Independent MP Andrew Wilkie has launched a scathing broadside at Deputy Prime Minister Barnaby Joyce as the row over live exports flares up again.

Mr Wilkie has called for the trade to be phased out off the back of an Animals Australia video showing animals having their throats slashed and being left to bleed out in Middle Eastern and Asian countries.

"Barnaby Joyce doesn't just turn a blind eye to the cruelty - he rubs his hands together with glee at the prospect of it continuing," Mr Wilkie, who showed the video to the press in Canberra yesterday, said.

"I would challenge him to come out and say what we saw today is not wrong."

Mr Wilkie has called for the government to investigate the video and cease dealing with the culprits, who were, apparently, participating in the "Islamic Festival of Sacrifice", a component of Eid.

Barnaby Joyce (left), and Andrew Wilkie. (AAP)

Mr Joyce's office has said the footage is being investigated and made positive noises about the Exporter Supply Chain Assurance System, which Mr Wilkie damned as mere "window dressing".

The EACS was introduced in 2011 following a Four Corners expose on the industry, but little had changed when the program followed up on the issue a year later.

Nonetheless, the Department of Agriculture insists that the system is working.

"The Department's review of ESCAS found that more than 99 per cent of exported livestock since the systems introduction in 2011 were handled and slaughtered in accordance with standards set by the World Organisation for Animal Health (OIE)," the department told The Huffington Post .