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Searched refs:pseq (Results 1 – 25 of 430) sorted by relevance

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/dports/biology/emboss/EMBOSS-6.6.0/emboss/
H A Dfuzztran.c50 AjPSeq pseq = NULL; in main() local
97 pseq = ajSeqNewNameS(pro, ajSeqGetNameS(seq)); in main()
101 ajSeqDel(&pseq); in main()
110 ajSeqDel(&pseq); in main()
119 ajSeqDel(&pseq); in main()
130 ajSeqDel(&pseq); in main()
139 ajSeqDel(&pseq); in main()
148 ajSeqDel(&pseq); in main()
160 ajSeqDel(&pseq); in main()
178 ajSeqDel(&pseq); in main()
[all …]
H A Dtranalign.c29 const AjPSeq nseq, const AjPSeq pseq,
47 const AjPSeq pseq; /* next protein sequence use in alignment */ in main() local
83 if((pseq = ajSeqsetGetseqSeq(protseq, proteinseqcount++)) == NULL) in main()
89 ajSeqGetNameS(nseq), ajSeqGetNameS(pseq)); in main()
92 ajStrAssignS(&degapstr, ajSeqGetSeqS(pseq)); in main()
158 ajSeqGetNameS(pseq), ajSeqGetNameS(nseq)); in main()
167 tranalign_AddGaps(newseq, nseq, pseq, (pos*3)+frame-1); in main()
214 const AjPSeq nseq, const AjPSeq pseq, in tranalign_AddGaps() argument
223 for(; ppos<ajSeqGetLen(pseq); ppos++) in tranalign_AddGaps()
224 if(ajSeqGetSeqC(pseq)[ppos] == '-') in tranalign_AddGaps() local
/dports/databases/grass7/grass-7.8.6/lib/vector/Vlib/
H A Dgeos.c137 GEOSCoordSequence *pseq; in Vect_line_to_geos() local
166 geom = GEOSGeom_createPoint(pseq); in Vect_line_to_geos()
201 GEOSCoordSequence *pseq; in Vect__read_line_geos() local
204 if (!pseq) in Vect__read_line_geos()
209 geom = GEOSGeom_createPoint(pseq); in Vect__read_line_geos()
288 GEOSCoordSequence *pseq; in V1_read_line_geos() local
371 GEOSCoordSeq_setX(pseq, i, x[i]); in V1_read_line_geos()
384 return pseq; in V1_read_line_geos()
471 if (!(pseq[i])) { in read_polygon_points()
513 GEOSCoordSeq_destroy(pseq[i]); in read_polygon_points()
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/dports/biology/p5-BioPerl/BioPerl-1.7.7/t/SeqIO/
H A Dlargefasta.t21 my $pseq = $seqio->next_seq();
22 $pseq->alphabet('dna');
23 $pseq->desc('this is my description');;
24 my $plength = $pseq->length();
27 is defined $pseq, 1;
29 is length($pseq->subseq(100, 299)), 200;
31 is $pseq->alphabet(), 'dna';
32 is $pseq->display_id(), 'HSBA536C5';
33 is $pseq->accession_number(), 'unknown';
42 is $seqout->write_seq($pseq), 1;
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/dports/biology/viennarna/ViennaRNA-2.4.18/interfaces/Perl/RNA/
H A DDesign.pm596 my @pseq=();
615 @pseq = $self->update_constraint($cycle, @pseq);
629 substr($con, $path->[$_], 1, $pseq[$_]) for (0 .. $#pseq);
666 for $i (-$#pseq .. $#pseq-1) {
670 for $i (reverse(-$#pseq .. $#pseq)) {
687 return @pseq;
704 my @pseq = @_;
847 @pseq = $self->make_pathseq($cycle, @pseq);
849 substr($seq, $$path[$_], 1, $pseq[$_]) for (0 .. $#pseq);
945 @pseq = $self->make_pathseq($cycle, @pseq);
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/dports/biology/p5-BioPerl/BioPerl-1.7.7/t/Seq/
H A DLargePSeq.t19 my $pseq = Bio::Seq::LargePrimarySeq->new();
20 ok $pseq;
