/* I/O of multiple alignment files in Stockholm/Pfam format
 */
#ifndef eslMSAFILE_STOCKHOLM_INCLUDED
#define eslMSAFILE_STOCKHOLM_INCLUDED

extern int esl_msafile_stockholm_SetInmap     (ESLX_MSAFILE *afp);
extern int esl_msafile_stockholm_GuessAlphabet(ESLX_MSAFILE *afp, int *ret_type);
extern int esl_msafile_stockholm_Read         (ESLX_MSAFILE *afp, ESL_MSA **ret_msa);
extern int esl_msafile_stockholm_Write        (FILE *fp, const ESL_MSA *msa, int fmt);

#endif /*eslMSAFILE_STOCKHOLM_INCLUDED*/

/*****************************************************************
 * Easel - a library of C functions for biological sequence analysis
 * Version h3.1b1; May 2013
 * Copyright (C) 2013 Howard Hughes Medical Institute.
 * Other copyrights also apply. See the COPYRIGHT file for a full list.
 * 
 * Easel is distributed under the Janelia Farm Software License, a BSD
 * license. See the LICENSE file for more details.
 *
 * SVN $Id: esl_msafile_stockholm.h 708 2011-07-20 12:49:10Z eddys $
 * SVN $URL: https://svn.janelia.org/eddylab/eddys/easel/branches/hmmer/3.1/esl_msafile_stockholm.h $
 *****************************************************************/
