I am trying to develop a connector which can join both sides by a magnet. I got the idea of using a neodymium magnet , but I was thinking that if this could in one way or another affect circuit operation. This is an example of what I'm trying to do
Electronic – neodymium magnet – how it affects a circuit
connectormagnetics
Related Solutions
CNC or 3d Printed connecting shields. For normal use, you would make one piece where the boards slot into place, but there would be slight gaps, depending on the design. For gapless use, you need to make them in two pieces. One for the frontside, one for the backside, on each corner. Designed to meet the angle you want. There would be x number of holes, one for each pcb that is meant to join at that corner. A hole would also be made in the pcb. Then you screw or bolt them together.
Think box corner protectors. 
Heck, you could even get them stamped or cut out of metal, if you want the gapless ones.
Even you are not specify the holding or attracting “strength” of your electromagnet, increasing the area of your pole tip, you spread the flux and increase the leakage. Usually conical, or sharp pole tips design resulting a flux density gain especially in short distances. You can see this in magnetic tweezers.
The pole tip of your core also highly related with the dimensions of the object you are going to lift, because the ferromagnetic object acts as a mirror of your electromagnet core. If your core tip area is much larger than your object, then it will shift to the edge of the core. Good performance starts with an analogy of 0.8:1.
In your case you can construct a “jacketed” electromagnet in case of a holding electromagnet desired, or try to make the coil longer (longer core) increasing the magnetic lines return path and strengthen the attractive force.
So I think the answer is no.
EDIT The traction force of the electromagnet will be
where P is pull in Kgr, Ag the cross sectional area of gap, lg the length of the air gap in cm, and NI is the ampere-tirns. (Charles R. Underhill "Solenoids Electromagnets and Electromagnetic Windings" 2nd edition NY 1914)
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Best Answer
If a magnet passes by a conductor a current is induced in the conductor, this is the principal operation of generators. If that magnet stands still then the conductor is entirely unaffected.
If a current is passing through a conductor a magnetic field forms around the conductor. That magnetic field can tug on components. This effect can be demonstrated with a compass. Unless you plan to conduct hundreds or thousands of amps of current then you are quite safe in that respect. If the tug action was important then traces would fly off circuit boards all the time.
The more important thing you need to keep in mind is contact resistance. The magnets would have to align perfectly to ensure low contact resistance. In regular male female type connectors the female end is flexible ensuring maximum contact area to reduce contact resistance.
Some Apple laptops have a similar connector, the difference being that the magnets just align and hold. The contacts in this case are not magnetic, one side is fixed and the other side is springy to allows maximum contact.