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# H/ProfileAln.h

    00001 #ifndef __VIENNA_RNA_PACKAGE_PROFILEALN_H__
    00002 #define __VIENNA_RNA_PACKAGE_PROFILEALN_H__
    00003
    00004 float profile_aln(const float *T1,
    00005                   const char *seq1,
    00006                   const float *T2,
    00007                   const char *seq2);
    00008
    00009 int set_paln_params(double gap_open,
    00010                     double gap_ext,
    00011                     double seqweight,
    00012                     int free_ends);
    00013
    00014 #endif