[Biococoa-dev] Even more on sequence formats

[Peter Schols]

C'mon Alex, we all know you'll never have to work again (or write any  
line of code) once you start selling EnzymeX and 4Peaks ;-)


On 11 Apr 2006, at 15:49, Alexander Griekspoor wrote:

> hmm, who is poor now huh, after Koen sends his men in black and I  
> can't forward them to you because I'm a poor reader of your  
> website... ;-(
> Cheers ;-)
> Alex
>
> On 11-apr-2006, at 15:45, Peter Schols wrote:
>
>>>> - I've added support for reading sequence files that weren't  
>>>> saved as plain-text but as rtf, basically adding a check and  
>>>> converting the file to plain text before continuing with the  
>>>> normal format determination
>>>
>>> That would be  great addition.
>>
>> Agreed!!!
>>
>>
>>> BCSequenceReader now works very different from the way BCReader  
>>> does. I am not using a matrixDictionary anymore (see my comments  
>>> in the previous mail, and the actual code). The current  
>>> BCSequenceReader already reads a raw file in as one whole.
>>>
>>> BTW, be careful with what you put in your README for EnzymeX. I  
>>> noticed you wrote that it supports BEAST and TNT formats, but I  
>>> don't see those in  BCReader. Unless you have a local version  
>>> that does, of course ;-)  I'll have a look at the readseq code  
>>> later.
>>
>> Maybe Alex got confused when reading our website: the BioCocoa  
>> site mentions these formats indeed, but keep in mind that this  
>> description still only applies to the GNUStep compatible version I  
>> created for a paper (which has become the 1.6). Please also note  
>> that the support for the Beast format is write-only (no reading)  
>> as is also mentioned on the BioCocoa website.
>>
>> Conclusion: I'm in no way liable for any financial claims from  
>> Mekentosj or their respective customers, I'm just a poor  
>> developer ;-)))
>> (and getting poorer...)
>>
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>>
>
> *********************************************************
>                      ** Alexander Griekspoor **
> *********************************************************
>                The Netherlands Cancer Institute
>                Department of Tumorbiology (H4)
>          Plesmanlaan 121, 1066 CX, Amsterdam
>                   Tel:  + 31 20 - 512 2023
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>                  AIM: mekentosj at mac.com
>                   E-mail: a.griekspoor at nki.nl
>               Web: http://www.mekentosj.com
>
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