sci-biology/mafft: remove unused patch

Closes: https://github.com/gentoo/gentoo/pull/3708

diff --git a/sci-biology/mafft/files/6.811-respect.patch b/sci-biology/mafft/files/6.811-respect.patch
deleted file mode 100644 (file)
index ebfb2c7..0000000
--- a/sci-biology/mafft/files/6.811-respect.patch
+++ /dev/null
@@ -1,192 +0,0 @@
-diff --git a/core/Makefile b/core/Makefile
-index 8bb8baf..cf28559 100644
---- a/core/Makefile
-+++ b/core/Makefile
-@@ -1,5 +1,5 @@
- PREFIX = /usr/local
--LIBDIR = $(PREFIX)/lib/mafft
-+LIBDIR = $(PREFIX)/GENTOOLIBDIR/mafft
- BINDIR = $(PREFIX)/bin
- MANDIR = $(PREFIX)/man/man1
- 
-@@ -127,136 +127,136 @@ mltaln.h : functions.h
-       touch mltaln.h
- 
- ord : $(OBJORD)
--      $(CC) -o $@ $(OBJORD) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJORD) $(CFLAGS) $(LIBS)
- 
- tbfast : $(OBJTBFAST)
--      $(CC) -o $@ $(OBJTBFAST) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJTBFAST) $(CFLAGS) $(LIBS)
- 
- tbfast2 : $(OBJTBFAST2)
--      $(CC) -o $@ $(OBJTBFAST2) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJTBFAST2) $(CFLAGS) $(LIBS)
- 
- disttbfast : $(OBJDISTTBFAST)
--      $(CC) -o $@ $(OBJDISTTBFAST) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJDISTTBFAST) $(CFLAGS) $(LIBS)
- 
- splittbfast : $(OBJSPLITTBFAST)
--      $(CC) -o $@ $(OBJSPLITTBFAST) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJSPLITTBFAST) $(CFLAGS) $(LIBS)
- 
- splitfromaln : $(OBJSPLITFROMALN)
--      $(CC) -o $@ $(OBJSPLITFROMALN) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJSPLITFROMALN) $(CFLAGS) $(LIBS)
- 
- splittbfast2 : $(OBJSPLITTBFAST2)
--      $(CC) -o $@ $(OBJSPLITTBFAST2) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJSPLITTBFAST2) $(CFLAGS) $(LIBS)
- 
- dummy : $(OBJDUMMY)
--      $(CC) -o $@ $(OBJDUMMY) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJDUMMY) $(CFLAGS) $(LIBS)
- 
- setcore : $(OBJSETCORE)
--      $(CC) -o $@ $(OBJSETCORE) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJSETCORE) $(CFLAGS) $(LIBS)
- 
- countlen : $(OBJCOUNTLEN)
--      $(CC) -o $@ $(OBJCOUNTLEN) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJCOUNTLEN) $(CFLAGS) $(LIBS)
- 
- seq2regtable : $(OBJSEQ2REGTABLE)
--      $(CC) -o $@ $(OBJSEQ2REGTABLE) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJSEQ2REGTABLE) $(CFLAGS) $(LIBS)
- 
- regtable2seq : $(OBJREGTABLE2SEQ)
--      $(CC) -o $@ $(OBJREGTABLE2SEQ) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJREGTABLE2SEQ) $(CFLAGS) $(LIBS)
- 
- f2cl : $(OBJF2CL)
--      $(CC) -o $@ $(OBJF2CL) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJF2CL) $(CFLAGS) $(LIBS)
- 
- mccaskillwrap : $(OBJMCCASKILLWRAP)
--      $(CC) -o $@ $(OBJMCCASKILLWRAP) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJMCCASKILLWRAP) $(CFLAGS) $(LIBS)
- 
- contrafoldwrap : $(OBJCONTRAFOLDWRAP)
--      $(CC) -o $@ $(OBJCONTRAFOLDWRAP) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJCONTRAFOLDWRAP) $(CFLAGS) $(LIBS)
- 
- pairlocalalign : $(OBJPAIRLOCALALIGN)
--      $(CC) -o $@ $(OBJPAIRLOCALALIGN) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJPAIRLOCALALIGN) $(CFLAGS) $(LIBS)
- 
- pairash : $(OBJPAIRASH)
--      $(CC) -o $@ $(OBJPAIRASH) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJPAIRASH) $(CFLAGS) $(LIBS)
- 
- rnatest : $(OBJRNATEST)
--      $(CC) -o $@ $(OBJRNATEST) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJRNATEST) $(CFLAGS) $(LIBS)
- 
- pair2hat3s : $(OBJPAIR2HAT3S)
--      $(CC) -o $@ $(OBJPAIR2HAT3S) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJPAIR2HAT3S) $(CFLAGS) $(LIBS)
- 
- multi2hat3s : $(OBJMULTI2HAT3S)
