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12

/dports/biology/wise/wise2.4.1/src/models/
H A Destwrap.xs6 Hscore_from_TSM_estwise(tdb,cdb,cp,cm,rmd,use_syn,alg,bits_cutoff,allN,flat_insert,report_level,die…
15 Probability allN
21 …RETVAL = Wise2_Hscore_from_TSM_estwise(tdb,cdb,cp,cm,rmd,use_syn,alg,bits_cutoff,allN,flat_insert,…
28 AlnBlock_from_Protein_estwise_wrap(pro,cdna,cp,cm,ct,comp,gap,ext,is_global,rmd,alg,rm,use_syn,allN…
42 Probability allN
45 …m_Protein_estwise_wrap(pro,cdna,cp,cm,ct,comp,gap,ext,is_global,rmd,alg,rm,use_syn,allN,dpri,NULL);
52 AlnBlock_from_TSM_estwise_wrap(tsm,cdna,cp,cm,ct,rmd,alg,use_syn,force_flat_insert,allN,dpri)
62 Probability allN
65 …AlnBlock_from_TSM_estwise_wrap(tsm,cdna,cp,cm,ct,rmd,alg,use_syn,force_flat_insert,allN,dpri,NULL);
H A Destwrap.tex8 … Wise2_Hscore_from_TSM_estwise (tdb,cdb,cp,cm,rmd,use_syn,alg,bits_cutoff,allN,flat_insert,report_…
9 \item[Perl] {\tt &Wise2::Hscore_from_TSM_estwise (tdb,cdb,cp,cm,rmd,use_syn,alg,bits_cutoff,allN,fl…
22 \item[allN] [UNKN ] Undocumented argument [Probability]
35 …rotein_estwise_wrap (pro,cdna,cp,cm,ct,comp,gap,ext,is_global,rmd,alg,rm,use_syn,allN,dpri,palpoi)}
36 …_from_Protein_estwise_wrap (pro,cdna,cp,cm,ct,comp,gap,ext,is_global,rmd,alg,rm,use_syn,allN,dpri)}
54 \item[allN] [UNKN ] Undocumented argument [Probability]
69 …Block_from_TSM_estwise_wrap (tsm,cdna,cp,cm,ct,rmd,alg,use_syn,force_flat_insert,allN,dpri,palpoi)}
70 …e2::AlnBlock_from_TSM_estwise_wrap (tsm,cdna,cp,cm,ct,rmd,alg,use_syn,force_flat_insert,allN,dpri)}
84 \item[allN] [UNKN ] Undocumented argument [Probability]
H A Dgenewisemodeldb.c199 out=GeneWise_from_ThreeStateModel(tsm,gdb->gpara->gp,gdb->gpara->cm,gdb->allN,gdb->gpara->gwcm); in GeneWise_from_ThreeStateModel_GDB()
211 …Wise(out,GeneWiseSegment_from_ThreeStateUnit(tsm->unit[i],gdb->cds_factor,gdb->cm,NULL,gdb->allN)); in GeneWise_from_ThreeStateModel_GDB()
255 …r * cp,CodonMapper * cm,RandomModelDNA * rmd,boolean use_syn,boolean flat_insert,Probability allN) in new_GeneWiseDB_cdna() argument
268 out->allN = allN; in new_GeneWiseDB_cdna()
290 …seDB(ThreeStateDB * tdb,GeneParameter21 * gp,RandomModelDNA * rmd,boolean use_syn,Probability allN) in new_GeneWiseDB() argument
303 out->allN = allN; in new_GeneWiseDB()
562 out->allN = 1.0; in GeneWiseDB_alloc()
H A Destwrap_api.h37 …ndomModelDNA * rmd,boolean use_syn,int alg,double bits_cutoff,Probability allN,boolean flat_insert…
68 …ModelDNA * rmd,int alg,Wise2_RandomModel * rm,boolean use_syn,Probability allN,Wise2_DPRunImpl * d…
92 …elDNA * rmd,int alg,boolean use_syn,boolean force_flat_insert,Probability allN,Wise2_DPRunImpl * d…
H A Destwrap.h89 …RandomModelDNA * rmd,int alg,RandomModel * rm,boolean use_syn,Probability allN,DPRunImpl * dpri,Pa…
115 …elDNA * rmd,int alg,boolean use_syn,boolean force_flat_insert,Probability allN,DPRunImpl * dpri,Pa…
