Ticket #20190: r-3.2.4.p0.log

File r-3.2.4.p0.log, 55.8 KB (added by tscrim, 6 years ago)
Line 
1Found local metadata for r-3.2.4.p0
2Using cached file /home/travis/sage-build/upstream/R-3.2.4.tar.gz
3r-3.2.4.p0
4====================================================
5Setting up build directory for r-3.2.4.p0
6Finished set up
7****************************************************
8Host system:
9Linux apricot 3.13.0-79-generic #123-Ubuntu SMP Fri Feb 19 14:27:58 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux
10****************************************************
11C compiler: gcc
12C compiler version:
13Using built-in specs.
14COLLECT_GCC=gcc
15COLLECT_LTO_WRAPPER=/usr/lib/gcc/x86_64-linux-gnu/4.9/lto-wrapper
16Target: x86_64-linux-gnu
17Configured with: ../src/configure -v --with-pkgversion='Ubuntu 4.9.3-8ubuntu2~14.04' --with-bugurl=file:///usr/share/doc/gcc-4.9/README.Bugs --enable-languages=c,c++,java,go,d,fortran,objc,obj-c++ --prefix=/usr --program-suffix=-4.9 --enable-shared --enable-linker-build-id --libexecdir=/usr/lib --without-included-gettext --enable-threads=posix --with-gxx-include-dir=/usr/include/c++/4.9 --libdir=/usr/lib --enable-nls --with-sysroot=/ --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --enable-gnu-unique-object --disable-vtable-verify --enable-plugin --with-system-zlib --disable-browser-plugin --enable-java-awt=gtk --enable-gtk-cairo --with-java-home=/usr/lib/jvm/java-1.5.0-gcj-4.9-amd64/jre --enable-java-home --with-jvm-root-dir=/usr/lib/jvm/java-1.5.0-gcj-4.9-amd64 --with-jvm-jar-dir=/usr/lib/jvm-exports/java-1.5.0-gcj-4.9-amd64 --with-arch-directory=amd64 --with-ecj-jar=/usr/share/java/eclipse-ecj.jar --enable-objc-gc --enable-multiarch --disable-werror --with-arch-32=i686 --with-abi=m64 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu
18Thread model: posix
19gcc version 4.9.3 (Ubuntu 4.9.3-8ubuntu2~14.04)
20****************************************************
21R_CONFIGURE_BLAS=--with-blas=-L/home/travis/sage-build/local/lib -lf77blas -latlas 
22R_CONFIGURE_LAPACK=--with-lapack=-L/home/travis/sage-build/local/lib -llapack -lf77blas -lcblas -latlas 
23patching file src/scripts/R.sh.in
24patching file configure
25Hunk #1 succeeded at 22924 (offset 47 lines).
26Hunk #2 succeeded at 23280 (offset 47 lines).
27patching file m4/R.m4
28Hunk #1 succeeded at 3111 (offset 4 lines).
29patching file configure
30Hunk #1 succeeded at 34595 (offset 52 lines).
31patching file configure.ac
32Hunk #1 succeeded at 1340 (offset 30 lines).
33patching file configure
34Hunk #1 succeeded at 26365 (offset 52 lines).
35patching file src/library/parallel/src/fork.c
36Hunk #1 succeeded at 229 with fuzz 1 (offset 2 lines).
