Pope Francis then offered his praise for various national projects aimed at building peace both within Egypt and beyond its borders, saying development, prosperity and peace "are essential goods that merit every sacrifice."
He also spoke on the importance of keeping one's focus on the human being above all else, because they are "the heart of all development."
Pointing to the "fragile and complex" state of today's world, which he has frequently dubbed a "third world war fought piecemeal," Francis said a firm condemnation of violence is needed.
"It needs to be clearly stated that no civilized society can be built without repudiating every ideology of evil, violence and extremism that presumes to suppress others and to annihilate diversity by manipulating and profaning the Sacred Name of God," he said, thanking el-Sisi for clearly speaking out on this.
"All of us have the duty to teach coming generations that God, the Creator of heaven and earth, does not need to be protected by men; indeed, it is he who protects them," the Pope said, adding that God "never desires the death of his children, but rather their life and happiness."
"He can neither demand nor justify violence; indeed, he detests and rejects violence." The true God, he said, "calls to unconditional love, gratuitous pardon, mercy, absolute respect for every life, and fraternity among his children, believers and nonbelievers alike."
The Pope said it is the duty of everyone, regardless of nation or religion, to unite in proclaiming that "history does not forgive" hypocrites who preach justice but practice injustice, or who talk about equality and then discard others.
"It is our duty to unmask the peddlers of illusions about the afterlife, those who preach hatred in order to rob the simple of their present life and their right to live with dignity, and who exploit others by taking away their ability to choose freely and to believe responsibly."
Francis stressed that we are bound "to dismantle deadly ideas and extremist ideologies, while upholding the incompatibility of true faith and violence, of God and acts of murder."
Egypt, which once saved other peoples from famine, is called "to save this beloved region from a famine of love and fraternity," he said, explaining that this means issuing a harsh condemnation of all violence and terrorism.
By simultaneously building peace and fighting terrorism, Egypt will give proof that al-din lillah wal watan liljami (religion belongs to God and the nation to all), he said, referring to the motto of the nation's 1952 revolution.
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As the cradle of the three great monotheistic religions, the region, with the help of Egypt, the Pope said, "can and indeed will awake from the long night of tribulation, and once more radiate the supreme values of justice and fraternity that are the solid foundation and the necessary path to peace."
"From great nations, one can expect no less!" he said, noting how this year marks the 70th anniversary of the establishment of diplomatic relations between the Holy See and Egypt.
Pope Francis voiced his hope that these relations will continue to be strengthened, particularly through his visit.
He closed with an appeal for peace, which he said is "a gift of God, but also the work of man" which must be "built up and protected."
Offering his greetings to the various Christian groups present in Egypt, including Coptic Orthodox, Greek Byzantines, Armenian Orthodox, Protestants, and Catholics, the Pope prayed that St. Mark, who evangelized the region, would intercede for them in helping to establish unity.
"Your presence in this, your country, is not new or accidental, but ancient and an inseparable part of the history of Egypt," he said. "You have shown, and continue to show, that it is possible to live together in mutual respect and fairness, finding in difference a source of richness and never a motive of conflict."