From abab074f7ba73157752e10b3bbc965df965b1072 Mon Sep 17 00:00:00 2001 From: Greg Litster Date: Wed, 11 Mar 2026 17:01:59 -0400 Subject: [PATCH 1/4] adding the first version of assignment 2 --- 02_activities/assignments/assignment_2.ipynb | 139 ++++++++++++++++++- 1 file changed, 134 insertions(+), 5 deletions(-) diff --git a/02_activities/assignments/assignment_2.ipynb b/02_activities/assignments/assignment_2.ipynb index 1ae6fe242..80e260214 100644 --- a/02_activities/assignments/assignment_2.ipynb +++ b/02_activities/assignments/assignment_2.ipynb @@ -72,11 +72,138 @@ }, { "cell_type": "code", - "execution_count": null, + "execution_count": 9, "metadata": { "id": "n0m48JsS-nMC" }, - "outputs": [], + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "0,0,1,3,1,2,4,7,8,3,3,3,10,5,7,4,7,7,12,18,6,13,11,11,7,7,4,6,8,8,4,4,5,7,3,4,2,3,0,0\n", + "\n", + "0,1,2,1,2,1,3,2,2,6,10,11,5,9,4,4,7,16,8,6,18,4,12,5,12,7,11,5,11,3,3,5,4,4,5,5,1,1,0,1\n", + "\n", + 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"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", + "\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", + "\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", + "\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", + "\n" + ] + } + ], "source": [ "all_paths = [\n", " \"../../05_src/data/assignment_2_data/inflammation_01.csv\",\n", @@ -94,7 +221,8 @@ "]\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", + " for i in range(60):\n", + " print(f.readline())\n", " \n", " # YOUR CODE HERE: Iterate through the variable using a for loop and print each row for inspection" ] @@ -314,7 +442,8 @@ "provenance": [] }, "kernelspec": { - "display_name": "Python 3", + "display_name": "python-env", + "language": "python", "name": "python3" }, "language_info": { @@ -327,7 +456,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.11.8" + "version": "3.11.14" } }, "nbformat": 4, From a564851e1daff743d9f5b0090c656dfed2c68e52 Mon Sep 17 00:00:00 2001 From: Greg Litster Date: Mon, 16 Mar 2026 16:22:04 -0400 Subject: [PATCH 2/4] adding in my code for DSI certificate Python module assignment 2 --- 02_activities/assignments/assignment_2.ipynb | 239 ++++++++----------- 1 file changed, 101 insertions(+), 138 deletions(-) diff --git a/02_activities/assignments/assignment_2.ipynb b/02_activities/assignments/assignment_2.ipynb index 80e260214..c31da0e06 100644 --- a/02_activities/assignments/assignment_2.ipynb +++ b/02_activities/assignments/assignment_2.ipynb @@ -72,7 +72,7 @@ }, { "cell_type": "code", - "execution_count": 9, + "execution_count": 77, "metadata": { "id": "n0m48JsS-nMC" }, @@ -81,130 +81,72 @@ "name": "stdout", "output_type": 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'11', '5', '5', '6', '1', '1', '1', '1', '0', '2', '1']\n", + "['0', '0', '2', '1', '3', '3', '2', '7', '4', '4', '3', '8', '12', '9', '12', '9', '5', '16', '8', '17', '7', '11', '14', '7', '13', '11', '7', '12', '12', '7', '8', '5', '7', '2', '2', '4', '1', '1', '1', '0']\n", + "['0', '0', '1', '2', '4', '2', '2', '3', '5', '7', '10', '5', '5', '12', '3', '13', '4', '13', '7', '15', '9', '12', '18', '14', '16', '12', '3', '11', '3', '2', '7', '4', '8', '2', '2', '1', '3', '0', '1', '1']\n", + "['0', '0', '1', '1', '1', '5', '1', '5', '2', '2', '4', '10', '4', '8', '14', '6', '15', '6', '12', '15', '15', '13', '7', '17', '4', '5', '11', '4', '8', '7', '9', '4', '5', '3', '2', '5', '4', '3', '2', '1']\n", + "['0', '0', '2', '2', '3', '4', '6', '3', '7', '6', '4', '5', '8', '4', '7', '7', '6', '11', '12', '19', '20', '18', '9', '5', '4', '7', '14', '8', '4', '3', '7', '7', '8', '3', '5', '4', '1', '3', '1', '0']\n", + "['0', '0', '0', '1', '4', '4', '6', '3', '8', '6', '4', '10', '12', 