| core/Makefile | 100 +++++++++++++++++++++++++++++----------------------------- |
| 1 file changed, 50 insertions(+), 50 deletions(-) |
| |
| diff --git a/core/Makefile b/core/Makefile |
| index 9acebb3..3838a45 100644 |
| --- a/core/Makefile |
| +++ b/core/Makefile |
| @@ -145,151 +145,151 @@ mltaln.h : functions.h |
| touch mltaln.h |
| |
| version : version.c mltaln.h |
| - $(CC) -o $@ version.c $(MYCFLAGS) |
| + $(CC) $(LDFLAGS) -o $@ version.c $(MYCFLAGS) |
| |
| tbfast : $(OBJTBFAST) |
| - $(CC) -o $@ $(OBJTBFAST) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJTBFAST) $(MYCFLAGS) $(LIBS) |
| |
| addsingle : $(OBJADDSINGLE) |
| - $(CC) -o $@ $(OBJADDSINGLE) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJADDSINGLE) $(MYCFLAGS) $(LIBS) |
| |
| tbfast2 : $(OBJTBFAST2) |
| - $(CC) -o $@ $(OBJTBFAST2) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJTBFAST2) $(MYCFLAGS) $(LIBS) |
| |
| disttbfast : $(OBJDISTTBFAST) |
| - $(CC) -o $@ $(OBJDISTTBFAST) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJDISTTBFAST) $(MYCFLAGS) $(LIBS) |
| |
| makedirectionlist : $(OBJMAKEDIRECTIONLIST) |
| - $(CC) -o $@ $(OBJMAKEDIRECTIONLIST) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJMAKEDIRECTIONLIST) $(MYCFLAGS) $(LIBS) |
| |
| splittbfast : $(OBJSPLITTBFAST) |
| - $(CC) -o $@ $(OBJSPLITTBFAST) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJSPLITTBFAST) $(MYCFLAGS) $(LIBS) |
| |
| splitfromaln : $(OBJSPLITFROMALN) |
| - $(CC) -o $@ $(OBJSPLITFROMALN) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJSPLITFROMALN) $(MYCFLAGS) $(LIBS) |
| |
| splittbfast2 : $(OBJSPLITTBFAST2) |
| - $(CC) -o $@ $(OBJSPLITTBFAST2) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJSPLITTBFAST2) $(MYCFLAGS) $(LIBS) |
| |
| dummy : $(OBJDUMMY) |
| - $(CC) -o $@ $(OBJDUMMY) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJDUMMY) $(MYCFLAGS) $(LIBS) |
| |
| setcore : $(OBJSETCORE) |
| - $(CC) -o $@ $(OBJSETCORE) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJSETCORE) $(MYCFLAGS) $(LIBS) |
| |
| countlen : $(OBJCOUNTLEN) |
| - $(CC) -o $@ $(OBJCOUNTLEN) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJCOUNTLEN) $(MYCFLAGS) $(LIBS) |
| |
| seq2regtable : $(OBJSEQ2REGTABLE) |
| - $(CC) -o $@ $(OBJSEQ2REGTABLE) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJSEQ2REGTABLE) $(MYCFLAGS) $(LIBS) |
| |
| regtable2seq : $(OBJREGTABLE2SEQ) |
| - $(CC) -o $@ $(OBJREGTABLE2SEQ) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJREGTABLE2SEQ) $(MYCFLAGS) $(LIBS) |
| |
| setdirection : $(OBJSETDIRECTION) |
| - $(CC) -o $@ $(OBJSETDIRECTION) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJSETDIRECTION) $(MYCFLAGS) $(LIBS) |
| |
| replaceu : $(OBJREPLACEU) |
| - $(CC) -o $@ $(OBJREPLACEU) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJREPLACEU) $(MYCFLAGS) $(LIBS) |
| |
| restoreu : $(OBJRESTOREU) |
| - $(CC) -o $@ $(OBJRESTOREU) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJRESTOREU) $(MYCFLAGS) $(LIBS) |
| |
| f2cl : $(OBJF2CL) |
| - $(CC) -o $@ $(OBJF2CL) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJF2CL) $(MYCFLAGS) $(LIBS) |
| |
| mccaskillwrap : $(OBJMCCASKILLWRAP) |
| - $(CC) -o $@ $(OBJMCCASKILLWRAP) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJMCCASKILLWRAP) $(MYCFLAGS) $(LIBS) |
| |
| contrafoldwrap : $(OBJCONTRAFOLDWRAP) |
| - $(CC) -o $@ $(OBJCONTRAFOLDWRAP) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJCONTRAFOLDWRAP) $(MYCFLAGS) $(LIBS) |
| |
| pairlocalalign : $(OBJPAIRLOCALALIGN) |
| - $(CC) -o $@ $(OBJPAIRLOCALALIGN) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJPAIRLOCALALIGN) $(MYCFLAGS) $(LIBS) |
| |
| pairash : $(OBJPAIRASH) |
| - $(CC) -o $@ $(OBJPAIRASH) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJPAIRASH) $(MYCFLAGS) $(LIBS) |
| |
| rnatest : $(OBJRNATEST) |
| - $(CC) -o $@ $(OBJRNATEST) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJRNATEST) $(MYCFLAGS) $(LIBS) |
| |
| pair2hat3s : $(OBJPAIR2HAT3S) |
| - $(CC) -o $@ $(OBJPAIR2HAT3S) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJPAIR2HAT3S) $(MYCFLAGS) $(LIBS) |
