<pre style='margin:0'>
Renee Otten (reneeotten) pushed a commit to branch master
in repository macports-ports.
</pre>
<p><a href="https://github.com/macports/macports-ports/commit/8571088e7d6ce1419f7b87f4637a96b8c421cac1">https://github.com/macports/macports-ports/commit/8571088e7d6ce1419f7b87f4637a96b8c421cac1</a></p>
<pre style="white-space: pre; background: #F8F8F8">The following commit(s) were added to refs/heads/master by this push:
<span style='display:block; white-space:pre;color:#404040;'> new 8571088e7d6 raxml: update to 8.2.12
</span>8571088e7d6 is described below
<span style='display:block; white-space:pre;color:#808000;'>commit 8571088e7d6ce1419f7b87f4637a96b8c421cac1
</span>Author: Tony Tung <tonytung@merly.org>
AuthorDate: Thu May 14 17:23:55 2020 -0700
<span style='display:block; white-space:pre;color:#404040;'> raxml: update to 8.2.12
</span><span style='display:block; white-space:pre;color:#404040;'>
</span><span style='display:block; white-space:pre;color:#404040;'> - add support for the avx2 variant
</span>---
science/raxml/Portfile | 35 ++-
science/raxml/files/patch-Makefiles.diff | 415 ++++++++++++-------------------
2 files changed, 178 insertions(+), 272 deletions(-)
<span style='display:block; white-space:pre;color:#808080;'>diff --git a/science/raxml/Portfile b/science/raxml/Portfile
</span><span style='display:block; white-space:pre;color:#808080;'>index 1c520ce88ef..bacf7a0d523 100644
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>--- a/science/raxml/Portfile
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>+++ b/science/raxml/Portfile
</span><span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -6,10 +6,12 @@ PortGroup mpi 1.0
</span> PortGroup xcode_workaround 1.0
PortGroup makefile 1.0
<span style='display:block; white-space:pre;background:#ffe0e0;'>-github.setup stamatak standard-RAxML 7.7.6 v
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-revision 2
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-checksums sha256 7562b307bc50e38162f104271793a1c8f98f866c2342bea21afe6df6a982fd82 \
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- rmd160 da76d6623515b7d8f78a69aaf4eec713508789af
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+github.setup stamatak standard-RAxML 8.2.12 v
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+github.tarball_from archive
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+revision 0
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+checksums sha256 338f81b52b54e16090e193daf36c1d4baa9b902705cfdc7f4497e3e09718533b \
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ rmd160 eaaa1dc2bc9a55ad070d14f2a4ceab55afa05aac \
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ size 10138831
</span> name raxml
description Estimation of phylogenetic trees
long_description RAxML is a program for sequential and parallel \
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -34,7 +36,6 @@ set EXTm ""
</span> set EXTb ""
#Use the HYBRID implementation
<span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span> variant hybrid conflicts pthreads description {Hybrid MPI implementation} {
if {![mpi_variant_isset]} {
return -code error "$name: Variant hybrid requires an mpi variant"
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -64,12 +65,12 @@ if {![mpi_variant_isset]} {
</span>
#For Intel machines add SSE and AVX as a variant and use it by default with pthreads
if {${build_arch} eq "i386" || ${build_arch} eq "x86_64"} {
<span style='display:block; white-space:pre;background:#ffe0e0;'>- variant sse3 conflicts avx description {Use the SSE3 extended instruction set from Intel since 2004} {
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ variant sse3 conflicts avx avx2 description {Use the SSE3 extended instruction set from Intel since 2004} {
</span> set EXTm ".SSE3"
set EXTb "-SSE3"
}
<span style='display:block; white-space:pre;background:#ffe0e0;'>- variant avx conflicts sse3 description {Use the AVX extended instruction set from Intel i7 (sandy bridge) and AMD Bulldozer} {
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ variant avx conflicts avx2 sse3 description {Use the AVX extended instruction set from Intel i7 (sandy bridge) and AMD Bulldozer} {
</span> pre-fetch {
if {![avx_compiler_isset]} {
return -code error "$name: Variant avx needs a clang-derived compiler"
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -79,12 +80,22 @@ if {${build_arch} eq "i386" || ${build_arch} eq "x86_64"} {
</span> set EXTb "-AVX"
}
<span style='display:block; white-space:pre;background:#ffe0e0;'>- if {![catch {sysctl hw.optional.sse3} result] && ${result} == 1} {
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- if {![catch {sysctl hw.optional.avx1_0} result] && ${result} == 1} {
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- default_variants-append +avx
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- } else {
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- default_variants-append +sse3
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ variant avx2 conflicts avx sse3 description {Use the AVX2 extended instruction set from Intel Haswell and AMD Excavator} {
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ pre-fetch {
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ if {![avx_compiler_isset]} {