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'1', '2', '1', '1']\n", + "['0', '0', '1', '2', '4', '1', '5', '5', '2', '3', '4', '8', '8', '12', '5', '15', '9', '17', '7', '19', '14', '18', '12', '17', '14', '4', '13', '13', '8', '11', '5', '6', '6', '2', '3', '5', '2', '1', '1', '1']\n", + "['0', '0', '0', '3', '1', '3', '6', '4', '3', '4', '8', '3', '4', '8', '3', '11', '5', '7', '10', '5', '15', '9', '16', '17', '16', '3', '8', '9', '8', '3', '3', '9', '5', '1', '6', '5', '4', '2', '2', '0']\n", + "['0', '1', '2', '2', '2', '5', '5', '1', '4', '6', '3', '6', '5', '9', '6', '7', '4', '7', '16', '7', '16', '13', '9', '16', '12', '6', '7', '9', '10', '3', '6', '4', '5', '4', '6', '3', '4', '3', '2', '1']\n", + "['0', '1', '1', '2', '3', '1', '5', '1', '2', '2', '5', '7', '6', '6', '5', '10', '6', '7', '17', '13', '15', '16', '17', '14', '4', '4', '10', '10', '10', '11', '9', '9', '5', '4', '4', '2', '1', '0', '1', '0']\n", + "['0', '1', '0', '3', '2', '4', '1', '1', '5', '9', '10', '7', '12', '10', '9', '15', '12', '13', '13', '6', '19', '9', '10', '6', '13', '5', '13', '6', '7', '2', '5', '5', '2', '1', '1', '1', '1', '3', '0', '1']\n", + "['0', '1', '1', '3', '1', '1', '5', '5', '3', '7', '2', '2', '3', '12', '4', '6', '8', '15', '16', '16', '15', '4', '14', '5', '13', '10', '7', '10', '6', '3', '2', '3', '6', '3', '3', '5', '4', '3', '2', '1']\n", + "['0', '0', '0', '2', '2', '1', '3', '4', '5', '5', '6', '5', '5', '12', '13', '5', '7', '5', '11', '15', '18', '7', '9', '10', '14', '12', '11', '9', '10', '3', '2', '9', '6', '2', '2', '5', '3', '0', '0', '1']\n", + "['0', '0', '1', '3', '3', '1', '2', '1', '8', '9', '2', '8', '10', '3', '8', '6', '10', '13', '11', '17', '19', '6', '4', '11', '6', '12', '7', '5', '5', '4', '4', '8', '2', '6', '6', '4', '2', '2', '0', '0']\n", + "['0', '1', '1', '3', '4', '5', '2', '1', '3', '7', '9', '6', '10', '5', '8', '15', '11', '12', '15', '6', '12', '16', '6', '4', '14', '3', '12', '9', '6', '11', '5', '8', '5', '5', '6', '1', '2', '1', '2', '0']\n", + "['0', '0', '1', '3', '1', '4', '3', '6', '7', '8', '5', '7', '11', '3', '6', '11', '6', '10', '6', '19', '18', '14', '6', '10', '7', '9', '8', '5', '8', '3', '10', '2', '5', '1', '5', '4', '2', '1', '0', '1']\n", + "['0', '1', '1', '3', '3', '4', '4', '6', '3', '4', '9', '9', '7', '6', '8', '15', '12', '15', '6', '11', '6', '18', '5', '14', '15', '12', '9', '8', '3', '6', '10', '6', '8', '7', '2', '5', '4', '3', '1', '1']\n", + "['0', '1', '2', '2', '4', '3', '1', '4', '8', '9', '5', '10', '10', '3', '4', '6', '7', '11', '16', '6', '14', '9', '11', '10', '10', '7', '10', '8', '8', '4', '5', '8', '4', '4', '5', '2', '4', '1', '1', '0']\n", + "['0', '0', '2', '3', '4', '5', '4', '6', '2', '9', '7', '4', '9', '10', '8', '11', '16', '12', '15', '17', '19', '10', '18', '13', '15', '11', '8', '4', '7', '11', '6', '7', '6', '5', '1', '3', '1', '0', '0', '0']\n", + "['0', '1', '1', '3', '1', '4', '6', '2', '8', '2', '10', '3', '11', '9', '13', '15', '5', '15', '6', '10', '10', '5', '14', '15', '12', '7', '4', '5', '11', '4', '6', '9', '5', '6', '1', '1', '2', '1', '2', '1']\n", + "['0', '0', '1', '3', '2', '5', '1', '2', '7', '6', '6', '3', '12', '9', '4', '14', '4', '6', '12', '9', '12', '7', '11', '7', '16', '8', '13', '6', '7', '6', '10', '7', '6', '3', '1', '5', '4', '3', '0', '0']\n", + "['0', '0', '1', '2', '3', '4', '5', '7', '5', '4', '10', '5', '12', '12', '5', '4', '7', '9', '18', '16', '16', '10', '15', '15', '10', '4', '3', '7', '5', '9', '4', '6', '2', '4', '1', '4', '2', '2', '2', '1']\n", + "['0', '1', '2', '1', '1', '3', '5', '3', '6', '3', '10', '10', '11', '10', '13', '10', '13', '6', '6', '14', '5', '4', '5', '5', '9', '4', '12', '7', '7', '4', '7', '9', '3', '3', '6', '3', '4', '1', '2', '0']\n", + "['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", + "['0', '0', '0', '2', '4', '4', '5', '3', '3', '3', '10', '4', '4', '4', '14', '11', '15', '13', '10', '14', '11', '17', '9', '11', '11', '7', '10', '12', '10', '10', '10', '8', '7', '5', '2', '2', '4', '1', '2', '1']\n", + "['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": [ + "import csv #Adding this to be able to read the csv file easier\n", + "\n", "all_paths = [\n", " \"../../05_src/data/assignment_2_data/inflammation_01.csv\",\n", " \"../../05_src/data/assignment_2_data/inflammation_02.csv\",\n", @@ -221,10 +163,10 @@ "]\n", "\n", "with open(all_paths[0], 'r') as f:\n", - " for i in range(60):\n", - " print(f.readline())\n", - " \n", - " # YOUR CODE HERE: Iterate through the variable using a for loop and print each row for inspection" + " contents = csv.reader(f)\n", + " for row in contents:\n", + " print(row)\n", + " " ] }, { @@ -267,18 +209,19 @@ "import numpy as np\n", "\n", "def patient_summary(file_path, operation):\n", + " '''patient_summary(str, str) takes file path to a CSV file and an operation to determine '''\n", + " \n", " data = np.loadtxt(fname=file_path, delimiter=',') # Load 