gz: \n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:15 INFO GEOparse - Parsing ../data/gds/GDS2853.soft: \n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATASET: GDS2853\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS2853_1\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS2853_2\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS2853_3\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS2853_4\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS2853_5\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATASET: GDS2853\n",
      "30-Jun-2024 13:39:15 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:15 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:15 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL8300.annot.gz: \n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS2795 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n",
      "Downloaded GPL GPL95 for GDS GDS265 to /home/lmasa/GEO_Laura/data/gpl/GPL95\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:15 INFO GEOparse - Parsing ../data/gds/GDS610.soft: \n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATASET: GDS610\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS610_1\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS610_2\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATASET: GDS610\n",
      "30-Jun-2024 13:39:15 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:15 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:15 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL93.annot.gz: \n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:15 INFO GEOparse - Parsing ../data/gds/GDS264.soft: \n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATASET: GDS264\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS264_1\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS264_2\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS264_3\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS264_4\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATASET: GDS264\n",
      "30-Jun-2024 13:39:15 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:15 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:15 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL94.annot.gz: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL8300 for GDS GDS2853 to /home/lmasa/GEO_Laura/data/gpl/GPL8300\n",
      "Downloaded GPL GPL93 for GDS GDS610 to /home/lmasa/GEO_Laura/data/gpl/GPL93\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:15 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:15 INFO GEOparse - Parsing ../data/gds/GDS1912.soft: \n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATASET: GDS1912\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS1912_1\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS1912_2\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS1912_3\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS1912_4\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATASET: GDS1912\n",
      "30-Jun-2024 13:39:15 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:15 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:15 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL201.annot.gz: \n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:15 INFO GEOparse - Parsing ../data/gds/GDS4353.soft: \n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATASET: GDS4353\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS4353_1\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS4353_2\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS4353_3\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - SUBSET: GDS4353_4\n",
      "30-Jun-2024 13:39:15 DEBUG GEOparse - DATASET: GDS4353\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL94 for GDS GDS264 to /home/lmasa/GEO_Laura/data/gpl/GPL94\n",
      "Downloaded GPL GPL201 for GDS GDS1912 to /home/lmasa/GEO_Laura/data/gpl/GPL201\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:16 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:16 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:16 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL571.annot.gz: \n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:16 INFO GEOparse - Parsing ../data/gds/GDS2855.soft: \n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - DATASET: GDS2855\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS2855_1\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS2855_2\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS2855_3\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS2855_4\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS2855_5\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS2855_6\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS2855_7\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS2855_8\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS2855_9\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS2855_10\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS2855_11\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - DATASET: GDS2855\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL571 for GDS GDS4353 to /home/lmasa/GEO_Laura/data/gpl/GPL571\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:16 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:16 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:16 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL97.annot.gz: \n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:16 INFO GEOparse - Parsing ../data/gds/GDS1253.soft: \n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - DATASET: GDS1253\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS1253_1\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS1253_2\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS1253_3\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS1253_4\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - SUBSET: GDS1253_5\n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - DATASET: GDS1253\n",
      "30-Jun-2024 13:39:16 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:16 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:16 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:16 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL97 for GDS GDS2855 to /home/lmasa/GEO_Laura/data/gpl/GPL97\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:17 INFO GEOparse - Parsing ../data/gds/GDS1956.soft: \n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - DATASET: GDS1956\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS1956_1\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS1956_2\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS1956_3\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS1956_4\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS1956_5\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS1956_6\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS1956_7\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS1956_8\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS1956_9\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS1956_10\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS1956_11\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS1956_12\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - DATASET: GDS1956\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS1253 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:17 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:17 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:17 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:17 INFO GEOparse - Parsing ../data/gds/GDS5646.soft: \n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - DATASET: GDS5646\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS5646_1\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS5646_2\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS5646_3\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS5646_4\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS5646_5\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS5646_6\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS5646_7\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS5646_8\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS5646_9\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS5646_10\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS5646_11\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - SUBSET: GDS5646_12\n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - DATASET: GDS5646\n",
      "30-Jun-2024 13:39:17 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:17 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:17 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL10558.annot.gz: \n",
      "30-Jun-2024 13:39:17 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS1956 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:18 INFO GEOparse - Parsing ../data/gds/GDS3417.soft: \n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - DATASET: GDS3417\n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - SUBSET: GDS3417_1\n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - SUBSET: GDS3417_2\n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - SUBSET: GDS3417_3\n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - DATASET: GDS3417\n",
