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Deprecated Methods |
modele.ObjectListe.addObjet(Object)
Please do NOT use this function ! |
modele.OtherAlgoStefanConverter.algoSSCA(Sequence, SequenceListe)
"old version" see also OtherAlgoStefanConverter.algoSSCA(Sequence, SequenceListe, int, int) |
modele.OriginAlgoStefanConverter.algoSSCA(Sequence, SequenceListe)
"old version" see also OriginAlgoStefanConverter.algoSSCA(Sequence, SequenceListe, int, int) |
modele.AlgoStefanConverter.algoSSCA(Sequence, SequenceListe)
"old version" see also AlgoStefanConverter.algoSSCA(Sequence, SequenceListe, int, int) |
modele.OtherAlgoStefanConverter.algoSSCA(Sequence, SequenceListe, int, int, double, double, boolean)
"old version" see also OtherAlgoStefanConverter.algoSSCA(Sequence, SequenceListe, int, int, double, double, boolean, int, int) |
modele.OriginAlgoStefanConverter.algoSSCA(Sequence, SequenceListe, int, int, double, double, boolean)
"old version" see also OriginAlgoStefanConverter.algoSSCA(Sequence, SequenceListe, int, int, double, double, boolean, int, int) |
modele.AlgoStefanConverter.algoSSCA(Sequence, SequenceListe, int, int, double, double, boolean)
"old version" see also AlgoStefanConverter.algoSSCA(Sequence, SequenceListe, int, int, double, double, boolean, int, int) |
origincomment.ADN1test.alignement(int, int, int, int)
(unused...) |
controller.Processus.alignmentRecord(String)
Use of FichierFasta |
controller.Processus.alignmentRecordTemp(String)
Use of FichierFasta |
modele.Algorithms.checkConservationOldVersion(Palindrome, SequenceListe, int)
Old and inacurate method |
modele.Palindrome.chevauchant(Palindrome)
see also Palindrome.chevauchant(Palindrome, Palindrome) and Palindrome.equivalence(Palindrome, Palindrome) |
modele.Palindrome.choisir_meilleur(int, Palindrome[])
[unused] Calling method ADN1cible.verifier_Conservation(Palindrome1cible, Palindrome1test, double, double, int, ADN1test[]) is not maintained in OtherAlgorithmsStefan... |
modele.PalindromeTest.choisir_meilleur(int, PalindromeTest[])
[unused] Calling method ADN1cible.verifier_Conservation(Palindrome1cible, Palindrome1test, double, double, int, ADN1test[]) is not maintained in OtherAlgorithmsStefan... |
origincomment.ADN1cible.comparaison_structure(ADN1cible, ADN1cible)
[never used] |
modele.AlgorithmsCT01.compatibilityTreatment01(PalindromeListe)
Other is used (changesDCFold to P-DCFold) |
modele.AlgorithmsCT01.compatibilityTreatment02(PalindromeListe)
results of tests are not very good... |
modele.AlgorithmsCT01.compatibilityTreatment03(PalindromeListe)
... |
modele.AlgorithmsCT01.compatibilityTreatment04(PalindromeListe)
July 2008 |
modele.AlgorithmsCT01.compatibilityTreatmentOrigin(PalindromeListe, int, int, PalindromeListeListe)
July 2008 |
controller.ListeBean.computePredictionsBB()
putted when conversion ProcessusOrigin.conversionFrom(origincomment.ADN1test, SequenceListe[]) |
modele.OriginAlgoStefanConverter.computingStatic(Vector, ADN1cible, boolean, boolean)
[old test version] |
modele.OtherAlgoStefanConverter.conversionFrom(Sequence, SequenceListe[])
[only for information, please use OtherAlgoStefanConverter.conversionFrom(Sequence, SequenceListe[], boolean)] |
modele.AlgoStefanConverter.conversionFrom(Sequence, SequenceListe[])
[only for information, please use AlgoStefanConverter.conversionFrom(Sequence, SequenceListe[], boolean)] |
modele.OriginAlgoStefanConverter.distance(ADN1cible, ADN1test, ADN1test[])
"old version" see also OriginAlgoStefanConverter.distance(ADN1cible, ADN1test, ADN1test[], int, int) |
