Your ScanSnap and DTPO work wonderfully together, but that’s done through ScanSnap Manager when you have properly configured it.
Click and hold on the ScanSnap Manager icon in the Dock. If ‘Use Quick Menu’ is checked, uncheck it. Next, from the options presented while clicking and holding on the ScanSnap Manager’s Dock icon, choose Settings.
Click on the Application tab. Click on the Browse button and add DEVONthink Pro Office (if DTPO2 pb5 is installed). Now set DEVONthink Pro as the target to which scan output will be sent. Click on the ‘Apply’ button.
ScanSnap Manager will also save a copy of the scan output to a location specified under the ‘Save’ tab. By default, that is the Pictures folder. If you make a change, click on the ‘Apply’ button. NOTE: The destination specified isn’t important, as you can set DTPO’s Preferences > OCR to move the original document to Trash.
Click on the ‘Scanning’ tab to set other parameters. I usually use the Best (Slow) mode, and Duplex. If you make a change, click ‘Apply’.
Click on the ‘Compression’ tab. I set Compression all the way to the left (low).
ScanSnap Manager provides an online Help file (under the Help menu) that you may want to examine for explanations of the settings and options.
When you’ve finished configuring ScanSnap Manager, put some paper copy into the ScanSnap’s sheet feeder and press the Scan button. The PDF output will be sent to DTPO and will be OCRd and saved to the database.
If you get a message that offers to reconfigure the setting to send output to DTPO, respond by first checking the option not to notify you again, then press Cancel.
You also mentioned secure deletion. That’s available in OS X. Here’s an excerpt from OS X Help:
Preventing deleted files from being read
When you delete files, the disk space that the files occupied is available for use. However, until that section of the disk is overwritten with new data, the information can be retrieved by disk reading utilities.
If the files you put in the trash contain sensitive information, you can use Secure Empty Trash to overwrite that information so it can’t be retrieved.
To empty the trash and overwrite all the information in the files:
In the Finder, choose File > Secure Empty Trash.
Using Secure Empty Trash takes a bit longer than simply emptying the trash.