source.jalview.org Git - jabaws.git/commit

git://source.jalview.org / jabaws.git / commit

author	Fábio Madeira <fmmarquesmadeira@dundee.ac.uk>
	Mon, 10 Apr 2017 09:48:44 +0000 (10:48 +0100)
committer	Fábio Madeira <fmmarquesmadeira@dundee.ac.uk>
	Tue, 11 Apr 2017 11:24:33 +0000 (12:24 +0100)
commit	711ff37b582bf25ba17d553008c4bf06cbdb8c84
tree	acfd4653a8e58c484c2610e1034e69c39672321a	tree \| snapshot
parent	7c6018cf87e67d7ac21f5230284ef2162a19320f	commit \| diff

JWS-112 Bumping version of Mafft to version 7.310.

214 files changed:

binaries/src/mafft/binaries/addsingle	[new file with mode: 0644]	blob
binaries/src/mafft/binaries/contrafoldwrap		diff \| blob \| history
binaries/src/mafft/binaries/countlen		diff \| blob \| history
binaries/src/mafft/binaries/disttbfast		diff \| blob \| history
binaries/src/mafft/binaries/dndblast		diff \| blob \| history
binaries/src/mafft/binaries/dndfast7		diff \| blob \| history
binaries/src/mafft/binaries/dndpre		diff \| blob \| history
binaries/src/mafft/binaries/dvtditr		diff \| blob \| history
binaries/src/mafft/binaries/f2cl		diff \| blob \| history
binaries/src/mafft/binaries/getlag		diff \| blob \| history
binaries/src/mafft/binaries/mafft-distance		diff \| blob \| history
binaries/src/mafft/binaries/mafft-profile		diff \| blob \| history
binaries/src/mafft/binaries/mafft.1		diff \| blob \| history
binaries/src/mafft/binaries/mafftash_premafft.pl	[new file with mode: 0644]	blob
binaries/src/mafft/binaries/makedirectionlist	[new file with mode: 0644]	blob
binaries/src/mafft/binaries/mccaskillwrap		diff \| blob \| history
binaries/src/mafft/binaries/multi2hat3s		diff \| blob \| history
binaries/src/mafft/binaries/pairash		diff \| blob \| history
binaries/src/mafft/binaries/pairlocalalign		diff \| blob \| history
binaries/src/mafft/binaries/regtable2seq		diff \| blob \| history
binaries/src/mafft/binaries/replaceu		diff \| blob \| history
binaries/src/mafft/binaries/restoreu		diff \| blob \| history
binaries/src/mafft/binaries/score		diff \| blob \| history
binaries/src/mafft/binaries/seekquencer_premafft.pl	[new file with mode: 0644]	blob
binaries/src/mafft/binaries/seq2regtable		diff \| blob \| history
binaries/src/mafft/binaries/setcore		diff \| blob \| history
binaries/src/mafft/binaries/setdirection	[new file with mode: 0644]	blob
binaries/src/mafft/binaries/sextet5		diff \| blob \| history
binaries/src/mafft/binaries/splittbfast		diff \| blob \| history
binaries/src/mafft/binaries/tbfast		diff \| blob \| history
binaries/src/mafft/binaries/version	[new file with mode: 0644]	blob
binaries/src/mafft/core/DNA.h		diff \| blob \| history
binaries/src/mafft/core/Dalignmm.c	[new file with mode: 0644]	blob
binaries/src/mafft/core/Dalignmm.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/Falign.c		diff \| blob \| history
binaries/src/mafft/core/Falign.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/Falign_localhom.c		diff \| blob \| history
binaries/src/mafft/core/Falign_localhom.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/Galign11.c		diff \| blob \| history
binaries/src/mafft/core/Galign11.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/JTT.c		diff \| blob \| history
binaries/src/mafft/core/Lalign11.c		diff \| blob \| history
binaries/src/mafft/core/Lalign11.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/Lalignmm.c		diff \| blob \| history
binaries/src/mafft/core/Lalignmm.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/MSalign11.c		diff \| blob \| history
binaries/src/mafft/core/MSalign11.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/MSalignmm.c		diff \| blob \| history
binaries/src/mafft/core/MSalignmm.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/Makefile		diff \| blob \| history
binaries/src/mafft/core/Makefile.sos	[new file with mode: 0644]	blob
binaries/src/mafft/core/SAalignmm.c		diff \| blob \| history
binaries/src/mafft/core/SAalignmm.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/Salignmm.c		diff \| blob \| history
binaries/src/mafft/core/Salignmm.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/addfunctions.c		diff \| blob \| history
binaries/src/mafft/core/addfunctions.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/addsingle	[new file with mode: 0644]	blob
binaries/src/mafft/core/addsingle.c	[new file with mode: 0644]	blob
binaries/src/mafft/core/addsingle.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/blosum.c		diff \| blob \| history
binaries/src/mafft/core/compileoncygwin	[new file with mode: 0644]	blob
binaries/src/mafft/core/compileonmsys	[new file with mode: 0644]	blob
binaries/src/mafft/core/constants.c		diff \| blob \| history
binaries/src/mafft/core/constants.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/contrafoldwrap	[new file with mode: 0644]	blob
