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Last change on this file was 17424, checked in by westram, 6 years ago
fix compilation w/o config.makefile (=auto-generation from template) was broken by [17375]
Property svn:eol-style set to `native` Property svn:keywords set to `Author Date Id Revision`
File size: 79.2 KB

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1	# =============================================================== #
2	# #
3	# File : Makefile #
4	# #
5	# Institute of Microbiology (Technical University Munich) #
6	# http://www.arb-home.de/ #
7	# #
8	# =============================================================== #
9
10	# -----------------------------------------------------
11	# The ARB Makefile is aware of the following defines:
12	#
13	# CC C compiler (should be defined by OS)
14	# CXX C++ compiler (should be defined by OS)
15	#
16	# BUILDHOST_64=0/1 1=>compile on 64 bit platform (defaults to ARB_64)
17	# DEVELOPER=name special compilation (values: ANY,RELEASE,your name)
18	# OPENGL=0/1 whether OPENGL is available
19	#
20	# -----------------------------------------------------
21	# Paths for several libraries may be set from config.makefile by using:
22	#
23	# export XLIBS=$(shell pkg-config --libs xpm xerces-c)
24	# export XINCLUDES=$(shell pkg-config --cflags x11)
25	# export XAW_LIBS=$(shell pkg-config --libs xaw7)
26	# export XML_INCLUDES=$(shell pkg-config --cflags xerces-c)
27	#
28	# You make have to explicitely point pkg-config to the *.pc files needed.
29	# For example, Xquartz X11 libraries on macos can be located by adding
30	# the following line before those given above:
31	#
32	# export PKG_CONFIG_PATH=/usr/X11/lib/pkgconfig
33	#
34	# -----------------------------------------------------
35	# ARB Makefile and ARB source code are aware of the following defines:
36	#
37	# $(MACH) name of the machine (LINUX or DARWIN; see config.makefile)
38	# DEBUG compiles the DEBUG sections
39	# DEBUG_GRAPHICS all X-graphics are flushed immediately (for debugging)
40	# ARB_64=0/1 1=>compile 64 bit version
41	# UNIT_TESTS=0/1 1=>compile in unit tests and call them after build
42	# COVERAGE=0/1/2 compile in gcov support (useful together with UNIT_TESTS=1)
43	# 0=no, 1+2=compile in, 1=show
44	# STABS=0/1 force stabs format? (0 = "use default format")
45	# SANITIZE=0/#/all use Sanitizer? (defaults to 0,
46	# 1=AddressSanitizer+LeakSanitizer,
47	# 2=UndefinedBehaviorSanitizer,
48	# combine bit-values to activate multiple Sanitizers,
49	# specify 'all' to activate all)
50	# SHOWTODO=0/1 activate TODO-warnings? (defaults to 0, except for ralf)
51	#
52	# -----------------------------------------------------
53	# The ARB source code is aware of the following defines:
54	#
55	# NDEBUG doesn't compile the DEBUG sections
56	# DEVEL_$(DEVELOPER) developer-dependent flag (enables you to have private sections in code)
57	# DEVELOPER='ANY' (default setting) will be ignored
58	# configurable in config.makefile
59	#
60	# -----------------------------------------------------
61	# Read configuration
62	include config.makefile
63	CONFIG_MAKEFILE_FOUND=$(strip $(wildcard config.makefile))
64
65	# set defaults for variables commented out in config.makefile:
66	ifndef DARWIN
67	DARWIN:=0
68	endif
69	ifndef LINUX
70	LINUX:=0
71	endif
72	ifndef DEBIAN
73	DEBIAN:=0
74	endif
75	ifndef REDHAT
76	REDHAT:=0
77	endif
78	ifndef ARB_64
79	ARB_64=1#default to 64bit
80	endif
81
82
83	ifneq ($(CONFIG_MAKEFILE_FOUND),)
84	ifneq ($(DARWIN)$(LINUX),10)
85	ifneq ($(DARWIN)$(LINUX),01)
86	$(error exactly one of DARWIN=1 or LINUX=1 has to be defined (got:$(DARWIN)$(LINUX)))
87	endif
88	endif
89	endif
90
91	# compiler settings:
92	ifneq ($(CC),use__A_CC__instead_of__CC)
93	A_CC:=$(CC)# compile C
94	A_CXX:=$(CXX)# compile C++
95
96	# uncomment to ensure no submakefile uses CC and CXX directly
97	override CC:=use__A_CC__instead_of__CC
98	override CXX:=use__A_CXX__instead_of__CXX
99	endif
100
101	export CC CXX A_CC A_CXX
102
103	# unconditionally prepend $(ARBHOME)/lib to LD_LIBRARY_PATH if not found
104	ifeq ($(findstring $(ARBHOME)/lib,$(LD_LIBRARY_PATH)),)
105	LD_LIBRARY_PATH:=${ARBHOME}/lib:$(LD_LIBRARY_PATH)
106	endif
107
108	# store LD_LIBRARY_PATH to circumvent SIP restrictions:
109	ARBBUILD_LIBRARY_PATH:=$(LD_LIBRARY_PATH)
110
111	FORCEMASK = umask 002
112	NODIR=--no-print-directory
113
114	SED:=$(ARBHOME)/SH/arb_sed
115	READLINK:=$(ARBHOME)/SH/arb_readlink
116
117	# ---------------------- compiler version detection
118
119	# supported gcc versions:
120	ALLOWED_gcc_VERSIONS=\
121	4.4.3 4.4.5 4.4.6 4.4.7 \
122	4.5.2 \
123	4.6.1 4.6.2 4.6.3 4.6.4 \
124	4.7.1 4.7.2 4.7.3 4.7.4 \
125	4.8.0 4.8.1 4.8.2 4.8.3 4.8.4 4.8.5 \
126	4.9.0 4.9.1 4.9.2 4.9.3 4.9.4 \
127	5.1.0 5.2.0 5.3.0 5.3.1 5.4.0 5.5.0 \
128	6.1.0 6.2.0 6.3.0 6.4.0 \
129	7.1.0 7.2.0 7.3.0 \
130	8.1.0 8.2.0 \
131
132	# ----------------------
133
134	COMPILER_INFO:=$(shell SOURCE_TOOLS/arb_compiler_version.pl $(A_CXX))
135	COMPILER_NAME:=$(word 1,$(COMPILER_INFO))
136	COMPILER_VERSION:=$(word 2,$(COMPILER_INFO))
137
138	USE_CLANG:=0
139	ifneq ($(COMPILER_NAME),gcc)
140	ifeq ($(COMPILER_NAME),clang)
141	USE_CLANG:=1
142	else
143	ifeq ($(COMPILER_VERSION),4.6.4)
144	# gcc version 4.6.4 segfaults when dumping symbols for detection (silently accept as gcc)
145	COMPILER_NAME:=gcc
146	else
147	$(error failed to detect COMPILER_NAME (got '$(COMPILER_NAME)', expected 'clang' or 'gcc'))
148	endif
149	endif
150	endif
151
152	ifeq ($(USE_CLANG),1)
153	# accept all clang versions:
154	ALLOWED_COMPILER_VERSIONS=$(COMPILER_VERSION)
155	else
156	ALLOWED_COMPILER_VERSIONS=$(ALLOWED_gcc_VERSIONS)
157	endif
158
159	COMPILER_VERSION_ALLOWED=$(strip $(subst ___,,$(foreach version,$(ALLOWED_COMPILER_VERSIONS),$(findstring ___$(version)___,___$(COMPILER_VERSION)___))))
160
161	#---------------------- split gcc version
162
163	SPLITTED_VERSION:=$(subst ., ,$(COMPILER_VERSION))
164
165	USE_GCC_MAJOR:=$(word 1,$(SPLITTED_VERSION))
166	USE_GCC_MINOR:=$(word 2,$(SPLITTED_VERSION))
167	USE_GCC_PATCHLEVEL:=$(word 3,$(SPLITTED_VERSION))
168
169	USE_GCC_452_OR_HIGHER:=
170	USE_GCC_46_OR_HIGHER:=
171	USE_GCC_47_OR_HIGHER:=
172	USE_GCC_48_OR_HIGHER:=
173	USE_GCC_49_OR_HIGHER:=
174	USE_GCC_50_OR_HIGHER:=
175	USE_GCC_60_OR_HIGHER:=
176	USE_GCC_70_OR_HIGHER:=
177	USE_GCC_80_OR_HIGHER:=
178
179	ifeq ($(USE_CLANG),0)
180	ifeq ($(USE_GCC_MAJOR),4)
181	ifeq ($(USE_GCC_MINOR),5)
182	ifneq ('$(findstring $(USE_GCC_PATCHLEVEL),23456789)','')
183	USE_GCC_452_OR_HIGHER:=yes
184	endif
185	else
186	ifneq ('$(findstring $(USE_GCC_MINOR),6789)','')
187	USE_GCC_452_OR_HIGHER:=yes
188	USE_GCC_46_OR_HIGHER:=yes
189	ifneq ($(USE_GCC_MINOR),6)
190	USE_GCC_47_OR_HIGHER:=yes
191	ifneq ($(USE_GCC_MINOR),7)
192	USE_GCC_48_OR_HIGHER:=yes
193	ifneq ($(USE_GCC_MINOR),8)
194	USE_GCC_49_OR_HIGHER:=yes
195	endif
196	endif
197	endif
198	endif
199	endif
200	else
201	# gcc 5.x or higher
202	USE_GCC_452_OR_HIGHER:=yes
203	USE_GCC_46_OR_HIGHER:=yes
204	USE_GCC_47_OR_HIGHER:=yes
205	USE_GCC_48_OR_HIGHER:=yes
206	USE_GCC_49_OR_HIGHER:=yes
207	USE_GCC_50_OR_HIGHER:=yes
208	ifneq ($(USE_GCC_MAJOR),5)
209	# gcc 6.x or higher
210	USE_GCC_60_OR_HIGHER:=yes
211	ifneq ($(USE_GCC_MAJOR),6)
212	# gcc 7.x or higher
213	USE_GCC_70_OR_HIGHER:=yes
214	ifneq ($(USE_GCC_MAJOR),7)
215	# gcc 8.x or higher
216	USE_GCC_80_OR_HIGHER:=yes
217	endif
218	endif
219	endif
220	endif
221	endif
222
223	#---------------------- define special directories for non standard builds
224
225	ifeq ($(DARWIN),1)
226	OSX_FW:=/System/Library/Frameworks
227	OSX_FW_OPENGL:=$(OSX_FW)/OpenGL.framework/Versions/A/Libraries
228	OSX_FW_GLUT:=$(OSX_FW)/GLUT.framework/Versions/A/Libraries
229	OSX_FW_IMAGEIO:=$(OSX_FW)/ApplicationServices.framework/Versions/A/Frameworks/ImageIO.framework/Versions/A/Resources
230	endif
231
232	#---------------------- SSE vectorization
233	# for details about vectorization checks see SOURCE_TOOLS/vectorize.README
234
235	DISABLE_VECTORIZE_CHECK:=0# set to 1 to completely disable vectorization checks
236	TRACE_MISSED_VECTORIZATIONS:=0# set to 1 to activate detailed output about failed vectorizations
237	# (does also show details about successful vectorized loops, which are not optimal)
238
239	#----------------------
240
241	ifeq ($(DARWIN),1)
242	LINK_STATIC=1# link static
243	else
244	LINK_STATIC=0# link dynamically
245	# LINK_STATIC=1# link static (testing only)
246	endif
247
248	shared_cflags :=# flags for shared lib compilation
249	clflags :=# linker flags (when passed through gcc)
250	extended_warnings :=# warning flags for C and C++-compiler
251	extended_cpp_warnings :=# warning flags for C++-compiler only
252
253	ifeq ($(DEBUG),0)
254	dflags := -DNDEBUG# defines
255	ifeq ($(USE_CLANG),1)
256	cflags := -O3# compiler flags (C and C++)
257	else
258	clflags += -Wl,-O2# passthrough linker flags
259	# ------- standard optimization:
260	cflags := -O3# compiler flags (C and C++)
261	# ------- test changed optimization (DISABLE_VECTORIZE_CHECK for -O2 or lower):
262	# cflags := -O2# do not commit uncommented!
263	# DISABLE_VECTORIZE_CHECK:=1
264	endif
265	endif
266
267	ifeq ($(DEBIAN),1)
268	clflags += -Wl,-rpath=/usr/lib/arb/lib -Wl,-z,relro
269	endif
270
271	ifeq ($(DEBUG),1)
272	dflags := -DDEBUG
273
274	gdb_common := -g -g3 -ggdb -ggdb3
275
276	DBGOPTI:=-O0
277	ifeq ('$(USE_GCC_48_OR_HIGHER)','yes')
278	DBGOPTI:=-Og
279	endif
280
281	ifeq ($(STABS),1)
282	cflags := $(DBGOPTI) $(gdb_common) -gstabs+ # using stabs+ (enable this for bigger debug session: debugs inlines, quick var inspect, BUT valgrind stops working :/)
283	else
284	cflags := $(DBGOPTI) $(gdb_common) # (using dwarf - cant debug inlines here, incredible slow on showing variable content)
285	endif
286
287	# cflags := $(DBGOPTI) $(gdb_common) -gdwarf-3 # (specify explicit dwarf format)
288	# cflags := $(DBGOPTI) $(gdb_common) -gstabs # using stabs (same here IIRC)
289	# cflags := -O2 $(gdb_common) # use this for callgrind (force inlining)
290
291	ifeq ($(DARWIN),0)
292	clflags += -Wl,-g
293	# Note:
294	# Previously '-Wl,-noinhibit-exec' was added to 'clflags' here,
295	# to fix some issues with launchpad binutils (see [12972]).
