Beyond Compare - can we delete Delete Blank Line while comparing two pdf's text

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I am using Beyond compare(version 4) to compare two pdf's text. But in one scenario, since it is comparing Line by Line , if blank comes in middle, it is comparing blank line with other pdf's text , and shows as difference.It follows for the rest of the page. Please see below ,

First PDF

Line1: A. Beautiful  
Line2: Blank  
Line3: B. Good  

Second PDF

Line1: A. Beautiful  
Line2: B. Good  
Line3: Blank  

Kindly let me know, whether we can mark the blank line and delete. so that it will compare only the text.

Thanks in advance.

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Chris Kennedy On

Beyond Compare doesn't support editing PDF files. However, if it doesn't align text correctly, you can force two lines to align. Right click on a line on the left and select Align With, then left click on a line on the right side.