Yer, everyone else has kind of nailed this already but - if you have valid travel docs for both countries the border shouldn't be an issue at all. I've crossed it many, many times in the last eight or so years and I have stamps from all over (not Israel) and never, ever had an issue - must have been another problem faced by this traveller and maybe he just wasn't willing to fess up. The India border guys are a bit pricklier than the Pakistanis so it can be an irritating process but if everything's in order they're usually perfectly pleasant so can't imagine an issue coming from India unless you had incorrect paperwork.
Try to avoid bringing Indian rupees from the Pak side - the India BSF like to roll travellers bringing more than a couple thousand rupees over - ostensibly to avoid 'counterfit' currency - and when you go from India to Pak you tend to get a better exchange rate from the money changers on the Pak side if you want Pak rupees. Not a great rate but enough to get you to Lahore. They will find you... :)