296	# But that change also caused 'undefined symbols' NOT to be reported as errors
297	# at link time, producing executables that fail at runtime :/
298	endif
299
300	ifeq ($(DEBUG_GRAPHICS),1)
301	dflags += -DDEBUG_GRAPHICS
302	endif
303
304	endif # DEBUG only
305
306	# ------------------------------ POST_COMPILE - control how much you get spammed
307	# (please do not change default in SVN)
308	POST_COMPILE := 2>&1 \| $(ARBHOME)/SOURCE_TOOLS/postcompile.pl
309
310	# POST_COMPILE += --original # dont modify compiler output
311	# POST_COMPILE += --hide-Noncopyable-advices
312	# POST_COMPILE += --show-useless-Weff++
313	# POST_COMPILE += --no-warnings
314	# POST_COMPILE += --only-first-error
315	# POST_COMPILE += --no-warnings --only-first-error
316
317	# POST_COMPILE += --loop-optimization-candi #@@@ seems broken
318	#
319	# always pass used compiler version to postcompile:
320	POST_COMPILE += --compiler=$(COMPILER_VERSION)
321
322	# ------------------------------
323
324	# Enable extra warnings
325	extended_warnings :=
326	extended_cpp_warnings :=
327
328	# C and C++
329	extended_warnings += -Wwrite-strings -Wunused -Wno-aggregate-return -Wshadow
330
331	# C++ only
332	extended_cpp_warnings += -Wnon-virtual-dtor -Wreorder -Wpointer-arith -Wdisabled-optimization -Wmissing-format-attribute
333	extended_cpp_warnings += -Wctor-dtor-privacy
334	# extended_cpp_warnings += -Wfloat-equal
335
336	extended_cpp_warnings += -Wmissing-noreturn
337	# extended_cpp_warnings += -Wold-style-cast# (warns about 28405 old-style casts)
338	extended_cpp_warnings += -Winit-self
339	extended_cpp_warnings += -Wstrict-aliasing
340	extended_cpp_warnings += -Wextra
341
342	# ------- above only warning-options already available in gcc 4.4.3
343
344	# -Weffc++ broken in 4.7.x series
345	# gcc 4.7.3 crashes on GenomeImport.cxx when -Weffc++ is active
346	# (bug reported https://gcc.gnu.org/bugzilla/show_bug.cgi?id=56923; apparently wont be fixed for 4.7-series)
347	# gcc 4.7.4 crashes on DBwriter.cxx when -Weffc++ is active
348	WEFFC_BROKEN:=0
349	ifeq ('$(USE_GCC_47_OR_HIGHER)','yes')
350	ifneq ('$(USE_GCC_48_OR_HIGHER)','yes')
351	WEFFC_BROKEN:=1
352	endif
353	endif
354	ifeq ('$(WEFFC_BROKEN)','0')
355	extended_cpp_warnings += -Weffc++
356	endif
357
358	# turn off -Wmaybe-uninitialized in debug mode (gets activated with -Wextra). too many bogus warnings
359	ifeq ($(DEBUG),1)
360	ifeq ($(USE_CLANG),0)
361	extended_cpp_warnings += -Wno-maybe-uninitialized
362	endif
363	endif
364
365	ifeq ('$(USE_GCC_452_OR_HIGHER)','yes')
366	extended_cpp_warnings += -Wlogical-op# gcc 4.5.2
367	endif
368	ifeq ('$(USE_GCC_47_OR_HIGHER)','yes')
369	extended_cpp_warnings += -Wzero-as-null-pointer-constant# gcc 4.7
370	endif
371	ifeq ('$(USE_GCC_48_OR_HIGHER)','yes')
372	extended_cpp_warnings += -Wunused-local-typedefs# available since gcc 4.7 (but fails for each STATIC_ASSERT, so enable only for Cxx11)
373	endif
374	ifeq ('$(USE_GCC_50_OR_HIGHER)','yes')
375	extended_cpp_warnings += -Wswitch-bool
376	extended_cpp_warnings += -Wlogical-not-parentheses
377	extended_cpp_warnings += -Wsizeof-array-argument
378	extended_cpp_warnings += -Wbool-compare
379
380	ifneq ($(DEVELOPER),RELEASE)
381	# suggest final:
382	extended_cpp_warnings += -Wsuggest-final-types
383	extended_cpp_warnings += -Wsuggest-final-methods
384	dflags += -DSUGGESTS_FINAL
385	endif
386	endif
387	ifeq ('$(USE_GCC_60_OR_HIGHER)','yes')
388	extended_cpp_warnings += -Wduplicated-cond
389	endif
390	ifeq ('$(USE_GCC_80_OR_HIGHER)','yes')
391	extended_cpp_warnings += -Wmultistatement-macros
392	endif
393
394	#---------------------- turn off clang bogus warnings
395
396	ifeq ($(USE_CLANG),1)
397	# -Wmismatched-tags warns about struct/class mismatch in forward declarations (which is explicitely allowed)
398	# -Wchar-subscripts reports too many bogus warnings for "array['x']" (when 'x' is known to be in range [0..128])
399	# -Wunused-private-field report too many false positives (currently ~ 2 of 3)
400	# -Wstring-plus-int warns about common ARB coding practice
401	# -Wgnu-static-float-init warns about accepted GNU extension
402	extended_cpp_warnings += -Wno-mismatched-tags -Wno-char-subscripts -Wno-unused-private-field -Wno-string-plus-int
403	ifeq ('$(COMPILER_VERSION)','4.2.1')
404	# jenkins build (doesn't know switch -Wno-gnu-static-float-init)
405	extended_cpp_warnings += -Wno-gnu
406	else
407	extended_cpp_warnings += -Wno-gnu-static-float-init
408	endif
409	endif
410
411	#---------------------- developer
412
413	ifneq ($(DEVELOPER),ANY) # ANY=default setting (skip all developer specific code)
414	dflags += -DDEVEL_$(DEVELOPER)# activate developer/release specific code
415	endif
416
417	#---------------------- activate TODO warnings?
418
419	ifndef SHOWTODO
420	ifeq ($(DEVELOPER),RALF)
421	SHOWTODO:=1
422	else
423	SHOWTODO:=0
424	endif
425	endif
426	ifeq ($(SHOWTODO),1)
427	dflags += -DWARN_TODO# activate "TODO" warnings
428	endif
429
430	#---------------------- activate threads?
431	# only useful if compiler is able to compile Cxx11 or better
432
433	ifeq ('$(USE_GCC_48_OR_HIGHER)','yes')
434	# see also ./TEMPLATES/cxxforward.h@USE_Cxx11
435	cflags += -pthread
436	clflags += -pthread
437	endif
438
439	#---------------------- activate Sanitizers?
440
441	ASAN_OPTIONS:=handle_segv=0:color=0
442	ASAN_OPTIONS+=:detect_leaks=1 # comment-out to disable leak-detection
443	ASAN_OPTIONS+=:check_initialization_order=1
444	# ASAN_OPTIONS+=:abort_on_error=1
445
446	# suppressions: SOURCE_TOOLS/arb.leaksan.supp
447	LSAN_OPTIONS:=max_leaks=3:suppressions=$(ARBHOME)/SOURCE_TOOLS/arb.leaksan.supp
448
449
450	ifndef SANITIZE
451	SANITIZE:=0
452	endif
453
454	SANITIZE_ADDRESS:=0
455	SANITIZE_UNDEFINED:=0
456
457	ifneq ($(SANITIZE),0)
458	ifeq ($(SANITIZE),all)
459	SANITIZE:=3
460	endif
461
462	ifeq ($(SANITIZE),1)
463	SANITIZE_ADDRESS:=1
464	else
465	ifeq ($(SANITIZE),2)
466	SANITIZE_UNDEFINED:=1
467	else
468	ifeq ($(SANITIZE),3)
469	SANITIZE_ADDRESS:=1
470	SANITIZE_UNDEFINED:=1
471	else
472	$(error Unknown value '$(SANITIZE)' specified for SANITIZE in config.makefile)
473	endif
474	endif
475	endif
476	endif
477
478	ifeq ($(SANITIZE_ADDRESS),1)
479	ifneq ('$(USE_GCC_48_OR_HIGHER)','yes')
480	$(info AddressSanitizer not usable with gcc $(COMPILER_VERSION) - disabled)
481	SANITIZE_ADDRESS:=0
482	else
483	ifneq ('$(USE_GCC_49_OR_HIGHER)','yes')
484	$(warning note that LeakSanitizer does not work with gcc $(COMPILER_VERSION))
485	endif
486	endif
487	endif
488
489	ifeq ($(SANITIZE_UNDEFINED),1)
490	ifneq ('$(USE_GCC_49_OR_HIGHER)','yes')
491	$(info UndefinedBehaviorSanitizer not usable with gcc $(COMPILER_VERSION) - disabled)
492	SANITIZE_UNDEFINED:=0
493	endif
494	endif
495
496	SANITIZE_ANY:=0
497	ifeq ($(SANITIZE_ADDRESS),1)
498	SANITIZE_ANY:=1
499	endif
500	ifeq ($(SANITIZE_UNDEFINED),1)
501	SANITIZE_ANY:=1
502	endif
503
504	# vectorization fails if sanitizer active where it normally succeeds -> disable check
505	ifeq ($(SANITIZE_ANY),1)
506	DISABLE_VECTORIZE_CHECK:=1
507	endif
508
509	# deactivate some bogus warnings occurring when sanitizing NDEBUG version
510	# (do not disable for future gcc-version >= 8.x -> test again when available)
511	ifeq ($(SANITIZE_ANY),1)
512	ifeq ($(DEBUG),0)
513	ifneq ('$(USE_GCC_80_OR_HIGHER)','yes')
514	extended_cpp_warnings += -Wno-format-overflow
515	extended_cpp_warnings += -Wno-maybe-uninitialized
516	endif
517	endif
518	endif
519
520	#---------------------- 32 or 64 bit
521
522	ifndef BUILDHOST_64
523	BUILDHOST_64:=$(ARB_64)# assume build host is same as version (see config.makefile)
524	endif
525
526	cross_cflags:=
527	cross_lflags:=
528	cross_clflags:=
529
530	ifeq ($(ARB_64),1)
531	dflags += -DARB_64 #-fPIC
532	shared_cflags += -fPIC
533
534	ifeq ($(BUILDHOST_64),1)
535	# build 64-bit ARB version on 64-bit host
536	CROSS_LIB:=# empty = autodetect below
537	ifeq ($(DARWIN),1)
538	cross_cflags += -arch x86_64
539	cross_lflags += -arch x86_64
540	cross_clflags += -arch x86_64
541	endif
542	else
543	# build 64-bit ARB version on 32-bit host
544	CROSS_LIB:=/lib64
545	cross_cflags += -m64
546	cross_lflags += -m64 -m elf_x86_64
547	cross_clflags += -m64 -Wl,-m64,-m,elf_x86_64
548	endif
549	else
550	ifeq ($(BUILDHOST_64),1)
551	# build 32-bit ARB version on 64-bit host
552	CROSS_LIB:=# empty = autodetect below
553	cross_cflags += -m32
554	cross_lflags += -m32 -m elf_i386
555	cross_clflags += -m32 -Wl,-m32,-m,elf_i386
556	else
557	# build 32-bit ARB version on 32-bit host
558	CROSS_LIB:=/lib
559	endif
560	endif
561
562	cflags += $(cross_cflags)
563	clflags += $(cross_clflags)
564
565	ifeq ('$(CROSS_LIB)','')
566	# autodetect libdir
567	ifeq ($(ARB_64),1)
568	CROSS_LIB:=$(shell (test -d /lib64 && echo lib64) \|\| echo lib)
569	else
570	CROSS_LIB:=$(shell (test -d /lib32 && echo lib32) \|\| echo lib)
571	endif
572	endif
573
574	#---------------------- unit tests
575
576	ifndef UNIT_TESTS
577	UNIT_TESTS=0#default is "no tests"
578	endif
579	ifeq ($(UNIT_TESTS),1)
580	dflags += -DUNIT_TESTS
581	UNIT_TESTER_LIB=UNIT_TESTER/UNIT_TESTER.a
582	else
583	UNIT_TESTER_LIB=
584	endif
585
586	#---------------------- use gcov
587
588	ifndef COVERAGE
589	COVERAGE=0#default is "no"
590	endif
591	ifneq ($(COVERAGE),0)
592	GCOV_FLAGS=--coverage
593	else
594	GCOV_FLAGS=
595	endif
596
597	cflags += $(GCOV_FLAGS)
598	clflags += $(GCOV_FLAGS)
599	cross_lflags += $(GCOV_FLAGS)
600
601	#---------------------- other flags
602
603	dflags += -D$(MACH) # define machine
604
605	ifeq ($(DARWIN),1)
606	shared_cflags += -fno-common
607	else
608	dflags += $(shell getconf LFS_CFLAGS)
609	endif
610
611	cflags += -pipe
612	cflags += -fmessage-length=0# don't wrap compiler output
613	cflags += -fshow-column# show columns
614	cflags += -funit-at-a-time
615	cflags += -fPIC
616	cflags += -fno-common# link all global data into one namespace
617	cflags += -fstrict-aliasing# gcc 3.4
618
619
620	ifeq ('$(USE_GCC_48_OR_HIGHER)','yes')
621	cflags += -fno-diagnostics-show-caret#gcc 4.8 (4.7.?)
622	endif
623	#cflags += -save-temps# uncomment to see preprocessor output
624
625	#---------------------- various sanitizers
626	# There are some disabled tests in CORE/arb_misc.cxx@sanitizers
627	# which trigger sanitizer reports.
628
629	ifeq ($(SANITIZE_ANY),1)
630	cflags += -ggdb3 -fno-omit-frame-pointer
631	endif
632
633	# activate AddressSanitizer+LeakSanitizer?
634	ifeq ($(SANITIZE_ADDRESS),1)
635	cflags += -fsanitize=address
636	clflags += -fsanitize=address
637	dflags += -DLEAKS_SANITIZED
638	endif
639
640	# activate UndefinedBehaviorSanitizer?
641	ifeq ($(SANITIZE_UNDEFINED),1)
642	cflags += -fsanitize=undefined
643	clflags += -fsanitize=undefined
644	dflags += -DUNDEF_SANITIZED
645	ifeq ('$(USE_GCC_50_OR_HIGHER)','yes')
646	# abort on runtime errors
647	cflags += -fno-sanitize-recover=all
648	endif
649	#
650	# Note: alignment-sanitizer is deactivated for ARBDB and PROBE!
651	ifeq ('$(DEBUG)','1')
652	ifeq ($(USE_GCC_MAJOR),4)
653	ifeq ($(USE_GCC_MINOR),9)
654	ifneq ('$(findstring $(USE_GCC_PATCHLEVEL),01)','')
655	# workaround https://gcc.gnu.org/bugzilla/show_bug.cgi?id=63531 for 4.9.0 + 4.9.1
656	# (problem is fixed in 4.9.2 release)
657	extended_cpp_warnings:=$(subst -Weffc++,,$(extended_cpp_warnings))
658	endif
659	endif
660	endif
661	endif
662	endif
663
664	#---------------------- X11 location
665
666	ifeq ($(DARWIN),1)
667	XHOME:=$(PREFIX)
668	else
669	ifeq ($(DEBIAN),1)
670	XHOME:=$(PREFIX)
671	else
672	XHOME:=/usr/X11R6
673	endif
674	endif
675
676	XINCLUDES ?= -I$(XHOME)/include
677	XLIBS ?= -L$(XHOME)/$(CROSS_LIB)
678	ifeq ($(DARWIN),1)
679	XINCLUDES += -I$(OSX_FW)/GLUT.framework/Headers -I$(OSX_FW)/OpenGL.framework/Headers -I$(OSX_SDK)/usr/include/krb5
680
681	XLIBS += -lXm -lpng -lz -lXt -lX11 -lXext -lXp -lXmu -lXi
682	XLIBS += -Wl,-dylib_file,$(OSX_FW_OPENGL)/libGL.dylib:$(OSX_FW_OPENGL)/libGL.dylib
683	XLIBS += -Wl,-dylib_file,$(OSX_FW_OPENGL)/libGLU.dylib:$(OSX_FW_OPENGL)/libGLU.dylib
684	else
685	XLIBS += -lXm -lXpm -lXt -lXext -lX11
686	endif
687
688	#---------------------- open GL
689
690	ifeq ($(OPENGL),1)
691	cflags += -DARB_OPENGL # activate OPENGL code
692	GL := gl # this is the name of the OPENGL base target
693	GL_LIB_SYS := -lGL -lGLU
694	GL_LIB_ARB := -L$(ARBHOME)/GL/glAW -lglAW
695
696	ifeq ($(DARWIN),1)
697	GL_LIB_SYS += -lpthread
698	endif
699
700	GL_PNGLIBS_ARB := -L$(ARBHOME)/GL/glpng -lglpng_arb
701	GL_PNGLIBS_SYS := -lpng
702
703	GLEWLIB := -lGLEW -lGLw
704	ifeq ($(DARWIN),1)
705	GLUTLIB := -glut
706	else
707	GLUTLIB := -lglut
708	endif
709
710	GL_LIBS_SYS := $(GL_LIB_SYS) $(GL_PNGLIBS_SYS) $(GLEWLIB) $(GLUTLIB)
711	GL_LIBS_ARB := $(GL_LIB_ARB) $(GL_PNGLIBS_ARB)
712
713	RNA3D_LIB := RNA3D/RNA3D.a
714	else
715	GL_LIBS_ARB:=# no opengl -> no libs
716	GL_LIBS_SYS:=# no opengl -> no libs
717	GL:=# don't build ARB openGL libs
718
719	RNA3D_LIB :=
720	endif
721
722	RNA3D_LIB_4_DEPENDS := RNA3D/RNA3D.a
723
724	GL_LIBS:=$(GL_LIBS_ARB) $(GL_LIBS_SYS)
725
726	#---------------------- tiff lib:
727
728	TIFFLIBS := -ltiff
729
730	#---------------------- XML lib:
731
732	XMLLIBS := -lxerces-c
733
734	#---------------------- glib:
735
736	ARB_NEEDED_GLIB=glib-2.0
737
738	ARB_GLIB_INCLUDE:=$(strip $(shell pkg-config --cflags $(ARB_NEEDED_GLIB)))
739	ARB_GLIB_LIBS:=$(strip $(shell pkg-config --libs $(ARB_NEEDED_GLIB)))
740
741	#---------------------- basic libs:
742
743	SYSLIBS:=
744	ifeq ($(DARWIN),1)
745	SYSLIBS += -lstdc++
746	else
747	SYSLIBS += -lm $(ARB_GLIB_LIBS)
748	endif
749
750	#---------------------- include symbols?