24 is $pseq->display_id('hello'), 'hello';
26 is $pseq->seq, 'ATGGGGTGGGGTGAAACCCTTTGGGGGTGGGGTAAATGTTTGGGGTTAAACCCCTTTGGGGGGT' , "Sequence is " …
28 is $pseq->subseq(3,7), 'GGGGT', "Subseq is ".$pseq->subseq(3,7);
31 is($pseq->subseq($location), 'GGGTG');
49 is( $pseq->subseq($fuzzy), 'GGTGAAACC');
52 is($pseq->trunc(8,15)->seq, 'GGGGTGAA',
53 'trunc seq was ' . $pseq->trunc(8,15)->seq);
57 is $pseq->translate()->seq, 'MGWGETLWGWGKCLGLNPFGG';
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/dports/games/d2x/d2x-0.2.5/unused/win95/
H A Dmidiseq.h87 PSEQ pseq);
90 PSEQ pseq);
93 PSEQ pseq);
96 PSEQ pseq);
99 PSEQ pseq,
103 PSEQ pseq);
106 PSEQ pseq);
109 PSEQ pseq);
115 PSEQ pseq,
119 PSEQ pseq,
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/dports/math/hs-Agda/Agda-2.6.2/_cabal_deps/parallel-3.2.2.0/Control/
H A DParallel.hs18 par, pseq
22 import qualified GHC.Conc ( par, pseq )
24 infixr 0 `par`, `pseq`
67 pseq :: a -> b -> b
69 pseq = GHC.Conc.pseq function
71 pseq = seq function
/dports/finance/hs-hledger-ui/hledger-ui-1.19/_cabal_deps/parallel-3.2.2.0/Control/
H A DParallel.hs18 par, pseq
22 import qualified GHC.Conc ( par, pseq )
24 infixr 0 `par`, `pseq`
67 pseq :: a -> b -> b
69 pseq = GHC.Conc.pseq function
71 pseq = seq function
/dports/devel/hs-git-brunch/git-brunch-1.5.1.0/_cabal_deps/parallel-3.2.2.0/Control/
H A DParallel.hs18 par, pseq
22 import qualified GHC.Conc ( par, pseq )
24 infixr 0 `par`, `pseq`
67 pseq :: a -> b -> b
69 pseq = GHC.Conc.pseq function
71 pseq = seq function
/dports/devel/hs-haskell-language-server/haskell-language-server-1.4.0/_cabal_deps/parallel-3.2.2.0/Control/
H A DParallel.hs18 par, pseq
22 import qualified GHC.Conc ( par, pseq )
24 infixr 0 `par`, `pseq`
67 pseq :: a -> b -> b
69 pseq = GHC.Conc.pseq function
71 pseq = seq function
/dports/security/hs-cryptol/cryptol-2.11.0/_cabal_deps/parallel-3.2.2.0/Control/
H A DParallel.hs18 par, pseq
22 import qualified GHC.Conc ( par, pseq )
24 infixr 0 `par`, `pseq`
67 pseq :: a -> b -> b
69 pseq = GHC.Conc.pseq function
71 pseq = seq function
/dports/www/hs-postgrest/postgrest-8.0.0/_cabal_deps/parallel-3.2.2.0/Control/
H A DParallel.hs18 par, pseq
22 import qualified GHC.Conc ( par, pseq )
24 infixr 0 `par`, `pseq`
67 pseq :: a -> b -> b
69 pseq = GHC.Conc.pseq function
71 pseq = seq function
/dports/www/hs-DAV/DAV-1.3.4/_cabal_deps/parallel-3.2.2.0/Control/
H A DParallel.hs18 par, pseq
22 import qualified GHC.Conc ( par, pseq )
24 infixr 0 `par`, `pseq`
67 pseq :: a -> b -> b
69 pseq = GHC.Conc.pseq function
71 pseq = seq function
/dports/devel/hs-git-annex/git-annex-8.20210903/_cabal_deps/parallel-3.2.2.0/Control/
H A DParallel.hs18 par, pseq
22 import qualified GHC.Conc ( par, pseq )
24 infixr 0 `par`, `pseq`
67 pseq :: a -> b -> b
69 pseq = GHC.Conc.pseq function
71 pseq = seq function
/dports/net-im/matterhorn/matterhorn-50200.13.0/_cabal_deps/parallel-3.2.2.0/Control/
H A DParallel.hs18 par, pseq
22 import qualified GHC.Conc ( par, pseq )
24 infixr 0 `par`, `pseq`
67 pseq :: a -> b -> b
69 pseq = GHC.Conc.pseq function
71 pseq = seq function