binaries/src/mafft/core/contrafoldwrap.c		diff \| blob \| history
binaries/src/mafft/core/contrafoldwrap.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/countlen	[new file with mode: 0644]	blob
binaries/src/mafft/core/countlen.c		diff \| blob \| history
binaries/src/mafft/core/countlen.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/defs.c		diff \| blob \| history
binaries/src/mafft/core/defs.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/disttbfast	[new file with mode: 0644]	blob
binaries/src/mafft/core/disttbfast.c		diff \| blob \| history
binaries/src/mafft/core/disttbfast.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/dndblast	[new file with mode: 0644]	blob
binaries/src/mafft/core/dndblast.c		diff \| blob \| history
binaries/src/mafft/core/dndblast.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/dndfast7	[new file with mode: 0644]	blob
binaries/src/mafft/core/dndfast7.c		diff \| blob \| history
binaries/src/mafft/core/dndfast7.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/dndpre	[new file with mode: 0644]	blob
binaries/src/mafft/core/dndpre.c		diff \| blob \| history
binaries/src/mafft/core/dndpre.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/dvtditr	[new file with mode: 0644]	blob
binaries/src/mafft/core/dvtditr.c		diff \| blob \| history
binaries/src/mafft/core/dvtditr.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/f2cl	[new file with mode: 0644]	blob
binaries/src/mafft/core/f2cl.c		diff \| blob \| history
binaries/src/mafft/core/f2cl.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/fft.c		diff \| blob \| history
binaries/src/mafft/core/fft.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/fftFunctions.c		diff \| blob \| history
binaries/src/mafft/core/fftFunctions.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/float2double	[new file with mode: 0644]	blob
binaries/src/mafft/core/functions.h		diff \| blob \| history
binaries/src/mafft/core/genalign11.c		diff \| blob \| history
binaries/src/mafft/core/genalign11.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/getlag	[new file with mode: 0644]	blob
binaries/src/mafft/core/getlag.c		diff \| blob \| history
binaries/src/mafft/core/getlag.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/interface.c	[new file with mode: 0644]	blob
binaries/src/mafft/core/io.c		diff \| blob \| history
binaries/src/mafft/core/io.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/iteration.c		diff \| blob \| history
binaries/src/mafft/core/mafft	[new file with mode: 0644]	blob
binaries/src/mafft/core/mafft-distance	[new file with mode: 0644]	blob
binaries/src/mafft/core/mafft-distance.c		diff \| blob \| history
binaries/src/mafft/core/mafft-distance.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/mafft-homologs.rb	[new file with mode: 0644]	blob
binaries/src/mafft/core/mafft-homologs.tmpl		diff \| blob \| history
binaries/src/mafft/core/mafft-profile	[new file with mode: 0644]	blob
binaries/src/mafft/core/mafft-profile.c		diff \| blob \| history
binaries/src/mafft/core/mafft-profile.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/mafft-sparsecore.rb	[new file with mode: 0644]	blob
binaries/src/mafft/core/mafft-sparsecore.tmpl	[new file with mode: 0644]	blob
binaries/src/mafft/core/mafft.1		diff \| blob \| history
binaries/src/mafft/core/mafft.bat		diff \| blob \| history
binaries/src/mafft/core/mafft.bat.win10	[new file with mode: 0644]	blob
binaries/src/mafft/core/mafft.h	[new file with mode: 0644]	blob
binaries/src/mafft/core/mafft.tmpl		diff \| blob \| history
binaries/src/mafft/core/mafftash_premafft.pl	[new file with mode: 0644]	blob
binaries/src/mafft/core/mafftash_premafft.tmpl	[new file with mode: 0644]	blob
binaries/src/mafft/core/makedirectionlist	[new file with mode: 0644]	blob
binaries/src/mafft/core/makedirectionlist.c	[new file with mode: 0644]	blob
binaries/src/mafft/core/makedirectionlist.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/makemergetable.rb	[new file with mode: 0644]	blob
binaries/src/mafft/core/mccaskillwrap	[new file with mode: 0644]	blob
binaries/src/mafft/core/mccaskillwrap.c		diff \| blob \| history
binaries/src/mafft/core/mccaskillwrap.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/mingw64mingw32dll	[new file with mode: 0644]	blob
binaries/src/mafft/core/mltaln.h		diff \| blob \| history
binaries/src/mafft/core/mltaln9.c		diff \| blob \| history
binaries/src/mafft/core/mltaln9.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/mtxutl.c		diff \| blob \| history
binaries/src/mafft/core/mtxutl.h		diff \| blob \| history
binaries/src/mafft/core/mtxutl.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/multi2hat3s	[new file with mode: 0644]	blob
binaries/src/mafft/core/multi2hat3s.c		diff \| blob \| history
