Program to manage some common clinical research tasks from the command line
Project description
Program to manage some common clinical research task from the command. Very much a work in progress line
Getting Started
This program requires python 3 and a few external packages. Strongly advise installing into a virtual environment as I’m new at this!
Prerequisites
Requires python and above
$ python 3.5 $ pip install openpyxl $ pip install xlrd $ pip install pandas $ pip install numpy $ pip install matplotlib
Installing
$ pip install clinical_research_study_manager
Get Help
$ clinical_research_study_manager -h optional arguments: -h, --help show this help message and exit -create_project Project_Name Creates a new project titled Project_Name in the Projects directory -load_project Project_Name Loads Project Project_Name from the Projects directory for study activities -list_projects List available projects to load
Create New Project
$ clinical_reseaerch_study_manager -create_project Testing Creating new project titled Testing Created patient_data[phi] for project Testing at /home/beliefs22/Clinical_Research_Manager_Projects/Projects/Testing Created patient_data[de_identified] for project Testing at /home/beliefs22/Clinical_Research_Manager_Projects/Projects/Testing Created logs for project Testing at /home/beliefs22/Clinical_Research_Manager_Projects/Projects/Testing Created logs/logs_with_phi for project Testing at /home/beliefs22/Clinical_Research_Manager_Projects/Projects/Testing Created data_visualization for project Testing at /home/beliefs22/Clinical_Research_Manager_Projects/Projects/Testing Created log files for project Testing Created Screening_Log.xlsx log for Testing at /home/beliefs22/Clinical_Research_Manager_Projects/Projects/Testing/logs/Screening_Log.xlsx Created Master_Linking_Log.xlsx log for Testing at /home/beliefs22/Clinical_Research_Manager_Projects/Projects/Testing/logs/logs_with_phi/Master_Linking_Log.xlsx Created Follow_Up_Log.xlsx log for Testing at /home/beliefs22/Clinical_Research_Manager_Projects/Projects/Testing/logs/Follow_Up_Log.xlsx Created Enrollment_Log.xlsx log for Testing at /home/beliefs22/Clinical_Research_Manager_Projects/Projects/Testing/logs/Enrollment_Log.xl
Load Specific Project
$ clinical_research_study_manager -load_project Testing Opening Testing 1. Manage Logs 2. Query Logs Please choose what actions you would like to take, q to quit.
List Available Projects
$ clinical_research_study_manager -list_projects Current Projects are: 1 : Testing
Running the tests
$ clinical_research_study_manager_tests Launching unittests with arguments python -m unittest /home/beliefs22/PycharmProjects/clinical_research_study_manager/build/lib/clinical_research_study_manager/tests/testing_input_types.py in /home/beliefs22/PycharmProjects/clinical_research_study_manager/build/lib/clinical_research_study_manager/tests testing invalid age input testing invalid date input testing invalid eligibility status input testing invalid enrollment status input testing invalid sex input testing invalid time input testing valid age input testing valid date input testing valid eligibility status input testing valid enrollment status input testing valid initials input testing valid reason ineligible input testing valid reason not enrolled input testing valid sex input testing valid time input Ran 15 tests in 0.022s OK
These test will check valid and invalid input expected from the user
License
This project is licensed under the MIT License - see the LICENSE.txt file for details
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