37patching file src/scripts/Makefile.in
38checking build system type... x86_64-pc-linux-gnu
39checking host system type... x86_64-pc-linux-gnu
40loading site script './config.site'
41loading build-specific script './config.site'
42checking for pwd... /bin/pwd
43checking whether builddir is srcdir... yes
44checking for working aclocal... found
45checking for working autoconf... found
46checking for working automake... found
47checking for working autoheader... found
48checking for gawk... no
49checking for mawk... mawk
50checking whether ln -s works... yes
51checking for bison... bison -y
52checking for ar... ar
53checking for a BSD-compatible install... /usr/bin/install -c
54checking for sed... /bin/sed
55checking for which... /usr/bin/which
56checking for less... /usr/bin/less
57checking for gtar... no
58checking for gnutar... no
59checking for tar... /bin/tar
60checking for tex... /usr/bin/tex
61checking for pdftex... /usr/bin/pdftex
62checking for pdflatex... /usr/bin/pdflatex
63checking for makeindex... /usr/bin/makeindex
64checking for texi2any... no
65configure: WARNING: you cannot build info or HTML versions of the R manuals
66checking for texi2dvi... no
67checking for kpsewhich... /usr/bin/kpsewhich
68checking for latex inconsolata package... missing
69configure: WARNING: neither inconsolata.sty nor zi4.sty found: PDF vignettes and package manuals will not be rendered optimally
70checking for unzip... /usr/bin/unzip
71checking for zip... /usr/bin/zip
72checking for gzip... /bin/gzip
73checking for bzip2... /home/travis/sage-build/local/bin/bzip2
74checking for firefox... /usr/bin/firefox
75using default browser ... /usr/bin/firefox
76checking for acroread... no
77checking for acroread4... no
78checking for xdg-open... /usr/bin/xdg-open
79checking for notangle... false
80checking for realpath... false
81checking for pkg-config... /home/travis/sage-build/local/bin/pkg-config
82checking for gcc... gcc
83checking whether the C compiler works... yes
84checking for C compiler default output file name... a.out
85checking for suffix of executables...
86checking whether we are cross compiling... no
87checking for suffix of object files... o
88checking whether we are using the GNU C compiler... yes
89checking whether gcc accepts -g... yes
90checking for gcc option to accept ISO C89... none needed
91checking how to run the C preprocessor... gcc -E
92checking for grep that handles long lines and -e... /bin/grep
93checking for egrep... /bin/grep -E
94checking whether gcc needs -traditional... no
95checking how to run the C preprocessor... gcc -E
96defining F77 to be gfortran
97checking whether we are using the GNU Fortran 77 compiler... yes
98checking whether gfortran accepts -g... yes
99checking whether we are using the GNU C++ compiler... yes
100checking whether g++ accepts -g... yes
101checking how to run the C++ preprocessor... g++ -E
102checking whether __attribute__((visibility())) is supported... yes
103checking whether gcc accepts -fvisibility... yes
104checking whether gfortran accepts -fvisibility... yes
105checking for ANSI C header files... yes
106checking for sys/types.h... yes
107checking for sys/stat.h... yes
108checking for stdlib.h... yes
109checking for string.h... yes
110checking for memory.h... yes
111checking for strings.h... yes
112checking for inttypes.h... yes
113checking for stdint.h... yes
114checking for unistd.h... yes
115checking minix/config.h usability... no
116checking minix/config.h presence... no
117checking for minix/config.h... no
118checking whether it is safe to define __EXTENSIONS__... yes
119checking for gcc... gcc
120checking whether we are using the GNU Objective C compiler... no
121checking whether gcc accepts -g... no
122checking for Objective C++ compiler... trying some possibilities
123checking whether g++ can compile ObjC++... no
124checking whether  can compile ObjC++... no
125no working ObjC++ compiler found
126checking for a sed that does not truncate output... (cached) /bin/sed
127checking for fgrep... /bin/grep -F
128checking for ld used by gcc... ld
129checking if the linker (ld) is GNU ld... yes
130checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
131checking the name lister (/usr/bin/nm -B) interface... BSD nm
132checking the maximum length of command line arguments... 3458764513820540925
133checking whether the shell understands some XSI constructs... yes
134checking whether the shell understands "+="... yes
135checking for ld option to reload object files... -r
136checking for objdump... objdump
137checking how to recognize dependent libraries... pass_all
138checking for strip... strip
139checking for ranlib... ranlib
140checking command to parse /usr/bin/nm -B output from gcc object... ok