      "30-Jun-2024 13:39:18 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:18 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:18 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL10558 for GDS GDS5646 to /home/lmasa/GEO_Laura/data/gpl/GPL10558\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:18 INFO GEOparse - Parsing ../data/gds/GDS3069.soft: \n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - DATASET: GDS3069\n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - SUBSET: GDS3069_1\n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - SUBSET: GDS3069_2\n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - SUBSET: GDS3069_3\n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - SUBSET: GDS3069_4\n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - SUBSET: GDS3069_5\n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - DATASET: GDS3069\n",
      "30-Jun-2024 13:39:18 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:18 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:18 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:18 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS3417 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:19 INFO GEOparse - Parsing ../data/gds/GDS1726.soft: \n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - DATASET: GDS1726\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS1726_1\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS1726_2\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - DATASET: GDS1726\n",
      "30-Jun-2024 13:39:19 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:19 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:19 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL8300.annot.gz: \n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS3069 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:19 INFO GEOparse - Parsing ../data/gds/GDS4523.soft: \n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - DATASET: GDS4523\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_1\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_2\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_3\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_4\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_5\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_6\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_7\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_8\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_9\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_10\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_11\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_12\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_13\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_14\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_15\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_16\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_17\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_18\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_19\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_20\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_21\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_22\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_23\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_24\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_25\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_26\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_27\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_28\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_29\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_30\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_31\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_32\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_33\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_34\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_35\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_36\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - SUBSET: GDS4523_37\n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - DATASET: GDS4523\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL8300 for GDS GDS1726 to /home/lmasa/GEO_Laura/data/gpl/GPL8300\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:19 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:19 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:19 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:19 DEBUG GEOparse - ANNOTATION: \n",
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:20 INFO GEOparse - Parsing ../data/gds/GDS611.soft: \n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - DATASET: GDS611\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - SUBSET: GDS611_1\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - SUBSET: GDS611_2\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - DATASET: GDS611\n",
      "30-Jun-2024 13:39:20 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:20 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:20 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL94.annot.gz: \n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:20 INFO GEOparse - Parsing ../data/gds/GDS270.soft: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS4523 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n",
      "Downloaded GPL GPL94 for GDS GDS611 to /home/lmasa/GEO_Laura/data/gpl/GPL94\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:20 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - DATASET: GDS270\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - SUBSET: GDS270_1\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - SUBSET: GDS270_2\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - SUBSET: GDS270_3\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - SUBSET: GDS270_4\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - DATASET: GDS270\n",
      "30-Jun-2024 13:39:20 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:20 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:20 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL92.annot.gz: \n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:20 INFO GEOparse - Parsing ../data/gds/GDS5181.soft: \n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - DATASET: GDS5181\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - SUBSET: GDS5181_1\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - SUBSET: GDS5181_2\n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - DATASET: GDS5181\n",
      "30-Jun-2024 13:39:20 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:20 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:20 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL4133.annot.gz: \n",
      "30-Jun-2024 13:39:20 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL92 for GDS GDS270 to /home/lmasa/GEO_Laura/data/gpl/GPL92\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:21 INFO GEOparse - Parsing ../data/gds/GDS2419.soft: \n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - DATASET: GDS2419\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_1\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_2\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_3\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_4\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_5\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_6\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_7\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_8\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_9\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_10\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_11\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_12\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_13\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2419_14\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - DATASET: GDS2419\n",
      "30-Jun-2024 13:39:21 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:21 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:21 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL4191.annot.gz: \n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:21 INFO GEOparse - Parsing ../data/gds/GDS4128.soft: \n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - DATASET: GDS4128\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS4128_1\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS4128_2\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS4128_3\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS4128_4\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS4128_5\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS4128_6\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - DATASET: GDS4128\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL4133 for GDS GDS5181 to /home/lmasa/GEO_Laura/data/gpl/GPL4133\n",
      "Downloaded GPL GPL4191 for GDS GDS2419 to /home/lmasa/GEO_Laura/data/gpl/GPL4191\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:21 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:21 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:21 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - ANNOTATION: \n",
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:21 INFO GEOparse - Parsing ../data/gds/GDS2191.soft: \n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - DATASET: GDS2191\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2191_1\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - SUBSET: GDS2191_2\n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - DATASET: GDS2191\n",
