Hi Theja,
There are some mistakes in your input file. For example, the flexibility matrix is not correct. This matrix is calculated as the inverse of the stiffness matrix, where you can put EA, GJ, EI_2,EI_3 as the diagonal terms of a 4 by 4 matrix and then calculate the inverse matrix. Then put them in the corresponding positions in a 6 by 6 matrix, which is required by GEBT. Also there are mistakes in the mass matrix. For your case, the Mass(4,4) should be the summation of Mass(5,5) and Mass(6,6). And in the file you provided it is not. Please read the manual carefully and check the input file.
Qi