modele.OtherAlgoStefanConverter.distance(Sequence, Sequence, Sequence[])
"old version" see also OtherAlgoStefanConverter.distance(Sequence, Sequence, Sequence[], int, int) |
modele.AlgoStefanConverter.distance(Sequence, Sequence, Sequence[])
"old version" see also AlgoStefanConverter.distance(Sequence, Sequence, Sequence[], int, int) |
origincomment.Palindrome1cible.en_paire_de_bases(Palindrome1cible[])
because calling procedure is deprecated... |
modele.ObjectListe.equals(ObjectListe)
Please do NOT use this function ! |
modele.OriginAlgorithmsStefan.est_Compatible(Palindrome1cible, Palindrome1cible)
converted and put into PalindromeCible : PalindromeCible.est_Compatible(PalindromeCible, PalindromeCible) |
modele.SequenceTest.est_Une_Base(char)
Replace by use of Base.isBaseOrGap(char)... |
modele.Sequence.est_Une_Base(char)
Replace by use of Base.isBaseOrGap(char)... |
origincomment.ADN1test.evoluer(int, Profil)
(unused...) |
modele.ObjectListe.getListeObjects()
Please do NOT use this function ! |
controller.ListeBean.getMinicadre(boolean)
[see the include] |
modele.ObjectListe.getObject(int)
Please do NOT use this function ! |
modele.ObjectListe.has(Object)
Please do NOT use this function ! |
modele.Alignement.init()
Not to use in other cases... |
modele.Palindrome.isCompatibleWith(Palindrome)
not exact... (see tests) |
modele.Palindrome.isSelected(int)
DCFold => PDCFold |
modele.OriginAlgorithmsStefan.mettre_etoile(ADN1cible, int)
converted and put into SequenceCible : SequenceCible.mettre_etoile(PalindromeCible[]) |
controller.Processus.newDiskFileItemFactory(ServletContext, File)
Use of FichierFasta |
aloneinterfaces.MonBureau.ouvrir()
(unused) |
origincomment.ADN1cible.pourcentage_base()
[never used] |
origincomment.ADN1cible.pourcentage_Mutation(ADN1test[], int, boolean)
[never used] |
modele.PalindromeListe.rechercher_approx(Palindrome)
Tranformed to PalindromeListe.whichPositionApprox(Palindrome) |
modele.Palindrome.rechercher_approx(Vector)
see also PalindromeListe.rechercher_approx(Palindrome) and PalindromeListe.whichPositionApprox(Palindrome) |
modele.PalindromeListe.rechercher(Palindrome)
Transformed to PalindromeListe.whichPosition(Palindrome) |
modele.Palindrome.rechercher(Vector)
see also PalindromeListe.rechercher(Palindrome) and PalindromeListe.whichPosition(Palindrome) |
modele.ObjectListe.removeObject(int)
Please do NOT use this function ! |
modele.ObjectListe.removeObject(Object)
Please do NOT use this function ! |
origincomment.ADN1cible.resultat_commun_paire_de_base(Vector)
[never used] |
aloneinterfaces.MonBureau.sauver()
(unused) |
origincomment.Palindrome1cible.score(Palindrome1cible)
[not used] |
modele.Algorithms.searchAnchorPoints(int, int, Alignement, double, SequenceListe, int, int, int)
M[i,j] too long... |
modele.Algorithms.searchAnchorPoints(Sequence, Alignement, double, SequenceListe, int, int)
Not the good prototype as algorithm is defined. |
origincomment.ADN1test.sequenceTests(String)
[not used] |
aloneinterfaces.Interface7.setInterface(ADN1cible, ADN1test[], int, int, int)
[not used] |
aloneinterfaces.Interface5.setInterface(ADN1cible, ADN1test[], int, int, int, int, int)
[not used] |
aloneinterfaces.Interface9.setInterface(ADN1cible, String, String, double)
[not used] |
aloneinterfaces.Interface3.setInterface(ADN1cible, Vector)
[not used] |
aloneinterfaces.Interface12.setInterface(Profil, String, Palindrome1cible, int)
[not used] |
modele.ObjectListe.setListe(Object[])
Please do NOT use this function ! |
modele.ObjectListe.setObject(Object, int)
Please do NOT use this function ! |