How to Run

1. Download the files, data and program and uncompressed the files using “unzip."

Notice : if you want to get the data on your computer, please refer “how to make input data”.

1. data(datasetxx.zip)

i. *.histogram

ii. *.fna.out

iii. *.ptt

iv. *.gbk.genelctn

v. Ref_Genome.*.sorted

b. program(compam.zip)

i. compam.jar

2. Make a directory , for example, “compam” and move to the directory.

% mkdir compam

% cd compam

3. Copy the downloaded file (compam.zip) to the directory compam.
4. Install the down loaded file on the directory

% unzip compam.zip

5. Move to the program directory(program) and excute the jar file.

% java –jar compam.jar

* NOTICE : if you encounter memory size error, you should set the runtime environment parameter, for example,

  % java –jar –Xmx1024M compam.jar

* To run the program, COMPAM requires multiple alignment program, “Clustal-W”.