[Biojava-l] Blast2HTML parser problem

Hi, I use the biojava Blast2HTML package but I reached an error when executing a BLAST of m12345 on RefSeq_RNA Mouse. (Alias DB) After the last result is a part like this: Subset of the database(s) listed below Number of letters searched: 2,879,183,620 Number of sequences searched:

RE: [Biojava-l] blast2html

: '[EMAIL PROTECTED]' Sent: 11/20/03 6:49 AM Subject: Re: [Biojava-l] blast2html Marc, As I remember it the summary line from the blast output is split on white space with the first token put into hitid - this will make it's way into oHitSummary.oHitId.id in Blast2HTML If you

Re: [Biojava-l] blast2html

Marc, As I remember it the summary line from the blast output is split on white space with the first token put into hitid - this will make it's way into oHitSummary.oHitId.id in Blast2HTML If you want to change this then you need to implement your own SummaryLineHelperIF in org.biojava.bio.p

[Biojava-l] blast2html

hi, I'm trying to modify the Blasr2HTML code in org.biojava.bio.program.blast2html to add some links to my blast output. In HTMLRenderer, I'm trying to add a link to each row in my summary. The variable oHitSummary.oHitId.id contains the accession..well something like (ref|NP_011554.1|) , I was w

Re: [Biojava-l] Blast2HTML - a new Blast-Like SAX parsing example

Thanks Colin. Cool! Matthew Colin Hardman wrote: > > Hello, > I've just checked in a new package called > org.biojava.bio.program.blast2html. It's a companion to the > org.biojava.bio.program.sax package allowing you to go from blast-like > output to HTML, through a stream of SAX even

[Biojava-l] Blast2HTML - a new Blast-Like SAX parsing example

Hello, I've just checked in a new package called org.biojava.bio.program.blast2html. It's a companion to the org.biojava.bio.program.sax package allowing you to go from blast-like output to HTML, through a stream of SAX events. This means it should scale to very large outputs indeed - t