CommLine Perl API


The CommLine Perl API can be used by registered BSC users to execute BioMOBY web services, through SSH connections. Hosts available are MareNostrum and Altix Shared Memory server, here you can find more details.

The CommLine API is fully compatible with MobyLite, so to learn how to use it, you can take a look at the MobyLite Perl API MobyLite Perl API documentation.

Services offer:

  • Altix
    • Please refer to our services list to check what services can be executed in the Altix Shared Memory server.

  • Mare Nostrum
    • runNCBIBlastFromFASTA: NCBI Blast services (blastp, blastn, blastx, tblastx, tblastn) against a pre-existing database.
    • runNCBIBlastAgainstDB: NCBI Blast services (blastp, blastn, blastx, tblastx, tblastn) against user database.
    • runHMMSearchMassive: HMMER-Hmmsearch service.
    • runMDFromNAMD_Structure: Run a Simple Molecular Dynamic Simulation with Protein-Solvent system (Using Namd program).
    • optimizeStructureFromNAMD_Structure: Run a Simple Molecular Dynamic Simulation (optimization) with Protein-Solvent system (Using Namd program).