751
752	ifeq ($(TRACESYM),1)
753	ifeq ($(USE_CLANG),0)
754	cflags += -rdynamic
755	clflags += -rdynamic -Wl,--export-dynamic
756	endif
757	endif
758
759	#---------------------- system dependent commands
760
761	ifeq ($(DARWIN),1)
762	TIME:=gtime
763	else
764	TIME:=/usr/bin/time
765	endif
766
767	#---------------------- SSE vectorizer
768	# for details see SOURCE_TOOLS/vectorize.README
769
770	ifeq ($(DEBUG),0)
771	ifeq ($(USE_GCC_49_OR_HIGHER),yes)
772	ifeq ($(DISABLE_VECTORIZE_CHECK),0)
773	# cflags += -fopt-info
774	cflags += -fopt-info-vec
775	ifeq ($(TRACE_MISSED_VECTORIZATIONS),1)
776	# Shows reasons for unsuccessful vectorization:
777	cflags += -fopt-info-vec-missed
778	cflags += -ftree-vectorizer-verbose=10
779	POST_COMPILE += --dump-loop-optimization
780	endif
781	POST_COMPILE += --check-loop-optimization
782	endif
783	else
784	ifeq ($(USE_GCC_48_OR_HIGHER),yes)
785	# no automatic vectorization-check for gcc<4.9.0
786	# -> uncomment the next 2 lines and grep the spam it will produce for 'vectorized.*loops'
787	# cflags += -fopt-info -fopt-info-vec-missed
788	# POST_COMPILE += --original
789	endif
790	endif
791	endif
792
793	#---------------------- stop early on broken flags/compiler combination
794
795	ifeq ($(DEBUG),0)
796	ifeq ($(SANITIZE_ANY),1)
797	ifeq ('$(COMPILER_VERSION)','4.9.1')
798	$(error compiling DEBUG=0 + SANITIZE!=0 crashes with gcc $(COMPILER_VERSION) (gcc 4.9.2 works))
799	endif
800	endif
801	endif
802
803	#---------------------- differences between linking executables and shared libs:
804
805	# executables:
806	ifeq ($(DARWIN),1)
807	blflags:=$(clflags)
808	else
809	blflags:=$(clflags) -Wl,--no-undefined
810	endif
811
812	# shared libraries
813	llflags:=$(clflags)
814
815	# dont use clflags below
816	clflags:=
817
818	# -------------------------------------------------------------------------
819	# Don't put any machine/version/etc conditionals below!
820	# (instead define variables above)
821	# -------------------------------------------------------------------------
822
823	cflags += -W -Wall $(dflags) $(extended_warnings)
824	cxxflags := $(extended_cpp_warnings)
825
826	# add CFLAGS + CPPFLAGS from environment for DEBIAN build
827	ifeq ($(DEBIAN),1)
828	cflags := $(CFLAGS) $(cflags)
829	cxxflags += $(CPPFLAGS)
830	endif
831
832	ifeq ('$(USE_CLANG)','1')
833	# none of the following standards works with clang3.3 (under linux) => dont use standard (as done before r15516)
834	# cxxflags += -std=gnu++11
835	# cxxflags += -std=gnu++0x
836	else
837	ifeq ('$(USE_GCC_60_OR_HIGHER)','yes')
838	cxxflags += -std=gnu++14# see also TEMPLATES/cxxforward.h@USE_Cxx14
839	else
840	ifeq ('$(USE_GCC_47_OR_HIGHER)','yes')
841	cxxflags += -std=gnu++11# see also TEMPLATES/cxxforward.h@USE_Cxx11
842	else
843	# gcc versions between 4.3 (lowest supported) and <4.7
844	cxxflags += -std=gnu++0x
845	endif
846	endif
847	endif
848
849	LINK_STATIC_LIB := ar -csq# link static lib
850	LINK_EXECUTABLE := $(A_CXX) $(blflags) -o# link executable (c++)
851
852	ifeq ($(LINK_STATIC),1)
853	SHARED_LIB_SUFFIX = a# static lib suffix
854	LINK_SHARED_LIB := $(LINK_STATIC_LIB)
855	else
856	SHARED_LIB_SUFFIX = so# shared lib suffix
857	LINK_SHARED_LIB := $(A_CXX) $(llflags) -shared -o# link shared lib
858	endif
859
860	ifeq ($(DARWIN),1)
861	lflags4perl:=
862	else
863	lflags4perl:=$(cross_lflags) -shared
864	endif
865
866	# delete variables unused below
867	blflags:=
868	llflags:=
869
870	# other used tools
871	MAKEDEPEND_PLAIN = makedepend
872	MAKEDEPEND = $(FORCEMASK);$(MAKEDEPEND_PLAIN)
873
874	#SEP:=--------------------------------------------------------------------------------
875	SEP=[`date +%M:%S.%N`] ------------------------------------------------
876	# to analyse timings run
877	# make -j9 clean; make -j9 all \| grep '^\[' \| sort
878	# make -j9 "TIMED_TARGET=perl" clean_timed_target \| grep '^\[' \| sort
879
880	# ------------------------------------------------------------ DYNLIBDEFS
881	# various dynamic library definitions for linking executables:
882	#
883	# SYSLIBS: system libraries needed by database lib
884	# ARBDB_LIB: database lib
885	# DBSYS_LIBS: executable using database (but no GUI)
886	# GUI_LIBS: executable using database and GUI (arb gui uses database)
887	#
888	# Note: definitions exported to sub-makefiles are described in SOURCE_TOOLS/parent_make.txt
889
890	CORE_LIB=-lCORE
891	ARBDB_LIB=-lARBDB $(CORE_LIB)
892	DBSYS_LIBS = $(ARBDB_LIB) $(SYSLIBS)
893
894	GUI_LIBS_PREFIX:=
895	ifeq ($(DARWIN),1)
896	# this seem to be added at wrong place, since opengl is only needed to link EDIT4
897	GUI_LIBS_PREFIX:=-framework GLUT -framework OpenGL
898	endif
899
900	GUI_LIBS=$(GUI_LIBS_PREFIX) $(DBSYS_LIBS) -lAWT -lWINDOW $(XLIBS)
901
902	LIBPATH = -L$(ARBHOME)/lib
903
904	DEST_LIB = lib
905	DEST_BIN = bin
906
907	CC_INCLUDES := -I. -I$(ARBHOME)/INCLUDE $(XINCLUDES) $(ARB_GLIB_INCLUDE)
908	CXX_INCLUDES := $(CC_INCLUDES)
909	MAKEDEPENDFLAGS := -- -DARB_OPENGL -DUNIT_TESTS -D__cplusplus -I. -Y$(ARBHOME)/INCLUDE
910
911	# -------------------------------
912	# old PTSERVER or PTPAN?
913
914	ifeq ($(PTPAN),1)
915	# PTPAN only libs
916	ARCHS_PT_SERVER = \
917	ptpan/PROBE.a
918	else
919	ifeq ($(PTPAN),2)
920	# special mode to compile both servers (developers only!)
921	ARCHS_PT_SERVER = \
922	ptpan/PROBE.a \
923	PROBE/PROBE.a
924	ARCHS_PT_SERVER_LINK = PROBE/PROBE.a# default to old ptserver
925	else
926	# PT-server only libs
927	ARCHS_PT_SERVER = \
928	PROBE/PROBE.a
929	endif
930	endif
931
932	ifndef ARCHS_PT_SERVER_LINK
933	ARCHS_PT_SERVER_LINK = $(ARCHS_PT_SERVER)
934	endif
935
936	# ---------------------------------------
937	# wrap main()
938
939	use_ARB_main=$(ARBHOME)/SOURCE_TOOLS/arb_main_cpp.o
940	use_ARB_main_C=$(ARBHOME)/SOURCE_TOOLS/arb_main_c.o
941
942	# -----------------------------------------
943	# unique build-id
944	# - different for different calls of make
945	# - constant in recursive calls
946
947	ifeq ($(ARBBID),)
948	ARBBID:=$(shell SOURCE_TOOLS/uniqueID.sh)
949	endif
950
951	# -----------------------------------------
952	# export variables to submakefiles
953
954	include SOURCE_TOOLS/export2sub
955
956	# do not define (exported) variables below this point
957
958	# -------------------------
959	# Main arb targets:
960	# -------------------------
961
962	first_target:
963	$(MAKE) checks
964	@echo $(SEP)
965	@echo 'Main targets:'
966	@echo ''
967	@echo ' all - Compile ARB + TOOLs + and copy shared libs + link foreign software'
968	@echo ' (That is most likely the target you want)'
969	@echo ''
970	@echo ' clean - remove generated files ("SUBDIR/SUBDIR.clean" to clean only SUBDIR)'
971	@echo ' rebuild - clean + all'
972	@echo ' cleanlinked - remove all binaries'
973	@echo ' relink - cleanlinked + all (=relink all from objects)'
974	@echo ''
975	@echo 'Some often used sub targets (make all makes them all):'
976	@echo ''
977	@echo ' arb - Just compile ARB (but none of the integrated tools)'
978	@echo ' menus - create lib/gde/arb.menu from GDEHELP/ARB_GDEmenus.source'
979	@echo ' perl - Compile the PERL XSUBS into lib/ARB.so and create links in lib to perl'
980	@echo ' binlink - Create all links in the bin directory'
981	@echo ''
982	@echo 'Development targets:'
983	@echo ''
984	@echo ' depends - create or update dependencies ("SUBDIR/SUBDIR.depends" to update only SUBDIR)'
985	@echo ' proto - create or update prototypes ("SUBDIR/SUBDIR.proto" to update only SUBDIR)'
986	@echo ' tags - create tags for xemacs'
987	@echo ' show - show available shortcuts (AKA subtargets)'
988	@echo ' up - shortcut for depends+proto+tags'
989	ifeq ($(UNIT_TESTS),1)
990	@echo ' ut - only run tests'
991	@echo ' "UNIT=..." oneunit - build one unit and run tests (see also UNIT_TESTER/Makefile.setup.local)'
992	endif
993	ifneq ($(SANITIZE),0)
994	@echo ' sanitize - all + run arb_ntree with sanitizer (test.arb + execute _logged)'
995	endif
996	@echo ' modified - rebuild files modified in svn checkout (does touch)'
997	@echo ' touch - touch files modified in svn checkout'
998	@echo ''
999	@echo 'Internal maintenance:'
1000	@echo ''
1001	@echo ' relinfo - show help on release targets'
1002	@echo ' tarfile - make rebuild and create arb version tarfile ("tarfile_quick" to skip rebuild)'
1003	@echo ' save - save all basic ARB sources into arbsrc_DATE ("savetest" to check filelist)'
1004	@echo ' patch - save svn diff to patchfile'
1005	@echo ' source_doc - create doxygen documentation'
1006	@echo ' relocated - rebuild partly (use when you have relocated ARBHOME)'
1007	@echo ' check_res - check resource usage'
1008	@echo ' dep_graph - Build dependency graphs'
1009	@echo ' clean_cov - Clean coverage results'
1010	@echo ''
1011	@echo ' clean_opengl_changed - clean after changing OPENGL setting in config.Makefile'
1012	@echo ' clean_checked_vect - clean units containing vectorization checks'
1013	@echo ''
1014	@echo ' post_commit_check - Checks whether'
1015	@echo ' * main make targets work,'
1016	@echo ' * dependencies and prototypes are up to date,'
1017	@echo ' * SVN-controlled files remain unaffected by called targets and'
1018	@echo ' * all generated files are ignored.'
1019	@echo ' (has to be called in a clean SVN checkout)'
1020	@echo $(SEP)
1021	@echo ''
1022
1023	relinfo:
1024	@echo ''
1025	@echo $(SEP)
1026	@echo 'Release targets:'
1027	@echo ''
1028	@echo ' inc_candi - increase RC candidate-number (only possible in "rc" branch, not needed for RC1)'
1029	@echo ' inc_patch - increase release patchlevel (only possible in "stable" branch)'
1030	@echo ' inc_minor - increase minor version number (only possible in "trunk")'
1031	@echo ' inc_major - increase MAJOR version number (only possible in "trunk")'
1032	@echo ''
1033	@echo ' show_version - show version tag'
1034	@echo ''
1035	@echo $(SEP)
1036	@echo ''
1037
1038	# auto-generate config.makefile:
1039
1040	config.makefile : config.makefile.template
1041	@echo --------------------------------------------------------------------------------
1042	ifeq ($(CONFIG_MAKEFILE_FOUND),)
1043	@cp $< $@
1044	@echo '$(ARBHOME)/$@:1: has been generated.'
1045	@echo 'Please edit $@ to configure your system!'
1046	@echo --------------------------------------------------------------------------------
1047	@false
1048	else
1049	@echo '$(ARBHOME)/$<:1: is more recent than'
1050	@echo '$(ARBHOME)/$@:1:'
1051	@ls -al config.makefile*
1052	@echo --------------------------------------------------------------------------------
1053	@echo "Updating $@ (if this fails, check manually)"
1054	SOURCE_TOOLS/update_config_makefile.pl
1055	@echo "Sucessfully updated $@"
1056	@echo --------------------------------------------------------------------------------
1057	@ls -al config.makefile*
1058	@echo --------------------------------------------------------------------------------
1059	@echo "Diff to your old config.makefile:"
1060	@echo --------------------------------------------------------------------------------
1061	-diff $@.bak $@
1062	@echo --------------------------------------------------------------------------------
1063	endif
1064
1065	# check if everything is configured correctly
1066
1067	check_DEVELOPER:
1068	ifndef DEVELOPER
1069	@echo 'config.makefile:1: DEVELOPER not defined'
1070	@false
1071	endif
1072
1073	check_DEBUG:
1074	ifndef dflags
1075	@echo 'config.makefile:1: DEBUG has to be defined. Valid values are 0 and 1'
1076	@false
1077	endif
1078
1079	check_ARB_64:
1080	ifndef ARB_64
1081	@echo 'config.makefile:1: ARB_64 has to be defined. Valid values are 0 and 1'
1082	@false
1083	endif
1084
1085	# ---------------------------------------- check gcc version
1086
1087	COMPILER_BROKEN:=0
1088
1089	ifeq ('$(COMPILER_VERSION_ALLOWED)', '4.6.4')
1090	COMPILER_BROKEN:=1
1091	endif
1092	ifeq ('$(COMPILER_VERSION_ALLOWED)', '4.8.0')
1093	COMPILER_BROKEN:=1
1094	endif
1095
1096	check_same_GCC_VERSION:
1097	$(ARBHOME)/SOURCE_TOOLS/check_same_compiler_version.pl $(COMPILER_NAME) $(COMPILER_VERSION_ALLOWED)
1098
1099	check_GCC_VERSION:
1100	@echo 'Compiler version check:'
1101	# see .@ALLOWED_gcc_VERSIONS
1102	ifeq ('$(COMPILER_VERSION_ALLOWED)', '')
1103	@echo " - Your compiler is '$(COMPILER_NAME)' version '$(COMPILER_VERSION)'"
1104	@echo ' This version is not in the list of supported $(COMPILER_NAME)-versions:'
1105	@$(foreach version,$(ALLOWED_COMPILER_VERSIONS),echo ' * $(version)';)
1106	@echo ' - You may either ..'
