Thanks to Tomoaki Nishiyama for the suggestion.
PROGRAMS = rsem-extract-reference-transcripts rsem-synthesis-reference-transcripts rsem-preref rsem-parse-alignments rsem-build-read-index rsem-run-em rsem-tbam2gbam rsem-run-gibbs rsem-calculate-credibility-intervals rsem-simulate-reads rsem-bam2wig rsem-get-unique rsem-bam2readdepth
-all : build-sam $(PROGRAMS)
+all : $(PROGRAMS)
-build-sam :
+sam/libbam.a :
cd sam ; ${MAKE} all
Transcript.h : utils.h