AT PRESENT, ONLY WORKS FOR HUMAN - this is because of the underlying sequence, interaction datasets and SLiM prediction file.  if these are changed will all work perfectly.
This is the folder to run the iELM program within:

to find help for running this program please type into the command line:

python iELM_2.py

The main results will get outputted in two files:

1) results_1.txt
2) results_2.txt

both files contain the same information but in different formats

Information about domain-domain interactions is outputted into:

svm/3did_STRING_iELM_9606.txt


The program in its current state does not run PepSite from command line due to the time required to run PepSite (at best 2-3 minutes per prediction).  However, scores of previously run PepSite evaluations will be included.  If you wish to run PepSite for any predictions please use the website:  http://pepsite.russelllab.org/

If SVM does not work please download a program compatible with your operating system from:
http://svmlight.joachims.org/
and place the program svm_classify within the svm folder.