141checking for dlfcn.h... yes
142checking whether we are using the GNU C++ compiler... (cached) yes
143checking whether g++ accepts -g... (cached) yes
144checking how to run the C++ preprocessor... g++ -E
145checking whether we are using the GNU Fortran 77 compiler... (cached) yes
146checking whether gfortran accepts -g... (cached) yes
147checking for objdir... .libs
148checking if gcc supports -fno-rtti -fno-exceptions... no
149checking for gcc option to produce PIC... -fPIC -DPIC
150checking if gcc PIC flag -fPIC -DPIC works... yes
151checking if gcc static flag -static works... yes
152checking if gcc supports -c -o file.o... yes
153checking if gcc supports -c -o file.o... (cached) yes
154checking whether the gcc linker (ld) supports shared libraries... yes
155checking whether -lc should be explicitly linked in... no
156checking dynamic linker characteristics... GNU/Linux ld.so
157checking how to hardcode library paths into programs... immediate
158checking whether stripping libraries is possible... yes
159checking if libtool supports shared libraries... yes
160checking whether to build shared libraries... yes
161checking whether to build static libraries... no
162checking for ld used by g++... ld
163checking if the linker (ld) is GNU ld... yes
164checking whether the g++ linker (ld) supports shared libraries... yes
165checking for g++ option to produce PIC... -fPIC -DPIC
166checking if g++ PIC flag -fPIC -DPIC works... yes
167checking if g++ static flag -static works... yes
168checking if g++ supports -c -o file.o... yes
169checking if g++ supports -c -o file.o... (cached) yes
170checking whether the g++ linker (ld) supports shared libraries... yes
171checking dynamic linker characteristics... GNU/Linux ld.so
172checking how to hardcode library paths into programs... immediate
173checking if libtool supports shared libraries... yes
174checking whether to build shared libraries... yes
175checking whether to build static libraries... no
176checking for gfortran option to produce PIC... -fPIC
177checking if gfortran PIC flag -fPIC works... yes
178checking if gfortran static flag -static works... yes
179checking if gfortran supports -c -o file.o... yes
180checking if gfortran supports -c -o file.o... (cached) yes
181checking whether the gfortran linker (ld) supports shared libraries... yes
182checking dynamic linker characteristics... GNU/Linux ld.so
183checking how to hardcode library paths into programs... immediate
184checking for cos in -lm... yes
185checking for sin in -lm... yes
186checking for dlopen in -ldl... yes
187checking readline/history.h usability... yes
188checking readline/history.h presence... yes
189checking for readline/history.h... yes
190checking readline/readline.h usability... yes
191checking readline/readline.h presence... yes
192checking for readline/readline.h... yes
193checking for rl_callback_read_char in -lreadline... yes
194checking for history_truncate_file... yes
195checking whether rl_completion_matches exists and is declared... yes
196checking for ANSI C header files... (cached) yes
197checking for dirent.h that defines DIR... yes
198checking for library containing opendir... none required
199checking for sys/wait.h that is POSIX.1 compatible... yes
200checking arpa/inet.h usability... yes
201checking arpa/inet.h presence... yes
202checking for arpa/inet.h... yes
203checking dl.h usability... no
204checking dl.h presence... no
205checking for dl.h... no
206checking for dlfcn.h... (cached) yes
207checking elf.h usability... yes
208checking elf.h presence... yes
209checking for elf.h... yes
210checking features.h usability... yes
211checking features.h presence... yes
212checking for features.h... yes
213checking fcntl.h usability... yes
214checking fcntl.h presence... yes
215checking for fcntl.h... yes
216checking floatingpoint.h usability... no
217checking floatingpoint.h presence... no
218checking for floatingpoint.h... no
219checking fpu_control.h usability... yes
220checking fpu_control.h presence... yes
221checking for fpu_control.h... yes
222checking glob.h usability... yes
223checking glob.h presence... yes
224checking for glob.h... yes
225checking grp.h usability... yes
226checking grp.h presence... yes
227checking for grp.h... yes
228checking langinfo.h usability... yes
229checking langinfo.h presence... yes
230checking for langinfo.h... yes
231checking netdb.h usability... yes
232checking netdb.h presence... yes
233checking for netdb.h... yes
234checking netinet/in.h usability... yes
235checking netinet/in.h presence... yes
236checking for netinet/in.h... yes
237checking pwd.h usability... yes
238checking pwd.h presence... yes
239checking for pwd.h... yes
240checking sched.h usability... yes