142 …ndomModelDNA * rmd,boolean use_syn,int alg,double bits_cutoff,Probability allN,boolean flat_insert…
H A Dgwrap.h152 …odelDNA * intergenic,int alg,boolean use_syn,RandomModel * rm,Probability allN,TSM_StartEndMode st…
187 …DNA * rmd,RandomModelDNA * intergenic,boolean use_syn,int alg,Probability allN,boolean flat_insert…
216 …elDNA * intergenic,boolean use_syn,int alg,double bits_cutoff,Probability allN,int report_level,bo…
H A Destwrap.c90 …RandomModelDNA * rmd,int alg,RandomModel * rm,boolean use_syn,Probability allN,DPRunImpl * dpri,Pa… in AlnBlock_from_Protein_estwise_wrap() argument
107 out = AlnBlock_from_TSM_estwise_wrap(tsm,cdna,cp,cm,ct,rmd,alg,use_syn,FALSE,allN,dpri,palpoi); in AlnBlock_from_Protein_estwise_wrap()
143 …elDNA * rmd,int alg,boolean use_syn,boolean force_flat_insert,Probability allN,DPRunImpl * dpri,Pa… in AlnBlock_from_TSM_estwise_wrap() argument
162 if( (gw=GeneWise_from_ThreeStateModel_cdna(tsm,cp,cm,allN)) == NULL) { in AlnBlock_from_TSM_estwise_wrap()
279 …ndomModelDNA * rmd,boolean use_syn,int alg,double bits_cutoff,Probability allN,boolean flat_insert… in Hscore_from_TSM_estwise() argument
296 gwdb = new_GeneWiseDB_cdna(tdb,cp,cm,rmd,use_syn,allN,flat_insert); in Hscore_from_TSM_estwise()
H A Destwrap.pod15 &Wise2::Hscore_from_TSM_estwise(tdb,cdb,cp,cm,rmd,use_syn,alg,bits_cutoff,allN,flat_insert,report_l…
30 Argument allN [UNKN ] Undocumented argument [Probability]
40 …_Protein_estwise_wrap(pro,cdna,cp,cm,ct,comp,gap,ext,is_global,rmd,alg,rm,use_syn,allN,dpri,palpoi)
63 Argument allN [UNKN ] Undocumented argument [Probability]
71 &Wise2::AlnBlock_from_TSM_estwise_wrap(tsm,cdna,cp,cm,ct,rmd,alg,use_syn,force_flat_insert,allN,dpr…
87 Argument allN [UNKN ] Undocumented argument [Probability]
H A Dgenewisemodeldb.h39 Probability allN; member
147 … * cp,CodonMapper * cm,RandomModelDNA * rmd,boolean use_syn,boolean flat_insert,Probability allN) ;
167 …eDB(ThreeStateDB * tdb,GeneParameter21 * gp,RandomModelDNA * rmd,boolean use_syn,Probability allN);
H A Dgenewisemodeldb.dy22 Probability allN !def="1.0"
187 out=GeneWise_from_ThreeStateModel(tsm,gdb->gpara->gp,gdb->gpara->cm,gdb->allN,gdb->gpara->gwcm);
199 …Wise(out,GeneWiseSegment_from_ThreeStateUnit(tsm->unit[i],gdb->cds_factor,gdb->cm,NULL,gdb->allN));
233 …r * cp,CodonMapper * cm,RandomModelDNA * rmd,boolean use_syn,boolean flat_insert,Probability allN)
246 out->allN = allN;
256 …seDB(ThreeStateDB * tdb,GeneParameter21 * gp,RandomModelDNA * rmd,boolean use_syn,Probability allN)
269 out->allN = allN;
H A Dgenewisemodel.h284 …from_ThreeStateModel_cdna(ThreeStateModel * tsm,cDNAParser * cp,CodonMapper * cm,Probability allN);
303 …eeStateModel_setfactor(ThreeStateModel * tsm,Probability factor,CodonMapper * cm,Probability allN);
328 …odel(ThreeStateModel * tsm,GeneParser21 * gp,CodonMapper * cm,Probability allN,GeneWiseCodonModel …
757 …reeStateUnit * tsu,Probability factor,CodonMapper * cm,GeneWiseCodonModel * gwcm,Probability allN);
