[Biojava-l] equality of proteins based on their aminoacid sequence signature
Andy Yates
ayates at ebi.ac.uk
Thu Mar 10 09:17:45 UTC 2011
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 <ayates at ebi.ac.uk>:
>> 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 - Biojava-l at lists.open-bio.org
>>> 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 - Biojava-l at lists.open-bio.org
>> 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/
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