Re: equality of proteins based on their aminoacid sequence signature
Andy Yates <[email protected]>
| Newsgroups | gmane.comp.java.bio.general |
|---|---|
| Message-ID | <[email protected]> |
I cannot remember the reason why we decided to not include equality for these objects. It's not an unreasonable thing to want though. Assuming I have some time soon I can have a look into implementing it on AbstractCompound, AbstractSequence & the backing stores but it will be some time away. If anyone else wants to give it a shot ... :) Andy On 10 Mar 2011, at 01:04, Andreas Prlic wrote: > Hi François, > > you could try to compare the string representation of the sequences... > > Andreas > > 2011/3/9 Andy Yates <[email protected]>: >> Hi Francois, >> >> Neither Compounds nor Sequences have an over-ridden equals() & hashcode() method which is why you're seeing the current behaviour. >> >> Andy >> >> On 9 Mar 2011, at 20:12, François Le Fevre wrote: >> >>> Dear all, >>> >>> I would like to know if 2 proteins that have the same sequence of aminoacid should be equals? >>> I was wandering that 2 Sequence<AminoAcidCompound> that have exactly the same string signature should be the same. >>> But it seems to be not the case. >>> Is it normal? >>> >>> Thank for your help. >>> >>> >>> Sequence<AminoAcidCompound> protein1 = MKRISTTITTTITITTGNGAG hash=801818331 >>> Sequence<AminoAcidCompound> protein2 = MKRISTTITTTITITTGNGAG hash=700804192 >>> >>> protein1.equals(protein2) return false. >>> >>> Francois >>> >>> -- >>> ---------------------- >>> Francois LE FEVRE >>> >>> _______________________________________________ >>> Biojava-l mailing list - [email protected] >>> http://lists.open-bio.org/mailman/listinfo/biojava-l >> >> -- >> Andrew Yates Ensembl Genomes Engineer >> EMBL-EBI Tel: +44-(0)1223-492538 >> Wellcome Trust Genome Campus Fax: +44-(0)1223-494468 >> Cambridge CB10 1SD, UK http://www.ensemblgenomes.org/ >> >> >> >> >> >> _______________________________________________ >> Biojava-l mailing list - [email protected] >> http://lists.open-bio.org/mailman/listinfo/biojava-l >> -- Andrew Yates Ensembl Genomes Engineer EMBL-EBI Tel: +44-(0)1223-492538 Wellcome Trust Genome Campus Fax: +44-(0)1223-494468 Cambridge CB10 1SD, UK http://www.ensemblgenomes.org/ _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l