His desperation gave him strength; and, by working the boat to and fro, he pushed it at length, little by little, into the water, entered it, and rowed to the vessel.
Previously in The Jesuits in North America in the Seventeenth Century.
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He and his Indian masters were lodged together in a large building, like a barn, belonging to a Dutch farmer. It was a hundred feet long, and had no partition of any kind. At one end the farmer kept his cattle; at the other he slept with his wife, a Mohawk squaw, and his children, while his Indian guests lay on the floor in the middle.  As he is described as one of the principal persons of the colony, it is clear that the civilization of Rensselaerswyck was not high.
[1 Buteux, Narré, MS.]
In the evening, Jogues, in such a manner as not to excite the suspicion of the Indians, went out to reconnoiter. There was a fence around the house, and, as he was passing it, a large dog belonging to the farmer flew at him, and bit him very severely in the leg. The Dutchman, hearing the noise, came out with a light, led Jogues back into the building, and bandaged his wound. He seemed to have some suspicion of the prisoner’s design; for, fearful perhaps that his escape might exasperate the Indians, he made fast the door in such a manner that it could not readily be opened. Jogues now lay down among the Indians, who, rolled in their blankets, were stretched around him. He was fevered with excitement; and the agitation of his mind, joined to the pain of his wound, kept him awake all night. About dawn, while the Indians were still asleep, a laborer in the employ of the farmer came in with a lantern, and Jogues, who spoke no Dutch, gave him to understand by signs that he needed his help and guidance. The man was disposed to aid him, silently led the way out, quieted the dogs, and showed him the path to the river. It was more than half a mile distant, and the way was rough and broken. Jogues was greatly exhausted, and his wounded limb gave him such pain that he walked with the utmost difficulty. When he reached the shore, the day was breaking, and he found, to his dismay, that the ebb of the tide had left the boat high and dry. He shouted to the vessel, but no one heard him. His desperation gave him strength; and, by working the boat to and fro, he pushed it at length, little by little, into the water, entered it, and rowed to the vessel. The Dutch sailors received him kindly, and hid him in the bottom of the hold, placing a large box over the hatchway.
He remained two days, half stifled, in this foul lurking-place, while the Indians, furious at his escape, ransacked the settlement in vain to find him. They came off to the vessel, and so terrified the officers, that Jogues was sent on shore at night, and led to the fort. Here he was hidden in the garret of a house occupied by a miserly old man, to whose charge he was consigned. Food was sent to him; but, as his host appropriated the larger part to himself, Jogues was nearly starved. There was a compartment of his garret, separated from the rest by a partition of boards. Here the old Dutchman, who, like many others of the settlers, carried on a trade with the Mohawks, kept a quantity of goods for that purpose; and hither he often brought his customers. The boards of the partition had shrunk, leaving wide crevices; and Jogues could plainly see the Indians, as they passed between him and the light. They, on their part, might as easily have seen him, if he had not, when he heard them entering the house, hidden himself behind some barrels in the corner, where he would sometimes remain crouched for hours, in a constrained and painful posture, half suffocated with heat, and afraid to move a limb. His wounded leg began to show dangerous symptoms; but he was relieved by the care of a Dutch surgeon of the fort. The minister, Megapolensis, also visited him, and did all in his power for the comfort of his Catholic brother, with whom he seems to have been well pleased, and whom he calls “a very learned scholar.”
[Megapolensis, A Short Sketch of the Mohawk Indians.]
When Jogues had remained for six weeks in this hiding-place, his Dutch friends succeeded in satisfying his Indian masters by the payment of a large ransom.  A vessel from Manhattan, now New York, soon after brought up an order from the Director-General, Kieft, that he should be sent to him. Accordingly he was placed in a small vessel, which carried him down the Hudson. The Dutch on board treated him with great kindness; and, to do him honor, named after him one of the islands in the river. At Manhattan he found a dilapidated fort, garrisoned by sixty soldiers, and containing a stone church and the Director-General’s house, together with storehouses and barracks. Near it were ranges of small houses, occupied chiefly by mechanics and laborers; while the dwellings of the remaining colonists, numbering in all four or five hundred, were scattered here and there on the island and the neighboring shores. The settlers were of different sects and nations, but chiefly Dutch Calvinists. Kieft told his guest that eighteen different languages were spoken at Manhattan.  The colonists were in the midst of a bloody Indian war, brought on by their own besotted cruelty; and while Jogues was at the fort, some forty of the Dutchmen were killed on the neighboring farms, and many barns and houses burned. 
[2 Lettre de Jogues ŕ Lalemant, Rennes, Jan. 6, 1644. — See Relation, 1643, p. 79. — Goods were given the Indians to the value of three hundred livres.]
[3 Jogues, Novum Belgium.]
[4 This war was with Algonquin tribes of the neighborhood. — See O’Callaghan, New Netherland, I., Chap. III.]
