<a href="mailto:dev@ensembl.org">I have finished PMATCH,BESTPMACH run, then i run targetedgenewise,<br>
for some jobs (about 50 jobs), i got errors:<br>
<br>
-------------------- EXCEPTION --------------------<br>
MSG: Running Bio::EnsEMBL::Analysis::Runnable::BlastMiniGenewise=HASH(0x2879ac0) failed error:<br>
-------------------- EXCEPTION --------------------<br>
MSG: Failed Bio::EnsEMBL::Analysis::Runnable::Genewise=HASH(0x2917c50) run<br>
-------------------- EXCEPTION --------------------<br>
MSG: Exon overlaps with other exon in same transcript.<br>
Transcript Exons:<br>
  5108-5252 (-1)<br>
  4984-4988 (-1)<br>
<br>
This Exon:<br>
  4053-4985 (-1)<br>
<br>
some settings for targetedgenewise are:<br>
<br>
             EXON_BASED_MASKING => 1,<br>
             GENE_BASED_MASKING => 0,<br>
             PRE_GENEWISE_MASK => 1,<br>
             POST_GENEWISE_MASK => 1,<br>
             REPEATMASKING => [],<br>
             SOFTMASKING => 0,<br>
<br>
             GENEWISE_PARAMETERS => {<br>
                                     # pass parameters go genewise here, i.e. -program =>"/usr/local/ensembl/bin/genewiseXXX"<br>
                                     # for more options which can be passed see Runnable/Genewise.pm<br>
                                     #-endbias => 1,<br>
                                     #-matrix => 'BLOSUM80.bla',<br>
                                     #-gap => 20,<br>
                                     #-extension => 8,<br>
                                     #-splice_model => 1<br>
                                    },<br>
<br>
any suggestions?<br>
</a>