      "30-Jun-2024 13:39:21 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:21 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:21 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:21 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS4128 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:22 INFO GEOparse - Parsing ../data/gds/GDS2470.soft: \n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - DATASET: GDS2470\n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - SUBSET: GDS2470_1\n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - SUBSET: GDS2470_2\n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - DATASET: GDS2470\n",
      "30-Jun-2024 13:39:22 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:22 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:22 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS2191 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:22 INFO GEOparse - Parsing ../data/gds/GDS2374.soft: \n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - DATASET: GDS2374\n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - SUBSET: GDS2374_1\n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - SUBSET: GDS2374_2\n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - SUBSET: GDS2374_3\n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - SUBSET: GDS2374_4\n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - SUBSET: GDS2374_5\n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - DATASET: GDS2374\n",
      "30-Jun-2024 13:39:22 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:22 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:22 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:22 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS2470 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:23 INFO GEOparse - Parsing ../data/gds/GDS3644.soft: \n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - DATASET: GDS3644\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS3644_1\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS3644_2\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS3644_3\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS3644_4\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS3644_5\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS3644_6\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS3644_7\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS3644_8\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS3644_9\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS3644_10\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS3644_11\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS3644_12\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - DATASET: GDS3644\n",
      "30-Jun-2024 13:39:23 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:23 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:23 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS2374 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:23 INFO GEOparse - Parsing ../data/gds/GDS2821.soft: \n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - DATASET: GDS2821\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS2821_1\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS2821_2\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS2821_3\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - SUBSET: GDS2821_4\n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - DATASET: GDS2821\n",
      "30-Jun-2024 13:39:23 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:23 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:23 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:23 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS3644 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:24 INFO GEOparse - Parsing ../data/gds/GDS1051.soft: \n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - DATASET: GDS1051\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS1051_1\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS1051_2\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS1051_3\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS1051_4\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - DATASET: GDS1051\n",
      "30-Jun-2024 13:39:24 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:24 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:24 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL97.annot.gz: \n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS2821 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:24 INFO GEOparse - Parsing ../data/gds/GDS4012.soft: \n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - DATASET: GDS4012\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS4012_1\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS4012_2\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - DATASET: GDS4012\n",
      "30-Jun-2024 13:39:24 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:24 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:24 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL10526.annot.gz: \n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL97 for GDS GDS1051 to /home/lmasa/GEO_Laura/data/gpl/GPL97\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:24 INFO GEOparse - Parsing ../data/gds/GDS968.soft: \n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - DATASET: GDS968\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_1\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_2\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_3\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_4\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_5\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_6\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_7\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_8\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_9\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_10\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_11\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_12\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_13\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_14\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_15\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_16\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_17\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_18\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_19\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_20\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_21\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_22\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_23\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_24\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_25\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_26\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_27\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_28\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_29\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_30\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_31\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_32\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_33\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_34\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_35\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_36\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_37\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_38\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_39\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_40\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_41\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_42\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_43\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_44\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_45\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_46\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_47\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_48\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_49\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_50\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_51\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_52\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_53\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_54\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_55\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_56\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_57\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_58\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_59\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_60\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_61\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_62\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_63\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - SUBSET: GDS968_64\n",
      "30-Jun-2024 13:39:24 DEBUG GEOparse - DATASET: GDS968\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL10526 for GDS GDS4012 to /home/lmasa/GEO_Laura/data/gpl/GPL10526\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:25 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:25 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:25 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL8300.annot.gz: \n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:25 INFO GEOparse - Parsing ../data/gds/GDS2779.soft: \n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - DATASET: GDS2779\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2779_1\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2779_2\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2779_3\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2779_4\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2779_5\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - DATASET: GDS2779\n",
