/dports/biology/vt/vt-0.57721/lib/htslib/ |
H A D | bcf_sr_sort.h | 97 sr_sort_t; typedef 99 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt); 100 void bcf_sr_sort_reset(sr_sort_t *srt); 101 int bcf_sr_sort_next(bcf_srs_t *readers, sr_sort_t *srt, const char *chr, int pos); 102 int bcf_sr_sort_set_active(sr_sort_t *srt, int i); 103 int bcf_sr_sort_add_active(sr_sort_t *srt, int i); 104 void bcf_sr_sort_destroy(sr_sort_t *srt); 105 void bcf_sr_sort_remove_reader(bcf_srs_t *readers, sr_sort_t *srt, int i);
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H A D | bcf_sr_sort.c | 71 static void bcf_sr_init_scores(sr_sort_t *srt) in bcf_sr_init_scores() 203 void remove_vset(sr_sort_t *srt, int jvset) in remove_vset() 242 void push_vset(sr_sort_t *srt, int ivset) in push_vset() 272 void debug_vsets(sr_sort_t *srt) in debug_vsets() 293 void debug_vbuf(sr_sort_t *srt) in debug_vbuf() 309 char *grp_create_key(sr_sort_t *srt) in grp_create_key() 330 int bcf_sr_sort_set_active(sr_sort_t *srt, int idx) in bcf_sr_sort_set_active() 642 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt) in bcf_sr_sort_init() 645 memset(srt,0,sizeof(sr_sort_t)); in bcf_sr_sort_init() 648 void bcf_sr_sort_reset(sr_sort_t *srt) in bcf_sr_sort_reset() [all …]
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H A D | synced_bcf_reader.c | 59 sr_sort_t sort;
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/dports/biology/bedtools/bedtools2-2.30.0/src/utils/htslib/ |
H A D | bcf_sr_sort.h | 97 sr_sort_t; typedef 99 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt); 100 void bcf_sr_sort_reset(sr_sort_t *srt); 101 int bcf_sr_sort_next(bcf_srs_t *readers, sr_sort_t *srt, const char *chr, int pos); 102 int bcf_sr_sort_set_active(sr_sort_t *srt, int i); 103 int bcf_sr_sort_add_active(sr_sort_t *srt, int i); 104 void bcf_sr_sort_destroy(sr_sort_t *srt); 105 void bcf_sr_sort_remove_reader(bcf_srs_t *readers, sr_sort_t *srt, int i);
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H A D | bcf_sr_sort.c | 73 static void bcf_sr_init_scores(sr_sort_t *srt) in bcf_sr_init_scores() 205 void remove_vset(sr_sort_t *srt, int jvset) in remove_vset() 244 void push_vset(sr_sort_t *srt, int ivset) in push_vset() 274 void debug_vsets(sr_sort_t *srt) in debug_vsets() 295 void debug_vbuf(sr_sort_t *srt) in debug_vbuf() 311 char *grp_create_key(sr_sort_t *srt) in grp_create_key() 332 int bcf_sr_sort_set_active(sr_sort_t *srt, int idx) in bcf_sr_sort_set_active() 644 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt) in bcf_sr_sort_init() 647 memset(srt,0,sizeof(sr_sort_t)); in bcf_sr_sort_init() 650 void bcf_sr_sort_reset(sr_sort_t *srt) in bcf_sr_sort_reset() [all …]
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H A D | synced_bcf_reader.c | 59 sr_sort_t sort;
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/dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/ |
H A D | bcf_sr_sort.h | 98 sr_sort_t; typedef 100 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt); 101 void bcf_sr_sort_reset(sr_sort_t *srt); 102 int bcf_sr_sort_next(bcf_srs_t *readers, sr_sort_t *srt, const char *chr, hts_pos_t pos); 103 int bcf_sr_sort_set_active(sr_sort_t *srt, int i); 104 int bcf_sr_sort_add_active(sr_sort_t *srt, int i); 105 void bcf_sr_sort_destroy(sr_sort_t *srt); 106 void bcf_sr_sort_remove_reader(bcf_srs_t *readers, sr_sort_t *srt, int i);