/dports/misc/hs-hascard/hascard-0.3.0.1/_cabal_deps/parallel-3.2.2.0/Control/
H A DParallel.hs18 par, pseq
22 import qualified GHC.Conc ( par, pseq )
24 infixr 0 `par`, `pseq`
67 pseq :: a -> b -> b
69 pseq = GHC.Conc.pseq function
71 pseq = seq function
/dports/lang/purescript/purescript-0.14.5/_cabal_deps/parallel-3.2.2.0/Control/
H A DParallel.hs18 par, pseq
22 import qualified GHC.Conc ( par, pseq )
24 infixr 0 `par`, `pseq`
67 pseq :: a -> b -> b
69 pseq = GHC.Conc.pseq function
71 pseq = seq function
/dports/graphics/geos/geos-3.9.1/tests/unit/geom/
H A DLineStringTest.cpp98 pseq->add(Coordinate(0, 0, 0)); in test()
99 pseq->add(Coordinate(5, 5, 5)); in test()
100 pseq->add(Coordinate(10, 10, 10)); in test()
102 ensure_equals(pseq->size(), size3); in test()
143 CoordArrayPtr pseq = nullptr; in test() local
147 pseq->add(geos::geom::Coordinate(0, 0, 0)); in test()
148 ensure_equals(pseq->size(), 1u); in test()
178 pseq->add(Coordinate(0, 0, 0)); in test()
179 pseq->add(Coordinate(5, 5, 5)); in test()
180 pseq->add(Coordinate(10, 10, 10)); in test()
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/dports/games/kblocks/kblocks-21.12.3/src/AI/
H A DKBlocksAIPlannerExtend.cpp85 pseq->push_back(piece); in getPath()
157 AIPlanner_PieceValue_Sequence pseq = AIPlanner_PieceValue_Sequence(0); in process() local
158 pseq.push_front(pieceValue); in process()
159 return process(pseq); in process()
163 int KBlocksAIPlannerExtend::process(const AIPlanner_PieceValue_Sequence &pseq) in process() argument
168 AIPlanner_PieceValue_Sequence tmpPSeq = AIPlanner_PieceValue_Sequence(pseq); in process()
174 AIPlanner_PieceValue_Sequence &pseq, in process_nstep_recursive() argument
178 if (pseq.size() == 0) { in process_nstep_recursive()
182 bool isLeaf = (pseq.size() == 1); in process_nstep_recursive()
184 KBlocks_PieceType_Detail first_piece_type = pseq.front(); in process_nstep_recursive()
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/dports/graphics/openjpeg15/openjpeg-version.1.5.2/thirdparty/liblcms2/src/
H A Dcmsnamed.c697 for (i=0; i < pseq ->n; i++) { in cmsFreeProfileSequenceDescription()
698 if (pseq ->seq[i].Manufacturer != NULL) cmsMLUfree(pseq ->seq[i].Manufacturer); in cmsFreeProfileSequenceDescription()
699 if (pseq ->seq[i].Model != NULL) cmsMLUfree(pseq ->seq[i].Model); in cmsFreeProfileSequenceDescription()
700 if (pseq ->seq[i].Description != NULL) cmsMLUfree(pseq ->seq[i].Description); in cmsFreeProfileSequenceDescription()
703 if (pseq ->seq != NULL) _cmsFree(pseq ->ContextID, pseq ->seq); in cmsFreeProfileSequenceDescription()
704 _cmsFree(pseq -> ContextID, pseq); in cmsFreeProfileSequenceDescription()
712 if (pseq == NULL) in cmsDupProfileSequenceDescription()
719 NewSeq -> seq = (cmsPSEQDESC*) _cmsCalloc(pseq ->ContextID, pseq ->n, sizeof(cmsPSEQDESC)); in cmsDupProfileSequenceDescription()
722 NewSeq -> ContextID = pseq ->ContextID; in cmsDupProfileSequenceDescription()
723 NewSeq -> n = pseq ->n; in cmsDupProfileSequenceDescription()
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/dports/textproc/fop/fop-2.6/fop-core/src/test/java/org/apache/fop/layoutmgr/
