XML::Twig depends on XML::Parser For installing XML::Parser, need /mit/perl5/bin/perl Makefile.PL LIB=/var/tmp/alex_c/lib EXPATLIBPATH=/mit/outland/lib EXPATINCPATH=/mit/outland/include so the attach-and-run script will need to attach outland, as well... the stuff in the bioperl-ext package really doesn't look all that useful or well-used. i think it's best to skip it.