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'1']\n", + "['0', '1', '1', '2', '2', '5', '1', '7', '4', '2', '5', '5', '4', '6', '6', '4', '16', '11', '14', '16', '14', '14', '8', '17', '4', '14', '13', '7', '6', '3', '7', '7', '5', '6', '3', '4', '2', '2', '1', '1']\n", + "['0', '1', '1', '1', '4', '1', '6', '4', '6', '3', '6', '5', '6', '4', '14', '13', '13', '9', '12', '19', '9', '10', '15', '10', '9', '10', '10', '7', '5', '6', '8', '6', '6', '4', '3', '5', '2', '1', '1', '1']\n", + "['0', '0', '0', '1', '4', '5', '6', '3', '8', '7', '9', '10', '8', '6', '5', '12', '15', '5', '10', '5', '8', '13', '18', '17', '14', '9', '13', '4', '10', '11', '10', '8', '8', '6', '5', '5', '2', '0', '2', '0']\n", + "['0', '0', '1', '0', '3', '2', '5', '4', '8', '2', '9', '3', '3', '10', '12', '9', '14', '11', '13', '8', '6', '18', '11', '9', '13', '11', '8', '5', '5', '2', '8', '5', '3', '5', '4', '1', '3', '1', '1', '0']\n" + ] + } + ], "source": [ "all_paths = [\n", " \"../../05_src/data/assignment_2_data/inflammation_01.csv\",\n", @@ -93,10 +160,22 @@ " \"../../05_src/data/assignment_2_data/inflammation_12.csv\"\n", "]\n", "\n", + "session = [] # creates empty list to load csv file into\n", + "\n", "with open(all_paths[0], 'r') as f:\n", " # YOUR CODE HERE: Use the readline() or readlines() method to read the .csv file into a variable\n", - " \n", - " # YOUR CODE HERE: Iterate through the variable using a for loop and print each row for inspection" + " lines = f.readlines()\n", + " # YOUR CODE HERE: Iterate through the variable using a for loop and print each row for inspection\n", + " for line in lines:\n", + " stripped_line = line.strip() # removes /n from end of each row\n", + " row = stripped_line.split(',') # seperates cells by the comma delimeter\n", + " print(row) # check all individual rows (patients)\n", + " session.append(row) # append rows into list to save a full data set for first .csv files\n", + "\n", + "# some additional basic checks for the session data\n", + "# print(session)\n", + "# len(session)\n", + "# type(session)" ] }, { @@ -130,7 +209,7 @@ }, { "cell_type": "code", - "execution_count": null, + "execution_count": 58, "metadata": { "id": "82-bk4CBB1w4" }, @@ -145,13 +224,13 @@ " # Implement the specific operation based on the 'operation' argument\n", " if operation == 'mean':\n", " # YOUR CODE HERE: Calculate the mean (average) number of flare-ups for each patient\n", - "\n", + " summary_values = np.mean(data, ax)\n", " elif operation == 'max':\n", " # YOUR CODE HERE: Calculate the maximum number of flare-ups experienced by each patient\n", - "\n", + " summary_values = np.amax(data, ax)\n", " elif operation == 'min':\n", " # YOUR CODE HERE: Calculate the minimum number of flare-ups experienced by each patient\n", - "\n", + " summary_values = np.amin(data, ax)\n", " else:\n", " # If the operation is not one of the expected values, raise an error\n", " raise ValueError(\"Invalid operation. Please choose 'mean', 'max', or 'min'.