Ticket #44550: main.log

File main.log, 53.7 KB (added by ryandesign (Ryan Carsten Schmidt), 10 years ago)
Line 
1version:1
2:msg:main --->  Computing dependencies for crystfel:msg:main
3:debug:main crystfel has no conflicts
4:debug:main Searching for dependency: pkgconfig
5:debug:main Found Dependency: receipt exists for pkgconfig
6:debug:main Searching for dependency: gtk-doc
7:debug:main Found Dependency: receipt exists for gtk-doc
8:debug:main Searching for dependency: gsl
9:debug:main Found Dependency: receipt exists for gsl
10:debug:main Searching for dependency: fftw-3
11:debug:main Found Dependency: receipt exists for fftw-3
12:debug:main Searching for dependency: gdk-pixbuf2
13:debug:main Found Dependency: receipt exists for gdk-pixbuf2
14:debug:main Searching for dependency: gtk2
15:debug:main Found Dependency: receipt exists for gtk2
16:debug:main Searching for dependency: hdf5-18
17:debug:main Found Dependency: receipt exists for hdf5-18
18:debug:main Searching for dependency: pango
19:debug:main Found Dependency: receipt exists for pango
20:debug:main Executing org.macports.main (crystfel)
21:debug:main changing euid/egid - current euid: 0 - current egid: 0
22:debug:main egid changed to: 501
23:debug:main euid changed to: 501
24:debug:archivefetch archivefetch phase started at Tue Aug  5 18:56:37 CDT 2014
25:debug:archivefetch Executing org.macports.archivefetch (crystfel)
26:debug:archivefetch Privilege de-escalation not attempted as not running as root.
27:debug:fetch fetch phase started at Tue Aug  5 18:56:38 CDT 2014
28:notice:fetch --->  Fetching distfiles for crystfel
29:debug:fetch Executing org.macports.fetch (crystfel)
30:debug:fetch Privilege de-escalation not attempted as not running as root.
31:debug:checksum checksum phase started at Tue Aug  5 18:56:38 CDT 2014
32:notice:checksum --->  Verifying checksums for crystfel
33:debug:checksum Executing org.macports.checksum (crystfel)
34:info:checksum --->  Checksumming crystfel-0.5.3a.tar.gz
35:debug:checksum Calculated (rmd160) is ab493b0b369b5a712e40a7936509f4e3f572490e
36:debug:checksum Correct (rmd160) checksum for crystfel-0.5.3a.tar.gz
37:debug:checksum Calculated (sha256) is d9cfacf9df4abc20158efe5d6b855896170cd155b2857ccb61ef3140093b4d60
38:debug:checksum Correct (sha256) checksum for crystfel-0.5.3a.tar.gz
39:debug:checksum Privilege de-escalation not attempted as not running as root.
40:debug:extract extract phase started at Tue Aug  5 18:56:38 CDT 2014
41:notice:extract --->  Extracting crystfel
42:debug:extract Executing org.macports.extract (crystfel)
43:info:extract --->  Extracting crystfel-0.5.3a.tar.gz
44:debug:extract setting option extract.args to '/Volumes/Data/macports/distfiles/crystfel/crystfel-0.5.3a.tar.gz'
45:debug:extract Environment:
46CC_PRINT_OPTIONS='YES'
47CC_PRINT_OPTIONS_FILE='/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/.CC_PRINT_OPTIONS'
48CPATH='/Volumes/Data/macports/lion/include'
49LIBRARY_PATH='/Volumes/Data/macports/lion/lib'
50MACOSX_DEPLOYMENT_TARGET='10.7'
51:debug:extract Assembled command: 'cd "/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work" && /usr/bin/gzip -dc '/Volumes/Data/macports/distfiles/crystfel/crystfel-0.5.3a.tar.gz' | /usr/bin/gnutar --no-same-owner -xf -'
52:debug:extract Executing command line:  cd "/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work" && /usr/bin/gzip -dc '/Volumes/Data/macports/distfiles/crystfel/crystfel-0.5.3a.tar.gz' | /usr/bin/gnutar --no-same-owner -xf -
53:debug:extract euid/egid changed to: 0/0
54:debug:extract chowned /Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work to macports
55:debug:extract euid/egid changed to: 501/501
56:debug:extract Privilege de-escalation not attempted as not running as root.
57:debug:patch patch phase started at Tue Aug  5 18:56:38 CDT 2014
58:debug:patch Executing org.macports.patch (crystfel)
59:debug:patch Privilege de-escalation not attempted as not running as root.