H A Dgwrap.c138 …odelDNA * intergenic,int alg,boolean use_syn,RandomModel * rm,Probability allN,TSM_StartEndMode st… in AlnBlock_from_protein_genewise_wrap() argument
165 …out = AlnBlock_from_TSM_genewise_wrap(tsm,dna,gpara,rmd,intergenic,use_syn,alg,allN,1,dpri,pal,dpe… in AlnBlock_from_protein_genewise_wrap()
207 …DNA * rmd,RandomModelDNA * intergenic,boolean use_syn,int alg,Probability allN,boolean flat_insert… in AlnBlock_from_TSM_genewise_wrap() argument
277 if( (gw=GeneWise_from_ThreeStateModel(tsm,gpara->gp,gpara->cm,allN,gpara->gwcm)) == NULL) { in AlnBlock_from_TSM_genewise_wrap()
510 …elDNA * intergenic,boolean use_syn,int alg,double bits_cutoff,Probability allN,int report_level,bo… in Hscore_from_TSM_genewise() argument
526 gwdb = new_GeneWiseDB(tdb,gpara,rmd,use_syn,allN); in Hscore_from_TSM_genewise()
H A Destwrap.dy92 …RandomModelDNA * rmd,int alg,RandomModel * rm,boolean use_syn,Probability allN,DPRunImpl * dpri,Pa…
109 out = AlnBlock_from_TSM_estwise_wrap(tsm,cdna,cp,cm,ct,rmd,alg,use_syn,FALSE,allN,dpri,palpoi);
136 …elDNA * rmd,int alg,boolean use_syn,boolean force_flat_insert,Probability allN,DPRunImpl * dpri,Pa…
155 if( (gw=GeneWise_from_ThreeStateModel_cdna(tsm,cp,cm,allN)) == NULL) {
262 …ndomModelDNA * rmd,boolean use_syn,int alg,double bits_cutoff,Probability allN,boolean flat_insert…
279 gwdb = new_GeneWiseDB_cdna(tdb,cp,cm,rmd,use_syn,allN,flat_insert);
H A Dgenewisemodel.c195 …_from_ThreeStateModel_cdna(ThreeStateModel * tsm,cDNAParser * cp,CodonMapper * cm,Probability allN) in GeneWise_from_ThreeStateModel_cdna() argument
212 add_GeneWise(out,GeneWiseSegment_from_ThreeStateUnit(tsm->unit[i],factor,cm,NULL,allN)); in GeneWise_from_ThreeStateModel_cdna()
234 …reeStateModel_setfactor(ThreeStateModel * tsm,Probability factor,CodonMapper * cm,Probability allN) in GeneWise_from_ThreeStateModel_setfactor() argument
246 add_GeneWise(out,GeneWiseSegment_from_ThreeStateUnit(tsm->unit[i],factor,cm,NULL,allN)); in GeneWise_from_ThreeStateModel_setfactor()
275 …odel(ThreeStateModel * tsm,GeneParser21 * gp,CodonMapper * cm,Probability allN,GeneWiseCodonModel … in GeneWise_from_ThreeStateModel() argument
300 add_GeneWise(out,GeneWiseSegment_from_ThreeStateUnit(tsm->unit[i],factor,cm,gwcm,allN)); in GeneWise_from_ThreeStateModel()
626 …hreeStateUnit * tsu,Probability factor,CodonMapper * cm,GeneWiseCodonModel * gwcm,Probability allN) in GeneWiseSegment_from_ThreeStateUnit() argument
646 out->match[codon] = allN; in GeneWiseSegment_from_ThreeStateUnit()
647 out->insert[codon] = allN; in GeneWiseSegment_from_ThreeStateUnit()
H A Dgenewisemodel.dy249 …_from_ThreeStateModel_cdna(ThreeStateModel * tsm,cDNAParser * cp,CodonMapper * cm,Probability allN)
266 add_GeneWise(out,GeneWiseSegment_from_ThreeStateUnit(tsm->unit[i],factor,cm,NULL,allN));
277 …reeStateModel_setfactor(ThreeStateModel * tsm,Probability factor,CodonMapper * cm,Probability allN)
