ERROR: could not find energy

[MahyarHosseini]

The program gives the following output for some of the inputs.

Input:
./HFold_iterative -s "TGCCTCCGGTTCTGAAGGTGTTCTT" -r "______________((((___))))"

Output:

Energy method 1: 0.000000 
Energy method 2: 0.000000 
Energy method 3: 0.000000 
Energy method 4: 0.000000 
ERROR: could not find energy

In the program, the final_energy is initialized to be infinity and the code currently ignores the result of each method if it is zero.

The input is tested by different parts of code used in iterative_HFold, and the results are:

             Output structure       Output Energy
simfold: ..............((((...))))      1.41
pkonly:  .[[...........((((.]]))))      0.00
hfold:   .[[...........((((.]]))))      0.00

The other inputs that have the same problem:

./HFold_iterative -s "GCCTCCGGTTCTGAAGGTGTTCTTG" -r "_____________((((___))))_"
./HFold_iterative -s "CTTAACGTCAAATGGTCCTTCTTGG" -r "_______((((__________))))"