| |
| multi2hat3s : $(OBJMULTI2HAT3S) |
| - $(CC) -o $@ $(OBJMULTI2HAT3S) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJMULTI2HAT3S) $(MYCFLAGS) $(LIBS) |
| |
| getlag : $(OBJGETLAG) |
| - $(CC) -o $@ $(OBJGETLAG) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJGETLAG) $(MYCFLAGS) $(LIBS) |
| |
| tditr : $(OBJTDITR) |
| - $(CC) -o $@ $(OBJTDITR) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJTDITR) $(MYCFLAGS) $(LIBS) |
| |
| dvtditr : $(OBJDVTDITR) |
| - $(CC) -o $@ $(OBJDVTDITR) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJDVTDITR) $(MYCFLAGS) $(LIBS) |
| |
| mafft-profile : $(OBJGALN) |
| - $(CC) -o $@ $(OBJGALN) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJGALN) $(MYCFLAGS) $(LIBS) |
| |
| gapfill : $(OBJGAPFILL) |
| - $(CC) -o $@ $(OBJGAPFILL) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJGAPFILL) $(MYCFLAGS) $(LIBS) |
| |
| dndfast4 : $(OBJDNDFAST4) |
| - $(CC) -o $@ $(OBJDNDFAST4) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJDNDFAST4) $(MYCFLAGS) $(LIBS) |
| |
| dndfast5 : $(OBJDNDFAST5) |
| - $(CC) -o $@ $(OBJDNDFAST5) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJDNDFAST5) $(MYCFLAGS) $(LIBS) |
| |
| dndfast6 : $(OBJDNDFAST6) |
| - $(CC) -o $@ $(OBJDNDFAST6) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJDNDFAST6) $(MYCFLAGS) $(LIBS) |
| |
| dndfast7 : $(OBJDNDFAST7) |
| - $(CC) -o $@ $(OBJDNDFAST7) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJDNDFAST7) $(MYCFLAGS) $(LIBS) |
| |
| dndblast : $(OBJDNDBLAST) |
| - $(CC) -o $@ $(OBJDNDBLAST) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJDNDBLAST) $(MYCFLAGS) $(LIBS) |
| |
| dndfast3 : $(OBJDNDFAST3) |
| - $(CC) -o $@ $(OBJDNDFAST3) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJDNDFAST3) $(MYCFLAGS) $(LIBS) |
| |
| triplet : $(OBJTRIPLET) |
| - $(CC) -o $@ $(OBJTRIPLET) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJTRIPLET) $(MYCFLAGS) $(LIBS) |
| |
| triplet3 : $(OBJTRIPLET3) |
| - $(CC) -o $@ $(OBJTRIPLET3) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJTRIPLET3) $(MYCFLAGS) $(LIBS) |
| |
| sextet3 : $(OBJSEXTET3) |
| - $(CC) -o $@ $(OBJSEXTET3) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJSEXTET3) $(MYCFLAGS) $(LIBS) |
| |
| sextet4 : $(OBJSEXTET4) |
| - $(CC) -o $@ $(OBJSEXTET4) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJSEXTET4) $(MYCFLAGS) $(LIBS) |
| |
| sextet5 : $(OBJSEXTET5) |
| - $(CC) -o $@ $(OBJSEXTET5) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJSEXTET5) $(MYCFLAGS) $(LIBS) |
| |
| mafft-distance : $(OBJDISTANCE) |
| - $(CC) -o $@ $(OBJDISTANCE) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJDISTANCE) $(MYCFLAGS) $(LIBS) |
| |
| triplet5 : $(OBJTRIPLET5) |
| - $(CC) -o $@ $(OBJTRIPLET5) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJTRIPLET5) $(MYCFLAGS) $(LIBS) |
| |
| triplet6 : $(OBJTRIPLET6) |
| - $(CC) -o $@ $(OBJTRIPLET6) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJTRIPLET6) $(MYCFLAGS) $(LIBS) |
| |
| octet4 : $(OBJOCTET4) |
| - $(CC) -o $@ $(OBJOCTET4) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJOCTET4) $(MYCFLAGS) $(LIBS) |
| |
| dndpre : $(OBJDNDPRE) |
| - $(CC) -o $@ $(OBJDNDPRE) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJDNDPRE) $(MYCFLAGS) $(LIBS) |
| |
| dndpre2 : $(OBJDNDPRESCORE) |
| - $(CC) -o $@ $(OBJDNDPRESCORE) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJDNDPRESCORE) $(MYCFLAGS) $(LIBS) |
| |
| score : $(OBJSCORE) |
| - $(CC) -o $@ $(OBJSCORE) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJSCORE) $(MYCFLAGS) $(LIBS) |
| |
| genMtx : $(OBJGENMTX) |
| - $(CC) -o $@ $(OBJGENMTX) $(MYCFLAGS) $(LIBS) |
| + $(CC) $(LDFLAGS) -o $@ $(OBJGENMTX) $(MYCFLAGS) $(LIBS) |
| |
| gapfill.o : gapfill.c $(HEADER) |
| $(CC) $(MYCFLAGS) -c gapfill.c |
| @@ -525,7 +525,7 @@ install : all |
| chmod 755 $(SCRIPTS) |
| $(INSTALL) $(SCRIPTS) $(BINDIR) |
| chmod 755 $(PROGS) |
| - $(INSTALL) -s $(PROGS) $(LIBDIR) |
| + $(INSTALL) $(PROGS) $(LIBDIR) |
| $(INSTALL) -m 644 $(MANPAGES) $(LIBDIR) |
| |
| ( cd $(BINDIR); \ |