The Director-General, with a humanity that was far from usual with him, exchanged Jogues’s squalid and savage dress for a suit of Dutch cloth, and gave him passage in a small vessel which was then about to sail. The voyage was rough and tedious; and the passenger slept on deck or on a coil of ropes, suffering greatly from cold, and often drenched by the waves that broke over the vessel’s side. At length she reached Falmouth, on the southern coast of England, when all the crew went ashore for a carouse, leaving Jogues alone on board. A boat presently came alongside with a gang of desperadoes, who boarded her, and rifled her of everything valuable, threatened Jogues with a pistol, and robbed him of his hat and coat. He obtained some assistance from the crew of a French ship in the harbor, and, on the day before Christmas, took passage in a small coal vessel for the neighboring coast of Brittany. In the following afternoon he was set on shore a little to the north of Brest, and, seeing a peasant’s cottage not far off, he approached it, and asked the way to the nearest church. The peasant and his wife, as the narrative gravely tells us, mistook him, by reason of his modest deportment, for some poor, but pious Irishman, and asked him to share their supper, after finishing his devotions, an invitation which Jogues, half famished as he was, gladly accepted. He reached the church in time for the evening mass, and with an unutterable joy knelt before the altar, and renewed the communion of which he had been deprived so long. When he returned to the cottage, the attention of his hosts was at once attracted to his mutilated and distorted hands. They asked with amazement how he could have received such injuries; and when they heard the story of his tortures, their surprise and veneration knew no bounds. Two young girls, their daughters, begged him to accept all they had to give, — a handful of sous; while the peasant made known the character of his new guest to his neighbors. A trader from Rennes brought a horse to the door, and offered the use of it to Jogues, to carry him to the Jesuit college in that town. He gratefully accepted it; and, on the morning of the fifth of January, 1644, reached his destination.
He dismounted, and knocked at the door of the college. The porter opened it, and saw a man wearing on his head an old woollen nightcap, and in an attire little better than that of a beggar. Jogues asked to see the Rector; but the porter answered, coldly, that the Rector was busied in the Sacristy. Jogues begged him to say that a man was at the door with news from Canada. The missions of Canada were at this time an object of primal interest to the Jesuits, and above all to the Jesuits of France. A letter from Jogues, written during his captivity, had already reached France, as had also the Jesuit Relation of 1643, which contained a long account of his capture; and he had no doubt been an engrossing theme of conversation in every house of the French Jesuits. The Father Rector was putting on his vestments to say mass; but when he heard that a poor man from Canada had asked for him at the door, he postponed the service, and went to meet him. Jogues, without discovering himself, gave him a letter from the Dutch Director-General attesting his character. The Rector, without reading it, began to question him as to the affairs of Canada, and at length asked him if he knew Father Jogues.
“I knew him very well,” was the reply.
“The Iroquois have taken him,” pursued the Rector. “Is he dead? Have they murdered him?”
“No,” answered Jogues; “he is alive and at liberty, and I am he.” And he fell on his knees to ask his Superior’s blessing.
That night was a night of jubilation and thanksgiving in the college of Rennes.
[For Jogues’s arrival in Brittany, see Lettre de Jogues ŕ Lalemant, Rennes, Jan. 6, 1644; Lettre de Jogues ŕ — — , Rennes, Jan. 5, 1644, (in Relation, 1643,) and the long account in the Relation of 1647.]
Jogues became a center of curiosity and reverence. He was summoned to Paris. The Queen, Anne of Austria, wished to see him; and when the persecuted slave of the Mohawks was conducted into her presence, she kissed his mutilated hands, while the ladies of the Court thronged around to do him homage. We are told, and no doubt with truth, that these honors were unwelcome to the modest and single-hearted missionary, who thought only of returning to his work of converting the Indians. A priest with any deformity of body is debarred from saying mass. The teeth and knives of the Iroquois had inflicted an injury worse than the torturers imagined, for they had robbed Jogues of the privilege which was the chief consolation of his life; but the Pope, by a special dispensation, restored it to him, and with the opening spring he sailed again for Canada.
– The Jesuits in North America in the Seventeenth Century, Chapter 16 by Francis Parkman
The below is from Francis Parkman’s Introduction.
If, at times, it may seem that range has been allowed to fancy, it is so in appearance only; since the minutest details of narrative or description rest on authentic documents or on personal observation.
Faithfulness to the truth of history involves far more than a research, however patient and scrupulous, into special facts. Such facts may be detailed with the most minute exactness, and yet the narrative, taken as a whole, may be unmeaning or untrue. The narrator must seek to imbue himself with the life and spirit of the time. He must study events in their bearings near and remote; in the character, habits, and manners of those who took part in them, he must himself be, as it were, a sharer or a spectator of the action he describes.
With respect to that special research which, if inadequate, is still in the most emphatic sense indispensable, it has been the writer’s aim to exhaust the existing material of every subject treated. While it would be folly to claim success in such an attempt, he has reason to hope that, so far at least as relates to the present volume, nothing of much importance has escaped him. With respect to the general preparation just alluded to, he has long been too fond of his theme to neglect any means within his reach of making his conception of it distinct and true.