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H A D | bcf_sr_sort.c | 60 static void bcf_sr_init_scores(sr_sort_t *srt) in bcf_sr_init_scores() 192 static void remove_vset(sr_sort_t *srt, int jvset) in remove_vset() 232 static int push_vset(sr_sort_t *srt, int ivset) in push_vset() 263 void debug_vsets(sr_sort_t *srt) in debug_vsets() 284 void debug_vbuf(sr_sort_t *srt) in debug_vbuf() 300 static char *grp_create_key(sr_sort_t *srt) in grp_create_key() 321 int bcf_sr_sort_set_active(sr_sort_t *srt, int idx) in bcf_sr_sort_set_active() 643 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt) in bcf_sr_sort_init() 646 memset(srt,0,sizeof(sr_sort_t)); in bcf_sr_sort_init() 649 void bcf_sr_sort_reset(sr_sort_t *srt) in bcf_sr_sort_reset() [all …]
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H A D | synced_bcf_reader.c | 69 sr_sort_t sort;
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/dports/biology/py-pysam/pysam-0.18.0/htslib/ |
H A D | bcf_sr_sort.h | 98 sr_sort_t; typedef 100 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt); 101 void bcf_sr_sort_reset(sr_sort_t *srt); 102 int bcf_sr_sort_next(bcf_srs_t *readers, sr_sort_t *srt, const char *chr, hts_pos_t pos); 103 int bcf_sr_sort_set_active(sr_sort_t *srt, int i); 104 int bcf_sr_sort_add_active(sr_sort_t *srt, int i); 105 void bcf_sr_sort_destroy(sr_sort_t *srt); 106 void bcf_sr_sort_remove_reader(bcf_srs_t *readers, sr_sort_t *srt, int i);
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H A D | bcf_sr_sort.c | 60 static void bcf_sr_init_scores(sr_sort_t *srt) in bcf_sr_init_scores() 192 static void remove_vset(sr_sort_t *srt, int jvset) in remove_vset() 232 static int push_vset(sr_sort_t *srt, int ivset) in push_vset() 264 void debug_vsets(sr_sort_t *srt) in debug_vsets() 286 void debug_vbuf(sr_sort_t *srt) in debug_vbuf() 302 static char *grp_create_key(sr_sort_t *srt) in grp_create_key() 323 int bcf_sr_sort_set_active(sr_sort_t *srt, int idx) in bcf_sr_sort_set_active() 665 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt) in bcf_sr_sort_init() 668 memset(srt,0,sizeof(sr_sort_t)); in bcf_sr_sort_init() 671 void bcf_sr_sort_reset(sr_sort_t *srt) in bcf_sr_sort_reset() [all …]
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H A D | synced_bcf_reader.c | 69 sr_sort_t sort;
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/dports/biology/htslib/htslib-1.14/ |
H A D | bcf_sr_sort.h | 98 sr_sort_t; typedef 100 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt); 101 void bcf_sr_sort_reset(sr_sort_t *srt); 102 int bcf_sr_sort_next(bcf_srs_t *readers, sr_sort_t *srt, const char *chr, hts_pos_t pos); 103 int bcf_sr_sort_set_active(sr_sort_t *srt, int i); 104 int bcf_sr_sort_add_active(sr_sort_t *srt, int i); 105 void bcf_sr_sort_destroy(sr_sort_t *srt); 106 void bcf_sr_sort_remove_reader(bcf_srs_t *readers, sr_sort_t *srt, int i);