60:debug:configure configure phase started at Tue Aug  5 18:56:38 CDT 2014
61:notice:configure --->  Configuring crystfel
62:debug:configure Using compiler 'Xcode Clang'
63:debug:configure Executing org.macports.configure (crystfel)
64:debug:configure Environment:
65CC='/usr/bin/clang'
66CC_PRINT_OPTIONS='YES'
67CC_PRINT_OPTIONS_FILE='/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/.CC_PRINT_OPTIONS'
68CFLAGS='-pipe -Os -arch x86_64'
69CPATH='/Volumes/Data/macports/lion/include'
70CPPFLAGS='-I/Volumes/Data/macports/lion/include'
71CXX='/usr/bin/clang++'
72CXXFLAGS='-pipe -Os -arch x86_64 -stdlib=libstdc++'
73F77FLAGS='-m64'
74F90FLAGS='-pipe -Os -m64'
75FCFLAGS='-pipe -Os -m64'
76FFLAGS='-pipe -Os'
77INSTALL='/usr/bin/install -c'
78LDFLAGS='-L/Volumes/Data/macports/lion/lib -Wl,-headerpad_max_install_names -arch x86_64'
79LIBRARY_PATH='/Volumes/Data/macports/lion/lib'
80MACOSX_DEPLOYMENT_TARGET='10.7'
81OBJC='/usr/bin/clang'
82OBJCFLAGS='-pipe -Os -arch x86_64'
83OBJCXX='/usr/bin/clang++'
84OBJCXXFLAGS='-pipe -Os -arch x86_64 -stdlib=libstdc++'
85:debug:configure Assembled command: 'cd "/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a" && ./configure --prefix=/Volumes/Data/macports/lion --disable-silent-rules'
86:debug:configure Executing command line:  cd "/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a" && ./configure --prefix=/Volumes/Data/macports/lion --disable-silent-rules
87:info:configure checking for a BSD-compatible install... /usr/bin/install -c
88:info:configure checking whether build environment is sane... yes
89:info:configure checking for a thread-safe mkdir -p... /Volumes/Data/macports/lion/bin/gmkdir -p
90:info:configure checking for gawk... gawk
91:info:configure checking whether make sets $(MAKE)... yes
92:info:configure checking for gcc... /usr/bin/clang
93:info:configure checking whether the C compiler works... yes
94:info:configure checking for C compiler default output file name... a.out
95:info:configure checking for suffix of executables...
96:info:configure checking whether we are cross compiling... no
97:info:configure checking for suffix of object files... o
98:info:configure checking whether we are using the GNU C compiler... yes
99:info:configure checking whether /usr/bin/clang accepts -g... yes
100:info:configure checking for /usr/bin/clang option to accept ISO C89... none needed
101:info:configure checking for style of include used by make... GNU
102:info:configure checking dependency style of /usr/bin/clang... gcc3
103:info:configure checking how to run the C preprocessor... /usr/bin/clang -E
104:info:configure checking for grep that handles long lines and -e... /usr/bin/grep
105:info:configure checking for egrep... /usr/bin/grep -E
106:info:configure checking for Minix Amsterdam compiler... no
107:info:configure checking for ar... ar
108:info:configure checking for ranlib... ranlib
109:info:configure checking build system type... x86_64-apple-darwin11.4.2
110:info:configure checking host system type... x86_64-apple-darwin11.4.2
111:info:configure checking for ANSI C header files... yes
112:info:configure checking for sys/types.h... yes
113:info:configure checking for sys/stat.h... yes
114:info:configure checking for stdlib.h... yes
115:info:configure checking for string.h... yes
116:info:configure checking for memory.h... yes
117:info:configure checking for strings.h... yes
118:info:configure checking for inttypes.h... yes
119:info:configure checking for stdint.h... yes
120:info:configure checking for unistd.h... yes
121:info:configure checking minix/config.h usability... no
122:info:configure checking minix/config.h presence... no
123:info:configure checking for minix/config.h... no
124:info:configure checking whether it is safe to define __EXTENSIONS__... yes
125:info:configure checking whether /usr/bin/clang and cc understand -c and -o together... yes
126:info:configure checking for gawk... (cached) gawk
127:info:configure checking whether ln -s works... yes
128:info:configure checking how to print strings... printf
129:info:configure checking for a sed that does not truncate output... /Volumes/Data/macports/lion/bin/gsed
130:info:configure checking for fgrep... /usr/bin/grep -F
131:info:configure checking for ld used by /usr/bin/clang... /usr/bin/ld
132:info:configure checking if the linker (/usr/bin/ld) is GNU ld... no
133:info:configure checking for BSD- or MS-compatible name lister (nm)... /Volumes/Data/macports/lion/bin/nm
134:info:configure checking the name lister (/Volumes/Data/macports/lion/bin/nm) interface... BSD nm
135:info:configure checking the maximum length of command line arguments... 196608
136:info:configure checking whether the shell understands some XSI constructs... yes
137:info:configure checking whether the shell understands "+="... yes
138:info:configure checking how to convert x86_64-apple-darwin11.4.2 file names to x86_64-apple-darwin11.4.2 format... func_convert_file_noop
139:info:configure checking how to convert x86_64-apple-darwin11.4.2 file names to toolchain format... func_convert_file_noop
140:info:configure checking for /usr/bin/ld option to reload object files... -r
141:info:configure checking for objdump... no
142:info:configure checking how to recognize dependent libraries... pass_all
143:info:configure checking for dlltool... no
144:info:configure checking how to associate runtime and link libraries... printf %s\n
145:info:configure checking for archiver @FILE support... no
146:info:configure checking for strip... strip
147:info:configure checking for ranlib... (cached) ranlib
148:info:configure checking command to parse /Volumes/Data/macports/lion/bin/nm output from /usr/bin/clang object... ok
149:info:configure checking for sysroot... no
150:info:configure checking for mt... no
151:info:configure checking if : is a manifest tool... no
152:info:configure checking for dsymutil... dsymutil
