X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=kprobaln.h;fp=kprobaln.h;h=00c7c8a6bf3b8b281899b6554aa1c9aadcc8e80b;hb=168ad095c3483f195ae3e404b3cd1fe949681909;hp=0000000000000000000000000000000000000000;hpb=15a0c37188c495ec9d11b437d5d2a34172be6cad;p=samtools.git diff --git a/kprobaln.h b/kprobaln.h new file mode 100644 index 0000000..00c7c8a --- /dev/null +++ b/kprobaln.h @@ -0,0 +1,49 @@ +/* The MIT License + + Copyright (c) 2003-2006, 2008, 2009 by Heng Li + + Permission is hereby granted, free of charge, to any person obtaining + a copy of this software and associated documentation files (the + "Software"), to deal in the Software without restriction, including + without limitation the rights to use, copy, modify, merge, publish, + distribute, sublicense, and/or sell copies of the Software, and to + permit persons to whom the Software is furnished to do so, subject to + the following conditions: + + The above copyright notice and this permission notice shall be + included in all copies or substantial portions of the Software. + + THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, + EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF + MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND + NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS + BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN + ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN + CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE + SOFTWARE. +*/ + +#ifndef LH3_KPROBALN_H_ +#define LH3_KPROBALN_H_ + +#include + +typedef struct { + float d, e; + int bw; +} kpa_par_t; + +#ifdef __cplusplus +extern "C" { +#endif + + int kpa_glocal(const uint8_t *_ref, int l_ref, const uint8_t *_query, int l_query, const uint8_t *iqual, + const kpa_par_t *c, int *state, uint8_t *q); + +#ifdef __cplusplus +} +#endif + +extern kpa_par_t kpa_par_def; /* { 0.001, 0.1, 10 } */ + +#endif