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Hi! I haven't seen the explanation of the Matrix trilogy like this, so I'll try to assemble my thoughts and hope you would understand ...
Let’s look at the Matrix trilogy as a metaphor of historical development of physics and subsequential changes in the common view of the world. It would be a quick summary, so please, don’t be angry on me for oversimplification.
Also, when I am speaking about world, or world-view, I mean more or less the European, or christian, point of view.
The plot starts within the Matrix a kind of dreamworld, where people lives more or less happily. From today’s point of view, it could represent the era before the great discoveries of Newton and his colleagues. The world used to be enchanted and full of the presence of the God. The people lived more or less in accordance with the inherited rules given by the God. Most of them do not questioned the existence of the world and that kept them in happiness. But there were some, who inquired about the nature of … nature. Let’s call these guys scientists, because they soon become to be known like that. And the scientific view of the world prevails, or, at least, the consequences of scientific discovery influences the lives of milions of people.
Now it seemed it started with Newton, who presented his Principles of the working of the world. His mechanics described the world as consisting of objects and these objects were made of mass points – atoms. Newton think out the rules of motion, inertia, action and reaction and gravity. These rules were regarded as laws – similar to the laws given by God. Physics became the science and it meant in Newton’s time decyphering the laws of God. What was amazing was the simplicity of the discovered rules, somehow it resembled the biblical decalogue. Soon it was believed that whatever truth would be discovered in physics, it should be simple – it was believed that all the natural phenomenons can be reduced to certain simple rules, similar to Newtonian rules of motion. And at the begining it almost worked like that, explanative power of physics combined with mathematics have grown. It beated down plenty of myths and believes and gave to (some) Euroean men what they deserved: power. Power to conquer and power to rule. Most of the Earth becomes colonized, while in Europe, the science progressed and soon came the era of enlightment. Science became like a new belief and the scientific view of the world gained popularity.
How was the world-view of classical science? Divided into two great parts: 1/material world where the body lived and 2/spiritual world of mind, soul and God. How comes this division? It has much to do with analytical character of science – tear the whole into the parts and then becomes exploration of the parts much easier. Also, once matter was regarded as dead matter that obeys the rules (obeys the laws of physics) it seemed that reality lost something. It was God, who ceased to be omnipresent – he was divided into 2 aspects: the Creator God and the Personal God, while His presence within the nature was lost. So, the material nature was deserted by God – and it could be identified as a „desert of the real“ in the movies. The „real world“ is in Matrix associated with bodies and it is, strictly speaking, material world. The rebels are scientists and believers is science – for them, the world looks quite different, in comparison with the people in (religious) dreamworld (=plugged to matrix). Why dreamworld? Because science disenchants the nature, the religious view is regarded as minor and believe in God is something that preceeds science. Religion is seen as childhood, compared to the adulthood of science. And children usually dream … while adulthood seems to consist of dismissal of the childhood dreams – of waking up into the reality! But what is this reality? It is the material reality of deserted world.
Now, the rebels in Zion are fighting – within the matrix against agents and against sentinels in the „desert of the real“. The rebels are those of scientific belief and their fight witnin the matrix may symbolize the fight of enlighted people for a better world, like in French Revolution. These were mostly scientists but other people that were against established governments in 18th-19th century - libertanians, anarchists, kommunists – joined their forces and fought the regime. What was connecting these diverse groups was belief in future, and this future was projected by science and rational thinking. Because they were mostly materialists, God ceased to be important for them. Therefore they fought for a better world and were trying to get followers – enlighten them. This was the fight of ideas and rebels were more powerful then ordinary people in the enchanted world, because they knew that certain rules and taboos were fake, science helped then overcome the fear of God, Death, Hell, storms … lots of common fears simply disappeared by realizing that you don’t have to obey them. The view of the world have changed.
Another fight of rebels, that fight within the „desert of the real“ against sentinels, may symbolize a scientific discovery – fighting with reality itself. In science, the fight is fought by experimenting, making of theories and the nature retaliates by the results of such experiments. What is being fought for is the picture of the world. At the time we are talking about (18th-19th cent.), predominant scientific view was heavily based on Newtonian mechanic. The material world was seen like a machine – made of parts and set into motion by the Creator God and suprisingly, there was almost no place for people. At least for physics was evolution of matter something incredible and inexplicable. The law of increasing entropy simply did not allowed evolution, in its view the universe were heading toward the „heat death“, where all temperature will be equal and matter would be diminished into the dust. Physics had no explanation for life, therefore evolution life was seen either as an incredibly rare coincidence of very low probabilities on the steps of evolution or some miraculous vital force was searched, that would counter the entropy. The vital force could easily be the Oracle, while Smith would be the inevitable physical law of nature. And from a mechanistic point of view, life is heading toward death, similarly like motion tend to diminish into heat due to the friction and increasing entropy.