153:info:configure checking for nmedit... nmedit
154:info:configure checking for lipo... lipo
155:info:configure checking for otool... otool
156:info:configure checking for otool64... no
157:info:configure checking for -single_module linker flag... yes
158:info:configure checking for -exported_symbols_list linker flag... yes
159:info:configure checking for -force_load linker flag... yes
160:info:configure checking for dlfcn.h... yes
161:info:configure checking for objdir... .libs
162:info:configure checking if /usr/bin/clang supports -fno-rtti -fno-exceptions... yes
163:info:configure checking for /usr/bin/clang option to produce PIC... -fno-common -DPIC
164:info:configure checking if /usr/bin/clang PIC flag -fno-common -DPIC works... yes
165:info:configure checking if /usr/bin/clang static flag -static works... no
166:info:configure checking if /usr/bin/clang supports -c -o file.o... yes
167:info:configure checking if /usr/bin/clang supports -c -o file.o... (cached) yes
168:info:configure checking whether the /usr/bin/clang linker (/usr/bin/ld) supports shared libraries... yes
169:info:configure checking dynamic linker characteristics... darwin11.4.2 dyld
170:info:configure checking how to hardcode library paths into programs... immediate
171:info:configure checking whether stripping libraries is possible... yes
172:info:configure checking if libtool supports shared libraries... yes
173:info:configure checking whether to build shared libraries... yes
174:info:configure checking whether to build static libraries... yes
175:info:configure checking whether make supports nested variables... yes
176:info:configure checking for ANSI C header files... (cached) yes
177:info:configure checking fcntl.h usability... yes
178:info:configure checking fcntl.h presence... yes
179:info:configure checking for fcntl.h... yes
180:info:configure checking for stdlib.h... (cached) yes
181:info:configure checking for unistd.h... (cached) yes
182:info:configure checking for an ANSI C-conforming const... yes
183:info:configure checking for stdlib.h... (cached) yes
184:info:configure checking for GNU libc compatible malloc... yes
185:info:configure checking for wchar_t... yes
186:info:configure checking whether the preprocessor supports include_next... yes
187:info:configure checking whether system header files limit the line length... no
188:info:configure checking for C/C++ restrict keyword... __restrict
189:info:configure checking whether ffsl is declared without a macro... yes
190:info:configure checking whether ffsll is declared without a macro... no
191:info:configure checking whether memmem is declared without a macro... yes
192:info:configure checking whether mempcpy is declared without a macro... no
193:info:configure checking whether memrchr is declared without a macro... no
194:info:configure checking whether rawmemchr is declared without a macro... no
195:info:configure checking whether stpcpy is declared without a macro... yes
196:info:configure checking whether stpncpy is declared without a macro... yes
197:info:configure checking whether strchrnul is declared without a macro... no
198:info:configure checking whether strdup is declared without a macro... yes
199:info:configure checking whether strncat is declared without a macro... yes
200:info:configure checking whether strndup is declared without a macro... yes
201:info:configure checking whether strnlen is declared without a macro... yes
202:info:configure checking whether strpbrk is declared without a macro... yes
203:info:configure checking whether strsep is declared without a macro... yes
204:info:configure checking whether strcasestr is declared without a macro... yes
205:info:configure checking whether strtok_r is declared without a macro... yes
206:info:configure checking whether strerror_r is declared without a macro... yes
207:info:configure checking whether strsignal is declared without a macro... yes
208:info:configure checking whether strverscmp is declared without a macro... no
209:info:configure checking whether strndup is declared... (cached) yes
210:info:configure checking for strndup... yes
211:info:configure checking whether strnlen is declared... (cached) yes
212:info:configure checking for C compiler flag to ignore unused libraries... none
213:info:configure checking whether NULL can be used in arbitrary expressions... yes
214:info:configure checking for working strndup... yes
215:info:configure checking for working strnlen... yes
216:info:configure checking for pkg-config... /Volumes/Data/macports/lion/bin/pkg-config
217:info:configure checking pkg-config is at least version 0.9.0... yes
218:info:configure checking for GSL... yes
219:info:configure checking whether to use OpenCL... no
220:info:configure checking whether to use GTK... yes
221:info:configure checking for pkg-config... /Volumes/Data/macports/lion/bin/pkg-config
222:info:configure checking for GTK+ - version >= 2.0.0... yes (version 2.24.24)
223:info:configure checking for forkpty... yes
224:info:configure checking whether to use PNG... yes
225:info:configure checking for libPNG... yes
226:info:configure checking whether to use TIFF... yes
227:info:configure checking for TIFFOpen in -ltiff... yes
228:info:configure checking whether to use Cairo... yes
229:info:configure checking for Cairo... yes
230:info:configure checking whether to use Pango... yes
231:info:configure checking for Pango... yes
232:info:configure checking for PangoCairo... yes
233:info:configure checking whether to use GDK-pixbuf... yes
234:info:configure checking for GDK_pixbuf_2... yes
235:info:configure checking for sched_setaffinity in -lpthread... no
236:info:configure checking for H5Fcreate in -lhdf5... yes
237:info:configure checking for clock_gettime in -lrt... no
238:info:configure configure: WARNING: Falling back on gettimeofday().
239:info:configure configure: WARNING: Time intervals may not be correct in certain circumstances.
