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Macedonian police officers in Gevgelija clashed on Friday with thousands of migrants trying to enter the country from Greece. Later, some were allowed entry. Credit Georgi Licovski/European Pressphoto Agency

SKOPJE, Macedonia — Tensions at the Greek-Macedonian border erupted into clashes on Friday, when the Macedonian police used stun grenades to try to disperse a large group of migrants trying to cross the border into their country.

The United Nations refugee agency expressed deep concern about the clashes, which took place a day after the Macedonian government declared a temporary state of emergency and tried to clamp down on a growing flood of migrants trying to reach wealthier Western European countries through the Balkans.

By evening a wary calm had been restored at the border crossing outside the Macedonian town of Gevgelija, where the clashes took place early in the day. For many, despair later turned to a kind of relief when the authorities relented somewhat and allowed several groups of migrants to cross the border in an orderly way.

But some 3,000 tired and frightened men, women and children, most of them fleeing war zones in Syria, Iraq or Afghanistan, were still waiting Friday evening in a neutral zone between the Greek and Macedonian sides, hemmed in by barbed wire and surrounded by soldiers and armed police officers. Many found makeshift shelter in one of the dozens of tents that were set up on the site.

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SERBIA

KOSOVO

BULGARIA

Skopje

MACEDONIA

Gevgelija

ALBANIA

GREECE

100 MILES

“It is a fact that we are facing an increased pressure from the influx of migrants attempting to cross the border,” said Ivo Kotevski, a spokesman for the Ministry of Internal Affairs. “But so far we have the situation under control, and there haven’t been any major incidents or injuries.”

Before the state of emergency was declared, large numbers of migrants who had made their way to Greece, often in perilous sea crossings by small boat, would head north to Macedonia, often crossing the relatively porous border by train or by walking along the tracks. While Macedonia is not a member of the European Union, travel costs there are relatively low, and other countries in the region have tightened their border controls recently, making it a preferred route north for migrants.

But the Macedonian police moved to stiffen the border on Friday, sharply limiting the number who could cross and fencing off the railroad right of way through Gevgelija with barbed wire and armored vehicles. The government also used its temporary authority under the state of emergency to deploy army troops along the border.

Critics of the government said that the moves would only drive the migrants to try to sneak across in more dangerous ways, or fall victim to traffickers.

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An aerial view of the border on Friday, a day after Macedonia declared a state of emergency. Credit Nikos Arvanitidis/European Pressphoto Agency

“There was no need for declaring a state of crisis,” said Jasmin Redzepi of Legis, a nonprofit organization that provides support to migrants. “It appears to come as a result of the increased pressure from the local citizens.”

Residents of Gevgelija have protested the physical and environmental toll that the crowds of migrants are taking on the area, filling all the town’s public spaces and straining its resources.

Mr. Redzepi said slow processing of requests for asylum was “one of the main reasons for the forming of big crowds” at the border, where he said the migrants face “very bad conditions, with no access to toilets and with only food and water that activists and local citizens manage to supply.”

The Macedonian prime minister, Nikola Gruevski, said the state of emergency was a temporary measure intended to control the flow of migrants “so that they will have more humane transport through Macedonia.” “The country does not have the capacity to help so many people, so we had to intervene,” he said.

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Tear Gas Fired at Migrants in Macedonia

The move came as the police tried to disperse a crowd of migrants at the border with Greece on Friday morning.

By REUTERS on Publish Date August 21, 2015. Photo by Ognen Teofilovski/Reuters. Watch in Times Video »

About 42,000 migrants have traveled through the country in the past two months, according to the Ministry of Internal Affairs. That figure is equivalent to 2 percent of the country’s total population of about 2.1 million.

Advocacy groups like Amnesty International reacted to the clashes on Friday by criticizing the state of emergency. “Every country has the power to patrol its own borders, but this kind of paramilitary response is an unacceptable pushback, in violation of international law,” said Gauri van Gulik, Amnesty’s deputy director for Europe. “Macedonian authorities are responding as if they were dealing with rioters rather than refugees.”

The group called on the national authorities to switch their focus to humanitarian conditions. “Instead of sealing off the border, the Macedonian and Greek authorities must focus on providing shelter, food, clothing and health care, with help from the international community if needed,” the group said in a statement.

In a statement from its Geneva headquarters, the Office of the United Nations High Commissioner for Refugees said it was “particularly worried about the thousands of vulnerable refugees and migrants, especially women and children, now massed on the Greek side of the border amid deteriorating conditions.”

António Guterres, the high commissioner for refugees, said in the statement that he had spoken with Macedonia’s foreign minister, Nikola Poposki, about the problem, and “received assurances that the border will not be closed in the future.”

Correction: August 25, 2015

Because of an editing error, an article on Saturday about clashes between the Macedonian police and a large group of migrants at the Greek-Macedonian border misstated the percentage of the Macedonian population represented by the 42,000 migrants who have traveled through the country in the past two months. They make up 2 percent of the population of 2.1 million, not 5 percent.