Liquid throughput hall sensor giving odd number of pulses plus only works in horizontal level

I'm going to assume the liquid in question has a dielectric constant that is very much greater than the dielectric constant of air. This is the case for many liquids, including all liquids whose major component is water. Many "medical liquids" fall in this category, as people are mostly water too.

I am am going to recommend a capacitive measuring system based on the concept described Scott Edwards' article "Measure Water Level Without Getting Wet" (Stamp Applications no 27, 1997):

Basically, you put the liquid in a small narrow tube, either as a container or through communicating vessels from a larger reservoir. You apply conductive tape to both sides of the tube. You now have made a capacitor with the liquid as dielectric. Because the dielectric constant of the liquid is much higher than the dielectric constant of air, the capacitance of the system increases with increasing water level. Because of the finite dielectric constant of air, the relation is linear but not strictly speaking proportional.

The good thing about this system is that it's relatively accurate, and the electronics never get anywhere near the liquid.

For your specific case, you are measuring relatively small quantities. If it's acceptable in your application, I would get rid of the reservoir altogether and replace it with a single tube about \$10 cm^2\$ in cross section and one meter long. This should enable you to store 1 liter of fluid while giving you plenty of swing in your capacitor value.

For actually measuring the capacitance, there are many solutions. Here's a few:

• Use a CD4060 as in the basic stamp note.
• Turn the capacitance into a frequency with a schmitt-trigger oscillator.
• Use the cap to make an RC filter, feed it with an AC signal (e.g. a square wave from a microcontroller clock), put the result through a rectifier circuit (using an op-amp based circuit to avoid the diode drop) and measure the resulting average voltage

You can find more circuits to perform the capacitance measurement in the comments of this blog post I made on the subject of capacitive measurement.

The easiest way to do it is to create the "Simple Voltage Divider" circuit found in the datasheet and connect that to an analog input. Apply power to pin 1, ground to pin 2, and connect pins 3 and 4 together to the input. You can then perform a normal ADC conversion and then from there determine the height of the liquid.

^{simulate this circuit – Schematic created using CircuitLab}