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How can the rotational speed, or the length of a day be determined or estimated in a planet which is composed entirely of non homogeneous fluids? There must be internal forces (pressure gradients, Coriolis, and others) that move the gases around, so what do they use as a point of reference in a planet which has no solid or fixed surface?

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Planets, whether gaseous or solid will rotate about an axis essentially because of the angular momentum they have from their time of creation.

Angular momentum is conserved if there are no interactions, like moons which generate tides etc, and if no mass is ejected or falls in, so that rotation period will be constant with slow changes depending on the dynamics of the neighborhood and the density of space gas.

A planet can have any angular momentum so to determine its day/night cycle one has to measure it. On a solid planet with a telescope one can sight a mountain or a caldera and watch it come around again. Then the cycle is known.

In a gaseous planet this is not as easy. If there are stable storm centers in the gas, for example, ( as there are sunsposts in the sun) one can measure the return of such formations, as is being done for Jupiter, which is a gas giant.

It is not calculations, it is measurements.

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What the internal motions are might be calculated with various models using the observable surface features for verification, and then corrections might apply to the measured period due to the motion of the storm centers and other features.

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This might help… – anna v Feb 26 '13 at 8:59
Sorry, Anna, but this is inaccurate. Weather features like the red spot wander with respect to any other fixed marker, and the cloud layers rotate differentially at different latitudes. – Emilio Pisanty Feb 26 '13 at 11:51
@EmilioPisanty Sure they do, that is what the last paragraph deals with and also the link for the sun. The rotation period of the sun from the equator to the poles differs by five earth days, for example. A model fitted to these data could give the rotation of the core, for example. – anna v Feb 26 '13 at 14:24

Magnetic fields, mostly. Without a spacecraft orbiting or flying by to directly measure, it's up to radio astronomers to detect any variations in synchrotron radiation or other effects caused by varying magnetic fields, if on a time scale not too different from any visible cloud features appearing in telescopes. If no radio signals, then it's just a rough average of the main visible cloud features, in which case there might not be any one number given.

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This is indeed a nontrivial measurement. Jupiter, for instance, rotates differentially: different bands of clouds at different latitudes rotate at different speeds. From wikipedia:

Because Jupiter is not a solid body, its upper atmosphere undergoes differential rotation. The rotation of Jupiter's polar atmosphere is about 5 minutes longer than that of the equatorial atmosphere; three systems are used as frames of reference, particularly when graphing the motion of atmospheric features. System I applies from the latitudes 10° N to 10° S; its period is the planet's shortest, at 9h 50m 30.0s. System II applies at all latitudes north and south of these; its period is 9h 55m 40.6s. System III was first defined by radio astronomers, and corresponds to the rotation of the planet's magnetosphere; its period is Jupiter's official rotation. [67]

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