You can track Commission Junction ad clicks using Google Admanager (a.k.a DoubleClick for Publishers or Google DFP). Here’s how.
When gathering banner ads, be sure to choose the “Get HTML” option for your banners.
Copy the HTML.
In Google DFP, create your campaign and get to the “add creative” step.
Choose “Third Party Ad” as the ad type.
Paste the CJ banner HTML into the box.
Google DFP will spin a little and tell you that you need to insert macros.
Find the HREF attribute of the link, insert the appropriate click macro just before the CJ link.
Save the creative and preview.
Click the preview, Google DFP will/should tell you that it successfully tracked your click.