      "30-Jun-2024 13:39:25 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:25 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:25 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL8300 for GDS GDS968 to /home/lmasa/GEO_Laura/data/gpl/GPL8300\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:25 INFO GEOparse - Parsing ../data/gds/GDS2736.soft: \n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - DATASET: GDS2736\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2736_1\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2736_2\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2736_3\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2736_4\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2736_5\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2736_6\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2736_7\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2736_8\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2736_9\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - SUBSET: GDS2736_10\n",
      "30-Jun-2024 13:39:25 DEBUG GEOparse - DATASET: GDS2736\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS2779 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:26 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:26 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:26 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:26 INFO GEOparse - Parsing ../data/gds/GDS1065.soft: \n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - DATASET: GDS1065\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - SUBSET: GDS1065_1\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - SUBSET: GDS1065_2\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - SUBSET: GDS1065_3\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - SUBSET: GDS1065_4\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - SUBSET: GDS1065_5\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - SUBSET: GDS1065_6\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - DATASET: GDS1065\n",
      "30-Jun-2024 13:39:26 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:26 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:26 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS2736 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:26 INFO GEOparse - Parsing ../data/gds/GDS3110.soft: \n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - DATASET: GDS3110\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - SUBSET: GDS3110_1\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - SUBSET: GDS3110_2\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - SUBSET: GDS3110_3\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - SUBSET: GDS3110_4\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - SUBSET: GDS3110_5\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - SUBSET: GDS3110_6\n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - DATASET: GDS3110\n",
      "30-Jun-2024 13:39:26 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:26 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:26 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:26 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS1065 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:26 INFO GEOparse - Parsing ../data/gds/GDS1020.soft: \n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - DATASET: GDS1020\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1020_1\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1020_2\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1020_3\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1020_4\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1020_5\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1020_6\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1020_7\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - DATASET: GDS1020\n",
      "30-Jun-2024 13:39:27 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:27 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:27 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL91.annot.gz: \n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS3110 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:27 INFO GEOparse - Parsing ../data/gds/GDS2865.soft: \n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - DATASET: GDS2865\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS2865_1\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS2865_2\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - DATASET: GDS2865\n",
      "30-Jun-2024 13:39:27 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:27 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:27 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL91 for GDS GDS1020 to /home/lmasa/GEO_Laura/data/gpl/GPL91\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:27 INFO GEOparse - Parsing ../data/gds/GDS810.soft: \n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - DATASET: GDS810\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS810_1\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS810_2\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS810_3\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS810_4\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - DATASET: GDS810\n",
      "30-Jun-2024 13:39:27 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:27 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:27 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS2865 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:27 INFO GEOparse - Parsing ../data/gds/GDS1976.soft: \n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - DATASET: GDS1976\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1976_1\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1976_2\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1976_3\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1976_4\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1976_5\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - SUBSET: GDS1976_6\n",
      "30-Jun-2024 13:39:27 DEBUG GEOparse - DATASET: GDS1976\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS810 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:28 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:28 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:28 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL97.annot.gz: \n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:28 INFO GEOparse - Parsing ../data/gds/GDS4135.soft: \n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - DATASET: GDS4135\n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - SUBSET: GDS4135_1\n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - SUBSET: GDS4135_2\n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - SUBSET: GDS4135_3\n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - SUBSET: GDS4135_4\n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - SUBSET: GDS4135_5\n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - DATASET: GDS4135\n",
      "30-Jun-2024 13:39:28 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:28 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:28 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL97 for GDS GDS1976 to /home/lmasa/GEO_Laura/data/gpl/GPL97\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:28 INFO GEOparse - Parsing ../data/gds/GDS1331.soft: \n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - DATASET: GDS1331\n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - SUBSET: GDS1331_1\n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - SUBSET: GDS1331_2\n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - SUBSET: GDS1331_3\n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - DATASET: GDS1331\n",
      "30-Jun-2024 13:39:28 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:28 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:28 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:28 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS4135 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:29 INFO GEOparse - Parsing ../data/gds/GDS609.soft: \n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - DATASET: GDS609\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS609_1\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS609_2\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - DATASET: GDS609\n",