289 add_GeneWise(out,GeneWiseSegment_from_ThreeStateUnit(tsm->unit[i],factor,cm,NULL,allN));
306 …odel(ThreeStateModel * tsm,GeneParser21 * gp,CodonMapper * cm,Probability allN,GeneWiseCodonModel …
331 add_GeneWise(out,GeneWiseSegment_from_ThreeStateUnit(tsm->unit[i],factor,cm,gwcm,allN));
585 …hreeStateUnit * tsu,Probability factor,CodonMapper * cm,GeneWiseCodonModel * gwcm,Probability allN)
605 out->match[codon] = allN;
606 out->insert[codon] = allN;
H A Destwise.c84 Probability allN = 1.0; variable
239 …(pro,cdna,cp,cm,ct,mat,-gap,-ext,startend == TSM_global ? 1 : 0,rmd,alg,rm,use_syn,allN,dpri,&pal); in build_alignment()
241 …alb = AlnBlock_from_TSM_estwise_wrap(tsm,cdna,cp,cm,ct,rmd,alg,use_syn,force_flat_insert,allN,dpr… in build_alignment()
435 if( is_double_string(allN_string,&allN) == FALSE ) { in build_objects()
/dports/audio/pms-devel/pms-c94e3c6/vendor/github.com/blevesearch/bleve/index/scorch/segment/mem/
H A Dposting.go84 allN := i.all.Next()
90 for allN != n {
93 allN = i.all.Next()
/dports/audio/pms-devel/pms-c94e3c6/vendor/github.com/blevesearch/bleve/index/scorch/segment/zap/
H A Dposting.go274 allN := i.all.Next()
275 allNChunk := allN / i.postings.sb.chunkFactor
281 for allN != n {
301 if i.locBitmap.Contains(allN) {
314 allN = i.all.Next()
/dports/www/gitea/gitea-1.16.5/vendor/github.com/blevesearch/zapx/v14/
H A Dposting.go564 allN := i.all.Next()
573 for allN != n {
575 if i.includeFreqNorm && allN >= allNReachesNChunk {
586 allN = i.all.Next()
/dports/www/gitea/gitea-1.16.5/vendor/github.com/blevesearch/zapx/v12/
H A Dposting.go556 allN := i.all.Next()
570 for allN != n {
572 if i.includeFreqNorm && allN >= allNReachesNChunk {
583 allN = i.all.Next()
/dports/www/gitea/gitea-1.16.5/vendor/github.com/blevesearch/zapx/v13/
H A Dposting.go556 allN := i.all.Next()
570 for allN != n {
572 if i.includeFreqNorm && allN >= allNReachesNChunk {
583 allN = i.all.Next()
/dports/www/mattermost-server/mattermost-server-6.0.2/vendor/github.com/blevesearch/zap/v14/
H A Dposting.go560 allN := i.all.Next()
569 for allN != n {
571 if i.includeFreqNorm && allN >= allNReachesNChunk {
578 allN = i.all.Next()
/dports/www/mattermost-server/mattermost-server-6.0.2/vendor/github.com/blevesearch/zap/v13/
H A Dposting.go552 allN := i.all.Next()
566 for allN != n {
568 if i.includeFreqNorm && allN >= allNReachesNChunk {
575 allN = i.all.Next()
/dports/www/mattermost-server/mattermost-server-6.0.2/vendor/github.com/blevesearch/zap/v12/
H A Dposting.go552 allN := i.all.Next()
566 for allN != n {
568 if i.includeFreqNorm && allN >= allNReachesNChunk {
575 allN = i.all.Next()
/dports/www/gitea/gitea-1.16.5/vendor/github.com/blevesearch/zapx/v15/
H A Dposting.go582 allN := i.all.Next()
591 for allN != n {
593 if i.includeFreqNorm && allN >= allNReachesNChunk {
604 allN = i.all.Next()

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