241checking sched.h presence... yes
242checking for sched.h... yes
243checking for strings.h... (cached) yes
244checking sys/param.h usability... yes
245checking sys/param.h presence... yes
246checking for sys/param.h... yes
247checking sys/resource.h usability... yes
248checking sys/resource.h presence... yes
249checking for sys/resource.h... yes
250checking sys/select.h usability... yes
251checking sys/select.h presence... yes
252checking for sys/select.h... yes
253checking sys/socket.h usability... yes
254checking sys/socket.h presence... yes
255checking for sys/socket.h... yes
256checking for sys/stat.h... (cached) yes
257checking sys/time.h usability... yes
258checking sys/time.h presence... yes
259checking for sys/time.h... yes
260checking sys/times.h usability... yes
261checking sys/times.h presence... yes
262checking for sys/times.h... yes
263checking sys/utsname.h usability... yes
264checking sys/utsname.h presence... yes
265checking for sys/utsname.h... yes
266checking for unistd.h... (cached) yes
267checking utime.h usability... yes
268checking utime.h presence... yes
269checking for utime.h... yes
270checking stdalign.h usability... yes
271checking stdalign.h presence... yes
272checking for stdalign.h... yes
273checking errno.h usability... yes
274checking errno.h presence... yes
275checking for errno.h... yes
276checking for inttypes.h... (cached) yes
277checking limits.h usability... yes
278checking limits.h presence... yes
279checking for limits.h... yes
280checking locale.h usability... yes
281checking locale.h presence... yes
282checking for locale.h... yes
283checking stdarg.h usability... yes
284checking stdarg.h presence... yes
285checking for stdarg.h... yes
286checking stdbool.h usability... yes
287checking stdbool.h presence... yes
288checking for stdbool.h... yes
289checking for stdint.h... (cached) yes
290checking for string.h... (cached) yes
291checking whether setjmp.h is POSIX.1 compatible... yes
292checking whether sigsetjmp is declared... yes
293checking whether siglongjmp is declared... yes
294checking for GNU C library with version >= 2... yes
295checking return type of signal handlers... void
296checking for uint64_t... yes
297checking for int64_t... yes
298checking for int_fast64_t... yes
299checking for pid_t... yes
300checking for size_t... yes
301checking whether SIZE_MAX is declared... yes
302checking for blkcnt_t... yes
303checking for type of socket length... socklen_t *
304checking for stack_t... yes
305checking for intptr_t... yes
306checking for uintptr_t... yes
307checking whether byte ordering is bigendian... no
308checking for an ANSI C-conforming const... yes
309checking for gcc option to accept ISO C99... -std=gnu99
310checking for gcc -std=gnu99 option to accept ISO Standard C... (cached) -std=gnu99
311checking for inline... inline
312checking size of int... 4
313checking size of long... 8
314checking size of long long... 8
315checking size of double... 8
316checking size of size_t... 8
317checking size of long double... 16
318checking whether we can compute C Make dependencies... yes, using $(CC) -MM
319checking whether gcc -std=gnu99 supports -c -o FILE.lo... yes
320checking for gcc -std=gnu99 option to support OpenMP... -fopenmp
321checking how to get verbose linking output from gfortran... -###
322checking for Fortran 77 libraries of gfortran...  -L/home/travis/sage-build/local/lib -L/home/travis/sage-build/local/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/4.9 -L/usr/lib/gcc/x86_64-linux-gnu/4.9/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/4.9/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/4.9/../../.. -lgfortran -lm -lquadmath
323checking how to get verbose linking output from gcc -std=gnu99... -###
324checking for C libraries of gcc -std=gnu99...  -L/home/travis/sage-build/local/lib -L/home/travis/sage-build/local/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/4.9 -L/usr/lib/gcc/x86_64-linux-gnu/4.9/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/4.9/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/4.9/../../.. -lgcc_s
325checking for dummy main to link with Fortran 77 libraries... none
326checking for Fortran 77 name-mangling scheme... lower case, underscore, no extra underscore
327checking whether gfortran appends underscores to external names... yes
328checking whether gfortran appends extra underscores to external names... no
329checking whether mixed C/Fortran code can be run... yes
330checking whether gfortran and gcc -std=gnu99 agree on int and double... yes
331checking whether gfortran and gcc -std=gnu99 agree on double complex... yes
332checking for gfortran option to support OpenMP... -fopenmp