1107	@echo ' - add your version to ALLOWED_$(COMPILER_NAME)_VERSIONS in the Makefile and try it out or'
1108	@echo ' - switch to one of the allowed versions (see arb_README_gcc.txt for installing'
1109	@echo ' a different version of gcc)'
1110	$(error Unsupported compiler '$(COMPILER_NAME)' version '$(COMPILER_VERSION)')
1111	else
1112	ifeq ($(COMPILER_BROKEN),1)
1113	$(error compilation refused for $(COMPILER_NAME) version '$(COMPILER_VERSION_ALLOWED)'. Refer to http://bugs.arb-home.de/wiki/GccVersionInfo for details.)
1114	else
1115	@echo " - Supported $(COMPILER_NAME) version '$(COMPILER_VERSION_ALLOWED)' detected - fine!"
1116	@echo ''
1117	ifeq ($(USE_CLANG),1)
1118	@echo "Dump clang version:"
1119	$(A_CXX) -v
1120	endif
1121	$(MAKE) check_same_GCC_VERSION
1122	endif
1123	endif
1124
1125	#---------------------- check ARBHOME
1126
1127	# use arb_INSTALL.txt to determine whether ARBHOME points to correct directory
1128	ARB_INSTALL_FOUND=$(wildcard $(ARBHOME)/arb_INSTALL.txt)
1129
1130	check_ARBHOME:
1131	ifeq ($(strip $(ARB_INSTALL_FOUND)),)
1132	@echo ------------------------------------------------------------
1133	@echo "ARBHOME is set to '$(ARBHOME)'"
1134	@echo "The environment variable ARBHOME has to point to the top arb source directory."
1135	@echo "If you use bash enter:"
1136	@echo " export ARBHOME='`pwd`'"
1137	@echo ------------------------------------------------------------
1138	@false
1139	endif
1140
1141	ARB_PATH_SET=$(findstring $(ARBHOME)/bin,$(PATH))
1142
1143	check_PATH: check_ARBHOME
1144	ifeq ($(strip $(ARB_PATH_SET)),)
1145	@echo ------------------------------------------------------------
1146	@echo "The environment variable PATH has to contain $(ARBHOME)/bin"
1147	@echo "If you use bash enter:"
1148	@echo ' export PATH=$$ARBHOME/bin:$$PATH'
1149	@echo ------------------------------------------------------------
1150	@false
1151	endif
1152
1153	check_TOOLS:
1154	@util/arb_check_build_env.pl \
1155	"$(A_CC)" \
1156	"$(A_CXX)" \
1157	"$(MAKEDEPEND_PLAIN)" \
1158	"$(LINK_SHARED_LIB)" \
1159	"$(LINK_SHARED_LIB)" \
1160
1161	check_ENVIRONMENT : check_PATH check_TOOLS
1162	@echo "-------------------- Environment [start]"
1163	@echo "ARBHOME='$(ARBHOME)'"
1164	@echo "PATH='$(PATH)'"
1165	@echo "LD_LIBRARY_PATH='$(LD_LIBRARY_PATH)'"
1166	@echo "-------------------- Environment [end]"
1167
1168	check_tabs: check_setup
1169	ifeq ($(DEBUG),1)
1170	@SOURCE_TOOLS/tabBrake.pl
1171	endif
1172
1173	force_tab_check:
1174	@touch -t 198001010000 SOURCE_TOOLS/stamp.tabBrake
1175	@$(MAKE) check_tabs
1176
1177
1178	# ---------------------
1179
1180	check_setup: check_ENVIRONMENT check_DEBUG check_ARB_64 check_DEVELOPER check_GCC_VERSION
1181	@echo Your setup seems to be ok.
1182
1183	checks: check_setup check_tabs
1184	@rm -f SOURCE_TOOLS/postcompile.sav
1185
1186
1187	# end test section ------------------------------
1188
1189	# ---------------------------------------
1190	# List of standard top level directories
1191	#
1192	# sub-makefiles have to define the targets
1193	# - 'depends' and
1194	# - 'clean'
1195	#
1196	# when adding new libs here, also add a dependency vs 'links' or 'links_non_perl' in .@DD_links_non_perl
1197
1198	ARCHS = \
1199	$(ARCHS_PT_SERVER) \
1200	AISC/AISC.a \
1201	AISC_MKPTPS/AISC_MKPTPS.a \
1202	ARBDB/libARBDB.a \
1203	CORE/libCORE.a \
1204	ARB_GDE/ARB_GDE.a \
1205	AWT/libAWT.a \
1206	AWTC/AWTC.a \
1207	AWTI/AWTI.a \
1208	CONSENSUS_TREE/CONSENSUS_TREE.a \
1209	CONVERTALN/CONVERTALN.a \
1210	DBSERVER/DBSERVER.a \
1211	DIST/DIST.a \
1212	EDIT4/EDIT4.a \
1213	EISPACK/EISPACK.a \
1214	GDE/GDE.a \
1215	GENOM/GENOM.a \
1216	GENOM_IMPORT/GENOM_IMPORT.a \
1217	GL/GL.a \
1218	ISLAND_HOPPING/ISLAND_HOPPING.a \
1219	MERGE/MERGE.a \
1220	MULTI_PROBE/MULTI_PROBE.a \
1221	NALIGNER/NALIGNER.a \
1222	NAMES/NAMES.a \
1223	NAMES_COM/server.a \
1224	NTREE/NTREE.a \
1225	PARSIMONY/PARSIMONY.a \
1226	PERLTOOLS/PERLTOOLS.a \
1227	PHYLO/PHYLO.a \
1228	PRIMER_DESIGN/PRIMER_DESIGN.a \
1229	PROBE_COM/server.a \
1230	PROBE_DESIGN/PROBE_DESIGN.a \
1231	PROBE_SET/PROBE_SET.a \
1232	READSEQ/READSEQ.a \
1233	RNA3D/RNA3D.a \
1234	RNACMA/RNACMA.a \
1235	SECEDIT/SECEDIT.a \
1236	SEQ_QUALITY/SEQ_QUALITY.a \
1237	SERVERCNTRL/SERVERCNTRL.a \
1238	SL/SL.a \
1239	STAT/STAT.a \
1240	TOOLS/TOOLS.a \
1241	TREEGEN/TREEGEN.a \
1242	UNIT_TESTER/UNIT_TESTER.a \
1243	WETC/WETC.a \
1244	WINDOW/libWINDOW.a \
1245	XML/XML.a \
1246
1247	# -----------------------
1248	# library packets
1249
1250	ARCHS_CLIENT_PROBE = PROBE_COM/client.a
1251	ARCHS_CLIENT_NAMES = NAMES_COM/client.a
1252
1253	ARCHS_MAKEBIN = AISC_MKPTPS/AISC_MKPTPS.a AISC/AISC.a
1254
1255	# communication libs need aisc and aisc_mkpts:
1256
1257	AISC/AISC.dummy: proto_tools
1258
1259	comtools: AISC/AISC.dummy
1260
1261	ARCHS_SEQUENCE = \
1262	SL/SEQUENCE/SEQUENCE.a \
1263	SL/ALIVIEW/ALIVIEW.a \
1264	SL/PRONUC/PRONUC.a \
1265
1266	ARCHS_TREE = \
1267	SL/ARB_TREE/ARB_TREE.a \
1268	SL/FILTER/FILTER.a \
1269	$(ARCHS_SEQUENCE) \
1270
1271	# parsimony tree (used by NTREE, PARSIMONY, STAT(->EDIT4), DIST(obsolete!))
1272	ARCHS_AP_TREE = \
1273	SL/AP_TREE/AP_TREE.a \
1274	$(ARCHS_TREE) \
1275
1276	# --------------------------------------------------------------------------------
1277	# dependencies for linking shared libs
1278
1279	link_core: core
1280	link_db: db link_core
1281	link_aw: aw link_db
1282	link_awt: awt link_aw
1283
1284	#***************************************************************************************
1285	# Individual_Programs_Section
1286	#***************************************************************************************
1287
1288	arbmainwrapper:
1289	$(MAKE) -C SOURCE_TOOLS -r mainwrapper
1290
1291
1292	#********************************* arb_ntree ************************************
1293	NTREE = bin/arb_ntree
1294	ARCHS_NTREE = \
1295	NTREE/NTREE.a \
1296	ARB_GDE/ARB_GDE.a \
1297	SL/GROUP_SEARCH/GROUP_SEARCH.a \
1298	SL/DB_UI/DB_UI.a \
1299	AWTC/AWTC.a \
1300	AWTI/AWTI.a \
1301	CONSENSUS_TREE/CONSENSUS_TREE.a \
1302	GENOM_IMPORT/GENOM_IMPORT.a \
1303	GENOM/GENOM.a \
1304	MERGE/MERGE.a \
1305	MULTI_PROBE/MULTI_PROBE.a \
1306	PRIMER_DESIGN/PRIMER_DESIGN.a \
1307	PROBE_DESIGN/PROBE_DESIGN.a \
1308	SEQ_QUALITY/SEQ_QUALITY.a \
1309	SERVERCNTRL/SERVERCNTRL.a \
1310	SL/ALILINK/ALILINK.a \
1311	SL/AW_NAME/AW_NAME.a \
1312	SL/CONSENSUS/CONSENSUS.a \
1313	SL/DB_SCANNER/DB_SCANNER.a \
1314	SL/DB_QUERY/DB_QUERY.a \
1315	SL/QUERY/QUERY.a \
1316	SL/SEQIO/SEQIO.a \
1317	STAT/STAT.a \
1318	SL/GUI_ALIVIEW/GUI_ALIVIEW.a \
1319	SL/HELIX/HELIX.a \
1320	SL/REGEXPR/REGEXPR.a \
1321	SL/REFENTRIES/REFENTRIES.a \
1322	SL/NDS/NDS.a \
1323	SL/ITEM_SHADER/ITEM_SHADER.a \
1324	SL/ITEMS/ITEMS.a \
1325	SL/INSDEL/INSDEL.a \
1326	SL/LOCATION/LOCATION.a \
1327	SL/MACROS/MACROS.a \
1328	SL/PVP/PVP.a \
1329	SL/TRANSLATE/TRANSLATE.a \
1330	SL/TREEDISP/TREEDISP.a \
1331	SL/TREE_ADMIN/TREE_ADMIN.a \
1332	SL/TREE_READ/TREE_READ.a \
1333	SL/TREE_WRITE/TREE_WRITE.a \
1334	XML/XML.a \
1335	$(ARCHS_AP_TREE) \
1336
1337	$(NTREE): $(ARCHS_NTREE:.a=.dummy) link_awt
1338	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_NTREE) $(GUI_LIBS) $(use_ARB_main) \|\| ( \
1339	echo "$(SEP) Link $@"; \
1340	echo "$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_NTREE) $(ARCHS_CLIENT_PROBE) $(GUI_LIBS) $(XMLLIBS)" ; \
1341	$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_NTREE) $(ARCHS_CLIENT_PROBE) $(GUI_LIBS) $(XMLLIBS) && \
1342	echo "$(SEP) Link $@ [done]"; \
1343	)
1344
1345	#********************************* arb_edit4 ************************************
1346	EDIT4 = bin/arb_edit4
1347
1348	ARCHS_EDIT4 := \
1349	EDIT4/EDIT4.a \
1350	ARB_GDE/ARB_GDE.a \
1351	SL/FAST_ALIGNER/FAST_ALIGNER.a \
1352	AWTC/AWTC.a \
1353	ISLAND_HOPPING/ISLAND_HOPPING.a \
1354	SECEDIT/SECEDIT.a \
1355	SERVERCNTRL/SERVERCNTRL.a \
1356	SL/AW_HELIX/AW_HELIX.a \
1357	SL/AW_NAME/AW_NAME.a \
1358	SL/CONSENSUS/CONSENSUS.a \
1359	SL/ITEMS/ITEMS.a \
1360	STAT/STAT.a \
1361	SL/GUI_ALIVIEW/GUI_ALIVIEW.a \
1362	SL/HELIX/HELIX.a \
1363	SL/TRANSLATE/TRANSLATE.a \
1364	SL/MACROS/MACROS.a \
1365	SL/NDS/NDS.a \
1366	$(ARCHS_AP_TREE) \
1367	XML/XML.a \
1368
1369	ifeq ($(OPENGL),1)
1370	ARCHS_EDIT4 += RNA3D/RNA3D.a
1371	endif
1372
1373	LIBS_EDIT4 := $(GL_LIBS)
1374
1375	$(EDIT4): $(ARCHS_EDIT4:.a=.dummy) link_awt
1376	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_EDIT4) $(GUI_LIBS) $(use_ARB_main) \|\| ( \
1377	echo "$(SEP) Link $@"; \
1378	echo "$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_EDIT4) $(ARCHS_CLIENT_NAMES) $(GUI_LIBS) $(LIBS_EDIT4)" ; \
1379	$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_EDIT4) $(ARCHS_CLIENT_NAMES) $(GUI_LIBS) $(LIBS_EDIT4) && \
1380	echo "$(SEP) Link $@ [done]"; \
1381	)
1382
1383	#********************************* arb_rnacma ************************************
1384	RNACMA = bin/arb_rnacma
1385	ARCHS_RNACMA = \
1386	RNACMA/RNACMA.a \
1387
1388	$(RNACMA) : $(ARCHS_RNACMA:.a=.dummy) link_db
1389	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_RNACMA) \|\| ( \
1390	echo "$(SEP) Link $@"; \
1391	echo "$(LINK_EXECUTABLE) $@ $(LIBPATH) $(ARCHS_RNACMA) $(DBSYS_LIBS)"; \
1392	$(LINK_EXECUTABLE) $@ $(LIBPATH) $(ARCHS_RNACMA) $(DBSYS_LIBS) && \
1393	echo "$(SEP) Link $@ [done]"; \
1394	)
1395
1396	#********************************* arb_wetc ************************************
1397	WETC = bin/arb_wetc
1398	ARCHS_WETC = \
1399	WETC/WETC.a \
1400	SL/HELIX/HELIX.a \
1401	SL/FILTER/FILTER.a \
1402	XML/XML.a \
1403
1404	$(WETC): $(ARCHS_WETC:.a=.dummy) link_awt
1405	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_WETC) $(GUI_LIBS) $(use_ARB_main) \|\| ( \
1406	echo "$(SEP) Link $@"; \
1407	echo "$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_WETC) $(GUI_LIBS)" ; \
1408	$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_WETC) $(GUI_LIBS) && \
1409	echo "$(SEP) Link $@ [done]"; \
1410	)
1411
1412	#********************************* arb_dist ************************************
1413	DIST = bin/arb_dist
1414	ARCHS_DIST = \
1415	DIST/DIST.a \
1416	CONSENSUS_TREE/CONSENSUS_TREE.a \
1417	EISPACK/EISPACK.a \
1418	SERVERCNTRL/SERVERCNTRL.a \
1419	SL/GUI_ALIVIEW/GUI_ALIVIEW.a \
1420	SL/HELIX/HELIX.a \
1421	SL/MATRIX/MATRIX.a \
1422	SL/MACROS/MACROS.a \
1423	SL/NDS/NDS.a \
1424	SL/ITEMS/ITEMS.a \
1425	SL/NEIGHBOURJOIN/NEIGHBOURJOIN.a \
1426	XML/XML.a \
1427	$(ARCHS_AP_TREE) \
1428
1429	$(DIST): $(ARCHS_DIST:.a=.dummy) link_awt
1430	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_DIST) $(GUI_LIBS) $(use_ARB_main) \|\| ( \
1431	echo "$(SEP) Link $@"; \
1432	echo "$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_DIST) $(ARCHS_CLIENT_PROBE) $(GUI_LIBS)" ; \
1433	$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_DIST) $(ARCHS_CLIENT_PROBE) $(GUI_LIBS) && \
1434	echo "$(SEP) Link $@ [done]"; \
1435	)
1436
1437	#********************************* arb_pars ************************************
1438	PARSIMONY = bin/arb_pars
1439	ARCHS_PARSIMONY = \
1440	PARSIMONY/PARSIMONY.a \
1441	SERVERCNTRL/SERVERCNTRL.a \
1442	SL/AW_NAME/AW_NAME.a \
1443	SL/GUI_ALIVIEW/GUI_ALIVIEW.a \
1444	SL/HELIX/HELIX.a \
1445	SL/MACROS/MACROS.a \
1446	SL/NDS/NDS.a \
1447	SL/ITEMS/ITEMS.a \
1448	SL/TRANSLATE/TRANSLATE.a \
1449	SL/TREEDISP/TREEDISP.a \
1450	XML/XML.a \
1451	$(ARCHS_AP_TREE) \
1452
1453	$(PARSIMONY): $(ARCHS_PARSIMONY:.a=.dummy) link_awt
1454	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_PARSIMONY) $(GUI_LIBS) $(use_ARB_main) \|\| ( \
1455	echo "$(SEP) Link $@"; \
1456	echo "$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_PARSIMONY) $(ARCHS_CLIENT_NAMES) $(GUI_LIBS)" ; \