--      $(CC) -o $@ $(OBJMULTI2HAT3S) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJMULTI2HAT3S) $(CFLAGS) $(LIBS)
- 
- getlag : $(OBJGETLAG)
--      $(CC) -o $@ $(OBJGETLAG) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJGETLAG) $(CFLAGS) $(LIBS)
- 
- tditr : $(OBJTDITR)
--      $(CC) -o $@ $(OBJTDITR) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJTDITR) $(CFLAGS) $(LIBS)
- 
- dvtditr : $(OBJDVTDITR)
--      $(CC) -o $@ $(OBJDVTDITR) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJDVTDITR) $(CFLAGS) $(LIBS)
- 
- mafft-profile : $(OBJGALN)
--      $(CC) -o $@ $(OBJGALN) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJGALN) $(CFLAGS) $(LIBS)
- 
- gapfill : $(OBJGAPFILL)
--      $(CC) -o $@ $(OBJGAPFILL) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJGAPFILL) $(CFLAGS) $(LIBS)
- 
- dndfast4 : $(OBJDNDFAST4)
--      $(CC) -o $@ $(OBJDNDFAST4) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJDNDFAST4) $(CFLAGS) $(LIBS)
- 
- dndfast5 : $(OBJDNDFAST5)
--      $(CC) -o $@ $(OBJDNDFAST5) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJDNDFAST5) $(CFLAGS) $(LIBS)
- 
- dndfast6 : $(OBJDNDFAST6)
--      $(CC) -o $@ $(OBJDNDFAST6) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJDNDFAST6) $(CFLAGS) $(LIBS)
- 
- dndfast7 : $(OBJDNDFAST7)
--      $(CC) -o $@ $(OBJDNDFAST7) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJDNDFAST7) $(CFLAGS) $(LIBS)
- 
- dndblast : $(OBJDNDBLAST)
--      $(CC) -o $@ $(OBJDNDBLAST) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJDNDBLAST) $(CFLAGS) $(LIBS)
- 
- dndfast3 : $(OBJDNDFAST3)
--      $(CC) -o $@ $(OBJDNDFAST3) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJDNDFAST3) $(CFLAGS) $(LIBS)
- 
- triplet : $(OBJTRIPLET)
--      $(CC) -o $@ $(OBJTRIPLET) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJTRIPLET) $(CFLAGS) $(LIBS)
- 
- triplet3 : $(OBJTRIPLET3)
--      $(CC) -o $@ $(OBJTRIPLET3) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJTRIPLET3) $(CFLAGS) $(LIBS)
- 
- sextet3 : $(OBJSEXTET3)
--      $(CC) -o $@ $(OBJSEXTET3) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJSEXTET3) $(CFLAGS) $(LIBS)
- 
- sextet4 : $(OBJSEXTET4)
--      $(CC) -o $@ $(OBJSEXTET4) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJSEXTET4) $(CFLAGS) $(LIBS)
- 
- sextet5 : $(OBJSEXTET5)
--      $(CC) -o $@ $(OBJSEXTET5) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJSEXTET5) $(CFLAGS) $(LIBS)
- 
- mafft-distance : $(OBJDISTANCE)
--      $(CC) -o $@ $(OBJDISTANCE) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJDISTANCE) $(CFLAGS) $(LIBS)
- 
- triplet5 : $(OBJTRIPLET5)
--      $(CC) -o $@ $(OBJTRIPLET5) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJTRIPLET5) $(CFLAGS) $(LIBS)
- 
- triplet6 : $(OBJTRIPLET6)
--      $(CC) -o $@ $(OBJTRIPLET6) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJTRIPLET6) $(CFLAGS) $(LIBS)
- 
- octet4 : $(OBJOCTET4)
--      $(CC) -o $@ $(OBJOCTET4) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJOCTET4) $(CFLAGS) $(LIBS)
- 
- dndpre : $(OBJDNDPRE)
--      $(CC) -o $@ $(OBJDNDPRE) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJDNDPRE) $(CFLAGS) $(LIBS)
- 
- dndpre2 : $(OBJDNDPRESCORE)
--      $(CC) -o $@ $(OBJDNDPRESCORE) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJDNDPRESCORE) $(CFLAGS) $(LIBS)
- 
- score : $(OBJSCORE)
--      $(CC) -o $@ $(OBJSCORE) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJSCORE) $(CFLAGS) $(LIBS)
- 
- genMtx : $(OBJGENMTX)
--      $(CC) -o $@ $(OBJGENMTX) $(CFLAGS) $(LIBS)
-+      $(CC) $(LDFLAGS) -o $@ $(OBJGENMTX) $(CFLAGS) $(LIBS)
- 
- gapfill.o : gapfill.c $(HEADER)
-       $(CC) $(CFLAGS) -c gapfill.c