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Complete assignment 2 #2

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194 changes: 151 additions & 43 deletions 02_activities/assignments/assignment_2.ipynb
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Original file line number Diff line number Diff line change
Expand Up @@ -72,31 +72,101 @@
},
{
"cell_type": "code",
"execution_count": null,
"execution_count": 3,
"metadata": {
"id": "n0m48JsS-nMC"
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"outputs": [],
"outputs": [
{
"name": "stdout",
"output_type": "stream",
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"0,1,2,2,3,5,2,4,5,6,8,3,5,4,3,15,15,12,16,7,20,15,12,8,9,6,12,5,8,3,8,5,4,1,3,2,1,3,1,0\n",
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"0,0,2,1,1,4,4,7,2,9,4,10,12,7,6,6,11,12,9,15,15,6,6,13,5,12,9,6,4,7,7,6,5,4,1,4,2,2,2,1\n",
"0,1,2,1,1,4,5,4,4,5,9,7,10,3,13,13,8,9,17,16,16,15,12,13,5,12,10,9,11,9,4,5,5,2,2,5,1,0,0,1\n",
"0,0,1,3,2,3,6,4,5,7,2,4,11,11,3,8,8,16,5,13,16,5,8,8,6,9,10,10,9,3,3,5,3,5,4,5,3,3,0,1\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",
" \"../../05_src/data/assignment_2_data/inflammation_02.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_03.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_04.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_05.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_06.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_07.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_08.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_09.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_10.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_11.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_12.csv\"\n",
"all_paths = [ \n",
" \"../../05_src/data/assignment_2_data/inflammation_01.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_02.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_03.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_04.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_05.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_06.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_07.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_08.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_09.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_10.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_11.csv\",\n",
" \"../../05_src/data/assignment_2_data/inflammation_12.csv\",\n",
"]\n",
"\n",
"# Read the first file\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"
" data = f.readlines()\n",
"\n",
"# Print each row for inspection\n",
"for row in data:\n",
" print(row.strip())\n"
]
},
{
Expand Down Expand Up @@ -130,7 +200,7 @@
},
{
"cell_type": "code",
"execution_count": null,
"execution_count": 6,
"metadata": {
"id": "82-bk4CBB1w4"
},
Expand All @@ -139,33 +209,49 @@
"import numpy as np\n",
"\n",
"def patient_summary(file_path, operation):\n",
" data = np.loadtxt(fname=file_path, delimiter=',') # Load the data from the file\n",
" \"\"\"\n",
" Compute summary statistics for each patient's inflammation data.\n",
" \n",
" Parameters:\n",
" - file_path: path to CSV file\n",
" - operation: 'mean', 'max', or 'min'\n",
" \n",
" Returns:\n",
" - Array of 60 values (one per patient)\n",
" \"\"\"\n",
" data = np.loadtxt(fname=file_path, delimiter=',') # Loaded the data from the file\n",
" ax = 1 # This specifies that the operation should be done for each row (patient)\n",
"\n",
" # Implement the specific operation based on the 'operation' argument\n",
" \n",
" # Implements 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, axis=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.max(data, axis=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.min(data, axis=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",
" \n",
" return summary_values\n",
"\n",
" return summary_values"
"\n"
]
},
{
"cell_type": "code",
"execution_count": null,
"execution_count": 5,
"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",
Expand Down Expand Up @@ -228,7 +314,7 @@
},
{
"cell_type": "code",
"execution_count": null,
"execution_count": 7,
"metadata": {
"id": "_svDiRkdIwiT"
},
Expand All @@ -251,25 +337,46 @@
},
{
"cell_type": "code",
"execution_count": null,
"execution_count": 8,
"metadata": {
"id": "LEYPM5v4JT0i"
},
"outputs": [],
"source": [
"# Define your function `detect_problems` here\n",
"\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"
" \"\"\"\n",
" Detect patients with mean inflammation score of 0.\n",
" \n",
" Parameters:\n",
" - file_path: path to CSV file\n",
" \n",
" Returns:\n",
" - True if any patient has mean inflammation of 0\n",
" - False otherwise\n",
" \"\"\"\n",
" # Step 1: Get the mean inflammation for each patient\n",
" mean_inflammation = patient_summary(file_path, 'mean')\n",
" \n",
" # Step 2: Check if any of those means are 0\n",
" has_problems = check_zeros(mean_inflammation)\n",
" \n",
" # Step 3: Return the result\n",
" return has_problems\n"
]
},
{
"cell_type": "code",
"execution_count": null,
"execution_count": 9,
"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",
Expand Down Expand Up @@ -314,7 +421,8 @@
"provenance": []
},
"kernelspec": {
"display_name": "Python 3",
"display_name": "python-env",
"language": "python",
"name": "python3"
},
"language_info": {
Expand All @@ -327,7 +435,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.11.8"
"version": "3.11.13"
}
},
"nbformat": 4,
Expand Down