Re: [Gusdev-gusdev] BlastAnal.pm and LoadBlastSimFast.pm

[Arnaud K. <ax...@sa...>]

Hi Steve

Steve Fischer wrote:

> i have updated the cbil .tar with the change below.   it is in v1-6-0.
>
thanks

> steve
>
> Arnaud Kerhornou wrote:
>
>> Hi
>>
>> I've got a script from Pablo Mendes called 
>> parseBlastFilesForSimilarity.pl that uses CBIL::Bio::Blast::BlastAnal 
>> module part of the CBIL distribution. To make the blast parsing work 
>> for me (to parse the score), I had to do a minor modification, line 131:
>>    if (/... \s(\d+) .../) {
>> by
>>    if (/... \s+(\d+) .../) {
>>
>> ie match at least one space before parsing the score value, instead 
>> of matching one and only one space.
>>
>> Also, in the BLAST output, the query and subject ids are meant to be 
>> GUS Primary keys, I have instead the real subject and query identifiers.
>> In LoadBlastSimFast.pm, could we make the parsing more generic so it 
>> can accept both ? I have made the changes locally, I can commit an 
>> update if nobody minds.
>>
will commit my update

>> Shall I make sourceforge entries to log them ?
>>
>> cheers
>> Arnaud
>>
cheers
Arnaud