Hi,
a colleague of mine relaised that mauvealigner seems to need gbk files
when running under Linux (while under Win also gb file is working). This
happens when using
java -Xmx6g -cp /usr/share/java/Mauve.jar
org.gel.mauve.contigs.ContigOrderer -output OUTPUTDIR -ref REFERENCE.gbk -draft
DRAFT.contigs.fasta
While under win also REFERENCE.gb is OK this leads to an error under
(the Debian packaged!) mauvealigner (I forgot to ask what version is
used under Win - may be there is a difference as well).
The solution of my colleague was to use CloneManager under Windows to do
a gb -> gbk conversion. Is there any tool in our rich toolset which can
be used here to script this?
Kind regards
Andreas.
--
http://fam-tille.de