333checking whether g++ accepts -M for generating dependencies... yes
334checking for g++ option to support OpenMP... -fopenmp
335checking whether we can compute ObjC Make dependencies... no
336checking whether C runtime needs -D__NO_MATH_INLINES... no
337checking for xmkmf... no
338checking whether g++  supports C++11 features by default... no
339checking whether g++  supports C++11 features with -std=c++11... yes
340checking for off_t... yes
341checking for working alloca.h... yes
342checking for alloca... yes
343checking whether alloca is declared... yes
344checking whether expm1 exists and is declared... yes
345checking whether hypot exists and is declared... yes
346checking whether log1p exists and is declared... yes
347checking whether log1pl exists and is declared... yes
348checking whether log2 exists and is declared... yes
349checking whether log10 exists and is declared... yes
350checking whether nearbyint exists and is declared... yes
351checking whether nearbyintl exists and is declared... yes
352checking whether powl exists and is declared... yes
353checking whether rint exists and is declared... yes
354checking whether rintl exists and is declared... yes
355checking whether va_copy exists and is declared... yes
356checking for isblank... yes
357checking sunmath.h usability... no
358checking sunmath.h presence... no
359checking for sunmath.h... no
360checking for cospi in -lsunmath... no
361checking for atanpi... no
362checking for atan2pi... no
363checking for cospi... no
364checking for exp10... yes
365checking for pown... no
366checking for sinpi... no
367checking for tanpi... no
368checking for fseeko... yes
369checking for ftello... yes
370checking for matherr... yes
371checking whether fcntl exists and is declared... yes
372checking whether getgrgid exists and is declared... yes
373checking whether getpwuid exists and is declared... yes
374checking whether kill exists and is declared... yes
375checking whether sigaction exists and is declared... yes
376checking whether sigaltstack exists and is declared... yes
377checking whether sigemptyset exists and is declared... yes
378checking whether fdopen exists and is declared... yes
379checking whether popen exists and is declared... yes
380checking whether setenv exists and is declared... yes
381checking whether unsetenv exists and is declared... yes
382checking whether getrlimit exists and is declared... yes
383checking whether getrusage exists and is declared... yes
384checking whether getpriority exists and is declared... yes
385checking whether chmod exists and is declared... yes
386checking whether mkfifo exists and is declared... yes
387checking whether stat exists and is declared... yes
388checking whether umask exists and is declared... yes
389checking whether gettimeofday exists and is declared... yes
390checking whether utimes exists and is declared... yes
391checking whether times exists and is declared... yes
392checking whether gmtime_r exists and is declared... yes
393checking whether localtime_r exists and is declared... yes
394checking whether nl_langinfo exists and is declared... yes
395checking whether access exists and is declared... yes
396checking whether chdir exists and is declared... yes
397checking whether execv exists and is declared... yes
398checking whether ftruncate exists and is declared... yes
399checking whether getcwd exists and is declared... yes
400checking whether geteuid exists and is declared... yes
401checking whether getuid exists and is declared... yes
402checking whether link exists and is declared... yes
403checking whether readlink exists and is declared... yes
404checking whether symlink exists and is declared... yes
405checking whether sysconf exists and is declared... yes
406checking whether sched_setaffinity exists and is declared... yes
407checking whether sched_getaffinity exists and is declared... yes
408checking whether utime exists and is declared... yes
409checking for clock_gettime in -lrt... yes
410checking whether clock_gettime exists and is declared... yes
411checking whether timespec_get exists and is declared... yes
412checking for putenv... yes
413checking whether putenv is declared... yes
414checking for vasprintf... yes
415checking whether vasprintf is declared... yes
416checking for mempcpy... yes
417checking for realpath... yes
418checking whether realpath is declared... yes
419checking whether glob exists and is declared... yes
420checking for isnan... yes
421checking whether isfinite is declared... yes
422checking whether isnan is declared... yes
423checking whether you have IEEE 754 floating-point arithmetic... yes
424checking whether putenv("FOO") can unset an environment variable... yes
425checking whether putenv("FOO=") can unset an environment variable... no
