Re: [Psidev-ms-dev] mzML base64binary data type question

[Florian R. <fl...@eb...>]

Hi Angel,

yes, thanks!
I did not take into account that JAXB is clever and already does the base64 decoding!
That is why I got troubles trying to decode (the already decoded) byte[]...

I am also using the Inflater/Deflater for the compression and that works fine.

Thanks a lot for pointing that out!
Florian


Angel Pizarro wrote:
> OK, so think I am reading this completely wrong, but isn't the default JAXB
> base64binary to byte[] decoding preserve the zlib compression, resulting in
> a byte[] that is still zlib compressed? If so the java.util.zip.Inflater
> should handle this correctly to deflate the byte[] before translating it
> into Float[],  int[] whatever.
> My AS3 parser (soon to be released) encounters the same issue and I also
> have deflate the byte[] before reading into an Array of Number (same data
> type for double or float in AS3).
> 
> Am I missing something? -angel
> 
> On Mon, Jun 15, 2009 at 10:45 AM, Florian Reisinger <fl...@eb...>wrote:
> 
>> Hi Matt,
>>
>> maybe I did not express myself well enough.
>>
>> We do have methods that take care of converting the data from the base64
>> encoded XML data into a
>> more convenient double[] in Java. Taking into account the CVParams for
>> precision and compression,
>> this will actually hold double or float values. The user can then check if
>> the actual data contained
>> in the array is in double or float values...
>> (I still have to cater for the int and String representations, though)
>>
>>
>> But what I am having trouble with is the data I read from an existing mzML
>> file. We used the default
>> JAXB generated mapping and the data stored by the Unmarshaller in the
>> mapped byte[] variable does
>> not seem to be base64 encoded. It seems the data in the XML is not
>> correctly converted into the Java
>> byte[], which renders my attempts to base64-decode it useless.
>>
>> With the changes I mentioned to the XML schema, the mapping changes and the
>> data is now unmarshalled
>> into a String variable. The byte[] obtained from this String is base64
>> encoded and if converted into
>> double/float I get reasonable values...
>>
>>
>> Cheers,
>> Florian
>>
>>
>>
>>
> 
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