240:info:configure checking for FFTW... yes
241:info:configure checking for NcursesW wide-character library... yes
242:info:configure checking for working ncursesw/curses.h... no
243:info:configure checking for working ncursesw.h... no
244:info:configure checking for working ncurses.h... yes
245:info:configure checking for C compiler flag to ignore unused libraries... (cached) none
246:info:configure checking for gtkdoc-check... /Volumes/Data/macports/lion/bin/gtkdoc-check
247:info:configure checking for gtkdoc-rebase... /Volumes/Data/macports/lion/bin/gtkdoc-rebase
248:info:configure checking for gtkdoc-mkpdf... /Volumes/Data/macports/lion/bin/gtkdoc-mkpdf
249:info:configure checking whether to build gtk-doc documentation... no
250:info:configure checking that generated files are newer than configure... done
251:info:configure configure: creating ./config.status
252:info:configure config.status: creating Makefile
253:info:configure config.status: creating lib/Makefile
254:info:configure config.status: creating doc/reference/libcrystfel/Makefile
255:info:configure config.status: creating libcrystfel/Makefile
256:info:configure config.status: creating libcrystfel/crystfel.pc
257:info:configure config.status: creating config.h
258:info:configure config.status: executing depfiles commands
259:info:configure config.status: executing libtool commands
260:debug:configure Privilege de-escalation not attempted as not running as root.
261:debug:build build phase started at Tue Aug  5 18:57:02 CDT 2014
262:notice:build --->  Building crystfel
263:debug:build Executing org.macports.build (crystfel)
264:debug:build Environment:
265CC_PRINT_OPTIONS='YES'
266CC_PRINT_OPTIONS_FILE='/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/.CC_PRINT_OPTIONS'
267CPATH='/Volumes/Data/macports/lion/include'
268LIBRARY_PATH='/Volumes/Data/macports/lion/lib'
269MACOSX_DEPLOYMENT_TARGET='10.7'
270:debug:build Assembled command: 'cd "/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a" && /usr/bin/make -w all'
271:debug:build Executing command line:  cd "/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a" && /usr/bin/make -w all
272:info:build make: Entering directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a'
273:info:build /usr/bin/make  all-recursive
274:info:build make[1]: Entering directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a'
275:info:build Making all in lib
276:info:build make[2]: Entering directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a/lib'
277:info:build rm -f arg-nonnull.h-t arg-nonnull.h && \
278:info:build     sed -n -e '/GL_ARG_NONNULL/,$p' \
279:info:build       < ../build-aux/snippet/arg-nonnull.h \
280:info:build       > arg-nonnull.h-t && \
281:info:build     mv arg-nonnull.h-t arg-nonnull.h
282:info:build rm -f c++defs.h-t c++defs.h && \
283:info:build     sed -n -e '/_GL_CXXDEFS/,$p' \
284:info:build       < ../build-aux/snippet/c++defs.h \
285:info:build       > c++defs.h-t && \
286:info:build     mv c++defs.h-t c++defs.h
287:info:build rm -f warn-on-use.h-t warn-on-use.h && \
288:info:build     sed -n -e '/^.ifndef/,$p' \
289:info:build       < ../build-aux/snippet/warn-on-use.h \
290:info:build       > warn-on-use.h-t && \
291:info:build     mv warn-on-use.h-t warn-on-use.h
292:info:build rm -f string.h-t string.h && \
293:info:build     { echo '/* DO NOT EDIT! GENERATED AUTOMATICALLY! */' && \
294:info:build       sed -e 's|@''GUARD_PREFIX''@|GL|g' \
295:info:build           -e 's|@''INCLUDE_NEXT''@|include_next|g' \
296:info:build           -e 's|@''PRAGMA_SYSTEM_HEADER''@|#pragma GCC system_header|g' \
297:info:build           -e 's|@''PRAGMA_COLUMNS''@||g' \
298:info:build           -e 's|@''NEXT_STRING_H''@|<string.h>|g' \
299:info:build           -e 's/@''GNULIB_FFSL''@/0/g' \
300:info:build           -e 's/@''GNULIB_FFSLL''@/0/g' \
301:info:build           -e 's/@''GNULIB_MBSLEN''@/0/g' \
302:info:build           -e 's/@''GNULIB_MBSNLEN''@/0/g' \
303:info:build           -e 's/@''GNULIB_MBSCHR''@/0/g' \
304:info:build           -e 's/@''GNULIB_MBSRCHR''@/0/g' \
305:info:build           -e 's/@''GNULIB_MBSSTR''@/0/g' \
306:info:build           -e 's/@''GNULIB_MBSCASECMP''@/0/g' \
307:info:build           -e 's/@''GNULIB_MBSNCASECMP''@/0/g' \
308:info:build           -e 's/@''GNULIB_MBSPCASECMP''@/0/g' \
309:info:build           -e 's/@''GNULIB_MBSCASESTR''@/0/g' \
310:info:build           -e 's/@''GNULIB_MBSCSPN''@/0/g' \
311:info:build           -e 's/@''GNULIB_MBSPBRK''@/0/g' \
312:info:build           -e 's/@''GNULIB_MBSSPN''@/0/g' \
313:info:build           -e 's/@''GNULIB_MBSSEP''@/0/g' \
314:info:build           -e 's/@''GNULIB_MBSTOK_R''@/0/g' \
315:info:build           -e 's/@''GNULIB_MEMCHR''@/0/g' \
316:info:build           -e 's/@''GNULIB_MEMMEM''@/0/g' \
317:info:build           -e 's/@''GNULIB_MEMPCPY''@/0/g' \
318:info:build           -e 's/@''GNULIB_MEMRCHR''@/0/g' \
319:info:build           -e 's/@''GNULIB_RAWMEMCHR''@/0/g' \
320:info:build           -e 's/@''GNULIB_STPCPY''@/0/g' \
321:info:build           -e 's/@''GNULIB_STPNCPY''@/0/g' \
322:info:build           -e 's/@''GNULIB_STRCHRNUL''@/0/g' \
323:info:build           -e 's/@''GNULIB_STRDUP''@/0/g' \
324:info:build           -e 's/@''GNULIB_STRNCAT''@/0/g' \
325:info:build           -e 's/@''GNULIB_STRNDUP''@/1/g' \
