He said the rebel Liberation Tigers of Tamil Eelam (LTTE) were trying to portray as "a great crime" the government's response to rebel attacks.
Rajapakse did not directly mention recent government bombings but the military has said it acted in self-defence Tuesday by launching air and naval strikes against rebel positions in northeastern Trincomalee district.
Air strikes continued on Wednesday and followed the attempted assassination in Colombo on Tuesday of the nation's army chief.
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A woman who had claimed to be pregnant blew herself up beside his car, severely wounding Lieutenant General Sarath Fonseka while killing herself and 10 others, most of them security personnel.
Following the government air strikes, the Tigers issued a statement saying that 40,000 people had been displaced as a result of the bombardments.
Lyndon Je