      "30-Jun-2024 13:39:29 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:29 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:29 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL92.annot.gz: \n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:29 INFO GEOparse - Parsing ../data/gds/GDS4431.soft: \n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - DATASET: GDS4431\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_1\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_2\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_3\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_4\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_5\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_6\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_7\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_8\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_9\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_10\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_11\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_12\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_13\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_14\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_15\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_16\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_17\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_18\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_19\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_20\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_21\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_22\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_23\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_24\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_25\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_26\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_27\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_28\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_29\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_30\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_31\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_32\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_33\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - SUBSET: GDS4431_34\n",
      "30-Jun-2024 13:39:29 DEBUG GEOparse - DATASET: GDS4431\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS1331 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n",
      "Downloaded GPL GPL92 for GDS GDS609 to /home/lmasa/GEO_Laura/data/gpl/GPL92\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:30 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:30 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:30 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - ANNOTATION: \n",
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:30 INFO GEOparse - Parsing ../data/gds/GDS4470.soft: \n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - DATASET: GDS4470\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_1\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_2\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_3\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_4\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_5\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_6\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_7\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_8\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_9\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_10\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_11\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_12\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_13\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_14\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_15\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_16\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_17\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_18\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_19\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_20\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_21\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_22\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_23\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_24\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_25\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_26\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_27\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_28\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_29\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_30\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_31\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_32\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_33\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_34\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_35\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_36\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_37\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_38\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_39\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_40\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_41\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_42\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_43\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_44\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_45\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_46\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_47\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_48\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_49\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_50\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_51\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_52\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_53\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_54\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - SUBSET: GDS4470_55\n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - DATASET: GDS4470\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS4431 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:30 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:30 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:30 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:30 DEBUG GEOparse - ANNOTATION: \n",
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:31 INFO GEOparse - Parsing ../data/gds/GDS2153.soft: \n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - DATASET: GDS2153\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS2153_1\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS2153_2\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - DATASET: GDS2153\n",
      "30-Jun-2024 13:39:31 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:31 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:31 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL96.annot.gz: \n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS4470 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:31 INFO GEOparse - Parsing ../data/gds/GDS4154.soft: \n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - DATASET: GDS4154\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_1\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_2\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_3\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_4\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_5\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_6\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_7\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_8\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_9\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_10\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_11\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_12\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_13\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_14\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - SUBSET: GDS4154_15\n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - DATASET: GDS4154\n",
      "30-Jun-2024 13:39:31 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:31 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:31 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL571.annot.gz: \n",
      "30-Jun-2024 13:39:31 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL96 for GDS GDS2153 to /home/lmasa/GEO_Laura/data/gpl/GPL96\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:31 INFO GEOparse - Parsing ../data/gds/GDS1917.soft: \n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - DATASET: GDS1917\n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - SUBSET: GDS1917_1\n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - SUBSET: GDS1917_2\n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - DATASET: GDS1917\n",
      "30-Jun-2024 13:39:32 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:32 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:32 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL571 for GDS GDS4154 to /home/lmasa/GEO_Laura/data/gpl/GPL571\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:32 INFO GEOparse - Parsing ../data/gds/GDS4152.soft: \n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - DATASET: GDS4152\n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - SUBSET: GDS4152_1\n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - SUBSET: GDS4152_2\n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - SUBSET: GDS4152_3\n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - SUBSET: GDS4152_4\n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - DATASET: GDS4152\n",