326:info:build           -e 's/@''GNULIB_STRNLEN''@/1/g' \
327:info:build           -e 's/@''GNULIB_STRPBRK''@/0/g' \
328:info:build           -e 's/@''GNULIB_STRSEP''@/0/g' \
329:info:build           -e 's/@''GNULIB_STRSTR''@/0/g' \
330:info:build           -e 's/@''GNULIB_STRCASESTR''@/0/g' \
331:info:build           -e 's/@''GNULIB_STRTOK_R''@/0/g' \
332:info:build           -e 's/@''GNULIB_STRERROR''@/0/g' \
333:info:build           -e 's/@''GNULIB_STRERROR_R''@/0/g' \
334:info:build           -e 's/@''GNULIB_STRSIGNAL''@/0/g' \
335:info:build           -e 's/@''GNULIB_STRVERSCMP''@/0/g' \
336:info:build           < ./string.in.h | \
337:info:build       sed -e 's|@''HAVE_FFSL''@|1|g' \
338:info:build           -e 's|@''HAVE_FFSLL''@|1|g' \
339:info:build           -e 's|@''HAVE_MBSLEN''@|0|g' \
340:info:build           -e 's|@''HAVE_MEMCHR''@|1|g' \
341:info:build           -e 's|@''HAVE_DECL_MEMMEM''@|1|g' \
342:info:build           -e 's|@''HAVE_MEMPCPY''@|1|g' \
343:info:build           -e 's|@''HAVE_DECL_MEMRCHR''@|1|g' \
344:info:build           -e 's|@''HAVE_RAWMEMCHR''@|1|g' \
345:info:build           -e 's|@''HAVE_STPCPY''@|1|g' \
346:info:build           -e 's|@''HAVE_STPNCPY''@|1|g' \
347:info:build           -e 's|@''HAVE_STRCHRNUL''@|1|g' \
348:info:build           -e 's|@''HAVE_DECL_STRDUP''@|1|g' \
349:info:build           -e 's|@''HAVE_DECL_STRNDUP''@|1|g' \
350:info:build           -e 's|@''HAVE_DECL_STRNLEN''@|1|g' \
351:info:build           -e 's|@''HAVE_STRPBRK''@|1|g' \
352:info:build           -e 's|@''HAVE_STRSEP''@|1|g' \
353:info:build           -e 's|@''HAVE_STRCASESTR''@|1|g' \
354:info:build           -e 's|@''HAVE_DECL_STRTOK_R''@|1|g' \
355:info:build           -e 's|@''HAVE_DECL_STRERROR_R''@|1|g' \
356:info:build           -e 's|@''HAVE_DECL_STRSIGNAL''@|1|g' \
357:info:build           -e 's|@''HAVE_STRVERSCMP''@|1|g' \
358:info:build           -e 's|@''REPLACE_STPNCPY''@|0|g' \
359:info:build           -e 's|@''REPLACE_MEMCHR''@|0|g' \
360:info:build           -e 's|@''REPLACE_MEMMEM''@|0|g' \
361:info:build           -e 's|@''REPLACE_STRCASESTR''@|0|g' \
362:info:build           -e 's|@''REPLACE_STRCHRNUL''@|0|g' \
363:info:build           -e 's|@''REPLACE_STRDUP''@|0|g' \
364:info:build           -e 's|@''REPLACE_STRSTR''@|0|g' \
365:info:build           -e 's|@''REPLACE_STRERROR''@|0|g' \
366:info:build           -e 's|@''REPLACE_STRERROR_R''@|0|g' \
367:info:build           -e 's|@''REPLACE_STRNCAT''@|0|g' \
368:info:build           -e 's|@''REPLACE_STRNDUP''@|0|g' \
369:info:build           -e 's|@''REPLACE_STRNLEN''@|0|g' \
370:info:build           -e 's|@''REPLACE_STRSIGNAL''@|0|g' \
371:info:build           -e 's|@''REPLACE_STRTOK_R''@|0|g' \
372:info:build           -e 's|@''UNDEFINE_STRTOK_R''@|0|g' \
373:info:build           -e '/definitions of _GL_FUNCDECL_RPL/r c++defs.h' \
374:info:build           -e '/definition of _GL_ARG_NONNULL/r arg-nonnull.h' \
375:info:build           -e '/definition of _GL_WARN_ON_USE/r warn-on-use.h'; \
376:info:build           < ./string.in.h; \
377:info:build     } > string.h-t && \
378:info:build     mv string.h-t string.h
379:info:build /usr/bin/make  all-recursive
380:info:build make[3]: Entering directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a/lib'
381:info:build make[4]: Entering directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a/lib'
382:info:build depbase=`echo dummy.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
383:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..   -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT dummy.lo -MD -MP -MF $depbase.Tpo -c -o dummy.lo dummy.c &&\
384:info:build     mv -f $depbase.Tpo $depbase.Plo
385:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT dummy.lo -MD -MP -MF .deps/dummy.Tpo -c dummy.c  -fno-common -DPIC -o .libs/dummy.o
386:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT dummy.lo -MD -MP -MF .deps/dummy.Tpo -c dummy.c -o dummy.o >/dev/null 2>&1
387:info:build /bin/sh ../libtool  --tag=CC   --mode=link /usr/bin/clang  -pipe -Os -arch x86_64  -no-undefined -L/Volumes/Data/macports/lion/lib -Wl,-headerpad_max_install_names -arch x86_64 -o libgnu.la  dummy.lo 
388:info:build libtool: link: ar cru .libs/libgnu.a .libs/dummy.o
389:info:build /Volumes/Data/macports/lion/bin/ranlib: file: .libs/libgnu.a(dummy.o) has no symbols
390:info:build libtool: link: ranlib .libs/libgnu.a
391:info:build ranlib: file: .libs/libgnu.a(dummy.o) has no symbols
392:info:build warning: ranlib: warning for library: .libs/libgnu.a the table of contents is empty (no object file members in the library define global symbols)
393:info:build libtool: link: ( cd ".libs" && rm -f "libgnu.la" && ln -s "../libgnu.la" "libgnu.la" )
394:info:build make[4]: Leaving directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a/lib'
395:info:build make[3]: Leaving directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a/lib'
396:info:build make[2]: Leaving directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a/lib'
397:info:build Making all in doc/reference/libcrystfel
398:info:build make[2]: Entering directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a/doc/reference/libcrystfel'
399:info:build make[2]: Nothing to be done for `all'.
