Hello all i was trying to run mauve as a batch mode in such a way
for draft in *.fasta
do
echo $draft
#$ref= Ecoli_jj1886_complete_geneone.fasta;
$bname=echo $draft
java -Xmx500m -cp Mauve.jar org.gel.mauve.contigs.ContigOrderer -output
$bname -ref ref.fasta -draft $draft
done
But some error is coming can anyone suggest me what is the problem??? and
can any one please include how i can put number of threads in command line
???
Thanks
Regards
Hiren
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