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ return -code error "$name: Variant avx2 needs a clang-derived compiler"
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ }
</span> }
<span style='display:block; white-space:pre;background:#e0ffe0;'>+ set EXTm ".AVX2"
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ set EXTb "-AVX2"
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ }
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ if {![catch {sysctl hw.optional.avx2_0} result] && ${result} == 1} {
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ default_variants-append +avx2
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ } elseif {![catch {sysctl hw.optional.avx1_0} result] && ${result} == 1} {
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ default_variants-append +avx
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ } elseif {![catch {sysctl hw.optional.sse3} result] && ${result} == 1} {
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ default_variants-append +sse3
</span> }
} else {
post-patch {
<span style='display:block; white-space:pre;color:#808080;'>diff --git a/science/raxml/files/patch-Makefiles.diff b/science/raxml/files/patch-Makefiles.diff
</span><span style='display:block; white-space:pre;color:#808080;'>index 8f484a24aae..3c1c42da7f2 100644
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>--- a/science/raxml/files/patch-Makefiles.diff
</span><span style='display:block; white-space:pre;background:#e0e0ff;'>+++ b/science/raxml/files/patch-Makefiles.diff
</span><span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -1,5 +1,38 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.AVX.PTHREADS.mac.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.AVX.PTHREADS.mac 2020-05-17 08:10:17.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.AVX.HYBRID.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.AVX.HYBRID.gcc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -2,7 +2,7 @@
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = mpicc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_WAYNE_MPI -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_WAYNE_MPI -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm -pthread
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.AVX.MPI.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.AVX.MPI.gcc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -2,7 +2,7 @@
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = mpicc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_WAYNE_MPI -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_WAYNE_MPI -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.AVX.PTHREADS.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.AVX.PTHREADS.gcc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -3,7 +3,7 @@
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = gcc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-af [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm -pthread
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.AVX.PTHREADS.mac.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.AVX.PTHREADS.mac
</span> @@ -3,7 +3,7 @@
CC = clang
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -9,57 +42,41 @@
</span>
LIBRARIES = -lm -pthread
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -17,7 +17,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h compiler.h gcc.h ll_asm.h ll_list.h
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.AVX.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.AVX.gcc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -3,7 +3,7 @@
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-PTHREADS-AVX $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-PTHREADS-AVX $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = gcc
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- avxLikelihood.o : avxLikelihood.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- $(CC) $(CFLAGS) -mavx -c -o avxLikelihood.o avxLikelihood.c
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.AVX.HYBRID.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.AVX.HYBRID.gcc 2020-05-17 08:10:18.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -2,7 +2,7 @@
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -O2 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls - [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wun [...]
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- CC = mpicc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D_WAYNE_MPI -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D_WAYNE_MPI -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.AVX.mac.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.AVX.mac
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -3,7 +3,7 @@
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- LIBRARIES = -lm -pthread
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = clang
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -15,7 +15,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h compiler.h gcc.h ll_asm.h ll_list.h
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -O2 -fomit-frame-pointer -funroll-loops -D__AVX #-Weverything -Wno-padded # -Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wde [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D__AVX #-Weverything -Wno-padded # -Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdecla [...]
