ARCHS_COMMON_DEPENDS = \ CLUSTAL/CLUSTAL.dummy \ SUPPORT/SUPPORT.dummy \ AxML/AxML.dummy \ ARCHS_COMMON_NO_DEPENDS = \ PHYML20130708/PHYML20130708.dummy \ RAxML8/RAxML8.dummy \ SATIVA/SATIVA.dummy \ # -------------------------------------------------------------------------------- # If a package is available as debian package it should go here # # Note: I'm not sure whether this is a good idea. Due to limited manpower it often takes # longer until ARB works with newer (incompatible) versions of these tools. --ralf ARCHS_NON_DEBIAN_DEPENDS = \ CLUSTALW/CLUSTALW.dummy \ FASTDNAML/FASTDNAML.dummy \ MrBAYES/MrBAYES.dummy \ PHYLIP/PHYLIP.dummy \ PHYML/PHYML.dummy \ RAxML/RAxML.dummy \ TREEPUZZLE/TREEPUZZLE.dummy \ ARCHS_NON_DEBIAN_NO_DEPENDS = \ FASTTREE/FASTTREE.dummy \ MAFFT/MAFFT.dummy \ MUSCLE/MUSCLE.dummy \ PROBCONS/PROBCONS.dummy \ # -------------------------------------------------------------------------------- ifeq ($(DEBIAN),1) ARCHS_DEPENDS = $(ARCHS_COMMON_DEPENDS) ARCHS_NO_DEPENDS = $(ARCHS_COMMON_NO_DEPENDS) else ARCHS_DEPENDS = $(ARCHS_COMMON_DEPENDS) $(ARCHS_NON_DEBIAN_DEPENDS) ARCHS_NO_DEPENDS = $(ARCHS_COMMON_NO_DEPENDS) $(ARCHS_NON_DEBIAN_NO_DEPENDS) endif ARCHS=$(ARCHS_DEPENDS) $(ARCHS_NO_DEPENDS) # Allow disabling build of packages individually via environment variable ARB_BUILD_SKIP_PKGS?="" ARCHS:=$(filter-out $(patsubst %,%/%.dummy,$(ARB_BUILD_SKIP_PKGS)), $(ARCHS)) # -------------------------------------------------------------------------------- # modify cflags for submakefiles RAISE_WARNINGS=0# no warnings in this subtree UNIT_TESTS=0# no tests in this subtree sub_cflags:=$(cflags) ifeq ('$(RAISE_WARNINGS)','0') sub_cflags:=$(subst -W -Wall,-w,$(sub_cflags)) endif ifeq ('$(UNIT_TESTS)','0') sub_cflags:=$(subst -DUNIT_TESTS,,$(sub_cflags)) endif # skip vectorization info sub_cflags:=$(subst -fopt-info-vec-missed,,$(sub_cflags)) sub_cflags:=$(subst -fopt-info-vec,,$(sub_cflags)) sub_cflags:=$(subst -fopt-info,,$(sub_cflags)) # skip coverage support sub_cflags:=$(subst -ftest-coverage,,$(sub_cflags)) sub_cflags:=$(subst -fprofile-arcs,,$(sub_cflags)) # note the above substs do not affect ALL subdirs. see also manual changes to: # - MrBAYES/mrbayes_3.2.1/Makefile # - PROBCONS/probcons/Makefile # - FASTTREE/Makefile # - SATIVA/Makefile # - MAFFT/Makefile # -------------------------------------------------------------------------------- $(MAIN): ifeq ('$(RAISE_WARNINGS)','0') @echo ----------------- non-ARB code: warnings disabled endif $(MAKE) $(ARCHS) ifeq ('$(RAISE_WARNINGS)','0') @echo ----------------- warnings enabled again endif depends: $(ARCHS_DEPENDS:.dummy=.depend) clean: $(ARCHS:.dummy=.clean) %.depend: @cp -p $(@D)/Makefile $(@D)/Makefile.old # save old Makefile @$(MAKE) -C $(@D) -r depends @grep "^# DO NOT DELETE" $(@D)/Makefile >/dev/null || \ (echo "$(@D)/Makefile:666: Error: No dependencies in $(@D)/Makefile"; false) # check whether sub Makefile has dependencies @$(ARBHOME)/SOURCE_TOOLS/fix_depends.pl "(from GDE)" < $(@D)/Makefile > $(@D)/Makefile.2 @mv $(@D)/Makefile.old $(@D)/Makefile # restore old Makefile @$(ARBHOME)/SOURCE_TOOLS/mv_if_diff $(@D)/Makefile.2 $(@D)/Makefile # update Makefile if changed %.dummy: +@( \ (( \ echo "$(SEP) Make $(@D)"; \ $(MAKE) -C $(@D) -r \ "ARB = yes" \ "MAIN = $(@F:.dummy=.a)" \ "cflags = $(sub_cflags) -DIN_ARB_$(@D:/=)" && \ echo "$(SEP) Make $(@D) [done]"; \ ) >$(@D).$$ID.log 2>&1 && (cat $(@D).$$ID.log;rm $(@D).$$ID.log)) || (cat $(@D).$$ID.log;rm $(@D).$$ID.log;false)) %.clean: +@$(MAKE) -C $(@D) \ "ARB = yes" \ clean %.proto: @$(MAKE) -C $(@D) \ proto # the end of the above command avoids that the output of parallel make calls gets mixed up # DO NOT DELETE # Do not add dependencies manually - use 'make depend' in $ARBHOME # For formatting issues see SOURCE_TOOLS/fix_depends.pl (from main)