400:info:build make[2]: Leaving directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a/doc/reference/libcrystfel'
401:info:build Making all in libcrystfel
402:info:build make[2]: Entering directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a/libcrystfel'
403:info:build depbase=`echo src/reflist.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
404:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/reflist.lo -MD -MP -MF $depbase.Tpo -c -o src/reflist.lo src/reflist.c &&\
405:info:build     mv -f $depbase.Tpo $depbase.Plo
406:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/reflist.lo -MD -MP -MF src/.deps/reflist.Tpo -c src/reflist.c  -fno-common -DPIC -o src/.libs/reflist.o
407:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/reflist.lo -MD -MP -MF src/.deps/reflist.Tpo -c src/reflist.c -o src/reflist.o >/dev/null 2>&1
408:info:build depbase=`echo src/utils.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
409:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/utils.lo -MD -MP -MF $depbase.Tpo -c -o src/utils.lo src/utils.c &&\
410:info:build     mv -f $depbase.Tpo $depbase.Plo
411:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/utils.lo -MD -MP -MF src/.deps/utils.Tpo -c src/utils.c  -fno-common -DPIC -o src/.libs/utils.o
412:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/utils.lo -MD -MP -MF src/.deps/utils.Tpo -c src/utils.c -o src/utils.o >/dev/null 2>&1
413:info:build depbase=`echo src/cell.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
414:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/cell.lo -MD -MP -MF $depbase.Tpo -c -o src/cell.lo src/cell.c &&\
415:info:build     mv -f $depbase.Tpo $depbase.Plo
416:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/cell.lo -MD -MP -MF src/.deps/cell.Tpo -c src/cell.c  -fno-common -DPIC -o src/.libs/cell.o
417:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/cell.lo -MD -MP -MF src/.deps/cell.Tpo -c src/cell.c -o src/cell.o >/dev/null 2>&1
418:info:build depbase=`echo src/detector.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
419:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/detector.lo -MD -MP -MF $depbase.Tpo -c -o src/detector.lo src/detector.c &&\
420:info:build     mv -f $depbase.Tpo $depbase.Plo
421:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/detector.lo -MD -MP -MF src/.deps/detector.Tpo -c src/detector.c  -fno-common -DPIC -o src/.libs/detector.o
422:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/detector.lo -MD -MP -MF src/.deps/detector.Tpo -c src/detector.c -o src/detector.o >/dev/null 2>&1
423:info:build depbase=`echo src/thread-pool.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
424:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/thread-pool.lo -MD -MP -MF $depbase.Tpo -c -o src/thread-pool.lo src/thread-pool.c &&\
425:info:build     mv -f $depbase.Tpo $depbase.Plo
426:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/thread-pool.lo -MD -MP -MF src/.deps/thread-pool.Tpo -c src/thread-pool.c  -fno-common -DPIC -o src/.libs/thread-pool.o
427:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/thread-pool.lo -MD -MP -MF src/.deps/thread-pool.Tpo -c src/thread-pool.c -o src/thread-pool.o >/dev/null 2>&1
428:info:build depbase=`echo src/image.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
429:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/image.lo -MD -MP -MF $depbase.Tpo -c -o src/image.lo src/image.c &&\
430:info:build     mv -f $depbase.Tpo $depbase.Plo
431:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/image.lo -MD -MP -MF src/.deps/image.Tpo -c src/image.c  -fno-common -DPIC -o src/.libs/image.o
432:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/image.lo -MD -MP -MF src/.deps/image.Tpo -c src/image.c -o src/image.o >/dev/null 2>&1
433:info:build depbase=`echo src/hdf5-file.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
434:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/hdf5-file.lo -MD -MP -MF $depbase.Tpo -c -o src/hdf5-file.lo src/hdf5-file.c &&\
435:info:build     mv -f $depbase.Tpo $depbase.Plo
436:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/hdf5-file.lo -MD -MP -MF src/.deps/hdf5-file.Tpo -c src/hdf5-file.c  -fno-common -DPIC -o src/.libs/hdf5-file.o
437:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/hdf5-file.lo -MD -MP -MF src/.deps/hdf5-file.Tpo -c src/hdf5-file.c -o src/hdf5-file.o >/dev/null 2>&1
438:info:build depbase=`echo src/beam-parameters.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
439:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/beam-parameters.lo -MD -MP -MF $depbase.Tpo -c -o src/beam-parameters.lo src/beam-parameters.c &&\
440:info:build     mv -f $depbase.Tpo $depbase.Plo
441:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/beam-parameters.lo -MD -MP -MF src/.deps/beam-parameters.Tpo -c src/beam-parameters.c  -fno-common -DPIC -o src/.libs/beam-parameters.o
442:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/beam-parameters.lo -MD -MP -MF src/.deps/beam-parameters.Tpo -c src/beam-parameters.c -o src/beam-parameters.o >/dev/null 2>&1
