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An Israeli court on Tuesday sentenced the former Gaza head of a major US-based aid agency to 12 years in prison for funnelling millions of dollars to Hamas, following a trial slammed by Human Rights Watch as a "miscarriage of justice".

The Beersheba district court in southern Israel issued a sentence of "12 years' prison time, less the detention" already served for World Vision's Mohammed al-Halabi, who has been jailed throughout the past six years of court proceedings.

The sentencing comes after the Israeli court issued a ruling in June that Halabi was guilty of siphoning off millions of dollars and tonnes of steel to Hamas, which controls the Palestinian enclave.

Halabi, who was arrested in June 2016 and indicted in August that year, has consistently denied any irregularities.

His lawyer reiterated his claim to innocence following Tuesday's sentencing.

"He says that he's innocent, he did nothing and there is no evidence," Maher Hanna said. "On the contrary, he proved in the court above any reasonable doubt that he made sure that no money will be (given) directly to Hamas."

According to Hanna, if Halabi had admitted to wrongdoings, he would have been released.

"But he insisted that truth also has value. And for his personal values and for the international humanitarian work values, he insisted on the truth, and he cannot admit a thing that he did not do," the lawyer said.

Secret evidence

Hanna said they would appeal the verdict to the supreme court.

The Israeli prosecution said it was also considering an appeal.

"These are very severe deeds, the defendant funded terror with millions of shekels, helped strengthen the Hamas tunnel network," Moran Guez of the southern district attorney's office.

"We asked for 16-21 years prison. We'll read the sentencing and consider our actions," she told reporters.

Halabi had been convicted of membership in a terrorist group -- Hamas -- and of financing terrorist activities, of having "transmitted information to the enemy" as well as the possession of a weapon.

Much of the evidence against him was kept secret, with Israel citing "security concerns", prompting his legal team to question the verdict's legitimacy.

In its sentencing, the court said Halabi had joined the military wing of Hamas in 2004, and was "planted in World Vision" the following year.

The court said that besides 12 tonnes of steel and other materials provided to Hamas for their tunnels and positions, he also gave the Islamist group of "millions of dollars" of World Vision's money "to fund terror".

The 12-year sentence was also meant to deter Gazans working in international aid groups from aiding Hamas, according to the court.

"There are huge amounts of money that if they reach terror organisations, will contribute to strengthening the terror regime in Gaza," the sentencing said.

'Deeply disappointing'

World Vision, a US-based Christian charity with almost 40,000 employees globally, said the sentencing was "deeply disappointing".

Its spokesperson Sharon Marshall stressed her objection to "any form of terrorism or activities that support terrorism," saying they "don't see any evidence of those things in this case."

"We fully support Mohammed's intent to appeal the verdict and the sentence in this case, and we call for a fair and transparent process at the supreme court," she said in a statement.

"We remain committed to improving the lives of vulnerable children in the region and hope we'll be able to advance our humanitarian work in the context of our longstanding cooperation with the relevant authorities in Palestine and Israel," Marshall said.

Omar Shakir, Israel and Palestine director at Human Rights Watch, called the 12-year sentence a "profound miscarriage of justice," with the six-year trial and use of secret evidence constituting a "mockery of due process".

"He should long ago have been released," Shakir said in a statement.

Following Halabi's arrest, the Australian government, a major donor to World Vision, announced it was freezing funding to projects in the Gaza Strip.

A subsequent Australian government probe found no evidence of embezzlement.