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Searched refs:longseq (Results 1 – 8 of 8) sorted by relevance

/dports/biology/viennarna/ViennaRNA-2.4.18/tests/perl5/
H A Dtest-RNA-pf_window.pl140 $bpp = RNA::pfl_fold($longseq, 200, 150, 0.01);
159 $up = RNA::pfl_fold_up($longseq, 10, 200, 150);
187 $fc = new RNA::fold_compound($longseq, $md, RNA::OPTION_WINDOW);
311 foreach my $i (1..length($longseq)) {
315 foreach my $i (1..length($longseq)) {
316 foreach my $j (($i + 1)..length($longseq)) {
354 foreach my $i (1..length($longseq)) {
358 foreach my $i (1..length($longseq)) {
359 foreach my $j (($i + 1)..length($longseq)) {
370 foreach my $i (1..length($longseq)) {
[all …]
/dports/biology/viennarna/ViennaRNA-2.4.18/tests/python/
H A Dtest-RNA-pf_window.py91 bpp = RNA.pfl_fold(longseq, 200, 150, 0.01)
102 up = RNA.pfl_fold_up(longseq, 10, 200, 150)
117 fc = RNA.fold_compound(longseq, md, RNA.OPTION_WINDOW)
219 for i in range(1, len(longseq) + 1):
222 for i in range(1, len(longseq)):
223 for j in range(i + 1, len(longseq) + 1):
253 fc = RNA.fold_compound(longseq, md, RNA.OPTION_WINDOW)
259 for i in range(1, len(longseq) + 1):
262 for i in range(1, len(longseq)):
263 for j in range(i + 1, len(longseq) + 1):
[all …]
H A Dtest-RNA-mfe_window.py9 longseq = "AUUUCCACUAGAGAAGGUCUAGAGUGUUUGUCGUUUGUCAGAAGUCCCUAUUCCAGGUACGAACACGGUGGAUAUGUUCGACGACAGG… variable
/dports/biology/viennarna/ViennaRNA-2.4.18/tests/python3/
H A Dtest-RNA-pf_window.py391 bpp = RNA.pfl_fold(longseq, 200, 150, 0.01)
102 up = RNA.pfl_fold_up(longseq, 10, 200, 150)
117 fc = RNA.fold_compound(longseq, md, RNA.OPTION_WINDOW)
219 for i in range(1, len(longseq) + 1):
222 for i in range(1, len(longseq)):
223 for j in range(i + 1, len(longseq) + 1):
253 fc = RNA.fold_compound(longseq, md, RNA.OPTION_WINDOW)
259 for i in range(1, len(longseq) + 1):
262 for i in range(1, len(longseq)):
263 for j in range(i + 1, len(longseq) + 1):
[all …]
H A Dtest-RNA-mfe_window.py39 longseq = "AUUUCCACUAGAGAAGGUCUAGAGUGUUUGUCGUUUGUCAGAAGUCCCUAUUCCAGGUACGAACACGGUGGAUAUGUUCGACGACAGG…
/dports/biology/paml/paml4.9j/src/
H A Devolver.c723 int is, h, i, j, ison, from, n = com.ncode, longseq = 100000; in Evolve() local
773 if (com.ls > longseq) printf("\r nodes %2d -> %2d, evolving . . ", inode + 1, ison + 1); in Evolve()
778 if (inode == tree.root && com.ls > longseq) printf("\r%s", strc(50, ' ')); in Evolve()
/dports/biology/emboss/EMBOSS-6.6.0/emboss/
H A Dedialign.c504 ajint *longseq,
2409 ajint nbreseq, ajint *longseq) in edialign_init_seq() argument
2421 clos->seq[x].longueur = longseq[x]; in edialign_init_seq()
2422 if (clos->maxLong < longseq[x]) in edialign_init_seq()
2423 clos->maxLong = longseq[x]; in edialign_init_seq()
2463 ajint *longseq, in edialign_newAligGraphClosure() argument
2471 edialign_init_seq(clos, nbreseq, longseq); in edialign_newAligGraphClosure()
/dports/math/plantri/plantri52/
H A Dfullgen.c1356 int longseq[14]; in sequenz_kanonisch() local
1360 for (i=0; sequenz[i] != leer; i++) { longseq[i]=sequenz[i]; in sequenz_kanonisch()
1361 if (longseq[i]==max) j=0; in sequenz_kanonisch()
1362 else if (longseq[i]>max) { return(0); } in sequenz_kanonisch()
1367 for (j=0; j<laenge; i++, j++) longseq[i]=sequenz[j]; in sequenz_kanonisch()
1370 if (longseq[j]==max) in sequenz_kanonisch()
1371 { for (i=1; (i<laenge) && (longseq[j+i]==sequenz[i]) ; i++); in sequenz_kanonisch()
1372 if (longseq[j+i]>sequenz[i]) in sequenz_kanonisch()