Dear all,
i´m currently trying to parse several blast output files in order to show the results in my software. Since i have to carry out many blast searches from time to time, i decided to install the newest version of blast, blast+ 2.2.24+. It´s working fine.
Now i was just running into a big problem. Since i am programming mainly in Java i decided to use BioJava, parsing FastaFiles and Blast output files should be easy i thought. Unfortunately, BioJava3, the most recent version, contains a parser which is working for my files, but it does not create Java beans in order to make it easy to present e.g. scores and alignments. So i downloaded BioJava 1.7.1 which does contain this feature. But unfortunately, this does not support the new Blast+ output, the APIDoc just mentions it works with NCBI Blast version 2.2.3 . Did anybody run into this problem and was abloe to solve it? I currently just see the opportunity to use an older blast version in order to circumvent this non-compability. This solution is the least time-consuming one i guess.
I´m looking forward to suggestions!
Cheers,
Peter
