Friday, November 24, 2006

BioWeka 0.6.0 released

In this release we added a filter under bioweka.filters.universal called AddLastAttributeByName that adds the last attribute (often the class assignments) from a second data set to the current data set by joining the instances by their first attribute (i.e. name attribute).

Further, the release contains these bug fixes:
  • Calling the toString method on an AvgScoreEvaluator object whose initialize method had not been called leads to a NullPointerException. This bug was fixed.
  • The default value for the buildCommand property of the BlastClassifier object specified the option "-o T" which tells the formatdb command of the BLAST suite to build an index file for the sequence database. This leads to a better performance. However, as it seems, BLAST behaves differently in different versions with respect to this option, so we decided not to include the option in the default settings.
  • Under certain circumstances the PsiBlastParser class fails to grep the output of blastpgp. The new releases solves this problem.

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