Sequence Alignment

This is second module of the project. The function of the module is the
construction of GRN with inquire gene. Using sequence alignment method,
the program can determine the similarities between the new gene and
original genes.
Then program calculates and determins regulatory relationships.
Merge pull request #4 from jinyangustc/master

Sequence Alignment
Merge pull request #5 from lunayi/master

PSO
nothing
Translation module

This module achieves transcription and translation process. Thus our
program can attempt AAS(amino acid sequence) alignment.
nothing
test

test
nothing
Merge pull request #6 from jinyangustc/master

Transcription and translation module
fetch 2.0

1 add output to txt module cost less time to debug
2 add notation to all .cpp&.h
fix bugs

Owing to the DNA sequences that our database provides are the
UNEXPRESSION strands, the translation process of the program can just
use DNA sequences without transcription. It should be noted that users
have to enable the transcription module if their databases use
different strands of DNA sequences.
Merge pull request #7 from jinyangustc/master

fix bugs
Debug output to file module

have already tested, new file "sequence" contains only number and
sequence of genes, it improve running time!
calculation

calculation
Merge pull request #8 from liaoxyn/master

calculation
package two classes
Merge pull request #9 from jinyangustc/master

package two classes
Adjustment of second module
Merge pull request #10 from jinyangustc/master

Adjustment of second module
generate a AAS file

A program generates AAS file to help debug.