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC-HYBRID-AVX : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-HYBRID-AVX $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-HYBRID-AVX $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- avxLikelihood.o : avxLikelihood.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- $(CC) $(CFLAGS) -mavx -c -o avxLikelihood.o avxLikelihood.c
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.SSE3.HYBRID.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.SSE3.HYBRID.gcc 2020-05-17 08:10:18.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.AVX2.HYBRID.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.AVX2.HYBRID.gcc
</span> @@ -2,7 +2,7 @@
CC = mpicc
<span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D_WAYNE_MPI -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D_WAYNE_MPI -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- LIBRARIES = -lm -pthread
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -15,7 +15,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h compiler.h gcc.h ll_asm.h ll_list.h
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_WAYNE_MPI -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_WAYNE_MPI -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC-HYBRID-SSE3 : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-HYBRID-SSE3 $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-HYBRID-SSE3 $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm -pthread
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- evaluatePartialSpecialGeneric.o : evaluatePartialSpecialGeneric.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.AVX.MPI.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.AVX.MPI.gcc 2020-05-17 08:10:18.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.AVX2.MPI.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.AVX2.MPI.gcc
</span> @@ -2,7 +2,7 @@
CC = mpicc
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -69,57 +86,52 @@
</span>
LIBRARIES = -lm
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -15,7 +15,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.AVX2.PTHREADS.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.AVX2.PTHREADS.gcc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -3,7 +3,7 @@
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC-MPI-AVX : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-MPI-AVX $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-MPI-AVX $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = gcc
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- avxLikelihood.o : avxLikelihood.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- $(CC) $(CFLAGS) -mavx -c -o avxLikelihood.o avxLikelihood.c
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.SSE3.MPI.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.SSE3.MPI.gcc 2020-05-17 08:10:18.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -2,7 +2,7 @@
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-af [...]
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- CC = mpicc
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D_WAYNE_MPI -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D_WAYNE_MPI -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm -pthread
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.AVX2.PTHREADS.mac.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.AVX2.PTHREADS.mac
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -3,7 +3,7 @@
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- LIBRARIES = -lm
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = clang
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -15,7 +15,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration- [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-aft [...]
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC-MPI-SSE3 : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-MPI-SSE3 $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-MPI-SSE3 $(objs) $(LIBRARIES) $(LDFLAGS)
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- evaluatePartialSpecialGeneric.o : evaluatePartialSpecialGeneric.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.SSE3.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.SSE3.gcc 2020-05-17 08:10:18.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm -pthread
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.AVX2.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.AVX2.gcc
</span> @@ -3,7 +3,7 @@
CC = gcc
<span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -O2 -fomit-frame-pointer -funroll-loops #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement -Wpoint [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement -Wpointer- [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -O2 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls - [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wun [...]
</span>
LIBRARIES = -lm
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -16,7 +16,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.AVX2.mac.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.AVX2.mac
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -3,7 +3,7 @@
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = clang
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -O2 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement - [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement -Wpo [...]
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-SSE3 $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-SSE3 $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- evaluatePartialSpecialGeneric.o : evaluatePartialSpecialGeneric.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.HYBRID.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.HYBRID.gcc 2020-05-17 08:10:18.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.HYBRID.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.HYBRID.gcc
</span> @@ -3,7 +3,7 @@
CC = mpicc
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -128,60 +140,33 @@
</span> +CFLAGS += -D_WAYNE_MPI -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_PTHREADS -msse
<span style='display:block; white-space:pre;background:#ffe0e0;'>- LIBRARIES = -lm -pthread
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -17,7 +17,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h compiler.h gcc.h ll_asm.h ll_list.h
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC-HYBRID : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-HYBRID $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-HYBRID $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- evaluatePartialSpecialGeneric.o : evaluatePartialSpecialGeneric.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.SSE3.QuartetMPI.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.SSE3.QuartetMPI.gcc 2020-05-17 08:10:18.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm -pthread
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.MPI.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.MPI.gcc
</span> @@ -3,7 +3,7 @@
<span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = mpicc
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- CC = mpicc
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -O2 -fomit-frame-pointer -funroll-loops -D_QUARTET_MPI #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-st [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_QUARTET_MPI #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-state [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- LIBRARIES = -lm
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -16,7 +16,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-SSE3-QUARTET-MPI $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-SSE3-QUARTET-MPI $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_WAYNE_MPI -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -O2 -msse
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_WAYNE_MPI -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -msse
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- evaluatePartialSpecialGeneric.o : evaluatePartialSpecialGeneric.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.AVX.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.AVX.gcc 2020-05-17 08:10:18.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -3,7 +3,7 @@
</span>
<span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.PTHREADS.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.PTHREADS.gcc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -4,7 +4,7 @@
</span> CC = gcc
<span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -O2 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls - [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wun [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- LIBRARIES = -lm
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -16,7 +16,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -O2 -D_USE_PTHREADS -msse #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wunu [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_PTHREADS -msse #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wunused [...]