binaries/src/mafft/core/multi2hat3s.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/newick2mafft.rb		diff \| blob \| history
binaries/src/mafft/core/nj.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/pairash	[new file with mode: 0644]	blob
binaries/src/mafft/core/pairash.c		diff \| blob \| history
binaries/src/mafft/core/pairash.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/pairlocalalign	[new file with mode: 0644]	blob
binaries/src/mafft/core/pairlocalalign.c		diff \| blob \| history
binaries/src/mafft/core/pairlocalalign.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/pairlocalalignmain.c	[new file with mode: 0644]	blob
binaries/src/mafft/core/pairlocalalignmain.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/partSalignmm.c		diff \| blob \| history
binaries/src/mafft/core/partSalignmm.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/regionalrealignment.rb	[new file with mode: 0644]	blob
binaries/src/mafft/core/regtable2seq	[new file with mode: 0644]	blob
binaries/src/mafft/core/regtable2seq.c		diff \| blob \| history
binaries/src/mafft/core/regtable2seq.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/replaceu	[new file with mode: 0644]	blob
binaries/src/mafft/core/replaceu.c		diff \| blob \| history
binaries/src/mafft/core/replaceu.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/restoreu	[new file with mode: 0644]	blob
binaries/src/mafft/core/restoreu.c		diff \| blob \| history
binaries/src/mafft/core/restoreu.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/rna.c		diff \| blob \| history
binaries/src/mafft/core/rna.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/rnatest.c		diff \| blob \| history
binaries/src/mafft/core/score	[new file with mode: 0644]	blob
binaries/src/mafft/core/score.c		diff \| blob \| history
binaries/src/mafft/core/score.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/seekquencer_premafft.pl	[new file with mode: 0644]	blob
binaries/src/mafft/core/seekquencer_premafft.tmpl	[new file with mode: 0644]	blob
binaries/src/mafft/core/seq2regtable	[new file with mode: 0644]	blob
binaries/src/mafft/core/seq2regtable.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/setcore	[new file with mode: 0644]	blob
binaries/src/mafft/core/setcore.c		diff \| blob \| history
binaries/src/mafft/core/setcore.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/setdirection	[new file with mode: 0644]	blob
binaries/src/mafft/core/setdirection.c	[new file with mode: 0644]	blob
binaries/src/mafft/core/setdirection.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/sextet5	[new file with mode: 0644]	blob
binaries/src/mafft/core/sextet5.c		diff \| blob \| history
binaries/src/mafft/core/sextet5.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/splittbfast	[new file with mode: 0644]	blob
binaries/src/mafft/core/splittbfast.c		diff \| blob \| history
binaries/src/mafft/core/splittbfast.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/suboptalign11.c		diff \| blob \| history
binaries/src/mafft/core/suboptalign11.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/tbfast	[new file with mode: 0644]	blob
binaries/src/mafft/core/tbfast.c		diff \| blob \| history
binaries/src/mafft/core/tbfast.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/tddis.c		diff \| blob \| history
binaries/src/mafft/core/tddis.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/tditeration.c		diff \| blob \| history
binaries/src/mafft/core/tditeration.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/treeOperation.c		diff \| blob \| history
binaries/src/mafft/core/treeOperation.o	[new file with mode: 0644]	blob
binaries/src/mafft/core/univscript.tmpl		diff \| blob \| history
binaries/src/mafft/core/version	[new file with mode: 0644]	blob
binaries/src/mafft/core/version.c	[new file with mode: 0644]	blob
binaries/src/mafft/readme		diff \| blob \| history
binaries/src/mafft/scripts/mafft		diff \| blob \| history
binaries/src/mafft/scripts/mafft-homologs.rb		diff \| blob \| history
binaries/src/mafft/scripts/mafft-sparsecore.rb	[new file with mode: 0644]	blob
binaries/src/mafft/test/sample.dpparttree		diff \| blob \| history
binaries/src/mafft/test/sample.fftns2		diff \| blob \| history
binaries/src/mafft/test/sample.fftnsi		diff \| blob \| history
binaries/src/mafft/test/sample.gins1		diff \| blob \| history
binaries/src/mafft/test/sample.ginsi		diff \| blob \| history
binaries/src/mafft/test/sample.ginsi.allowshift	[new file with mode: 0644]	blob
binaries/src/mafft/test/sample.lins1		diff \| blob \| history
binaries/src/mafft/test/sample.linsi		diff \| blob \| history
binaries/src/mafft/test/sample.parttree		diff \| blob \| history
binaries/src/mafft/test/samplerna.xinsi		diff \| blob \| history
binaries/src/mafft/test/script	[new file with mode: 0644]	blob

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