1457	$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_PARSIMONY) $(ARCHS_CLIENT_NAMES) $(GUI_LIBS) && \
1458	echo "$(SEP) Link $@ [done]"; \
1459	)
1460
1461	#********************************* arb_convert_aln ************************************
1462	CONVERT_ALN = bin/arb_convert_aln
1463	ARCHS_CONVERT_ALN = \
1464	CONVERTALN/CONVERTALN.a \
1465
1466	$(CONVERT_ALN) : $(ARCHS_CONVERT_ALN:.a=.dummy) link_db
1467	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_CONVERT_ALN) $(use_ARB_main) \|\| ( \
1468	echo "$(SEP) Link $@"; \
1469	echo "$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_CONVERT_ALN) $(DBSYS_LIBS)"; \
1470	$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_CONVERT_ALN) $(DBSYS_LIBS) && \
1471	echo "$(SEP) Link $@ [done]"; \
1472	)
1473
1474	#********************************* arb_treegen ************************************
1475
1476	TREEGEN = bin/arb_treegen
1477	ARCHS_TREEGEN = \
1478	TREEGEN/TREEGEN.a \
1479
1480	$(TREEGEN) : $(ARCHS_TREEGEN:.a=.dummy)
1481	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_TREEGEN) $(use_ARB_main_C) \|\| ( \
1482	echo "$(SEP) Link $@"; \
1483	echo "$(LINK_EXECUTABLE) $@ $(use_ARB_main_C) $(LIBPATH) $(ARCHS_TREEGEN)" ; \
1484	$(LINK_EXECUTABLE) $@ $(use_ARB_main_C) $(LIBPATH) $(ARCHS_TREEGEN) && \
1485	echo "$(SEP) Link $@ [done]"; \
1486	)
1487
1488	#********************************* arb_naligner ************************************
1489	NALIGNER = bin/arb_naligner
1490	ARCHS_NALIGNER = \
1491	NALIGNER/NALIGNER.a \
1492	SERVERCNTRL/SERVERCNTRL.a \
1493	SL/HELIX/HELIX.a \
1494
1495	$(NALIGNER): $(ARCHS_NALIGNER:.a=.dummy) link_db
1496	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_NALIGNER) $(use_ARB_main) \|\| ( \
1497	echo "$(SEP) Link $@"; \
1498	echo "$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_NALIGNER) $(ARCHS_CLIENT_PROBE) $(DBSYS_LIBS)" ; \
1499	$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_NALIGNER) $(ARCHS_CLIENT_PROBE) $(DBSYS_LIBS) && \
1500	echo "$(SEP) Link $@ [done]"; \
1501	)
1502
1503	#********************************* arb_phylo ************************************
1504	PHYLO = bin/arb_phylo
1505	ARCHS_PHYLO = \
1506	PHYLO/PHYLO.a \
1507	SL/HELIX/HELIX.a \
1508	SL/FILTER/FILTER.a \
1509	SL/MACROS/MACROS.a \
1510	XML/XML.a \
1511
1512	$(PHYLO): $(ARCHS_PHYLO:.a=.dummy) link_awt
1513	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_PHYLO) $(GUI_LIBS) $(use_ARB_main) \|\| ( \
1514	echo "$(SEP) Link $@"; \
1515	echo "$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_PHYLO) $(GUI_LIBS)" ; \
1516	$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_PHYLO) $(GUI_LIBS) && \
1517	echo "$(SEP) Link $@ [done]"; \
1518	)
1519
1520	#***************************************************************************************
1521	# SERVER SECTION
1522	#***************************************************************************************
1523
1524	#********************************* arb_db_server ************************************
1525	DBSERVER = bin/arb_db_server
1526	ARCHS_DBSERVER = \
1527	DBSERVER/DBSERVER.a \
1528	SERVERCNTRL/SERVERCNTRL.a \
1529
1530	$(DBSERVER): $(ARCHS_DBSERVER:.a=.dummy) link_db
1531	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_DBSERVER) $(ARBDB_LIB) $(use_ARB_main) \|\| ( \
1532	echo "$(SEP) Link $@"; \
1533	echo "$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_DBSERVER) $(ARBDB_LIB) $(ARCHS_CLIENT_PROBE) $(SYSLIBS)" ; \
1534	$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_DBSERVER) $(ARBDB_LIB) $(ARCHS_CLIENT_PROBE) $(SYSLIBS) && \
1535	echo "$(SEP) Link $@ [done]"; \
1536	)
1537
1538	#********************************* arb_pt_server ************************************
1539	PROBE = bin/arb_pt_server
1540	ARCHS_PROBE_COMMON = \
1541	SL/PTCLEAN/PTCLEAN.a \
1542	SERVERCNTRL/SERVERCNTRL.a \
1543	SL/HELIX/HELIX.a \
1544
1545	ARCHS_PROBE_LINK = \
1546	$(ARCHS_PT_SERVER_LINK) \
1547	$(ARCHS_PROBE_COMMON) \
1548
1549	ARCHS_PROBE_DEPEND = \
1550	$(ARCHS_PT_SERVER) \
1551	$(ARCHS_PROBE_COMMON) \
1552
1553	$(PROBE): $(ARCHS_PROBE_DEPEND:.a=.dummy) link_db
1554	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_PROBE_LINK) $(ARBDB_LIB) $(ARCHS_SERVER_PROBE) config.makefile $(use_ARB_main) \|\| ( \
1555	echo "$(SEP) Link $@"; \
1556	echo "$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_PROBE_LINK) $(ARCHS_CLIENT_PROBE) $(ARBDB_LIB) $(SYSLIBS)" ; \
1557	$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_PROBE_LINK) $(ARCHS_CLIENT_PROBE) $(ARBDB_LIB) $(SYSLIBS) && \
1558	echo "$(SEP) Link $@ [done]"; \
1559	)
1560
1561	#********************************* arb_name_server ************************************
1562	NAMES = bin/arb_name_server
1563	ARCHS_NAMES = \
1564	NAMES/NAMES.a \
1565	SERVERCNTRL/SERVERCNTRL.a \
1566
1567	$(NAMES): $(ARCHS_NAMES:.a=.dummy) link_db
1568	@SOURCE_TOOLS/binuptodate.pl $@ $(ARCHS_NAMES) $(ARBDB_LIB) $(ARCHS_CLIENT_NAMES) $(use_ARB_main) \|\| ( \
1569	echo "$(SEP) Link $@"; \
1570	echo "$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_NAMES) $(ARBDB_LIB) $(ARCHS_CLIENT_NAMES) NAMES_COM/server.a $(SYSLIBS)" ; \
1571	$(LINK_EXECUTABLE) $@ $(use_ARB_main) $(LIBPATH) $(ARCHS_NAMES) $(ARBDB_LIB) $(ARCHS_CLIENT_NAMES) NAMES_COM/server.a $(SYSLIBS) && \
1572	echo "$(SEP) Link $@ [done]"; \
1573	)
1574
1575	#********************************* SHARED LIBRARIES SECTION ************************************
1576
1577	prepare_libdir: addlibs
1578
1579	addlibs:
1580	(perl $(ARBHOME)/SOURCE_TOOLS/provide_libs.pl \
1581	"arbhome=$(ARBHOME)" \
1582	"opengl=$(OPENGL)" \
1583	"link_static=$(LINK_STATIC)" \
1584	)
1585
1586	#***************************************************************************************
1587	# Recursive calls to sub-makefiles
1588	#***************************************************************************************
1589
1590	%.depends:
1591	@cp -p $(@D)/Makefile $(@D)/Makefile.old # save old Makefile
1592	@$(MAKE) -C $(@D) -r \
1593	"AUTODEPENDS=1" \
1594	"MAIN=nothing" \
1595	"cflags=noCflagsHere_use_MAKEDEPENDFLAGS" \
1596	"cxxflags=noCxxflagsHere_use_MAKEDEPENDFLAGS" \
1597	depends
1598	@grep "^# DO NOT DELETE" $(@D)/Makefile >/dev/null
1599	@cat $(@D)/Makefile \
1600	\| SOURCE_TOOLS/fix_depends.pl "(from main)" \
1601	>$(@D)/Makefile.2
1602	@mv $(@D)/Makefile.old $(@D)/Makefile # restore old Makefile
1603	@$(ARBHOME)/SOURCE_TOOLS/mv_if_diff $(@D)/Makefile.2 $(@D)/Makefile # update Makefile if changed
1604
1605	%.proto:
1606	@($(MAKE) -C $(@D) \
1607	"AUTODEPENDS=0" \
1608	"MAIN=nothing" \
1609	"cflags=noCflags" \
1610	"cxxflags=noCxxflags" \
1611	proto 2>&1 ) \| $(ARBHOME)/SOURCE_TOOLS/asan2msg.pl
1612
1613	%.clean:
1614	@$(MAKE) -C $(@D) \
1615	"AUTODEPENDS=0" \
1616	"MAIN=nothing" \
1617	"cflags=noCflags" \
1618	"cxxflags=noCxxflags" \
1619	clean
1620
1621
1622	# stop wrong targets
1623	target_is_missing_lib_prefix:
1624	@echo "Error: Denied to build shared library target with missing 'lib'-prefix"
1625	false
1626
1627	ARBDB/ARBDB.dummy: target_is_missing_lib_prefix
1628	CORE/CORE.dummy: target_is_missing_lib_prefix
1629	AWT/AWT.dummy: target_is_missing_lib_prefix
1630	WINDOW/WINDOW.dummy: target_is_missing_lib_prefix
1631
1632	# rule to generate main target (normally a library):
1633	# @@@ check effect of setting LANG=C below
1634	%.dummy:
1635	@( export ID=$$$$; LANG=C; \
1636	(( \
1637	echo "$(SEP) Make $(@D)"; \
1638	$(MAKE) -C $(@D) -r \
1639	"AUTODEPENDS=1" \
1640	"MAIN=$(@F:.dummy=.a)" \
1641	"cflags=$(cflags) -DIN_ARB_$(subst /,_,$(@D))" \
1642	&& \
1643	echo "$(SEP) Make $(@D) [done]"; \
1644	) >$(@D).$$ID.log 2>&1 && (cat $(@D).$$ID.log;rm $(@D).$$ID.log)) \|\| (cat $(@D).$$ID.log;rm $(@D).$$ID.log;false))
1645
1646	# Additional dependencies for subtargets:
1647
1648	PROBE_COM/PROBE_COM.dummy : comtools
1649	NAMES_COM/NAMES_COM.dummy : comtools
1650
1651	com: PROBE_COM/PROBE_COM.dummy NAMES_COM/NAMES_COM.dummy
1652
1653	PROBE_COM/server.dummy:
1654	@echo Unwanted request to make target $<
1655	false
1656
1657	PROBE_COM/client.dummy:
1658	@echo Unwanted request to make target $<
1659	false
1660
1661	NAMES_COM/server.dummy:
1662	@echo Unwanted request to make target $<
1663	false
1664
1665	NAMES_COM/client.dummy:
1666	@echo Unwanted request to make target $<
1667	false
1668
1669
1670	ARBDB/libARBDB.dummy: links
1671	CORE/libCORE.dummy: links
1672
1673	PERLTOOLS/PERLTOOLS.dummy: core db
1674
1675	# all subdirs perl not depends on go here (ADD_links_non_perl)
1676	AWT/libAWT.dummy: links_non_perl
1677	AWTI/AWTI.dummy: links_non_perl
1678	CONSENSUS_TREE/CONSENSUS_TREE.dummy: links_non_perl
1679	CONVERTALN/CONVERTALN.dummy: links_non_perl
1680	DBSERVER/DBSERVER.dummy: links_non_perl
1681	DIST/DIST.dummy: links_non_perl
1682	EDIT4/EDIT4.dummy: links_non_perl com
1683	EISPACK/EISPACK.dummy: links_non_perl
1684	GDE/GDE.dummy: links_non_perl
1685	GENOM/GENOM.dummy: links_non_perl
1686	GENOM_IMPORT/GENOM_IMPORT.dummy: links_non_perl
1687	ISLAND_HOPPING/ISLAND_HOPPING.dummy: links_non_perl
1688	MERGE/MERGE.dummy: links_non_perl
1689	NTREE/NTREE.dummy: links_non_perl
1690	PARSIMONY/PARSIMONY.dummy: links_non_perl
1691	PHYLO/PHYLO.dummy: links_non_perl
1692	PRIMER_DESIGN/PRIMER_DESIGN.dummy: links_non_perl
1693	PROBE_SET/PROBE_SET.dummy: links_non_perl link_db
1694	READSEQ/READSEQ.dummy: links_non_perl
1695	RNACMA/RNACMA.dummy: links_non_perl header_libs
1696	SECEDIT/SECEDIT.dummy: links_non_perl
1697	SEQ_QUALITY/SEQ_QUALITY.dummy: links_non_perl
1698	SERVERCNTRL/SERVERCNTRL.dummy: links_non_perl com
1699	SL/ALILINK/ALILINK.dummy: links_non_perl
1700	SL/ALIVIEW/ALIVIEW.dummy: links_non_perl
1701	SL/AP_TREE/AP_TREE.dummy: links_non_perl
1702	SL/ARB_TREE/ARB_TREE.dummy: links_non_perl
1703	SL/AW_HELIX/AW_HELIX.dummy: links_non_perl
1704	SL/CONSENSUS/CONSENSUS.dummy: links_non_perl
1705	SL/DB_QUERY/DB_QUERY.dummy: links_non_perl
1706	SL/DB_SCANNER/DB_SCANNER.dummy: links_non_perl
1707	SL/DB_UI/DB_UI.dummy: links_non_perl
1708	SL/FAST_ALIGNER/FAST_ALIGNER.dummy: links_non_perl
1709	SL/FILTER/FILTER.dummy: links_non_perl
1710	SL/FILTSEQEXP/FILTSEQEXP.dummy: links_non_perl
1711	SL/GROUP_SEARCH/GROUP_SEARCH.dummy: links_non_perl
1712	SL/GUI_ALIVIEW/GUI_ALIVIEW.dummy: links_non_perl
1713	SL/HELIX/HELIX.dummy: links_non_perl
1714	SL/INSDEL/INSDEL.dummy: links_non_perl
1715	SL/ITEM_SHADER/ITEM_SHADER.dummy: links_non_perl
1716	SL/ITEMS/ITEMS.dummy: links_non_perl
1717	SL/LOCATION/LOCATION.dummy: links_non_perl
1718	SL/MACROS/MACROS.dummy: links_non_perl
1719	SL/MATRIX/MATRIX.dummy: links_non_perl
1720	SL/NDS/NDS.dummy: links_non_perl
1721	SL/NEIGHBOURJOIN/NEIGHBOURJOIN.dummy: links_non_perl
1722	SL/PRONUC/PRONUC.dummy: links_non_perl
1723	SL/PTCLEAN/PTCLEAN.dummy: links_non_perl link_db
1724	SL/PVP/PVP.dummy: links_non_perl
1725	SL/QUERY/QUERY.dummy: links_non_perl link_db
1726	SL/REFENTRIES/REFENTRIES.dummy: links_non_perl
1727	SL/REGEXPR/REGEXPR.dummy: links_non_perl
1728	SL/SEQIO/SEQIO.dummy: links_non_perl
1729	SL/SEQUENCE/SEQUENCE.dummy: links_non_perl
1730	SL/TRANSLATE/TRANSLATE.dummy: links_non_perl
1731	SL/TREE_ADMIN/TREE_ADMIN.dummy: links_non_perl
1732	SL/TREE_READ/TREE_READ.dummy: links_non_perl
1733	SL/TREE_WRITE/TREE_WRITE.dummy: links_non_perl
1734	SL/TREEDISP/TREEDISP.dummy: links_non_perl
1735	STAT/STAT.dummy: links_non_perl
1736	TREEGEN/TREEGEN.dummy: links_non_perl
1737	WETC/WETC.dummy: links_non_perl
1738	WINDOW/libWINDOW.dummy: links_non_perl
1739	XML/XML.dummy: links_non_perl
1740
1741	ifeq ($(OPENGL),1)
1742	GL/glAW/glAW.dummy: links_non_perl
1743	GL/glpng/glpng.dummy: links_non_perl
1744	GL/GL.dummy: GL/glAW/glAW.dummy GL/glpng/glpng.dummy
