Re: libMUSCLE
On Sun, 23 Mar 2008, Aaron Darling wrote:
I made some further changes yesterday to move libmuscle into a c++ namespace
in order to avoid global namespace pollution. A new diff is here:
http://gel.ahabs.wisc.edu/~darling/lib_refactor_20080323.diff.gz
The diff does not include source for files I added, such as the thread
storage class and the anchored profile-profile alignment function.
I'll have a look at this soon.
http://debian-med.alioth.debian.org/tasks/bio-dev.php#libgenome-1.3-1
that's good news, it seems we are progressing :)
Yep. It would be really great if this would go upstream to
MUSCLE because this would reduce the effort to make consistent
packages drastically.
Hmmm, that's unfortunate. Yes, I had come across their project before but
never really considered that it might cause naming conflicts. Perhaps they
would want to rename to something like mauve-test? Or maybe the aligner
could be renamed mauve-aligner? I'd prefer to avoid wisc-mauve since I'm now
at the University of Queensland and Mauve may move at some point.
Well, mauve-aligner is an alternative, but my plan was to put the
mauveAligner into a separate package of this name.
As for the mauve build error, some further investigation suggests that the
PropertyFile task lives inside ant-nodeps.jar, which should be included in
the ant-optional debian package. Perhaps ant can't find
/usr/share/ant/lib/ant-nodeps.jar ? If that file exists you might try
running:
ant -lib /usr/share/ant/lib/ant-nodeps.jar
and if that works, then ant may not know where $ANT_HOME is, or $ANT_HOME may
not be set to /usr/share/ant.
I think I have to enhance my Java skills a little bit.
Kind regards
Andreas.
--
http://fam-tille.de
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