Étienne Mollier <emoll...@debian.org> writes:
> Thanks for the additional input, naively I would think the undef
> could have to do with a subtle change in makeblastdb output, but
AFAICT, the relevant change is in blastdbcmd error output and the
following patch suffices (perhaps with a line break thrown in):
--- a/lib/Bio/Tools/Run/StandAloneBlastPlus.pm
+++ b/lib/Bio/Tools/Run/StandAloneBlastPlus.pm
@@ -1106,7 +1106,7 @@ sub check_db {
$self->factory->no_throw_on_crash(1);
$self->factory->_run();
$self->factory->no_throw_on_crash(0);
- return 0 if ($self->factory->stderr =~ /No alias or index file found/);
+ return 0 if ($self->factory->stderr =~ /No alias or index file
found|Database memory map file error/);
return 1;
}
return;
--
Aaron M. Ucko, KB1CJC (amu at alum.mit.edu, ucko at debian.org)
http://www.mit.edu/~amu/ | http://stuff.mit.edu/cgi/finger/?a...@monk.mit.edu