      "30-Jun-2024 13:39:32 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:32 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:32 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:32 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS1917 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:33 INFO GEOparse - Parsing ../data/gds/GDS4854.soft: \n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - DATASET: GDS4854\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_1\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_2\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_3\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_4\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_5\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_6\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_7\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_8\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_9\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_10\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_11\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_12\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_13\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_14\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_15\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_16\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_17\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_18\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_19\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_20\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_21\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4854_22\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - DATASET: GDS4854\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS4152 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:33 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:33 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:33 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - ANNOTATION: \n",
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:33 INFO GEOparse - Parsing ../data/gds/GDS4218.soft: \n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - DATASET: GDS4218\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4218_1\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4218_2\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4218_3\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4218_4\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4218_5\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4218_6\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4218_7\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4218_8\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4218_9\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - SUBSET: GDS4218_10\n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - DATASET: GDS4218\n",
      "30-Jun-2024 13:39:33 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:33 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:33 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:33 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS4854 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:34 INFO GEOparse - Parsing ../data/gds/GDS412.soft: \n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - DATASET: GDS412\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS412_1\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS412_2\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS412_3\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - DATASET: GDS412\n",
      "30-Jun-2024 13:39:34 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:34 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:34 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL80.annot.gz: \n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - ANNOTATION: \n",
      "30-Jun-2024 13:39:34 INFO GEOparse - Parsing ../data/gds/GDS4522.soft: \n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - DATASET: GDS4522\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_1\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_2\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_3\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_4\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_5\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_6\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_7\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_8\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_9\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_10\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_11\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_12\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_13\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_14\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_15\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_16\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_17\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_18\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_19\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_20\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_21\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_22\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_23\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_24\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_25\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_26\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_27\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_28\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_29\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_30\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_31\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_32\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_33\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - SUBSET: GDS4522_34\n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - DATASET: GDS4522\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS4218 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n",
      "Downloaded GPL GPL80 for GDS GDS412 to /home/lmasa/GEO_Laura/data/gpl/GPL80\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "30-Jun-2024 13:39:34 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:34 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:34 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL570.annot.gz: \n",
      "30-Jun-2024 13:39:34 DEBUG GEOparse - ANNOTATION: \n",
      "/home/lmasa/miniconda3/lib/python3.12/site-packages/GEOparse/GEOparse.py:401: DtypeWarning: Columns (12) have mixed types. Specify dtype option on import or set low_memory=False.\n",
      "  return read_csv(StringIO(data), index_col=None, sep=\"\\t\")\n",
      "30-Jun-2024 13:39:35 INFO GEOparse - Parsing ../data/gds/GDS262.soft: \n",
      "30-Jun-2024 13:39:35 DEBUG GEOparse - DATABASE: Geo\n",
      "30-Jun-2024 13:39:35 DEBUG GEOparse - DATASET: GDS262\n",
      "30-Jun-2024 13:39:35 DEBUG GEOparse - SUBSET: GDS262_1\n",
      "30-Jun-2024 13:39:35 DEBUG GEOparse - SUBSET: GDS262_2\n",
      "30-Jun-2024 13:39:35 DEBUG GEOparse - SUBSET: GDS262_3\n",
      "30-Jun-2024 13:39:35 DEBUG GEOparse - SUBSET: GDS262_4\n",
      "30-Jun-2024 13:39:35 DEBUG GEOparse - SUBSET: GDS262_5\n",
      "30-Jun-2024 13:39:35 DEBUG GEOparse - SUBSET: GDS262_6\n",
      "30-Jun-2024 13:39:35 DEBUG GEOparse - DATASET: GDS262\n",
      "30-Jun-2024 13:39:35 DEBUG utils - Directory /home/lmasa/GEO_Laura/data/gpl already exists. Skipping.\n",
      "30-Jun-2024 13:39:35 INFO GEOparse - File already exist: using local version.\n",
      "30-Jun-2024 13:39:35 INFO GEOparse - Parsing /home/lmasa/GEO_Laura/data/gpl/GPL91.annot.gz: \n",
      "30-Jun-2024 13:39:35 DEBUG GEOparse - ANNOTATION: \n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Downloaded GPL GPL570 for GDS GDS4522 to /home/lmasa/GEO_Laura/data/gpl/GPL570\n",
      "Downloaded GPL GPL91 for GDS GDS262 to /home/lmasa/GEO_Laura/data/gpl/GPL91\n"
     ]
    }
   ],
   "source": [
    "#Get the GDS-GPL relation\n",
    "gds_gpl_mapping=download_files.create_gds_gpl_mapping_and_download(gds_path,gpl_path)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 31,
   "id": "d5d0b176-f12e-4c6a-86b4-870f24f83351",
   "metadata": {},
   "outputs": [],
   "source": [
    "gds_gpl_mapping.to_csv('../results/gds_gpl.csv',index=False)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "id": "2cac011a",
   "metadata": {
    "scrolled": true
   },
   "outputs": [],
   "source": [
    "#decompress the GPL files\n",
    "download_files.decompress_gpl_gz_files(gpl_path)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 12,
   "id": "9a40aa9e-ef22-4e9b-9182-e6d8b8a07fea",
   "metadata": {},
   "outputs": [],
   "source": [
    "disease_gds_filtered=pd.read_csv('../results/disease_gds.csv')\n",
    "disease_gds_prefiltered=pd.read_csv('../results/prefilt_disease_gds.csv')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 13,
   "id": "6fcfcb1c-7d41-4ae7-bffe-cab0e570626b",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "The number of different disease_id is 80\n",
      "The number of different gds_id is 134\n"
     ]
    }
   ],
   "source": [
    "different_counts=disease_gds_prefiltered.nunique()\n",
    "for column, count in different_counts.items():\n",
    "    print(f'The number of different {column} is {count}')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 14,
   "id": "212e8b20-7111-48eb-ab82-28661d972763",
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "The number of different disease_id is 63\n",
      "The number of different gds_id is 73\n"
     ]
    }
   ],
   "source": [
    "different_counts_filt=diseases_gds_filtered.nunique()\n",
    "for column, count in different_counts_filt.items():\n",
    "    print(f'The number of different {column} is {count}')"
   ]
  }
 ],
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