On Sun, Aug 5, 2018 at 7:44 AM, Andreas Tille <andr...@an3as.eu> wrote: >> > /usr/bin/ld: cannot find -lsmithwaterman >> > collect2: error: ld returned 1 exit status >> Well, your Makefile.am doesn't say you need to build the lib before the >> binary. > > Strange. I have never seen such kind of specification and I assumed > that this is automatically the case. I checked some references about > automake and also example packages but failed to find a clue. Could you > give any more detailed hint to specify that the library needs to be > build first.
Stare at https://www.gnu.org/software/automake/manual/html_node/Libtool-Libraries.html for a minute; that seems to imply the answer. Try this: in Makefile.am, change LDADD = -lsmithwaterman -ldisorder to smithwaterman_LDADD = libsmithwaterman.la -ldisorder Then build, and double-check the generated Makefile to verify that it says smithwaterman_DEPENDENCIES = libsmithwaterman.la And Bob's your uncle!