443:info:build depbase=`echo src/geometry.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
444:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/geometry.lo -MD -MP -MF $depbase.Tpo -c -o src/geometry.lo src/geometry.c &&\
445:info:build     mv -f $depbase.Tpo $depbase.Plo
446:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/geometry.lo -MD -MP -MF src/.deps/geometry.Tpo -c src/geometry.c  -fno-common -DPIC -o src/.libs/geometry.o
447:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/geometry.lo -MD -MP -MF src/.deps/geometry.Tpo -c src/geometry.c -o src/geometry.o >/dev/null 2>&1
448:info:build depbase=`echo src/statistics.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
449:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/statistics.lo -MD -MP -MF $depbase.Tpo -c -o src/statistics.lo src/statistics.c &&\
450:info:build     mv -f $depbase.Tpo $depbase.Plo
451:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/statistics.lo -MD -MP -MF src/.deps/statistics.Tpo -c src/statistics.c  -fno-common -DPIC -o src/.libs/statistics.o
452:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/statistics.lo -MD -MP -MF src/.deps/statistics.Tpo -c src/statistics.c -o src/statistics.o >/dev/null 2>&1
453:info:build depbase=`echo src/symmetry.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
454:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/symmetry.lo -MD -MP -MF $depbase.Tpo -c -o src/symmetry.lo src/symmetry.c &&\
455:info:build     mv -f $depbase.Tpo $depbase.Plo
456:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/symmetry.lo -MD -MP -MF src/.deps/symmetry.Tpo -c src/symmetry.c  -fno-common -DPIC -o src/.libs/symmetry.o
457:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/symmetry.lo -MD -MP -MF src/.deps/symmetry.Tpo -c src/symmetry.c -o src/symmetry.o >/dev/null 2>&1
458:info:build depbase=`echo src/stream.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
459:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/stream.lo -MD -MP -MF $depbase.Tpo -c -o src/stream.lo src/stream.c &&\
460:info:build     mv -f $depbase.Tpo $depbase.Plo
461:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/stream.lo -MD -MP -MF src/.deps/stream.Tpo -c src/stream.c  -fno-common -DPIC -o src/.libs/stream.o
462:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/stream.lo -MD -MP -MF src/.deps/stream.Tpo -c src/stream.c -o src/stream.o >/dev/null 2>&1
463:info:build depbase=`echo src/peaks.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
464:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/peaks.lo -MD -MP -MF $depbase.Tpo -c -o src/peaks.lo src/peaks.c &&\
465:info:build     mv -f $depbase.Tpo $depbase.Plo
466:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/peaks.lo -MD -MP -MF src/.deps/peaks.Tpo -c src/peaks.c  -fno-common -DPIC -o src/.libs/peaks.o
467:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/peaks.lo -MD -MP -MF src/.deps/peaks.Tpo -c src/peaks.c -o src/peaks.o >/dev/null 2>&1
468:info:build depbase=`echo src/reflist-utils.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
469:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/reflist-utils.lo -MD -MP -MF $depbase.Tpo -c -o src/reflist-utils.lo src/reflist-utils.c &&\
470:info:build     mv -f $depbase.Tpo $depbase.Plo
471:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/reflist-utils.lo -MD -MP -MF src/.deps/reflist-utils.Tpo -c src/reflist-utils.c  -fno-common -DPIC -o src/.libs/reflist-utils.o
472:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/reflist-utils.lo -MD -MP -MF src/.deps/reflist-utils.Tpo -c src/reflist-utils.c -o src/reflist-utils.o >/dev/null 2>&1
473:info:build depbase=`echo src/filters.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
474:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/filters.lo -MD -MP -MF $depbase.Tpo -c -o src/filters.lo src/filters.c &&\
475:info:build     mv -f $depbase.Tpo $depbase.Plo
476:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/filters.lo -MD -MP -MF src/.deps/filters.Tpo -c src/filters.c  -fno-common -DPIC -o src/.libs/filters.o
477:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/filters.lo -MD -MP -MF src/.deps/filters.Tpo -c src/filters.c -o src/filters.o >/dev/null 2>&1
478:info:build depbase=`echo src/render.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
479:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/render.lo -MD -MP -MF $depbase.Tpo -c -o src/render.lo src/render.c &&\
480:info:build     mv -f $depbase.Tpo $depbase.Plo
481:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/render.lo -MD -MP -MF src/.deps/render.Tpo -c src/render.c  -fno-common -DPIC -o src/.libs/render.o
482:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/render.lo -MD -MP -MF src/.deps/render.Tpo -c src/render.c -o src/render.o >/dev/null 2>&1
483:info:build depbase=`echo src/index.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
484:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/index.lo -MD -MP -MF $depbase.Tpo -c -o src/index.lo src/index.c &&\
