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No, there will not be any question from chemistry and physics in jee paper 2.

JEE Main Paper 2 Syllabus 2020

Syllabus for Aptitude Test:
Part 1:
Awareness of persons, places, Buildings, Materials. Objects, Texture related to Architecture and buildenvironment. Visualising three-dimensional objects from two-dimensional drawings. Visualising. different sides of three-dimensional objects. Analytical Reasoning Mental Ability (Visual, Numerical and Verbal).
Part II
Three dimensional - perception: Understanding and appreciation of scale and proportion of objects, colour texture, harmony and contrast, building forms and elements. Design and drawing of geometrical or abstract shapes and patterns in pencil. Transformation of forms both 2D and 3D union, rotation subtraction, development of surfaces and volumes, elevations Generation of Plan and 3 D views of objects. Creating two dimensional and three dimensional compositions using given shapes and forms.

Sketching of scenes and activities from memory of urbanscape (monuments, public space, festivals, market, street scenes, recreational spaces, etc.), landscape (river fronts, jungles, trees, plants, etc.) and rural life.

Jee mains paper 2 syllabus for Mathematics :

Complex numbers and quadratic equations
Matrices and determinants
Sets, relations and functions
Mathematical induction
Permutations and combinations
Mathematical reasoning
Limit, continuity and differentiability
Integral calculus
Three-dimensional geometry
Differential equations
Binomial theorem and its simple applications
Sequences and series
Vector algebra
Statistics and probability
Trigonometry
Co-ordinate geometry

Foe more information you can checkout the link below :

https://engineering.careers360.com/articles/jee-main-paper-2-syllabus

I hope this heaps.

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