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snoop.h
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#ifndef VIENNA_RNA_PACKAGE_SNOOP_H
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#define VIENNA_RNA_PACKAGE_SNOOP_H
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4
#include <
ViennaRNA/data_structures.h
>
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snoopT
snoopfold(
const
char
*s1,
10
const
char
*s2,
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const
int
penalty,
12
const
int
threshloop,
13
const
int
threshLE,
14
const
int
threshRE,
15
const
int
threshDE,
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const
int
threshD,
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const
int
half_stem,
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const
int
max_half_stem,
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const
int
min_s2,
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const
int
max_s2,
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const
int
min_s1,
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const
int
max_s1,
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const
int
min_d1,
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const
int
min_d2,
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const
int
fullStemEnergy);
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snoopT
*snoop_subopt(
const
char
*s1,
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const
char
*s2,
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int
delta,
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int
w,
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const
int
penalty,
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const
int
threshloop,
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const
int
threshLE,
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const
int
threshRE,
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const
int
threshDE,
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const
int
threshTE,
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const
int
threshSE,
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const
int
threshD,
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const
int
distance,
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const
int
half_stem,
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const
int
max_half_stem,
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const
int
min_s2,
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const
int
max_s2,
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const
int
min_s1,
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const
int
max_s1,
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const
int
min_d1,
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const
int
min_d2,
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const
int
fullStemEnergy);
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void
Lsnoop_subopt(
const
char
*s1,
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const
char
*s2,
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int
delta,
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int
w,
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const
int
penalty,
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const
int
threshloop,
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const
int
threshLE,
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const
int
threshRE,
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const
int
threshDE,
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const
int
threshTE,
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const
int
threshSE,
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const
int
threshD,
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const
int
distance,
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const
int
half_stem,
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const
int
max_half_stem,
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const
int
min_s2,
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const
int
max_s2,
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const
int
min_s1,
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const
int
max_s1,
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const
int
min_d1,
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const
int
min_d2,
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const
int
alignment_length,
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const
char
* name,
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const
int
fullStemEnergy);
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void
Lsnoop_subopt_list (
const
char
*s1,
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const
char
*s2,
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int
delta,
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int
w,
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const
int
penalty,
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const
int
threshloop,
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const
int
threshLE,
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const
int
threshRE,
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const
int
threshDE,
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const
int
threshTE,
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const
int
threshSE,
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const
int
threshD,
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const
int
distance,
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const
int
half_stem,
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const
int
max_half_stem,
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const
int
min_s2,
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const
int
max_s2,
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const
int
min_s1,
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const
int
max_s1,
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const
int
min_d1,
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const
int
min_d2,
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const
int
alignment_length,
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const
char
*name,
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const
int
fullStemEnergy);
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void
Lsnoop_subopt_list_XS (
const
char
*s1,
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const
char
*s2,
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const
int
**access_s1,
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int
delta,
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int
w,
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const
int
penalty,
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const
int
threshloop,
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const
int
threshLE,
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const
int
threshRE,
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const
int
threshDE,
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const
int
threshTE,
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const
int
threshSE,
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const
int
threshD,
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const
int
distance,
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const
int
half_stem,
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const
int
max_half_stem,
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const
int
min_s2,
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const
int
max_s2,
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const
int
min_s1,
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const
int
max_s1,
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const
int
min_d1,
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const
int
min_d2,
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const
int
alignment_length,
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const
char
*name,
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const
int
fullStemEnergy);
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void
snoop_subopt_XS (
const
char
*s1,
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const
char
*s2,
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const
int
**access_s1,
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int
delta,
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int
w,
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const
int
penalty,
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const
int
threshloop,
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const
int
threshLE,
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const
int
threshRE,
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const
int
threshDE,
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const
int
threshTE,
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const
int
threshSE,
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const
int
threshD,
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const
int
distance,
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const
int
half_stem,
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const
int
max_half_stem,
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const
int
min_s2,
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const
int
max_s2,
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const
int
min_s1,
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const
int
max_s1,
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const
int
min_d1,
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const
int
min_d2,
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const
int
alignment_length,
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const
char
*name,
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const
int
fullStemEnergy);
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snoopT
*alisnoop_subopt(
const
char
**s1,
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const
char
**s2,
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int
delta,
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int
w,
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const
int
penalty,
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const
int
threshloop,
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const
int
threshLE,
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const
int
threshRE,
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const
int
threshDE,
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const
int
threshTE,
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const
int
threshSE,
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const
int
threshD,
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const
int
distance,
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const
int
half_stem,
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const
int
max_half_stem,
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const
int
min_s2,
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const
int
max_s2,
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const
int
min_s1,
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const
int
max_s1,
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const
int
min_d1,
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const
int
min_d2);
205
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snoopT
*aliLsnoop_subopt_list (
const
char
**s1,
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const
char
**s2,
214
int
delta,
215
int
w,
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const
int
penalty,
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const
int
threshloop,
218
const
int
threshLE,
219
const
int
threshRE,
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const
int
threshDE,
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const
int
threshTE,
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const
int
threshSE,
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const
int
threshD,
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const
int
distance,
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const
int
half_stem,
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const
int
max_half_stem,
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const
int
min_s2,
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const
int
max_s2,
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const
int
min_s1,
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const
int
max_s1,
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const
int
min_d1,
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const
int
min_d2,
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const
int
alignment_length);
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snoopT
alisnoopfold(
const
char
**s1,
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const
char
**s2,
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const
int
penalty,
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const
int
threshloop,
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const
int
threshLE,
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const
int
threshRE,
245
const
int
threshDE,
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const
int
threshD,
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const
int
half_stem,
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const
int
max_half_stem,
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const
int
min_s2,
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const
int
max_s2,
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const
int
min_s1,
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const
int
max_s1,
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const
int
min_d1,
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const
int
min_d2);
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snoopT
snoopfold_XS(
const
char
*s1,
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const
char
*s2,
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const
int
**access_s1,
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const
int
pos,
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const
int
max_pos_j,
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const
int
penalty,
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const
int
threshloop,
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const
int
threshLE,
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const
int
threshRE,
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const
int
threshDE,
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const
int
threshD,
270
const
int
half_stem,
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const
int
max_half_stem,
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const
int
min_s2,
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const
int
max_s2,
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const
int
min_s1,
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const
int
max_s1,
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const
int
min_d1,
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const
int
min_d2,
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const
int
fullStemEnergy);
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283
extern
int
snoop_subopt_sorted;
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#endif
snoopT
Definition:
data_structures.h:297
data_structures.h
ViennaRNA
snoop.h
Generated on Wed Jun 29 2016 15:18:03 for RNAlib-2.2.7 by
1.8.9.1