1745	RNA3D/RNA3D.dummy: links_non_perl gl
1746	endif
1747
1748	UNIT_TESTER/UNIT_TESTER.dummy: link_db \
1749	SERVERCNTRL/SERVERCNTRL.dummy \
1750
1751	# see also TOOLS/Makefile@TOOLSLIBDEPENDS
1752	TOOLS/TOOLS.dummy : links_non_perl link_db \
1753	CONSENSUS_TREE/CONSENSUS_TREE.dummy \
1754	SERVERCNTRL/SERVERCNTRL.dummy \
1755	SL/FILTER/FILTER.dummy \
1756	SL/FILTSEQEXP/FILTSEQEXP.dummy \
1757	SL/INSDEL/INSDEL.dummy \
1758	SL/REGEXPR/REGEXPR.dummy \
1759	SL/SEQIO/SEQIO.dummy \
1760	SL/TREE_READ/TREE_READ.dummy \
1761	SL/TREE_WRITE/TREE_WRITE.dummy \
1762	XML/XML.dummy \
1763
1764	AWTC/AWTC.dummy : com
1765
1766	NAMES/NAMES.dummy : com
1767	SL/AW_NAME/AW_NAME.dummy : com
1768
1769	PROBE/PROBE.dummy : com
1770	ptpan/PROBE.dummy : com
1771	MULTI_PROBE/MULTI_PROBE.dummy : com
1772	PROBE_DESIGN/PROBE_DESIGN.dummy : com
1773	NALIGNER/NALIGNER.dummy : com
1774
1775	ARB_GDE/ARB_GDE.dummy : proto_tools
1776
1777	compile_compatibility: SOURCE_TOOLS/COMPILE_COMPAT/COMPILE_COMPAT.dummy
1778
1779	#***************************************************************************************
1780	# Short aliases to make targets
1781	#***************************************************************************************
1782
1783	show:
1784	@echo $(SEP)
1785	@echo 'Aliases for often needed targets:'
1786	@echo ''
1787	@echo ' executables:'
1788	@echo ''
1789	@echo ' nt arb_ntree'
1790	@echo ' e4 arb_edit4 (includes secedit)'
1791	@echo ' di arb_dist'
1792	@echo ' ph arb_phylo'
1793	@echo ' pa arb_parsimony'
1794	@echo ' tg arb_treegen'
1795	@echo ' ds arb_dbserver'
1796	@echo ' pt arb_pt_server'
1797	@echo ' na arb_name_server'
1798	@echo ''
1799	@echo ' libraries:'
1800	@echo ''
1801	@echo ' com communication libraries'
1802	@echo ' db ARB database'
1803	@echo ' aw GUI lib'
1804	@echo ' awt GUI toolkit'
1805	@echo ' awtc general purpose library'
1806	@echo ' awti import/export library'
1807	@echo ' mp multi probe library'
1808	@echo ' ge genome library'
1809	@echo ' pd probe design lib'
1810	@echo ' prd primer design lib'
1811	@echo ''
1812	@echo ' other targets:'
1813	@echo ''
1814	@echo ' help recompile help files'
1815	@echo ' tools make small tools used by arb'
1816	@echo ''
1817	@echo ' foreign targets:'
1818	@echo ''
1819	@echo ' gde GDE'
1820	@echo ' agde ARB_GDE'
1821	@echo ''
1822	@echo 'for other targets inspect $(ARBHOME)/Makefile'
1823	@echo ''
1824	@echo $(SEP)
1825
1826	source_doc:
1827	@echo "Remove some links (doxygen crashes otherwise):"
1828	find . \( -name "AISC" -o -name "C" -o -name "GDEHELP" \) -type l -exec rm {} \;
1829	doxygen 2>&1 1>/dev/null
1830	$(MAKE) forcelinks
1831
1832	dep_graph:
1833	@echo "Building some dependency graphs"
1834	SOURCE_TOOLS/dependency_graphs.pl
1835
1836	help: HELP_SOURCE/HELP_SOURCE.dummy
1837
1838	HELP_SOURCE/HELP_SOURCE.dummy: link_core xml menus
1839
1840	db: ARBDB/libARBDB.dummy
1841	core: CORE/libCORE.dummy
1842	aw: WINDOW/libWINDOW.dummy
1843	awt: AWT/libAWT.dummy
1844	awtc: AWTC/AWTC.dummy
1845	awti: AWTI/AWTI.dummy
1846
1847	mp: MULTI_PROBE/MULTI_PROBE.dummy
1848	mg: MERGE/MERGE.dummy
1849	ge: GENOM/GENOM.dummy
1850	prd: PRIMER_DESIGN/PRIMER_DESIGN.dummy
1851
1852	nt: menus $(NTREE)
1853
1854	nal: $(NALIGNER)
1855
1856	di: $(DIST)
1857	ph: $(PHYLO)
1858	pa: $(PARSIMONY)
1859	tg: $(TREEGEN)
1860
1861	ifeq ($(OPENGL),1)
1862	3d: RNA3D/RNA3D.dummy
1863	gl: GL/GL.dummy
1864	else
1865	noopengl:
1866	@echo "invalid target for OPENGL=0"
1867	3d: noopengl
1868	gl: noopengl
1869	endif
1870
1871	SL/SL.dummy: com
1872
1873	ds: $(DBSERVER)
1874	pt: $(PROBE)
1875	pst: PROBE_SET/PROBE_SET.dummy
1876	pd: PROBE_DESIGN/PROBE_DESIGN.dummy
1877	na: $(NAMES)
1878	sq: SEQ_QUALITY/SEQ_QUALITY.dummy
1879	cma: $(RNACMA)
1880
1881	sec: SECEDIT/SECEDIT.dummy
1882
1883	e4: $(EDIT4) readseq menus
1884
1885	gi: GENOM_IMPORT/GENOM_IMPORT.dummy
1886	wetc: $(WETC)
1887
1888	xml: XML/XML.dummy
1889	xmlin: XML_IMPORT/XML_IMPORT.dummy# broken
1890	stat: STAT/STAT.dummy $(NTREE) $(EDIT4)
1891	fa: SL/FAST_ALIGNER/FAST_ALIGNER.dummy
1892
1893	#********************************************************************************
1894
1895	up_by_remake: depends proto vectorize_checks
1896
1897	up: up_by_remake tags valgrind_update
1898
1899	#********************************************************************************
1900
1901	touch:
1902	SOURCE_TOOLS/touch_modified.pl
1903
1904	modified: touch
1905	$(MAKE) all
1906
1907	#********************************************************************************
1908
1909	libdepends:
1910	$(MAKE) -C "SOURCE_TOOLS" \
1911	"RNA3D_LIB=$(RNA3D_LIB_4_DEPENDS)" \
1912	libdepends
1913
1914	#********************************************************************************
1915
1916	# create generated headers:
1917	genheaders: TEMPLATES/TEMPLATES.dummy
1918
1919	clrdotdepends:
1920	rm PROBE_COM/.depends \|\| true
1921	rm NAMES_COM/.depends \|\| true
1922	rm PERL2ARB/.depends \|\| true
1923
1924	comdepends: comtools clrdotdepends
1925	@echo "$(SEP) Partially build com interface"
1926	$(MAKE) PROBE_COM/PROBE_COM.depends NAMES_COM/NAMES_COM.depends
1927	$(MAKE) PROBE_COM/server.depends NAMES_COM/server.depends
1928
1929	depends: genheaders comdepends vectorize_checks
1930	@echo "$(SEP) Updating other dependencies"
1931	$(MAKE) $(subst NAMES_COM/server.depends,,$(subst PROBE_COM/server.depends,,$(ARCHS:.a=.depends))) \
1932	HELP_SOURCE/HELP_SOURCE.depends \
1933	SOURCE_TOOLS/COMPILE_COMPAT/COMPILE_COMPAT.depends \
1934
1935	$(MAKE) libdepends
1936
1937	depend: depends
1938
1939	# ------------------------------------------------------------
1940	# dependency generation tests for AISC code
1941	#(all should work w/o creating wrong dependencies;
1942	# neither in XXX_COM/Makefile nor in code using AISC interface)
1943	dependstest1: silent_clean
1944	$(MAKE) depends
1945	dependstest2: silent_clean
1946	$(MAKE) com
1947	dependstest3: silent_clean
1948	$(MAKE) aw
1949	dependstest4: silent_clean
1950	$(MAKE) pt
1951	dependstest5: silent_clean
1952	$(MAKE) na
1953	dependstest6: silent_clean
1954	$(MAKE) nt
1955	dependstest7: silent_clean
1956	$(MAKE) all
1957	# ------------------------------------------------------------
1958
1959	vectorize_checks:
1960	$(MAKE) -C SOURCE_TOOLS -r vectorize_checks
1961
1962	clean_checked_vect: lib/lib.clean
1963	SOURCE_TOOLS/clean_checked_vectorizations.sh
1964
1965	# ------------------------------------------------------------
1966
1967	AISC_MKPTPS/AISC_MKPTPS.dummy: links
1968
1969	proto_tools: AISC_MKPTPS/AISC_MKPTPS.dummy
1970
1971	proto: proto_tools
1972	@echo $(SEP) Updating prototypes
1973	$(MAKE) \
1974	ARBDB/ARBDB.proto \
1975	AISC_COM/AISC_COM.proto \
1976	ARB_GDE/ARB_GDE.proto \
1977	CORE/CORE.proto \
1978	CONVERTALN/CONVERTALN.proto \
1979	NTREE/NTREE.proto \
1980	MERGE/MERGE.proto \
1981	$(ARCHS_PT_SERVER:.a=.proto) \
1982	SERVERCNTRL/SERVERCNTRL.proto \
1983	SL/SL.proto \
1984
1985	#********************************************************************************
1986
1987	valgrind_update: links
1988	@echo $(SEP) Updating for valgrind
1989	$(MAKE) -C SOURCE_TOOLS valgrind_update
1990
1991	#********************************************************************************
1992
1993	TAGFILE=TAGS
1994	UTAGS=TAGS.$(ARBBID)
1995	TAGFILE_TMP=$(UTAGS).tmp
1996
1997	TAG_SOURCE_HEADERS=$(UTAGS).headers.tmp
1998	TAG_SOURCE_CODE=$(UTAGS).codefiles.tmp
1999	TAG_SOURCE_LISTS=$(TAG_SOURCE_HEADERS) $(TAG_SOURCE_CODE)
2000
2001	ETAGS_IGNORE_LIST=SOURCE_TOOLS/etags_ignore.lst
2002
2003	ETAGS=ctags -e -I @$(ETAGS_IGNORE_LIST) --sort=no --if0=no --extra=q
2004	ETAGS_TYPES=--C-kinds=cgnsut --C++-kinds=cgnsut
2005	ETAGS_FUN =--C-kinds=fm --C++-kinds=fm
2006	ETAGS_REST =--C-kinds=dev --C++-kinds=dev
2007
2008	FILTER_TAGS_SOURCES= \
2009	$(SED) -e 's/^.\///g' \| \
2010	grep -vi '^HEADERLIBS\\|^GDE/\\|/GEN[CH]/'
2011
2012	$(TAG_SOURCE_HEADERS): links
2013	find . \( -name '.hxx' -o -name ".h" \) -type f \| $(FILTER_TAGS_SOURCES) > $@
2014
2015	$(TAG_SOURCE_CODE): links
2016	find . \( -name '.cxx' -o -name ".c" \) -type f \| $(FILTER_TAGS_SOURCES) > $@
2017
2018	$(UTAGS).1.tmp: $(TAG_SOURCE_HEADERS)
2019	$(ETAGS) -f $@ $(ETAGS_TYPES) -L $<
2020	$(UTAGS).2.tmp: $(TAG_SOURCE_HEADERS)
2021	$(ETAGS) -f $@ $(ETAGS_FUN) -L $<
2022	$(UTAGS).3.tmp: $(TAG_SOURCE_HEADERS)
2023	$(ETAGS) -f $@ $(ETAGS_REST) -L $<
2024	$(UTAGS).4.tmp: $(TAG_SOURCE_CODE)
2025	$(ETAGS) -f $@ $(ETAGS_TYPES) -L $<
2026	$(UTAGS).5.tmp: $(TAG_SOURCE_CODE)
2027	$(ETAGS) -f $@ $(ETAGS_FUN) -L $<
2028	$(UTAGS).6.tmp: $(TAG_SOURCE_CODE)
2029	$(ETAGS) -f $@ $(ETAGS_REST) -L $<
2030
2031	TAGS_ALL_PARTS=$(UTAGS).1.tmp $(UTAGS).2.tmp $(UTAGS).3.tmp $(UTAGS).4.tmp $(UTAGS).5.tmp $(UTAGS).6.tmp
2032
2033	$(TAGFILE_TMP) : $(TAGS_ALL_PARTS)
2034	cat $(TAGS_ALL_PARTS) > $@
2035	rm $(TAGS_ALL_PARTS) $(TAG_SOURCE_LISTS)
2036
2037	tags: $(TAGFILE_TMP)
2038	mv_if_diff $(TAGFILE_TMP) $(TAGFILE)
2039
2040	#********************************************************************************
2041
2042	LINKSTAMP=SOURCE_TOOLS/stamp.generate_all_links
2043
2044	links: checks $(LINKSTAMP) arbmainwrapper
2045	links_no_checks: $(LINKSTAMP) arbmainwrapper
2046
2047	forcelinks:
2048	-rm $(LINKSTAMP)
2049	$(MAKE) links
2050
2051	$(LINKSTAMP): SOURCE_TOOLS/generate_all_links.sh genheaders
2052	+SOURCE_TOOLS/generate_all_links.sh
2053	touch $(LINKSTAMP)
2054
2055	clean_links:
2056	# avoid to delete linked pts, nas or arb_tcp.dat:
2057	find . -path './lib' -prune -o -type l -exec rm {} \;
2058	# removed obsolete file - refuses to disappear due to 'prune' above
2059	@rm -f lib/help/GDEHELP
2060	@rm -f $(LINKSTAMP) lib/inputMasks/format.readme
2061
2062	redo_links: clean_links
2063	$(MAKE) links_no_checks
2064
2065	#********************************************************************************
2066
2067	header_libs:
2068	@(( \
2069	echo "$(SEP) Make HEADERLIBS"; \
2070	$(MAKE) -C HEADERLIBS all && \
2071	echo "$(SEP) Make HEADERLIBS [done]"; \
2072	) > HEADERLIBS.log 2>&1 && (cat HEADERLIBS.log;rm HEADERLIBS.log)) \|\| (cat HEADERLIBS.log;rm HEADERLIBS.log;false)
2073
2074	#********************************************************************************
2075
2076	gde: GDE/GDE.dummy
2077	GDE: gde
2078	agde: ARB_GDE/ARB_GDE.dummy
2079	tools: TOOLS/TOOLS.dummy
2080	convert: $(CONVERT_ALN)
2081	readseq: READSEQ/READSEQ.dummy
2082
2083	#***************************************************************************************
2084	# Some user commands
2085	#***************************************************************************************
2086
2087	menus: binlink links
2088	@(( \
2089	echo "$(SEP) Make GDEHELP"; \
2090	$(MAKE) -C GDEHELP -r all && \
2091	echo "$(SEP) Make GDEHELP [done]"; \
2092	) > GDEHELP.log 2>&1 && (cat GDEHELP.log;rm GDEHELP.log)) \|\| (cat GDEHELP.log;rm GDEHELP.log;false)
2093
2094	ifeq ($(DEBUG),1)
2095	BIN_TARGET=develall
2096	else
2097	BIN_TARGET=all
2098	endif
2099
2100
2101	binlink:
2102	$(MAKE) -C bin $(BIN_TARGET)
2103
2104	check_bin_dep: binlink
2105	SOURCE_TOOLS/check_bin_dependencies.pl
2106
2107	preplib:
2108	(cd lib;$(MAKE) all)
2109
2110	# --------------------------------------------------------------------------------
2111	# This section is quite tricky:
2112	#
2113	# make 'perl' is a BIG target, so when it has to be made, it has to be started
2114	# as early as possible to reduce overall compile time. Since 'make' does not
2115	# provide any priotities, i force it to build all 'perl'-prerequisites early, by
2116	# adding artificial dependencies to these prerequisites
2117	#
2118	# That behavior is likely to be system-dependent.