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", " if operation == 'mean':\n", - " # YOUR CODE HERE: Calculate the mean (average) number of flare-ups for each patient\n", + " summary_values = np.mean(data, ax) # Calculating the mean value for each patient\n", "\n", " elif operation == 'max':\n", - " # YOUR CODE HERE: Calculate the maximum number of flare-ups experienced by each patient\n", + " summary_values = np.max(data, ax) # Calculating the maximum number of flare-ups experienced by each patient\n", "\n", " elif operation == 'min':\n", - " # YOUR CODE HERE: Calculate the minimum number of flare-ups experienced by each patient\n", + " summary_values = np.min(data, ax) # Calculating the minimum number of flare-ups experienced by each patient\n", "\n", " else:\n", " # If the operation is not one of the expected values, raise an error\n", @@ -289,11 +232,19 @@ }, { "cell_type": "code", - "execution_count": null, + "execution_count": 83, "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", @@ -356,7 +307,7 @@ }, { "cell_type": "code", - "execution_count": null, + "execution_count": 60, "metadata": { "id": "_svDiRkdIwiT" }, @@ -388,20 +339,32 @@ "# 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" + " '''detect problems determines if there are any patients with a mean inflammation score of 0 by using patient summary to find the mean values of each participant \n", + " and the check_zeros helper function to see if any of those values are 0. It returns True if there is a patient entry with a mean value of 0 and False otherwise'''\n", + " mean_list = patient_summary(file_path,'mean')\n", + " return check_zeros(mean_list)" ] }, { "cell_type": "code", "execution_count": null, "metadata": {}, - "outputs": [], + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "False\n", + "[False, False, True, False, False, False, False, True, False, False, True, 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]))" + "print(detect_problems(all_paths[0]))\n", + "\n", + "print([detect_problems(path) for path in all_paths]) # Adding an additional test to check if there are any files across the entire dataset." ] }, { From 243420fecfbb674409e042bccf1ea9da4473b05b Mon Sep 17 00:00:00 2001 From: Greg Litster Date: Mon, 16 Mar 2026 16:24:59 -0400 Subject: [PATCH 3/4] adding in another comment --- 02_activities/assignments/assignment_2.ipynb | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/02_activities/assignments/assignment_2.ipynb b/02_activities/assignments/assignment_2.ipynb index c31da0e06..38e861e91 100644 --- a/02_activities/assignments/assignment_2.ipynb +++ b/02_activities/assignments/assignment_2.ipynb @@ -209,7 +209,7 @@ "import numpy as np\n", "\n", "def patient_summary(file_path, operation):\n", - " '''patient_summary(str, str) takes file path to a CSV file and an operation to determine '''\n", + " '''patient_summary(str, str) takes file path to a CSV file and an operation and return an array with the appropriate operation applied for each row in the file'''\n", " \n", " data = np.loadtxt(fname=file_path, delimiter=',') # Load the data from the file\n", " ax = 1 # This specifies that the operation should be done for each row (patient)\n", From 0b4b7f1cf6ce240a1dd2123e0bc311a09a600361 Mon Sep 17 00:00:00 2001 From: Greg Litster Date: Mon, 16 Mar 2026 16:25:54 -0400 Subject: [PATCH 4/4] adding in another comment --- 02_activities/assignments/assignment_2.ipynb | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/02_activities/assignments/assignment_2.ipynb b/02_activities/assignments/assignment_2.ipynb index 38e861e91..a81214b6a 100644 --- a/02_activities/assignments/assignment_2.ipynb +++ b/02_activities/assignments/assignment_2.ipynb @@ -209,7 +209,8 @@ "import numpy as np\n", "\n", "def patient_summary(file_path, operation):\n", - " '''patient_summary(str, str) takes file path to a CSV file and an operation and return an array with the appropriate operation applied for each row in the file'''\n", + " '''patient_summary(str, str) takes file path to a CSV file and an operation and return an array \n", + " with the appropriate operation applied for each row in the file'''\n", " \n", " data = np.loadtxt(fname=file_path, delimiter=',') # Load the data from the file\n", " ax = 1 # This specifies that the operation should be done for each row (patient)\n",