485:info:build     mv -f $depbase.Tpo $depbase.Plo
486:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/index.lo -MD -MP -MF src/.deps/index.Tpo -c src/index.c  -fno-common -DPIC -o src/.libs/index.o
487:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/index.lo -MD -MP -MF src/.deps/index.Tpo -c src/index.c -o src/index.o >/dev/null 2>&1
488:info:build depbase=`echo src/dirax.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
489:info:build     /bin/sh ../libtool  --tag=CC   --mode=compile /usr/bin/clang -DHAVE_CONFIG_H -I. -I..  -DDATADIR=\""/Volumes/Data/macports/lion/share"\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -I/Volumes/Data/macports/lion/include  -pipe -Os -arch x86_64 -MT src/dirax.lo -MD -MP -MF $depbase.Tpo -c -o src/dirax.lo src/dirax.c &&\
490:info:build     mv -f $depbase.Tpo $depbase.Plo
491:info:build libtool: compile:  /usr/bin/clang -DHAVE_CONFIG_H -I. -I.. -DDATADIR=\"/Volumes/Data/macports/lion/share\" -I../lib -Wall -I../lib -pipe -Os -arch x86_64 -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -I/Volumes/Data/macports/lion/include -pipe -Os -arch x86_64 -MT src/dirax.lo -MD -MP -MF src/.deps/dirax.Tpo -c src/dirax.c  -fno-common -DPIC -o src/.libs/dirax.o
492:info:build src/dirax.c:540:15: warning: implicit declaration of function 'forkpty' is invalid in C99 [-Wimplicit-function-declaration]
493:info:build         dirax->pid = forkpty(&dirax->pty, NULL, NULL, NULL);
494:info:build                      ^
495:info:build src/dirax.c:548:18: error: variable has incomplete type 'struct termios'
496:info:build                 struct termios t;
497:info:build                                ^
498:info:build src/dirax.c:548:10: note: forward declaration of 'struct termios'
499:info:build                 struct termios t;
500:info:build                        ^
501:info:build src/dirax.c:551:3: warning: implicit declaration of function 'tcgetattr' is invalid in C99 [-Wimplicit-function-declaration]
502:info:build                 tcgetattr(STDIN_FILENO, &t);
503:info:build                 ^
504:info:build src/dirax.c:552:18: error: use of undeclared identifier 'ECHO'
505:info:build                 t.c_lflag &= ~(ECHO | ECHOE | ECHOK | ECHONL);
506:info:build                                ^
507:info:build src/dirax.c:552:25: error: use of undeclared identifier 'ECHOE'
508:info:build                 t.c_lflag &= ~(ECHO | ECHOE | ECHOK | ECHONL);
509:info:build                                       ^
510:info:build src/dirax.c:552:33: error: use of undeclared identifier 'ECHOK'
511:info:build                 t.c_lflag &= ~(ECHO | ECHOE | ECHOK | ECHONL);
512:info:build                                               ^
513:info:build src/dirax.c:552:41: error: use of undeclared identifier 'ECHONL'
514:info:build                 t.c_lflag &= ~(ECHO | ECHOE | ECHOK | ECHONL);
515:info:build                                                       ^
516:info:build src/dirax.c:553:3: warning: implicit declaration of function 'tcsetattr' is invalid in C99 [-Wimplicit-function-declaration]
517:info:build                 tcsetattr(STDIN_FILENO, TCSANOW, &t);
518:info:build                 ^
519:info:build src/dirax.c:553:27: error: use of undeclared identifier 'TCSANOW'
520:info:build                 tcsetattr(STDIN_FILENO, TCSANOW, &t);
521:info:build                                         ^
522:info:build 3 warnings and 6 errors generated.
523:info:build make[2]: *** [src/dirax.lo] Error 1
524:info:build make[2]: Leaving directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a/libcrystfel'
525:info:build make[1]: *** [all-recursive] Error 1
526:info:build make[1]: Leaving directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a'
527:info:build make: *** [all] Error 2
528:info:build make: Leaving directory `/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a'
529:info:build Command failed:  cd "/Volumes/Data/macports/lion/var/macports/build/_Volumes_Data_macports_dports_science_crystfel/crystfel/work/crystfel-0.5.3a" && /usr/bin/make -w all
530:info:build Exit code: 2
531:error:build org.macports.build for port crystfel returned: command execution failed
532:debug:build Error code: CHILDSTATUS 8291 2
533:debug:build Backtrace: command execution failed
534    while executing
535"system -nice 10 $fullcmdstring"
536    ("eval" body line 1)
537    invoked from within
538"eval system $notty $nice \$fullcmdstring"
539    invoked from within
540"command_exec build"
541    (procedure "portbuild::build_main" line 8)
542    invoked from within
543"portbuild::build_main org.macports.build"
544    ("eval" body line 1)
545    invoked from within
546"eval $procedure $targetname"
547:info:build Warning: targets not executed for crystfel: org.macports.activate org.macports.build org.macports.destroot org.macports.install
548:notice:build Please see the log file for port crystfel for details:
549    /Volumes/Data/macports/lion/var/macports/logs/_Volumes_Data_macports_dports_science_crystfel/crystfel/main.log