2119	# My goal was only to make it work on my current development system,
2120	# where this saves about 20% of overall build time.
2121
2122	ifeq ($(WITHPERL),1)
2123	links_non_perl: PERLTOOLS/PERLTOOLS.dummy
2124	perltools: links_non_perl
2125	perl: realperl
2126	else
2127	links_non_perl: links
2128	perl:
2129	$(MAKE) "WITHPERL=1" perl
2130	endif
2131
2132	# ---------------------------------------- perl
2133
2134	ifeq ($(ARB_64),$(BUILDHOST_64))
2135	TEST_PERL_SCRIPTS=$(MAKE) -C PERL_SCRIPTS/test test
2136	else
2137	TEST_PERL_SCRIPTS=echo "skipping perl script compilation (when cross-compiling)"
2138	endif
2139
2140	realperl: perltools
2141	(( \
2142	echo "$(SEP) Make PERL2ARB" ; \
2143	$(TIME) $(MAKE) -C PERL2ARB -r -f Makefile.main \
2144	"AUTODEPENDS=1" \
2145	"dflags=$(dflags)" \
2146	"cflags4perl=$(cflags) $(cxxflags) $(dflags)" \
2147	"lflags4perl=$(lflags4perl)" \
2148	"COMPILER_VERSION=$(COMPILER_VERSION)" \
2149	all && \
2150	$(TEST_PERL_SCRIPTS) && \
2151	echo "$(SEP) Make PERL2ARB [done]" ; \
2152	) > PERL2ARB.log 2>&1 && (cat PERL2ARB.log;rm PERL2ARB.log)) \|\| (cat PERL2ARB.log;rm PERL2ARB.log;false)
2153
2154	perl_clean:
2155	@$(MAKE) -C PERL2ARB -r -f Makefile.main \
2156	"AUTODEPENDS=0" \
2157	clean
2158
2159	PERL2ARB/PERL2ARB.clean:
2160	$(MAKE) perl_clean
2161	$(MAKE) -C PERL_SCRIPTS/test clean
2162
2163	# ---------------------------------------- bindings to script languages
2164
2165	bindings: lib/libCORE.so lib/libARBDB.so
2166	$(MAKE) -C BINDINGS all ARBDEPENDS="$(^:%=../%)" DFLAGS="$(dflags)"
2167
2168	bindings_clean:
2169	$(MAKE) -C BINDINGS clean
2170
2171	# ----------------------------------------
2172
2173	CLOC=cloc-1.08.pl
2174	CLOCFLAGS=--no3 --quiet --progress-rate=0
2175	CLOCARB=--exclude-dir=GDE .
2176	CLOCEXT=GDE
2177	CLOCCODE=--read-lang-def=$(ARBHOME)/SOURCE_TOOLS/arb.cloc.code.def
2178	CLOCREST=--read-lang-def=$(ARBHOME)/SOURCE_TOOLS/arb.cloc.rest.def
2179	CLOCFILT=tail --lines=+4
2180
2181	cloc:
2182	@echo 'Arb code:'
2183	@$(CLOC) $(CLOCFLAGS) $(CLOCCODE) $(CLOCARB) \| $(CLOCFILT)
2184	@echo 'Arb rest:'
2185	@$(CLOC) $(CLOCFLAGS) $(CLOCREST) $(CLOCARB) \| $(CLOCFILT)
2186	@echo 'External code:'
2187	@$(CLOC) $(CLOCFLAGS) $(CLOCCODE) $(CLOCEXT) \| $(CLOCFILT)
2188	@echo 'External rest:'
2189	@$(CLOC) $(CLOCFLAGS) $(CLOCREST) $(CLOCEXT) \| $(CLOCFILT)
2190
2191	# ---------------------------------------- check resources
2192
2193	check_res:
2194	$(ARBHOME)/SOURCE_TOOLS/check_resources.pl
2195
2196	# ---------------------------------------- cleaning
2197
2198	rmbak:
2199	@echo "[cleanup backup/core files]"
2200	@find . \( -name '*%' \
2201	-o -name '*.bak' \
2202	-o -name '*~' \) \
2203	-o \( -name 'core' -a \! -type d \) \
2204	-exec rm -v {} \; \|\| \
2205	echo "Warning: target 'rmbak' reported problems when removing misc. backup files (ignored)"
2206	@echo "[cleanup done]"
2207
2208	bin_reinit:
2209	$(MAKE) bin/bin.clean
2210	$(MAKE) -C "bin" all
2211
2212	clean_directories:
2213	-rm -rf \
2214	$(ARBHOME)/PROBE_SET/bin \
2215	$(ARBHOME)/INCLUDE \
2216
2217	libclean:
2218	-find $(ARBHOME) -type f \( -name '*.a' ! -type l \) -exec rm -f {} \;
2219
2220	objclean:
2221	-find $(ARBHOME) -type f \( -name '*.o' ! -type l \) -exec rm -f {} \;
2222
2223	# bin.clean and HELP_SOURCE.clean interfere
2224	clean3:
2225	$(MAKE) bin/bin.clean
2226	$(MAKE) HELP_SOURCE/HELP_SOURCE.clean
2227
2228	clean2: $(ARCHS:.a=.clean) \
2229	clean3 \
2230	rmbak \
2231	libclean \
2232	objclean \
2233	lib/lib.clean \
2234	GDEHELP/GDEHELP.clean \
2235	HEADERLIBS/HEADERLIBS.clean \
2236	SOURCE_TOOLS/SOURCE_TOOLS.clean \
2237	SOURCE_TOOLS/COMPILE_COMPAT/COMPILE_COMPAT.clean \
2238	UNIT_TESTER/UNIT_TESTER.clean \
2239	TEMPLATES/TEMPLATES.clean \
2240	perl_clean \
2241	clean_directories \
2242
2243	rm -f .last_gcc .last_compiler config.makefile.bak
2244
2245	# links are needed for cleanup
2246	clean: redo_links motif_xpm_hack_clean
2247	$(MAKE) clean2
2248	$(MAKE) clean_cov_all clean_links
2249
2250	silent_clean:
2251	$(MAKE) clean >/dev/null
2252
2253	# 'relocated' is about 50% faster than 'rebuild'
2254	reloc_clean: links
2255	@echo "---------------------------------------- Relocation cleanup"
2256	$(MAKE) \
2257	perl_clean \
2258	GDEHELP/GDEHELP.clean \
2259	HELP_SOURCE/genhelp/genhelp.clean \
2260	bin/bin.clean \
2261	libclean \
2262	objclean
2263
2264	relocated: links
2265	$(MAKE) reloc_clean
2266	@echo "---------------------------------------- and remake"
2267	$(MAKE) build
2268
2269	# -----------------------------------
2270	# some stress tests
2271	# (helpful to reveal race conditions with -j)
2272
2273	rebuild4ever: rebuild
2274	$(MAKE) rebuild4ever
2275
2276	build4ever: build
2277	$(MAKE) build4ever
2278
2279	clean4ever: clean
2280	$(MAKE) clean4ever
2281
2282	test4ever: ut
2283	$(MAKE) test4ever
2284
2285	perl4ever: clean
2286	$(MAKE) links
2287	$(MAKE) perl
2288	$(MAKE) perl4ever
2289
2290	help4ever: clean
2291	$(MAKE) help
2292	$(MAKE) help4ever
2293
2294	# -----------------------------------
2295
2296	rebuild: clean
2297	$(MAKE) all
2298
2299	cleanlinked: bin/bin.clean libclean
2300
2301	relink: cleanlinked
2302	$(MAKE) all
2303
2304	tarfile: rebuild
2305	$(MAKE) prepare_libdir
2306	util/arb_compress
2307
2308	tarfile_quick: build
2309	$(MAKE) prepare_libdir
2310	util/arb_compress
2311
2312	save: sourcetarfile
2313
2314	patch:
2315	SOURCE_TOOLS/arb_create_patch.sh arbPatch
2316
2317	# test early whether save will work
2318	savetest:
2319	@util/arb_srclst.pl >/dev/null
2320
2321	testsave: savetest
2322
2323	sourcetarfile: rmbak
2324	util/arb_save
2325
2326	save2: rmbak
2327	util/arb_save ignore
2328
2329	save_test: rmbak
2330	@echo "Testing source list.."
