anchor.diff:  spectra_tar="spectra.tar";
   db_fasta="barleyprots.fa";
   blast_index_name="barleyprots";
  -omssaModsXML="mods.xml";
   
   # Convert Spectra and index databases
   spectraFiles=getSupportedSpectraFilesFromTar(spectra_tar:spectra_tar);
  
positive.code: # Deftasks
  #
  # Index fasta database using makeblastdb from ncbi
  deftask makeBlastDB(db_blastDB(File):db_fasta(File) idx_name) in bash *{
  	makeblastdb -in $db_fasta -dbtype prot -hash_index -out $idx_name
  	tar cf db.tar --remove-files $idx_name*
  	db_blastDB=db.tar
  }*
  
  # Run OMSSA on the mzML data using the TOPP OMSSAAdapter
  deftask runOmssa(OmssaRes(File):mzMLFile(File) db_blastDB_tar(File) blast_index_name mods(File)) in bash *{
  	tar xf db_blastDB_tar
  	touch $mods
  	OMSSAAdapter -in $mzMLFile -out res.idXML -database ${blast_index_name}.psq
  	OmssaRes=res.idXML
  }*
  
negative.code: db_blastDB_tar;
  
  # Run database search tools
  OmssaRes=runOmssa(mzMLFile:mzMLFiles db_blastDB_tar:db_blastDB_tar blast_index_name:blast_index_name);
  OmssaRes;
  
  # Create consensus
  
  