warning: **** $EMB_ROOT not set
Searching EMBOSS libraries in -L/plplot -L/ajax -L/nucleus -lnucleus -lajax -lajaxg -leplplot 
Searching EMBOSS headers in 
warning: **** $EMB_VERSION not set in Makefile.PL
Checking if your kit is complete...
Looks good
Note (probably harmless): No library found for -lnucleus
Note (probably harmless): No library found for -lajax
Note (probably harmless): No library found for -lajaxg
Note (probably harmless): No library found for -leplplot
Writing Makefile for Bio::Emboss
cp Emboss.pm blib/lib/Bio/Emboss.pm
cp lib/Bio/Emboss/Methods.pm blib/lib/Bio/Emboss/Methods.pm
/Users/cpanrun/build/5.8.8/bin/perl /Users/cpanrun/build/5.8.8/lib/5.8.8/ExtUtils/xsubpp  -typemap /Users/cpanrun/build/5.8.8/lib/5.8.8/ExtUtils/typemap -typemap typemap  Emboss.xs > Emboss.xsc && mv Emboss.xsc Emboss.c
gcc -c  -I.  -fno-common -DPERL_DARWIN -no-cpp-precomp -arch ppc -arch i386 -nostdinc -B/Developer/SDKs/MacOSX10.4u.sdk/usr/include/gcc -B/Developer/SDKs/MacOSX10.4u.sdk/usr/lib/gcc -isystem/Developer/SDKs/MacOSX10.4u.sdk/usr/include -F/Developer/SDKs/MacOSX10.4u.sdk/System/Library/Frameworks -mmacosx-version-min=10.3 -DUSE_SITECUSTOMIZE -DNO_HASH_SEED -fno-strict-aliasing -pipe -Wdeclaration-after-statement -O3   -DVERSION=\"5.0.0.1\" -DXS_VERSION=\"5.0.0.1\"  "-I/Users/cpanrun/build/5.8.8/lib/5.8.8/darwin-thread-multi-2level/CORE"   Emboss.c
In file included from Emboss.xs:7:
emboss_perl.h:61:20: error: emboss.h: No such file or directory
In file included from Emboss.xs:7:
emboss_perl.h:61:20: error: emboss.h: No such file or directory
lipo: can't open input file: /var/tmp//ccJsTiKZ.out (No such file or directory)
make: *** [Emboss.o] Error 1