426checking for nl_langinfo and CODESET... yes
427checking for mkdtemp... yes
428checking for strdup... yes
429checking for strncasecmp... yes
430checking whether mkdtemp is declared... yes
431checking whether strdup is declared... yes
432checking whether strncasecmp is declared... yes
433checking for library containing connect... none required
434checking for library containing gethostbyname... none required
435checking for library containing xdr_string... none required
436checking for __setfpucw... no
437checking for working calloc... yes
438checking for working isfinite... yes
439checking for working log1p... yes
440checking whether ftell works correctly on files opened for append... yes
441checking for working sigaction... yes
442checking whether mktime sets errno... no
443checking whether mktime works correctly outside 1902-2037... yes
444checking complex.h usability... yes
445checking complex.h presence... yes
446checking for complex.h... yes
447checking for double complex... yes
448checking whether C99 double complex is supported... yes
449checking whether cabs exists and is declared... yes
450checking whether carg exists and is declared... yes
451checking whether cexp exists and is declared... yes
452checking whether clog exists and is declared... yes
453checking whether csqrt exists and is declared... yes
454checking whether cpow exists and is declared... yes
455checking whether ccos exists and is declared... yes
456checking whether csin exists and is declared... yes
457checking whether ctan exists and is declared... yes
458checking whether cacos exists and is declared... yes
459checking whether casin exists and is declared... yes
460checking whether catan exists and is declared... yes
461checking whether ccosh exists and is declared... yes
462checking whether csinh exists and is declared... yes
463checking whether ctanh exists and is declared... yes
464checking whether 'struct tm' includes tm_zone... yes
465checking whether 'struct tm' includes tm_gmtoff... yes
466checking for dgemm_ in -L/home/travis/sage-build/local/lib -lf77blas -latlas  ... yes
467checking whether double complex BLAS can be used... yes
468checking whether the BLAS is complete... yes
469checking for dpstrf_... no
470checking for dpstrf_ in -L/home/travis/sage-build/local/lib -llapack -lf77blas -lcblas -latlas  ... yes
471checking iconv.h usability... yes
472checking iconv.h presence... yes
473checking for iconv.h... yes
474checking for iconv... yes
475checking whether iconv accepts "UTF-8", "latin1", "ASCII" and "UCS-*"... yes
476checking for iconvlist... no
477checking for iconv... yes
478checking for iconv declaration...
479         extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft);
480checking wchar.h usability... yes
481checking wchar.h presence... yes
482checking for wchar.h... yes
483checking wctype.h usability... yes
484checking wctype.h presence... yes
485checking for wctype.h... yes
486checking whether mbrtowc exists and is declared... yes
487checking whether wcrtomb exists and is declared... yes
488checking whether wcscoll exists and is declared... yes
489checking whether wcsftime exists and is declared... yes
490checking whether wcstod exists and is declared... yes
491checking whether mbstowcs exists and is declared... yes
492checking whether wcstombs exists and is declared... yes
493checking whether wctrans exists and is declared... yes
494checking whether iswblank exists and is declared... yes
495checking whether wctype exists and is declared... yes
496checking whether iswctype exists and is declared... yes
497checking for wctrans_t... yes
498checking for mbstate_t... yes
499checking for ICU... no
500checking for X... libraries , headers
501checking for gethostbyname... yes
502checking for connect... yes
503checking for remove... yes
504checking for shmat... yes
505checking for IceConnectionNumber in -lICE... yes
506checking X11/Intrinsic.h usability... yes
507checking X11/Intrinsic.h presence... yes
508checking for X11/Intrinsic.h... yes
509checking for XtToolkitInitialize in -lXt... yes
510using X11 ... yes
511checking for KeySym... yes
512checking X11/Xmu/Atoms.h usability... no
513checking X11/Xmu/Atoms.h presence... no
514checking for X11/Xmu/Atoms.h... no
515checking whether pkg-config knows about cairo and pango... no
516checking whether pkg-config knows about cairo... no
517checking for tclConfig.sh... no
518checking for tclConfig.sh in library (sub)directories... no
519checking for tkConfig.sh... no
520checking for tkConfig.sh in library (sub)directories... no
521checking for tcl.h... no
522checking for BSD networking... yes
523checking if jpeglib version >= 6b... no
524checking for main in -lz... yes