All this could be depicted in the Matrix, the first movie. The scientific situation during the 19th century. But then cames Neo. He could represent the new science and its successive evolvement. The roots of revolution in physics that occured at the begining of 20th century can be traced deeper into the past. There were experiments hardly explicable by the classical mechanistic physics – they did not fit into the consenzual world view. For instance electro-magnetic field – for its mechanistic explanaion was invented ether, theoretical substance which relays the waves, like the surface of water relays the waves when the stone is thrown there. So, at the end of 19th cent. scientific experiments became less and less understandable and explicable and scientist were prepared to save the common sense at almost all price.
But then came Einstein and thought out completely new way of looking at physics. He introduced theory of relativity and bring the base to quantum mechanics, which was later developed by a a bunch of other physicists. There two disciplines changed the scientific world view completely and even most of the other scientist have no idea what is this all about, so they happily develop their research at the base of classical sciences and only slowly accept the changes and new thoughts. Just to keep it on track, Neo represents the development of science and this phase, at the beginning of 20th century, is reflected in Reloaded and Revolutions. It symbolize the ongoing revolution in modern sciences and the end of Revolutions attempts to predict the future development, in the similar way Fritjof Capra does in his book The Turning Point.
Quite interesting character in Reloaded is Merovingian. There are certain notion that he used to be the One and I think he really was. If Neo symbolizes the modern science, Merovingian is a great symbol of the mechanistic science. He talks a lot about cause and effect and then makes a practical show of this principle in behaviour of a woman. He shows the aplication of mechanistic approach in social sciences, the believe (shared with Architect) that people are quite predictable. Merovingian appearance has also certain devilish conotations. That can point to Laplace‘s Demon – teoretical creature, that can predict everything, because it knows the location and movement of all particles of the universe, which is one of the theoretical consequences of Newtonian physics. He is also french and even this could be explained in the realm of physics, because a lot of french physicist were defending determinism even against the english discoveries concerning the heat mechanics, principles of conservation of energy and entropy. Neo’s fight with the henchmen of Merovingian and his subsequent entrapment in the labyrint of the castle may symbolize the hardship of the beginnings of modern physics, where only minority of scientist accepted the view of relativistic and quantum physics.
The Keymaker is another significant character. His keys were for Merovingian – and that were the keys to universe, that determinists claims to possess. It is the Russel‘s belief that science can explain everything and what isn’t tranformable into the scientific language is only fake problem. Keymaker symbolize the keys to the secrets of nature and Neo needs him to reach (while symbolizing the progress of science) the next discovery. The secret, to which Keymaker provides the key is nuclear weapon. You see at the end of Reloaded the eplosion of nuclear power plant and also Neo’s escape from Architect’s chamber in flames of another unprecedented explosion – and that points to the creation of nuclear bomb.
Neo’s speech with Architect may symbolize the scienthists‘ moral dilema whether to contribute to the progress of science even at the cost of misuse to the military armament, or if it is better not to open the secret chamber of energy hidden within nuclei. Another parts of the speech are the questions that nuclear physics asks to the Creator of the universe (Architect symbolize the Creator God): „Why am I here?“ – aka „Where does the universe cames from?“. It is like saying that all the great mysteries of physics are leading to the God. And it seems to be so, most of the top scientists do believe in God. It is probably the character of the theoretical physics and questioning the foundations of reality, matter and universe. You can’t avoid thinking about the God here and about the sense of it all. And God tells the scientist: „Do not contribute to the making bomb.“ But he did. And the choice is the problem. It is inpredictable and that troubles the God, here it is probably the Creator God that set the rules and which denotes the world with fate. There is no place for a choice in this world. How could possibly exist fate and choice at the same? That’s where the conventional logic end. And it seems that Neo makes real choices and is doomed to do it at the same time. It resembles the problems with subatomic particles, and the wave-particle duality. Conventional logic tells us that it is impossible that it could be both or that it depends on experiment – that reality seems to be multifaceted and that all the facets can’t be seen at the same time. And in the movie, in the scene with Architect, the conventional logic really ends. What follows can probably only be understood in either mystic way or with the outlook of nuclear physics.