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-AVX $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-AVX $(objs) $(LIBRARIES) $(LDFLAGS)
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- avxLikelihood.o : avxLikelihood.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- $(CC) $(CFLAGS) -mavx -c -o avxLikelihood.o avxLikelihood.c
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.PTHREADS.mac.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.PTHREADS.mac 2020-05-17 08:10:18.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm -pthread
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.PTHREADS.mac.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.PTHREADS.mac
</span> @@ -4,7 +4,7 @@
<span style='display:block; white-space:pre;background:#ffe0e0;'>- CC = gcc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = clang
</span>
-CFLAGS = -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -O2 -D_USE_PTHREADS -msse #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wun [...]
<span style='display:block; white-space:pre;background:#e0e0e0;'>@@ -189,192 +174,102 @@
</span>
LIBRARIES = -lm -pthread
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -18,7 +18,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h compiler.h gcc.h ll_asm.h ll_list.h
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.QuartetMPI.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.QuartetMPI.gcc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -4,7 +4,7 @@
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = mpicc
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC-PTHREADS : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-PTHREADS $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-PTHREADS $(objs) $(LIBRARIES) $(LDFLAGS)
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- evaluatePartialSpecialGeneric.o : evaluatePartialSpecialGeneric.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.SSE3.PTHREADS.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.SSE3.PTHREADS.gcc 2020-05-17 08:10:19.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -3,7 +3,7 @@
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -O2 -msse -D_QUARTET_MPI #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement -Wpointe [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -msse -D_QUARTET_MPI #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement -Wpointer-s [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- CC = gcc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.SSE3.HYBRID.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.SSE3.HYBRID.gcc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -2,7 +2,7 @@
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-st [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-state [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = mpicc
</span>
<span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_WAYNE_MPI -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_WAYNE_MPI -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops
</span>
LIBRARIES = -lm -pthread
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -17,7 +17,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h compiler.h gcc.h ll_asm.h ll_list.h
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-PTHREADS-SSE3 $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-PTHREADS-SSE3 $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.SSE3.MPI.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.SSE3.MPI.gcc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+@@ -2,7 +2,7 @@
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = mpicc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_WAYNE_MPI -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_WAYNE_MPI -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- #rev_functions.o : rev_functions.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.SSE3.PTHREADS.mac.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.SSE3.PTHREADS.mac 2020-05-17 08:10:19.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.SSE3.PTHREADS.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.SSE3.PTHREADS.gcc
</span> @@ -3,7 +3,7 @@
CC = gcc
<span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-st [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -O2 -fomit-frame-pointer -funroll-loops #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-st [...]
</span> +CFLAGS += -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-state [...]
LIBRARIES = -lm -pthread
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -17,7 +17,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h compiler.h gcc.h ll_asm.h ll_list.h
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-PTHREADS-SSE3 $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-PTHREADS-SSE3 $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- #rev_functions.o : rev_functions.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.AVX.mac.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.AVX.mac 2020-05-17 08:10:19.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.SSE3.PTHREADS.mac.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.SSE3.PTHREADS.mac
</span> @@ -3,7 +3,7 @@
CC = clang
<span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -O2 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement - [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement -Wpo [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- LIBRARIES = -lm
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -16,7 +16,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-AVX $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-AVX $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- avxLikelihood.o : avxLikelihood.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- $(CC) $(CFLAGS) -mavx -c -o avxLikelihood.o avxLikelihood.c
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.PTHREADS.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.PTHREADS.gcc 2020-05-17 08:10:19.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -4,7 +4,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- CC = gcc
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -O2 -D_USE_PTHREADS -msse #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wunu [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_USE_PTHREADS -msse #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wunused [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- LIBRARIES = -lm -pthread
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -18,7 +18,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h compiler.h gcc.h ll_asm.h ll_list.h
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC-PTHREADS : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-PTHREADS $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-PTHREADS $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- evaluatePartialSpecialGeneric.o : evaluatePartialSpecialGeneric.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.gcc 2020-05-17 08:10:19.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -4,7 +4,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- CC = gcc
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -O2 -msse #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wunused -Wunused-funct [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -msse #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wunused -Wunused-function [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- LIBRARIES = -lm
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -17,7 +17,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-st [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-state [...]
