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/dports/biology/vt/vt-0.57721/lib/htslib/test/
H A Dtest-bcf-sr.pl361 my ($grps,$vars,$var_sets,$pmat,$bitmask,$max,$ivset,$jvset) = @_;
362 if ( $ivset > $jvset ) { my $tmp = $ivset; $ivset = $jvset; $jvset = $tmp; }
363 push @{$$var_sets[$ivset]}, @{$$var_sets[$jvset]};
366 $$pmat[$ivset][$igrp] += $$pmat[$jvset][$igrp];
368 $$max[$ivset] += $$max[$jvset];
369 $$bitmask[$ivset] |= $$bitmask[$jvset];
370 splice(@$var_sets,$jvset,1);
371 splice(@$pmat,$jvset,1);
372 splice(@$bitmask,$jvset,1);
373 splice(@$max,$jvset,1);
/dports/biology/kallisto/kallisto-0.46.1/ext/htslib/test/
H A Dtest-bcf-sr.pl359 my ($grps,$vars,$var_sets,$pmat,$bitmask,$max,$ivset,$jvset) = @_;
360 if ( $ivset > $jvset ) { my $tmp = $ivset; $ivset = $jvset; $jvset = $tmp; }
361 push @{$$var_sets[$ivset]}, @{$$var_sets[$jvset]};
364 $$pmat[$ivset][$igrp] += $$pmat[$jvset][$igrp];
366 $$max[$ivset] += $$max[$jvset];
367 $$bitmask[$ivset] |= $$bitmask[$jvset];
368 splice(@$var_sets,$jvset,1);
369 splice(@$pmat,$jvset,1);
370 splice(@$bitmask,$jvset,1);
371 splice(@$max,$jvset,1);
/dports/biology/kallisto/kallisto-0.46.1/ext/htslib/
H A Dbcf_sr_sort.c166 varset_t *jv = &srt->vset[jvset]; in pairing_score()
203 void remove_vset(sr_sort_t *srt, int jvset) in remove_vset() argument
205 if ( jvset+1 < srt->nvset ) in remove_vset()
207 varset_t tmp = srt->vset[jvset]; in remove_vset()
208 memmove(&srt->vset[jvset], &srt->vset[jvset+1], sizeof(varset_t)*(srt->nvset - jvset - 1)); in remove_vset()
214 memmove(&srt->cnt[jvset], &srt->cnt[jvset+1], sizeof(int)*(srt->nvset - jvset - 1)); in remove_vset()
221 if ( ivset > jvset ) { i = ivset; ivset = jvset; jvset = i; } in merge_vsets()
224 varset_t *jv = &srt->vset[jvset]; in merge_vsets()
234 int *jmat = srt->pmat + jvset*srt->ngrp; in merge_vsets()
236 srt->cnt[ivset] += srt->cnt[jvset]; in merge_vsets()
[all …]
/dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/test/
H A Dtest-bcf-sr.pl389 my ($grps,$vars,$var_sets,$pmat,$bitmask,$max,$ivset,$jvset) = @_;
390 if ( $ivset > $jvset ) { my $tmp = $ivset; $ivset = $jvset; $jvset = $tmp; }
391 push @{$$var_sets[$ivset]}, @{$$var_sets[$jvset]};
394 $$pmat[$ivset][$igrp] += $$pmat[$jvset][$igrp];
396 $$max[$ivset] += $$max[$jvset];
397 $$bitmask[$ivset] |= $$bitmask[$jvset];
398 splice(@$var_sets,$jvset,1);
399 splice(@$pmat,$jvset,1);
400 splice(@$bitmask,$jvset,1);
401 splice(@$max,$jvset,1);
/dports/biology/htslib/htslib-1.14/test/
H A Dtest-bcf-sr.pl389 my ($grps,$vars,$var_sets,$pmat,$bitmask,$max,$ivset,$jvset) = @_;
390 if ( $ivset > $jvset ) { my $tmp = $ivset; $ivset = $jvset; $jvset = $tmp; }
391 push @{$$var_sets[$ivset]}, @{$$var_sets[$jvset]};
394 $$pmat[$ivset][$igrp] += $$pmat[$jvset][$igrp];
396 $$max[$ivset] += $$max[$jvset];
397 $$bitmask[$ivset] |= $$bitmask[$jvset];
398 splice(@$var_sets,$jvset,1);
399 splice(@$pmat,$jvset,1);
400 splice(@$bitmask,$jvset,1);
401 splice(@$max,$jvset,1);
/dports/biology/vt/vt-0.57721/lib/htslib/
H A Dbcf_sr_sort.c166 varset_t *jv = &srt->vset[jvset]; in pairing_score()
203 void remove_vset(sr_sort_t *srt, int jvset) in remove_vset() argument
205 if ( jvset+1 < srt->nvset ) in remove_vset()
207 varset_t tmp = srt->vset[jvset]; in remove_vset()
208 memmove(&srt->vset[jvset], &srt->vset[jvset+1], sizeof(varset_t)*(srt->nvset - jvset - 1)); in remove_vset()
214 memmove(&srt->cnt[jvset], &srt->cnt[jvset+1], sizeof(int)*(srt->nvset - jvset - 1)); in remove_vset()
221 if ( ivset > jvset ) { i = ivset; ivset = jvset; jvset = i; } in merge_vsets()
224 varset_t *jv = &srt->vset[jvset]; in merge_vsets()
234 int *jmat = srt->pmat + jvset*srt->ngrp; in merge_vsets()
236 srt->cnt[ivset] += srt->cnt[jvset]; in merge_vsets()
[all …]
/dports/biology/bedtools/bedtools2-2.30.0/src/utils/htslib/