\")\n", @@ -161,11 +240,19 @@ }, { "cell_type": "code", - "execution_count": null, + "execution_count": 59, "metadata": { "id": "3TYo0-1SDLrd" }, - "outputs": [], + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "60\n" + ] + } + ], "source": [ "# Test it out on the data file we read in and make sure the size is what we expect i.e., 60\n", "# Your output for the first file should be 60\n", @@ -173,6 +260,63 @@ "print(len(data_min))" ] }, + { + "cell_type": "code", + "execution_count": 60, + "metadata": {}, + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "60\n", + "60\n", + "[5.45 5.425 6.1 5.9 5.55 6.225 5.975 6.65 6.625 6.525 6.775 5.8\n", + " 6.225 5.75 5.225 6.3 6.55 5.7 5.85 6.55 5.775 5.825 6.175 6.1\n", + " 5.8 6.425 6.05 6.025 6.175 6.55 6.175 6.35 6.725 6.125 7.075 5.725\n", + " 5.925 6.15 6.075 5.75 5.975 5.725 6.3 5.9 6.75 5.925 7.225 6.15\n", + " 5.95 6.275 5.7 6.1 6.825 5.975 6.725 5.7 6.25 6.4 7.05 5.9 ]\n", + "[0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n", + " 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.\n", + " 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0. 0.]\n", + "[18. 18. 19. 17. 17. 18. 17. 20. 17. 18. 18. 18. 17. 16. 17. 18. 19. 19.\n", + " 17. 19. 19. 16. 17. 15. 17. 17. 18. 17. 20. 17. 16. 19. 15. 15. 19. 17.\n", + " 16. 17. 19. 16. 18. 19. 16. 19. 18. 16. 19. 15. 16. 18. 14. 20. 17. 15.\n", + " 17. 16. 17. 19. 18. 18.]\n" + ] + } + ], + "source": [ + "# some additional checks\n", + "# check len after mean operation\n", + "data_mean = patient_summary(all_paths[0], 'mean')\n", + "print(len(data_mean))\n", + "\n", + "# len of mean operation on last session\n", + "data_mean_s12 = patient_summary(all_paths[11], 'mean')\n", + "print(len(data_mean_s12))\n", + "\n", + "# mean values\n", + "print(data_mean)\n", + "\n", + "# min values\n", + "print(data_min)\n", + "\n", + "# max values\n", + "data_max = patient_summary(all_paths[0], 'max')\n", + "print(data_max)\n" + ] + }, + { + "cell_type": "code", + "execution_count": 61, + "metadata": {}, + "outputs": [], + "source": [ + "# test error statment\n", + "# patient_summary(all_paths[0], 'error') " + ] + }, { "cell_type": "markdown", "metadata": { @@ -228,7 +372,7 @@ }, { "cell_type": "code", - "execution_count": null, + "execution_count": 62, "metadata": { "id": "_svDiRkdIwiT" }, @@ -251,7 +395,7 @@ }, { "cell_type": "code", - "execution_count": null, + "execution_count": 63, "metadata": { "id": "LEYPM5v4JT0i" }, @@ -261,21 +405,78 @@ "\n", "def detect_problems(file_path):\n", " #YOUR CODE HERE: Use patient_summary() to get the means and check_zeros() to check for zeros in the means\n", - "\n", - " return" + " patient_means = patient_summary(file_path, 'mean')\n", + " return check_zeros(patient_means)" ] }, { "cell_type": "code", - "execution_count": null, + "execution_count": 64, "metadata": {}, - "outputs": [], + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "False\n" + ] + } + ], "source": [ "# Test out your code here\n", "# Your output for the first file should be False\n", "print(detect_problems(all_paths[0]))" ] }, + { + "cell_type": "code", + "execution_count": 65, + "metadata": {}, + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "True\n" + ] + } + ], + "source": [ + "#output should be True as last patient has all 0s\n", + "print(detect_problems(all_paths[2]))" + ] + }, + { + "cell_type": "code", + "execution_count": 66, + "metadata": {}, + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "False\n", + "False\n", + "True\n", + "False\n", + "False\n", + "False\n", + "False\n", + "True\n", + "False\n", + "False\n", + "True\n", + "False\n" + ] + } + ], + "source": [ + "# check all files for problems\n", + "files = [0,1,2,3,4,5,6,7,8,9,10,11]\n", + "for file in files:\n", + " print(detect_problems(all_paths[file]))" + ] + }, { "cell_type": "markdown", "metadata": { @@ -327,7 +528,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.11.8" + "version": "3.11.13" } }, "nbformat": 4,