#ifndef _RClustalOmega_H
#define _RClustalOmega_H

#include <Rcpp.h>

/*
 * note : RcppExport is an alias to `extern "C"` defined by Rcpp.
 *
 * It gives C calling convention to the rcpp_hello_world function so that
 * it can be called from .Call in R. Otherwise, the C++ compiler mangles the
 * name of the function and .Call can't find it.
 *
 * It is only useful to use RcppExport when the function is intended to be called
 * by .Call. See the thread http://thread.gmane.org/gmane.comp.lang.r.rcpp/649/focus=672
 * on Rcpp-devel for a misuse of RcppExport
 */
RcppExport SEXP RClustalOmega(SEXP rInputSeqs,
                              SEXP rCluster,
                              SEXP rGapOpen,
                              SEXP rGapExtend,
                              SEXP rMaxIters,
                              SEXP rsubstitutionMatrix,
                              SEXP rType,
                              SEXP rVerbose,
                              SEXP rParams);

#endif