Around 40 tents are pitched at the site on the bank of Grand Canal where almost 100 were cleared this morning.
By early afternoon, around 20 tents had been left, and the authorities left the site. The 20 tents belonged to men who had not been offered any accommodation for tonight.
It is understood that around 20 new tents have been pitched in the area.
Barricades have been put up along the canal in Dublin after almost 100 tents were cleared from the waterway this morning.
The multi-agency operation began at 7.30am with dozens of tents removed from the canal bank at Wilton Terrace.
The men who had been sleeping there were mostly asylum seekers who had been given tents by agencies due to a lack of State accommodation.
They watched this morning as their tents were taken away.
Volunteers who have been helping them said they are very frustrated, and that many of them have been told nothing about where to go.
In a statement, the Government said a number of beds have became available for International Protection Applicants in recent days, which resulted in offers of accommodation being issued by email this morning to 89 of those waiting for somewhere to stay.
Some men are still waiting to be told where to go as barricades are being put up so that no more tents can be put here.
Olivia Headon, a volunteer who has been helping those seeking international protection, said only a portion of people were offered accommodation.
She told RTÉ's Drivetime: "We have a lot of men who are still on the canal in a very small green space that has not been barricaded yet, who will possibly sleep there tonight.
"There was quite a lot of anxiety from the men. They did not fully understand what was happening. I think always in the back of people's minds is - 'Is this deportation, are they bringing us to the airport?'"
"We do not need to have this massive multi-agency operation each time that costs thousands it can be done in a more humane and dignified way that it does not always have to be this urgent removal," she added.
Earlier, Green Party leader Eamon Ryan said the Europa League final taking place in the Aviva Stadium tomorrow evening was not connected with the Government providing them with accommodation, rather it was a matter of availability.
Mr Ryan told RTÉ's News at One: "That is not the reason you would be looking to provide people accommodation, because of a football match.
"It is an ongoing reality that we have to provide protection for people seeking refuge here.
"That has been a real challenge because the numbers that have been coming; we did not have the available accommodation, but as soon as it becomes available.
"We clearly want to provide it for those who are in a more perilous situation who are camped in that way, so that is the reason it was done now. "It is because we have the accommodation available."
Canal 'not a safe place' - Ryan
Mr Ryan said the men will be sent to a variety of accommodation an International Protection centres.
He said the situation was not ideal, but that it was far better than living at the canal without sanitation or facilities.
He told RTÉ's News at One: "There were five visits by a variety of officials from the Department of Integration, helped by the homeless charities to meet the people who are in tented accommodation there and to give them clear information in terms of...that there would be accommodation provided.
"But about 89 men...I think [they] are all men, have been provided with that accommodation in a number of different centres, and they will be making their way there.
"It is not right for us to have people on the canal in camps.
"It is not a safe place, so I’m glad that we have been able to find accommodation, alternative location which is better.
"Not ideal, but much better than being on the edge of a canal without any sanitation or any other facilities."
Large encampments not in anyone's interest - Ryan
The encampment began on the evening of 9 May, when around 26 tents were pitched between McCartney Bridge and Leeson Street Bridge, on the same day that other tents were cleared from elsewhere along the Grand Canal.
Tuesday's operation, which took place on a section of the canal at Mespil Road, is the third coordinated clearance after tents were removed from around the International Protection Office on Mount Street at the start of the month.
Mr Ryan said you cannot stop people pitching tents at certain locations completely, but added that large encampments were not wanted as they could be the subject of attack and vulnerable to health and safety issues.
"That is not in anyone's interest, not in the interest of those people who are in the tents, not in the interest of the local community, but it is for health and safety first and foremost," he said.
"The reality is we can't allow tents build up where there are no sanitation facilities, where there are no good health facilities," Ms Carroll MacNeill said.
"So, we are trying to move that and clear that to a more sustainable, alternative accommodation. That's taking a little time but that is the plan and that is what's going to happen."
Tánaiste Micheál Martin last week said it is expected that Thornton Hall in north Co Dublin will be ready to accommodate asylum seekers in four to six weeks' time.
The tents would be pitched in a part of the site that is already "serviced". This includes toilets, sanitation facilities, along with kitchens and eating areas.
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Olivia Headon, a volunteer who has experience working with migrants and displaced people, not just in Ireland said it was an anxious time this morning and frustrating that volunteers like herself were not made aware ahead of this morning's operation.
She said there was still a group of International Protection Applicants who have been camping along the Grand Canal waiting to find out where they will go tonight.
"We are trying to gather our own list, we generally know who is here and we are hoping that through one of the organisations, like the homeless charities, that can be passed on to the Government and that more offers can be made if there is space."
Another informal camp will spring up, she said "unless you have the Government agencies coming together not to clear a camp but to provide land to set up temporary shelters where there is sanitation, where there is running water, there is safety.
"This camp is not safe, people's tent's were urinated on. The verbal abuse to people seeking international protection and to the volunteers was disgusting."
Ms Headon said Government agencies need to come together to provide accommodation, not just to those on arrival into the country, but to people left out of Tuesday's operation. She also said there are many other International Protection Applicants sleeping rough throughout the city.
Those not included in Tuesday's removal appear to be staying in tents that are still on the site. This evening, around 40 tents remained pitched along the Grand Canal.
Brian, who left his home and family in South Africa in January said he is registered with the International Protection Office but that he has not been offered any accommodation yet.
He said there is a lack of information about his claim for asylum which he described as very frustrating.
"Some sort of communication would make me feel a lot better, that someone has heard my story, someone has got my application form so each day goes by, there is nothing so I think, what do I do today?"
Brian said South Africa is very beautiful but that there is no protection and that crime is very bad. He said he is worried about the safety of his two children and wants to try to make a better life in Ireland.