2331	@util/arb_srclst.pl > /dev/null
2332
2333	save_test_no_error:
2334	@-$(MAKE) save_test
2335
2336	inc_candi:
2337	touch SOURCE_TOOLS/inc_candi.stamp
2338	$(MAKE) do_version_update
2339
2340	inc_patch:
2341	touch SOURCE_TOOLS/inc_patch.stamp
2342	$(MAKE) do_version_update
2343
2344	inc_minor:
2345	touch SOURCE_TOOLS/inc_minor.stamp
2346	$(MAKE) do_version_update
2347
2348	inc_major:
2349	touch SOURCE_TOOLS/inc_major.stamp
2350	$(MAKE) do_version_update
2351
2352	do_version_update:
2353	@echo Incrementing version information
2354	$(MAKE) savetest
2355	$(MAKE) genheaders # auto upgrades version early
2356
2357	show_version:
2358	$(MAKE) genheaders # updates version info
2359	@echo "$(SEP) ARB version info"
2360	@grep ARB_VERSION TEMPLATES/arb_build.h
2361	@echo "$(SEP)"
2362
2363	release_quick:
2364	-rm arb.tgz arbsrc.tgz
2365	$(MAKE) tarfile_quick
2366	$(MAKE) sourcetarfile
2367
2368	# --------------------------------------------------------------------------------
2369	# special cleanups
2370
2371	clean_opengl_changed: RNA3D/RNA3D.clean EDIT4/EDIT4.clean WINDOW/WINDOW.clean GL/GL.clean
2372
2373	# --------------------------------------------------------------------------------
2374
2375	MAKE_IF_COMMITTED=$(MAKE) -C SOURCE_TOOLS -f Makefile.commitbuild
2376
2377	build_CTARGET:
2378	+$(MAKE_IF_COMMITTED) "CTARGET=$(CTARGET)" build_CTARGET
2379
2380	reset_committed_build:
2381	+$(MAKE_IF_COMMITTED) reset
2382
2383	# --------------------------------------------------------------------------------
2384
2385	arbapplications: nt pa e4 wetc pt na nal di ph ds wetc cma
2386
2387	arb_external: convert tools gde readseq tg pst xmlin
2388
2389	arb_no_perl: arbapplications help arb_external
2390
2391	arb: motif_xpm_hack
2392	$(MAKE) "WITHPERL=1" perl arb_no_perl
2393
2394	motif_xpm_hack:
2395	$(MAKE) -r -C "lib/motifHack" all
2396
2397	motif_xpm_hack_clean:
2398	$(MAKE) -r -C "lib/motifHack" clean
2399
2400	# --------------------------------------------------------------------------------
2401	# special targets for SOURCE_TOOLS/remake_after_change.pl
2402
2403	rac_arb_dist: di
2404	rac_arb_edit4: e4
2405	rac_arb_ntree: nt
2406	rac_arb_pars: pa
2407	rac_arb_phylo: ph
2408	rac_arb_wetc: wetc
2409	rac_arb_naligner: nal
2410	rac_arb_pt_server: pt
2411	rac_arb_db_server: ds
2412	rac_arb_name_server: na
2413	rac_arb_convert_aln: convert
2414	rac_arb_treegen: tg
2415	rac_arb_rnacma: cma
2416	rac_arb_help2xml: help
2417
2418	rac_arb_a2ps: tools
2419	rac_arb_consensus_tree: tools
2420	rac_arb_dnarates: tools
2421	rac_arb_export_rates: tools
2422	rac_arb_export_tree: tools
2423	rac_arb_gene_probe: tools
2424	rac_arb_message: tools
2425	rac_arb_primer: tools
2426	rac_arb_probe: tools
2427	rac_arb_read_tree: tools
2428
2429	# --------------------------------------------------------------------------------
2430	# unit testing
2431	# @@@ work in progress
2432	#
2433	# goal is to automatically test all libraries/executables using TESTED_UNITS_AUTO
2434	#
2435	# currently not all test executables link w/o error
2436	# (see UNITS_WORKING, UNITS_UNTESTABLE_ATM and UNITS_NEED_FIX)
2437
2438	# define RNA3D/RNA3D.test
2439	RNA3D_TEST := $(subst .a,.test,$(RNA3D_LIB))
2440
2441	TESTED_UNITS_AUTO = $(ARCHS:.a=.test)
2442
2443	UNITS_WORKING = \
2444	$(RNA3D_TEST) \
2445	EISPACK/EISPACK.test \
2446	GENOM/GENOM.test \
2447	GL/glAW/libglAW.test \
2448	GL/glpng/libglpng_arb.test \
2449	ISLAND_HOPPING/ISLAND_HOPPING.test \
2450	NALIGNER/NALIGNER.test \
2451	NAMES/NAMES.test \
2452	PHYLO/PHYLO.test \
2453	PRIMER_DESIGN/PRIMER_DESIGN.test \
2454	PROBE_DESIGN/PROBE_DESIGN.test \
2455	SECEDIT/SECEDIT.test \
2456	SEQ_QUALITY/SEQ_QUALITY.test \
2457	SERVERCNTRL/SERVERCNTRL.test \
2458	SL/ALIVIEW/ALIVIEW.test \
2459	SL/AP_TREE/AP_TREE.test \
2460	SL/ARB_TREE/ARB_TREE.test \
2461	SL/AW_HELIX/AW_HELIX.test \
2462	SL/AW_NAME/AW_NAME.test \
2463	SL/DB_SCANNER/DB_SCANNER.test \
2464	SL/GUI_ALIVIEW/GUI_ALIVIEW.test \
2465	SL/HELIX/HELIX.test \
2466	SL/LOCATION/LOCATION.test \
2467	SL/MATRIX/MATRIX.test \
2468	SL/QUERY/QUERY.test \
2469	SL/REFENTRIES/REFENTRIES.test \
2470	SL/SEQUENCE/SEQUENCE.test \
2471	SL/TRANSLATE/TRANSLATE.test \
2472	SL/TREE_ADMIN/TREE_ADMIN.test \
2473	SL/TREE_WRITE/TREE_WRITE.test \
2474	STAT/STAT.test \
2475	TREEGEN/TREEGEN.test \
2476	WETC/WETC.test \
2477	XML/XML.test \
2478
2479	# untestable units
2480
2481	UNITS_NEED_FIX = \
2482	ptpan/PROBE.test \
2483
2484	UNITS_UNTESTABLE_ATM = \
2485	XML_IMPORT/XML_IMPORT.test \
2486
2487	# for the moment, put all units containing tests into the following 4 sections (see also TESTED_UNITS below)
2488
2489	# recent development
2490	UNITS_TESTED_FIRST = \
2491	SL/PVP/PVP.test \
2492	AWTI/AWTI.test \
2493	SL/FILTSEQEXP/FILTSEQEXP.test \
2494	SL/GROUP_SEARCH/GROUP_SEARCH.test \
2495
2496	# start units with long duration early
2497	UNITS_RUNNING_LONG = \
2498	ARBDB/libARBDB.test \
2499	AWTC/AWTC.test \
2500	TOOLS/arb_test.test \
2501
2502	# plain test-libaries that are not linked anywhere
2503	TEST_SANDBOXES = \
2504	SL/CB/CB.test \
2505
2506	UNITS_TESTED = \
2507	AISC_MKPTPS/mkptypes.test \
2508	ARB_GDE/ARB_GDE.test \
2509	AWT/libAWT.test \
2510	CONSENSUS_TREE/CONSENSUS_TREE.test \
2511	CONVERTALN/CONVERTALN.test \
2512	CORE/libCORE.test \
2513	DBSERVER/DBSERVER.test \
2514	DIST/DIST.test \
2515	EDIT4/EDIT4.test \
2516	GENOM_IMPORT/GENOM_IMPORT.test \
2517	HELP_SOURCE/arb_help2xml.test \
2518	MERGE/MERGE.test \
2519	MULTI_PROBE/MULTI_PROBE.test \
2520	NTREE/NTREE.test \
2521	PARSIMONY/PARSIMONY.test \
2522	PERLTOOLS/arb_proto_2_xsub.test \
2523	PROBE/PROBE.test \
2524	PROBE_SET/fb_test.test \
2525	SERVERCNTRL/SERVERCNTRL.test \
2526	SL/ALILINK/ALILINK.test \
2527	SL/CONSENSUS/CONSENSUS.test \
2528	SL/DB_QUERY/DB_QUERY.test \
2529	SL/FAST_ALIGNER/FAST_ALIGNER.test \
2530	SL/FILTER/FILTER.test \
2531	SL/INSDEL/INSDEL.test \
2532	SL/ITEM_SHADER/ITEM_SHADER.test \
2533	SL/ITEMS/ITEMS.test \
2534	SL/MACROS/MACROS.test \
2535	SL/NDS/NDS.test \
2536	SL/NEIGHBOURJOIN/NEIGHBOURJOIN.test \
2537	SL/PRONUC/PRONUC.test \
2538	SL/PTCLEAN/PTCLEAN.test \
2539	SL/REGEXPR/REGEXPR.test \
2540	SL/SEQIO/SEQIO.test \
2541	SL/TREE_READ/TREE_READ.test \
2542	SL/TREEDISP/TREEDISP.test \
2543	TOOLS/arb_consensus_tree.test \
2544	TOOLS/arb_probe.test \
2545	WINDOW/libWINDOW.test \
2546
2547	TESTED_UNITS = \
2548	$(UNITS_TESTED_FIRST) \
2549	$(UNITS_RUNNING_LONG) \
2550	$(TEST_SANDBOXES) \
2551	$(UNITS_TESTED) \
2552
2553	# see UNIT_TESTER/sym2testcode.pl@disableErrorOnUnitsWithoutTests
2554
2555	# ----------------------------------------
2556
2557	TEST_LOG_DIR = UNIT_TESTER/logs
2558	TEST_RUN_SUITE=$(MAKE) $(NODIR) -C UNIT_TESTER -f Makefile.suite -r
2559	TEST_MAKE_FLAGS=
2560	TEST_POST_CLEAN=
2561	ifeq ($(COVERAGE),1)
2562	TEST_POST_CLEAN=$(MAKE) clean_cov
2563	TEST_MAKE_FLAGS+=-j1
2564	endif
2565
2566
2567	%.test:
2568	-@( export ID=$$$$; mkdir -p $(TEST_LOG_DIR); \
2569	( \
2570	echo "fake[1]: Entering directory \`$(ARBHOME)/UNIT_TESTER'"; \
2571	$(MAKE) -C UNIT_TESTER -f Makefile.test -r \
2572	"UNITDIR=$(@D)" \
2573	"UNITLIBNAME=$(@F:.test=)" \
2574	"COVERAGE=$(COVERAGE)" \
2575	"ARB_PID=$(ARB_PID)_$(@F)" \
2576	runtest; \
2577	echo "fake[1]: Leaving directory \`$(ARBHOME)/UNIT_TESTER'"; \
2578	$(TEST_POST_CLEAN) \
2579	) >$(TEST_LOG_DIR)/$(@F).log 2>&1; \
2580	UNIT_TESTER/log_result.pl $(TEST_LOG_DIR)/$(@F).log )
2581
2582
2583	test_base: $(UNIT_TESTER_LIB:.a=.dummy) $(subst .test,.dummy,$(TEST_SANDBOXES))
2584
2585	clean_cov:
2586	find . \( -name ".gcda" -o -name ".gcov" -o -name "*.cov" \) -exec rm {} \;
2587
2588	clean_cov_all: clean_cov
2589	find . \( -name "*.gcno" \) -exec rm {} \;
2590
2591	run_tests: test_base clean_cov
2592	$(MAKE) "ARB_PID=UT_$$$$" run_tests_faked_arbpid
2593
2594	cleanup_faked_arbpids:
2595	@rm ~/.arb_tmp/tmp/arb_pids_${USER}_${ARB_PID}_* \|\| true
2596
2597	cleanup_faked_arbpids_and_fail: cleanup_faked_arbpids
2598	@false
2599
2600	run_tests_faked_arbpid:
2601	+@$(TEST_RUN_SUITE) init
2602	@echo "fake[2]: Entering directory \`$(ARBHOME)/UNIT_TESTER'"
2603	$(MAKE) $(TEST_MAKE_FLAGS) $(NODIR) $(TESTED_UNITS) \|\| $(MAKE) cleanup_faked_arbpids_and_fail
2604	@echo "fake[2]: Leaving directory \`$(ARBHOME)/UNIT_TESTER'"
2605	+@$(TEST_RUN_SUITE) cleanup \|\| $(MAKE) cleanup_faked_arbpids_and_fail
2606	@$(MAKE) clean_cov >/dev/null
2607	@$(MAKE) cleanup_faked_arbpids
2608
2609	ut:
2610	ifeq ($(UNIT_TESTS),1)
2611	@echo $(MAKE) run_tests
2612	@$(MAKE) run_tests
2613	else
2614	@echo "Not compiled with unit tests"
2615	endif
2616
2617
2618	aut:
2619	+@$(TEST_RUN_SUITE) unskip
2620	$(MAKE) ut
2621
2622	# --------------------------------------------------------------------------------
2623
2624	TIMELOG=$(ARBHOME)/arb_time.log
2625	TIMEARGS=--append --output=$(TIMELOG) --format=" %E(%S+%U) %P [%C]"
2626	TIMECMD=$(TIME) $(TIMEARGS)
2627
2628	time_one:
2629	ifeq ($(ONE_TIMED_TARGET),)
2630	@echo "Error: You have to pass ONE_TIMED_TARGET to $@"
2631	false
2632	else
2633	@echo "$(SEP) $(MAKE) $(ONE_TIMED_TARGET)"
2634	@$(TIMECMD) $(MAKE) $(ONE_TIMED_TARGET)
2635	@echo "$(SEP) $(MAKE) $(ONE_TIMED_TARGET) [done]"
2636	endif
2637
2638	timed_target:
2639	ifeq ($(TIMED_TARGET),)
2640	@echo "Error: You have to pass TIMED_TARGET to $@"
2641	false
2642	else
2643	@echo "Build time:" > $(TIMELOG)
2644	$(MAKE) "ONE_TIMED_TARGET=$(TIMED_TARGET)" time_one
2645	@cat $(TIMELOG)
2646	@rm $(TIMELOG)
2647	endif
2648
2649	timed_target_tested:
2650	ifeq ($(TIMED_TARGET),)
2651	@echo "Error: You have to pass TIMED_TARGET to $@"
2652	false
2653	else
2654	@echo "Build time:" > $(TIMELOG)
2655	$(MAKE) "ONE_TIMED_TARGET=$(TIMED_TARGET)" time_one
2656	$(MAKE) "ONE_TIMED_TARGET=ut" time_one
2657	@cat $(TIMELOG)
2658	@rm $(TIMELOG)
2659	endif
2660
2661	clean_timed_target:
2662	ifeq ($(TIMED_TARGET),)
2663	@echo "Error: You have to pass TIMED_TARGET to $@"
2664	false
2665	else
2666	@echo "Build time:" > $(TIMELOG)
2667	$(MAKE) "ONE_TIMED_TARGET=clean" time_one
2668	$(MAKE) "ONE_TIMED_TARGET=$(TIMED_TARGET)" time_one
2669	@cat $(TIMELOG)
2670	@rm $(TIMELOG)
2671	endif
2672
2673	# --------------------------------------------------------------------------------
2674
2675	CHECKOUT_MODIFIED=0# set to 1 to temporarily skip test for modifications (do not check in if set to 1)
2676
2677	check_svn_does_not_contain_generated:
2678	ifeq ($(CHECKOUT_MODIFIED),0)
2679	@echo "Testing that build does not modify files in SVN"
2680	@test 0 = `svn status \| wc -l` \|\| ( \
2681	echo "The checkout is not/no longer clean:"; \
2682	svn status; \
2683	echo "- if this fails instantly, your checkout is not clean"; \
2684	echo "- if this fails after other targets, these targets modify checked in data"; \
2685	echo " (a common cause may be that depends are not up to date)"; \
2686	false)
2687	else
2688	grep -Hn 'CHECKOUT_MODIFIED' Makefile
2689	endif
2690
2691	check_svn_ignores_generated:
2692	@test 0 = `svn status \| grep '^\?' \| wc -l` \|\| ( \
2693	echo "There are svn-unignored files:"; \
2694	svn status \| grep '^\?'; \
2695	echo "(all generated files should be svn-ignored)"; \
2696	false)
2697
2698	check_svn_state: check_svn_does_not_contain_generated
2699	$(MAKE) check_svn_ignores_generated
2700	$(MAKE) savetest
2701
2702	things_that_always_should_work: depends proto
2703
2704	post_commit_check:
2705	@echo "---------------------------------------- [Initial]"
2706	$(MAKE) check_svn_state
2707
2708	$(MAKE) clean
2709	@echo "---------------------------------------- [After 'make clean']"
2710	$(MAKE) check_svn_state
2711
2712	$(MAKE) things_that_always_should_work
2713	@echo "---------------------------------------- [After 'make things_that_always_should_work']"
2714	$(MAKE) check_svn_state
2715
2716	$(MAKE) all
2717	@echo "---------------------------------------- [After 'make all']"
2718	$(MAKE) check_svn_state
2719
2720	$(MAKE) things_that_always_should_work
2721	@echo "---------------------------------------- [Final]"
2722	$(MAKE) check_svn_state
2723
2724	# --------------------------------------------------------------------------------
2725	# sanitize arb_ntree; also works for clients (arb_edit4, ...) started from there.
2726
2727	sanitize: all
2728	( \
2729	export "LSAN_OPTIONS=max_leaks=30:suppressions=$(ARBHOME)/SOURCE_TOOLS/arb.leaksan.supp"; \
2730	echo "sake[1]: Entering directory \`$(ARBHOME)'"; \
2731	$(ARBHOME)/bin/arb_ntree --execute _logged ~/data/test.arb 2>&1 ; \
2732	echo "sake[1]: Leaving directory \`$(ARBHOME)'" \
2733	) \| $(ARBHOME)/SOURCE_TOOLS/asan2msg.pl
2734
2735	# --------------------------------------------------------------------------------
2736	# build and test one unit:
2737
2738	make_oneunit:
2739	$(MAKE) "WITHPERL=1" $(UNIT).dummy
2740
2741	oneunit:
2742	ifndef UNIT
2743	@echo "Please define UNIT, e.g. using"
2744	@echo " make \"UNIT=ARBDB/libARBDB\" oneunit"
2745	@echo " make \"UNIT=SL/TREEDISP/TREEDISP\" oneunit"
2746	@echo "(Note: 1st is a shared library, 2nd isn't)"
2747	false
2748	else
2749	@echo "Build time" > $(TIMELOG)
2750	@echo "$(SEP) $(MAKE) make_oneunit"
2751	@$(TIMECMD) $(MAKE) make_oneunit
2752	ifeq ($(UNIT_TESTS),1)
2753	@echo $(MAKE) run_tests
2754	@$(TIMECMD) $(MAKE) run_tests
2755	endif
2756	@cat $(TIMELOG)
2757	@rm $(TIMELOG)
2758	endif
2759
2760	# --------------------------------------------------------------------------------
2761
2762	build: arb
2763	$(MAKE) check_bin_dep preplib compile_compatibility
2764
2765	all:
2766	@echo "Build time" > $(TIMELOG)
2767	# $(MAKE) clean_checked_vect # uncomment to rebuild sources where expected vectorization gets tested
2768	@echo "$(SEP) $(MAKE) build"
2769	@$(TIMECMD) $(MAKE) build
2770	@echo $(SEP)
2771	@echo "made 'all' with success."
2772	@echo "to start arb enter 'arb'"
2773	ifeq ($(UNIT_TESTS),1)
2774	@echo $(MAKE) run_tests
2775	@$(TIMECMD) $(MAKE) run_tests
2776	endif
2777	@echo "$(SEP) $(MAKE) build [done]"
2778	ifeq ($(DEBUG),1)
2779	@$(MAKE) save_test_no_error >/dev/null # just show hints
2780	endif
2781	@cat $(TIMELOG)
2782	@rm $(TIMELOG)
2783

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