H A DPageSequenceLayoutManagerTestCase.java76 final PageSequence pseq = mock(PageSequence.class); in testGetNextPage() local
81 when(pseq.getMainFlow()).thenReturn(flow); in testGetNextPage()
82 when(pseq.getRoot()).thenReturn(root); in testGetNextPage()
84 PageSequenceLayoutManager sut = new PageSequenceLayoutManager(ath, pseq) { in testGetNextPage()
123 final PageSequence pseq = mock(PageSequence.class); in testRegionNameNotFound() local
129 when(pseq.getRoot()).thenReturn(root); in testRegionNameNotFound()
130 when(pseq.hasPagePositionLast()).thenReturn(true); in testRegionNameNotFound()
131 when(pseq.getMainFlow()).thenReturn(flow); in testRegionNameNotFound()
133 … PageSequenceLayoutManager pageSequenceLayoutManager = new PageSequenceLayoutManager(ath, pseq) { in testRegionNameNotFound()
/dports/audio/aacgain/aacgain-1.8/mpeg4ip/lib/mp4v2/test/
H A Dnullcreate.cpp64 static uint8_t pseq[] = { 0, 1, 2, 3, 4, 5, 6,7, 8, 9 }; in main() local
66 MP4AddH264SequenceParameterSet(mp4File, videoTrackId, pseq, 10); in main()
67 MP4AddH264SequenceParameterSet(mp4File, videoTrackId, pseq, 6); in main()
68 MP4AddH264PictureParameterSet(mp4File, videoTrackId, pseq, 7); in main()
69 MP4AddH264PictureParameterSet(mp4File, videoTrackId, pseq, 8); in main()
70 MP4AddH264PictureParameterSet(mp4File, videoTrackId, pseq, 7); in main()
/dports/security/suricata/suricata-6.0.4/src/
H A Dstream-tcp-inline.c117 uint32_t pseq = TCP_GET_SEQ(p); in StreamTcpInlineSegmentReplacePacket() local
121 if (tseq + TCP_SEG_LEN(seg) < pseq) { in StreamTcpInlineSegmentReplacePacket()
123 } else if (pseq + p->payload_len < tseq) { in StreamTcpInlineSegmentReplacePacket()
131 uint32_t pend = pseq + p->payload_len; in StreamTcpInlineSegmentReplacePacket()
138 uint32_t seq = (SEQ_LT(pseq, tseq)) ? tseq : pseq; in StreamTcpInlineSegmentReplacePacket()
141 uint16_t poff = seq - pseq; in StreamTcpInlineSegmentReplacePacket()
/dports/java/openjdk11/jdk11u-jdk-11.0.13-8-1/src/java.desktop/share/native/liblcms/
H A Dcmsnamed.c834 for (i=0; i < pseq ->n; i++) { in cmsFreeProfileSequenceDescription()
835 if (pseq ->seq[i].Manufacturer != NULL) cmsMLUfree(pseq ->seq[i].Manufacturer); in cmsFreeProfileSequenceDescription()
836 if (pseq ->seq[i].Model != NULL) cmsMLUfree(pseq ->seq[i].Model); in cmsFreeProfileSequenceDescription()
837 if (pseq ->seq[i].Description != NULL) cmsMLUfree(pseq ->seq[i].Description); in cmsFreeProfileSequenceDescription()
840 if (pseq ->seq != NULL) _cmsFree(pseq ->ContextID, pseq ->seq); in cmsFreeProfileSequenceDescription()
841 _cmsFree(pseq -> ContextID, pseq); in cmsFreeProfileSequenceDescription()
849 if (pseq == NULL) in cmsDupProfileSequenceDescription()
856 NewSeq -> seq = (cmsPSEQDESC*) _cmsCalloc(pseq ->ContextID, pseq ->n, sizeof(cmsPSEQDESC)); in cmsDupProfileSequenceDescription()
859 NewSeq -> ContextID = pseq ->ContextID; in cmsDupProfileSequenceDescription()
860 NewSeq -> n = pseq ->n; in cmsDupProfileSequenceDescription()
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