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H A D | bcf_sr_sort.c | 60 static void bcf_sr_init_scores(sr_sort_t *srt) in bcf_sr_init_scores() 192 static void remove_vset(sr_sort_t *srt, int jvset) in remove_vset() 232 static int push_vset(sr_sort_t *srt, int ivset) in push_vset() 264 void debug_vsets(sr_sort_t *srt) in debug_vsets() 286 void debug_vbuf(sr_sort_t *srt) in debug_vbuf() 302 static char *grp_create_key(sr_sort_t *srt) in grp_create_key() 323 int bcf_sr_sort_set_active(sr_sort_t *srt, int idx) in bcf_sr_sort_set_active() 665 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt) in bcf_sr_sort_init() 668 memset(srt,0,sizeof(sr_sort_t)); in bcf_sr_sort_init() 671 void bcf_sr_sort_reset(sr_sort_t *srt) in bcf_sr_sort_reset() [all …]
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H A D | synced_bcf_reader.c | 69 sr_sort_t sort;
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/dports/biology/stacks/stacks-2.4/htslib/ |
H A D | bcf_sr_sort.h | 97 sr_sort_t; typedef 99 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt); 100 int bcf_sr_sort_next(bcf_srs_t *readers, sr_sort_t *srt, const char *chr, int pos); 101 int bcf_sr_sort_set_active(sr_sort_t *srt, int i); 102 int bcf_sr_sort_add_active(sr_sort_t *srt, int i); 103 void bcf_sr_sort_destroy(sr_sort_t *srt); 104 void bcf_sr_sort_remove_reader(bcf_srs_t *readers, sr_sort_t *srt, int i);
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H A D | bcf_sr_sort.c | 71 static void bcf_sr_init_scores(sr_sort_t *srt) in bcf_sr_init_scores() 203 void remove_vset(sr_sort_t *srt, int jvset) in remove_vset() 242 void push_vset(sr_sort_t *srt, int ivset) in push_vset() 272 void debug_vsets(sr_sort_t *srt) in debug_vsets() 293 void debug_vbuf(sr_sort_t *srt) in debug_vbuf() 309 char *grp_create_key(sr_sort_t *srt) in grp_create_key() 330 int bcf_sr_sort_set_active(sr_sort_t *srt, int idx) in bcf_sr_sort_set_active() 337 int bcf_sr_sort_add_active(sr_sort_t *srt, int idx) in bcf_sr_sort_add_active() 636 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt) in bcf_sr_sort_init() 639 memset(srt,0,sizeof(sr_sort_t)); in bcf_sr_sort_init() [all …]
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H A D | synced_bcf_reader.c | 59 sr_sort_t sort;
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/dports/biology/kallisto/kallisto-0.46.1/ext/htslib/ |
H A D | bcf_sr_sort.h | 96 sr_sort_t; typedef 98 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt); 99 int bcf_sr_sort_next(bcf_srs_t *readers, sr_sort_t *srt, const char *chr, int pos); 100 void bcf_sr_sort_destroy(sr_sort_t *srt); 101 void bcf_sr_sort_remove_reader(bcf_srs_t *readers, sr_sort_t *srt, int i);
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H A D | bcf_sr_sort.c | 71 static void bcf_sr_init_scores(sr_sort_t *srt) in bcf_sr_init_scores() 203 void remove_vset(sr_sort_t *srt, int jvset) in remove_vset() 218 int merge_vsets(sr_sort_t *srt, int ivset, int jvset) in merge_vsets() 242 void push_vset(sr_sort_t *srt, int ivset) in push_vset() 270 void debug_vsets(sr_sort_t *srt) in debug_vsets() 288 void debug_vbuf(sr_sort_t *srt) in debug_vbuf() 302 char *grp_create_key(sr_sort_t *srt) in grp_create_key() 610 sr_sort_t *bcf_sr_sort_init(sr_sort_t *srt) in bcf_sr_sort_init() 612 if ( !srt ) return calloc(1,sizeof(sr_sort_t)); in bcf_sr_sort_init() 613 memset(srt,0,sizeof(sr_sort_t)); in bcf_sr_sort_init() [all …]
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H A D | synced_bcf_reader.c | 59 sr_sort_t sort;
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