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC $(objs) $(LIBRARIES) $(LDFLAGS)
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- evaluatePartialSpecialGeneric.o : evaluatePartialSpecialGeneric.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.SSE3.mac.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.SSE3.mac 2020-05-17 08:10:19.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm -pthread
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.SSE3.QuartetMPI.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.SSE3.QuartetMPI.gcc
</span> @@ -3,7 +3,7 @@
<span style='display:block; white-space:pre;background:#ffe0e0;'>- CC = clang
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -O2 -fomit-frame-pointer -funroll-loops #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement -Wpoint [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement -Wpointer- [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = mpicc
</span>
<span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -O2 -fomit-frame-pointer -funroll-loops -D_QUARTET_MPI #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-st [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -D_QUARTET_MPI #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-state [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+
</span> LIBRARIES = -lm
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -16,7 +16,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-SSE3 $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-SSE3 $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- evaluatePartialSpecialGeneric.o : evaluatePartialSpecialGeneric.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.MPI.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.MPI.gcc 2020-05-17 08:10:19.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.SSE3.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.SSE3.gcc
</span> @@ -3,7 +3,7 @@
<span style='display:block; white-space:pre;background:#ffe0e0;'>- CC = mpicc
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D_WAYNE_MPI -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -O2 -msse
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D_WAYNE_MPI -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -msse
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = gcc
</span>
<span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -O2 -fomit-frame-pointer -funroll-loops #-pedantic -Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-de [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops #-pedantic -Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls [...]
</span>
LIBRARIES = -lm
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -17,7 +17,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC-MPI : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-MPI $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-MPI $(objs) $(LIBRARIES) $(LDFLAGS)
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- evaluatePartialSpecialGeneric.o : evaluatePartialSpecialGeneric.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.AVX.PTHREADS.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.AVX.PTHREADS.gcc 2020-05-17 08:10:19.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.SSE3.mac.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.SSE3.mac
</span> @@ -3,7 +3,7 @@
<span style='display:block; white-space:pre;background:#ffe0e0;'>- CC = gcc
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D_USE_PTHREADS -D__SIM_SSE3 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-af [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = clang
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- LIBRARIES = -lm -pthread
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -17,7 +17,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h compiler.h gcc.h ll_asm.h ll_list.h
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -O2 -fomit-frame-pointer -funroll-loops #-Weverything -Wno-padded #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclarati [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D__SIM_SSE3 -msse3 -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops #-Weverything -Wno-padded #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration- [...]
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-PTHREADS-AVX $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-PTHREADS-AVX $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ LIBRARIES = -lm
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>- avxLikelihood.o : avxLikelihood.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- $(CC) $(CFLAGS) -mavx -c -o avxLikelihood.o avxLikelihood.c
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>---- Makefile.QuartetMPI.gcc.orig 2013-08-29 06:56:26.000000000 -0700
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+++ Makefile.QuartetMPI.gcc 2020-05-17 08:10:19.000000000 -0700
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+--- Makefile.gcc.orig
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++++ Makefile.gcc
</span> @@ -4,7 +4,7 @@
<span style='display:block; white-space:pre;background:#ffe0e0;'>- CC = mpicc
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+ CC = gcc
</span>
<span style='display:block; white-space:pre;background:#ffe0e0;'>--CFLAGS = -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -O2 -msse -D_QUARTET_MPI #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement -Wpointe [...]
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+CFLAGS += -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -msse -D_QUARTET_MPI #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement -Wpointer-s [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>+-CFLAGS = -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -O2 -msse #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wunused -Wunused-funct [...]
</span><span style='display:block; white-space:pre;background:#e0ffe0;'>++CFLAGS += -D_GNU_SOURCE -fomit-frame-pointer -funroll-loops -msse #-Wall -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wpointer-sign -Wextra -Wredundant-decls -Wunused -Wunused-function [...]
</span>
LIBRARIES = -lm
<span style='display:block; white-space:pre;background:#ffe0e0;'>-@@ -17,7 +17,7 @@
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- GLOBAL_DEPS = axml.h globalVariables.h #mem_alloc.h
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- raxmlHPC : $(objs)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-- $(CC) -o raxmlHPC-QUARTET-MPI $(objs) $(LIBRARIES)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-+ $(CC) -o raxmlHPC-QUARTET-MPI $(objs) $(LIBRARIES) $(LDFLAGS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>-
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- classify.o : classify.c $(GLOBAL_DEPS)
</span><span style='display:block; white-space:pre;background:#ffe0e0;'>- evaluatePartialSpecialGeneric.o : evaluatePartialSpecialGeneric.c $(GLOBAL_DEPS)
</span></pre><pre style='margin:0'>
</pre>