At the end of the Matrix, Trinty saves Neo. This could symbolize that if body is stimulated (i.e by electrical shocks), the soul could be brought back from death, if it has the desire to return – as was suggested by perceived clinical deaths and returns. This somehow links material world to the spiritual world and could be futher connected to the role of the Oracle, who were heading to something like this in her speeches. To suggest the profound connection between body and mind, that the separation is just another faked ilusion. As I said before, she could represent the vital force of life. But she could be the ancient „natural“ wisdom too. She is the wisdom denied by science, because it speaks different language – in myths, legends, sayings … - the way the ancient cultures reflected their profound insight intho the world and translated this knowledge to the commonly understandable world-views. Oracle also resembles the eastern wisdom (buddhism, taoism, hinduism) and that way of teaching is quite different from the western. In Zen buddhism, for instance, students have to find the truth themselves and their master just shows the way, gives the riddles in koans … it is not the explicit way of teaching and comprehensive analysis, that western studying of books and clearly defining the scientific terms. Oracle gaves advices but only to those who can understand them.
The end of Reloaded flips again the resurrection. This time is saved Trinity but who is she? She is all the time with Neo and he represents modern science. Is it possible that she symbolize the scientific method? She was there in Zion even before Neo appeared. And she saved him several times when he was in troubles. Science couldn’t exist without experiments – connection of theories with matter and so did Neo. And at the end of Revolutions Trinity die before Neo. It could be that Neo is more like theoretical science, while Trinity practical. And theory reaches further, the theory about the nature of the universe is not practical and cannot be really proven, that’s why Neo gets further then Trinity. Now the difficult question: Why should practical science die after the nuclear explosion? It is not practical at all, or is it? To continue in study of nuclei, nuclear bombs are probaly not the best solution. But there are even the peaceful ways of study of subatomic particles – accelerators and study of the spectrum of the stars in the sky (could it be the only scene above the clouds?). It is also clear from the movie that without Trinity – without the practical and experimental science – Neo –theoretical science – would be stopped on his path by Bane, and that would also mean the end, because without science could be quite hard to get out the critical situation caused by science and especially by the nuclear explosion – there is no way back and the path have to reach the end, otherwise the cumulated problems would eradicate the whole human race and only material world would survive.
Bane, together with Neo’s ability to influence sentinels symbolize the mess at the margin of modern physics. The phenomenons far away from common sense (originating in subatomic world or in extreme speeds) and practically unpredictible may have also unexpected effects (the butterfly effect in complex systems). Bane for example caused the crash of perfect plan of commander Lock, who may symbolize the traditional scientist that is facing the problems of today by traditional methods but is doomed to fail because the old science cannot deal with this kind of problem. Science is not universal and have the limits too and it is essential to know which theory can be applied to what problem. Neo’s advantage is the knowledge of his goal – at least his intuition, something completely new to the science but that could be the next step toward the solution of current problems. Maybe Neo’s focus on his goal could foreshadow the possible way of science – that it is powerless without the goal, that science as such is not possible, that science is just the method of solution of problems (Popper). It is a kind of backcasting the future: imagine the good end first and then search the solution. Not the today’s way of searching solution to a problem, without any idea how does it look. It couldn’t be found like that!
Now, the end of the movie is at hand and Smith is avaiting us. Who is he? He the opposite and negative of Neo – of science. He acted as a inevitable law of nature too but how inevitable are the natural laws in the view of physics today? Smith could be the pandora’s box of science, that is with any good invention always came another ominous one. Along with the nuclear energy comes also the nuclear bomb. And the deeper we dig into the matter, the more powerful energies could be released. Neo could be the hope that good intention is more powerful that the bad, destructive power of its shadow. Smith also shows the power of possitive feedback, one of the machanisms that probably leads to the evolution of life. Cycles. Everything in nature is happening in cycles and the yin and yang are just another symbol for it. Change always is and Oracle, the ancient wisdom should know it for sure … because she is so old, and she is still here. She must have many ups and downs behind and she is still there.
Finally, the message of the movies as I see it is that the world is ONE indivisible and interconnected. The division can be powerful, but balance is necessary. And science? That may be the way to bring about the balance but the ears and eyes must be open to conceive the heart of the world and its wholeness as well. Not an easy job. And belief in its good end seems to be essential. Or is there any other way of doing things, without the firm conviction that it is the right thing to do?
Here it is, there is a lot of thing that should have been said better, I know, but let's wait for some comments.
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