H A Dbcf_sr_sort.c168 varset_t *jv = &srt->vset[jvset]; in pairing_score()
205 void remove_vset(sr_sort_t *srt, int jvset) in remove_vset() argument
207 if ( jvset+1 < srt->nvset ) in remove_vset()
209 varset_t tmp = srt->vset[jvset]; in remove_vset()
210 memmove(&srt->vset[jvset], &srt->vset[jvset+1], sizeof(varset_t)*(srt->nvset - jvset - 1)); in remove_vset()
216 memmove(&srt->cnt[jvset], &srt->cnt[jvset+1], sizeof(int)*(srt->nvset - jvset - 1)); in remove_vset()
223 if ( ivset > jvset ) { i = ivset; ivset = jvset; jvset = i; } in merge_vsets()
226 varset_t *jv = &srt->vset[jvset]; in merge_vsets()
236 int *jmat = srt->pmat + jvset*srt->ngrp; in merge_vsets()
238 srt->cnt[ivset] += srt->cnt[jvset]; in merge_vsets()
[all …]
/dports/biology/freebayes/freebayes-1.3.5/contrib/htslib/
H A Dbcf_sr_sort.c155 varset_t *jv = &srt->vset[jvset]; in pairing_score()
194 if ( jvset+1 < srt->nvset ) in remove_vset()
196 varset_t tmp = srt->vset[jvset]; in remove_vset()
197 memmove(&srt->vset[jvset], &srt->vset[jvset+1], sizeof(varset_t)*(srt->nvset - jvset - 1)); in remove_vset()
200 int *jmat = srt->pmat + jvset*srt->ngrp; in remove_vset()
203 memmove(&srt->cnt[jvset], &srt->cnt[jvset+1], sizeof(int)*(srt->nvset - jvset - 1)); in remove_vset()
210 if ( ivset > jvset ) { i = ivset; ivset = jvset; jvset = i; } in merge_vsets()
213 varset_t *jv = &srt->vset[jvset]; in merge_vsets()
223 int *jmat = srt->pmat + jvset*srt->ngrp; in merge_vsets()
225 srt->cnt[ivset] += srt->cnt[jvset]; in merge_vsets()
[all …]
/dports/biology/stacks/stacks-2.4/htslib/
H A Dbcf_sr_sort.c166 varset_t *jv = &srt->vset[jvset]; in pairing_score()
203 void remove_vset(sr_sort_t *srt, int jvset) in remove_vset() argument
205 if ( jvset+1 < srt->nvset ) in remove_vset()
207 varset_t tmp = srt->vset[jvset]; in remove_vset()
208 memmove(&srt->vset[jvset], &srt->vset[jvset+1], sizeof(varset_t)*(srt->nvset - jvset - 1)); in remove_vset()
214 memmove(&srt->cnt[jvset], &srt->cnt[jvset+1], sizeof(int)*(srt->nvset - jvset - 1)); in remove_vset()
221 if ( ivset > jvset ) { i = ivset; ivset = jvset; jvset = i; } in merge_vsets()
224 varset_t *jv = &srt->vset[jvset]; in merge_vsets()
234 int *jmat = srt->pmat + jvset*srt->ngrp; in merge_vsets()
236 srt->cnt[ivset] += srt->cnt[jvset]; in merge_vsets()
[all …]
/dports/biology/py-pysam/pysam-0.18.0/htslib/
H A Dbcf_sr_sort.c155 varset_t *jv = &srt->vset[jvset]; in pairing_score()
194 if ( jvset+1 < srt->nvset ) in remove_vset()
196 varset_t tmp = srt->vset[jvset]; in remove_vset()
197 memmove(&srt->vset[jvset], &srt->vset[jvset+1], sizeof(varset_t)*(srt->nvset - jvset - 1)); in remove_vset()
200 int *jmat = srt->pmat + jvset*srt->ngrp; in remove_vset()
203 memmove(&srt->cnt[jvset], &srt->cnt[jvset+1], sizeof(int)*(srt->nvset - jvset - 1)); in remove_vset()
210 if ( ivset > jvset ) { i = ivset; ivset = jvset; jvset = i; } in merge_vsets()
213 varset_t *jv = &srt->vset[jvset]; in merge_vsets()
223 int *jmat = srt->pmat + jvset*srt->ngrp; in merge_vsets()
225 srt->cnt[ivset] += srt->cnt[jvset]; in merge_vsets()
[all …]
/dports/biology/htslib/htslib-1.14/
H A Dbcf_sr_sort.c155 varset_t *jv = &srt->vset[jvset]; in pairing_score()
194 if ( jvset+1 < srt->nvset ) in remove_vset()
196 varset_t tmp = srt->vset[jvset]; in remove_vset()
197 memmove(&srt->vset[jvset], &srt->vset[jvset+1], sizeof(varset_t)*(srt->nvset - jvset - 1)); in remove_vset()
200 int *jmat = srt->pmat + jvset*srt->ngrp; in remove_vset()
203 memmove(&srt->cnt[jvset], &srt->cnt[jvset+1], sizeof(int)*(srt->nvset - jvset - 1)); in remove_vset()
210 if ( ivset > jvset ) { i = ivset; ivset = jvset; jvset = i; } in merge_vsets()
213 varset_t *jv = &srt->vset[jvset]; in merge_vsets()
223 int *jmat = srt->pmat + jvset*srt->ngrp; in merge_vsets()
225 srt->cnt[ivset] += srt->cnt[jvset]; in merge_vsets()
[all …]