This is an automated email from the git hooks/post-receive script. tille pushed a commit to tag debian/0.0+20160909-1 in repository libpll.
commit 98930e7b3769078c14a712df7296f2410d47d113 Merge: 51a1547 7a71aa4 Author: Andreas Tille <[email protected]> Date: Tue Apr 25 17:54:11 2017 +0200 Merge tag 'upstream/0.0+20160909' Upstream version 0.0+20160909 .gitignore | 6 + configure.ac | 17 +- examples/Makefile.am | 1 - examples/lg4/lg4.c | 2 +- examples/load-utree/load-utree.c | 2 +- examples/newick-fasta-rooted/.gitignore | 1 + examples/newick-fasta-rooted/newick-fasta-rooted.c | 2 +- examples/newick-fasta-unrooted/.gitignore | 2 + .../newick-fasta-unrooted/newick-fasta-unrooted.c | 10 +- .../newick-phylip-unrooted.c | 2 +- examples/partial-traversal/.gitignore | 1 + examples/partial-traversal/partial.c | 16 +- examples/protein-list/.gitignore | 1 + examples/protein-list/protein-list.c | 4 +- examples/rooted-tacg/rooted-tacg.c | 2 +- examples/rooted/rooted.c | 2 +- examples/stepwise/Makefile | 44 - examples/stepwise/stepwise.c | 202 ----- examples/stepwise/target.mk | 2 - examples/unrooted/.gitignore | 1 + examples/unrooted/Makefile | 2 +- examples/unrooted/unrooted.c | 2 +- src/Makefile.am | 70 +- src/core_derivatives.c | 124 +-- src/core_derivatives_avx.c | 745 +++++++--------- src/core_derivatives_avx2.c | 692 --------------- src/core_derivatives_sse.c | 128 +-- src/core_likelihood.c | 219 +---- src/core_likelihood_avx.c | 362 +------- src/core_likelihood_avx2.c | 430 --------- src/core_likelihood_sse.c | 25 +- src/core_partials.c | 160 +--- src/core_partials_avx.c | 596 ++----------- src/core_partials_avx2.c | 702 --------------- src/core_partials_sse.c | 3 +- src/core_pmatrix.c | 78 +- src/core_pmatrix_avx.c | 517 ++--------- src/core_pmatrix_avx2.c | 269 ------ src/core_pmatrix_sse.c | 102 +-- src/derivatives.c | 115 +-- src/fast_parsimony.c | 774 ---------------- src/fast_parsimony_avx.c | 404 --------- src/fast_parsimony_avx2.c | 399 --------- src/fast_parsimony_sse.c | 345 -------- src/lex_phylip.l | 39 +- src/lex_rtree.l | 58 +- src/lex_utree.l | 58 +- src/likelihood.c | 34 +- src/maps.c | 41 +- src/models.c | 94 +- src/parse_phylip.y | 31 +- src/parse_rtree.y | 76 +- src/parse_utree.y | 93 +- src/parsimony.c | 64 +- src/partials.c | 1 - src/pll.c | 23 +- src/pll.h | 466 ++-------- src/rtree.c | 12 +- src/stepwise.c | 542 ------------ src/utree.c | 35 +- src/utree_svg.c | 6 +- test/.gitignore | 5 + test/Makefile | 21 +- test/README.md | 26 - test/out/00010_NMDU_lkcalc.out | 98 --- test/out/00011_NMAU_lkcalc.out | 354 -------- test/out/00012_NMOU_lkcalc.out | 146 ---- test/out/00020_NMDR_lkcalc.out | 98 --- test/out/00021_NMAR_lkcalc.out | 354 -------- test/out/00022_NMOR_lkcalc.out | 146 ---- test/out/00030_NMDU_gamma.out | 98 --- test/out/asc-bias.out | 92 +- test/out/derivatives-oddstates.out | 972 ++++++++++----------- test/out/derivatives.out | 972 ++++++++++----------- ...{00110_NPDN_fasta.exe.out => fasta-dna.exe.out} | 0 test/out/{00110_NPDN_fasta.out => fasta-dna.out} | 0 ...00120_NPAN_fasta.exe.out => fasta-prot.exe.out} | 0 test/out/{00120_NPAN_fasta.out => fasta-prot.out} | 0 test/out/{00032_NMOU_gamma.out => odd-states.out} | 0 test/runtest.py | 32 +- test/src/00010_NMDU_lkcalc.c | 210 ----- test/src/00011_NMAU_lkcalc.c | 200 ----- test/src/00012_NMOU_lkcalc.c | 221 ----- test/src/00020_NMDR_lkcalc.c | 222 ----- test/src/00021_NMAR_lkcalc.c | 211 ----- test/src/00022_NMOR_lkcalc.c | 246 ------ test/src/00030_NMDU_gamma.c | 215 ----- test/src/README.md | 3 - test/src/asc-bias.c | 130 ++- test/src/common.c | 44 +- test/src/common.h | 11 - test/src/derivatives-oddstates.c | 8 +- test/src/derivatives.c | 8 +- test/src/{00110_NPDN_fasta.c => fasta-dna.c} | 0 test/src/{00120_NPAN_fasta.c => fasta-prot.c} | 0 test/src/{00032_NMOU_gamma.c => odd-states.c} | 0 test/src/partial-traversal.c | 51 +- test/src/rooted-tipinner.c | 13 +- test/src/rooted.c | 19 +- 99 files changed, 2308 insertions(+), 12174 deletions(-) -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/libpll.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
