IeDEA-DES QA Checks

Please see the downloads section for documentation of the exceptions that are currently implemented. You can clone this repository if you are familiar with Git and GitHub. Alternatively, click on the cloud button with the word zip to download a zip archive of the most current version of the scripts.

The major directions for running these scripts:

1. Install RStudio (you will also need to install the latticeExtra and brew packages)
2. Place the programs and the tables that correspond to the IeDEA Data Exchange Standard (tblBAS.csv tblLAB_CD4.csv, tblLAB_RNA.csv, tblART.csv. etc...) as csv files in the input folder.
3. Open tbl_checks.R with RStudio
4. Change working directory to source of files/data ( Session -> Set Working Directory -> To Source File Location ).
5. Click on Source or CTRL+SHIFT+S. This will traverse all the csv files in the input directory and capture every exception (error) that these scripts look for.
6. If successful, a very large file with a table that includes all the exceptions will also be created in the output folder.
7. To generate a summary report of all the exceptions that were captured in that file, you will need to open the file code/summarize_exceptions.R and also source it.
8. If successful, a few other files will be created in the output directory. The html file output/summary_report.html will give you a nice view that you can read in your browser.