525checking if libpng version >= 1.2.7... yes
526checking for png_create_write_struct in -lpng... yes
527checking tiffio.h usability... no
528checking tiffio.h presence... no
529checking for tiffio.h... no
530checking rpc/types.h usability... yes
531checking rpc/types.h presence... yes
532checking for rpc/types.h... yes
533checking for rpc/xdr.h... yes
534checking for XDR support... yes
535checking for inflateInit2_ in -lz... yes
536checking zlib.h usability... yes
537checking zlib.h presence... yes
538checking for zlib.h... yes
539checking if zlib version >= 1.2.5... yes
540checking whether zlib support needs to be compiled... no
541checking for BZ2_bzlibVersion in -lbz2... yes
542checking bzlib.h usability... yes
543checking bzlib.h presence... yes
544checking for bzlib.h... yes
545checking if bzip2 version >= 1.0.6... yes
546checking whether bzip2 support needs to be compiled... no
547checking for lzma_version_number in -llzma... no
548checking for pcre_fullinfo in -lpcre... yes
549checking pcre.h usability... yes
550checking pcre.h presence... yes
551checking for pcre.h... yes
552checking pcre/pcre.h usability... no
553checking pcre/pcre.h presence... no
554checking for pcre/pcre.h... no
555checking if PCRE version >= 8.10, < 10.0 and has UTF-8 support... yes
556checking whether PCRE support needs to be compiled... no
557checking for curl-config... no
558checking if libcurl version >= 7.28.0... no
559checking whether leap seconds are treated according to POSIX... yes
560checking for inline... inline
561checking for sys/time.h... (cached) yes
562checking for stdlib.h... (cached) yes
563checking for unistd.h... (cached) yes
564checking for sys/param.h... (cached) yes
565checking for struct stat.st_atim.tv_nsec... yes
566checking whether struct stat.st_atim is of type struct timespec... yes
567checking for setitimer... yes
568checking for special C compiler options needed for large files... no
569checking for _FILE_OFFSET_BITS value needed for large files... no
570checking for _LARGEFILE_SOURCE value needed for large files... no
571checking whether KERN_USRSTACK sysctl is supported... no
572checking for visible __lib_stack_end... yes
573checking for lpr... lpr
574checking for paperconf... /usr/bin/paperconf
575checking whether we are using the GNU Fortran compiler... yes
576checking whether gfortran accepts -g... yes
577checking whether we are using the GNU Fortran compiler... (cached) yes
578checking whether gfortran accepts -g... (cached) yes
579checking if libtool supports shared libraries... yes
580checking whether to build shared libraries... yes
581checking whether to build static libraries... no
582checking for gfortran option to produce PIC... -fPIC
583checking if gfortran PIC flag -fPIC works... yes
584checking if gfortran static flag -static works... yes
585checking if gfortran supports -c -o file.o... yes
586checking if gfortran supports -c -o file.o... (cached) yes
587checking whether the gfortran linker (ld) supports shared libraries... yes
588checking dynamic linker characteristics... GNU/Linux ld.so
589checking how to hardcode library paths into programs... immediate
590checking for Fortran flag to compile .f90 files... none
591checking for Fortran flag to compile .f95 files... none
592checking for gfortran option to support OpenMP... -fopenmp
593checking for recommended packages... yes
594checking whether NLS is requested... yes
595
596Configuring src/extra/intl directory
597checking for a thread-safe mkdir -p... /bin/mkdir -p
598checking whether we are using the GNU C Library 2 or newer... yes
599checking for ranlib... (cached) ranlib
600checking for simple visibility declarations... yes
601checking for stdint.h... yes
602checking for getpagesize... yes
603checking for working mmap... yes
604checking whether integer division by zero raises SIGFPE... yes
605checking for inttypes.h... yes
606checking for unsigned long long int... yes
607checking for inttypes.h... (cached) yes
608checking whether the inttypes.h PRIxNN macros are broken... no
609checking for ld used by gcc -std=gnu99... ld
610checking if the linker (ld) is GNU ld... yes
611checking for shared library run path origin... done
612checking whether imported symbols can be declared weak... yes
613checking for multithread API to use... none
614checking argz.h usability... yes
615checking argz.h presence... yes
616checking for argz.h... yes
617checking for inttypes.h... (cached) yes
618checking for limits.h... (cached) yes
619checking for unistd.h... (cached) yes
620checking for sys/param.h... (cached) yes
621checking for getcwd... yes
622checking for getegid... yes
623checking for geteuid... yes
624checking for getgid... yes
625checking for getuid... yes
626checking for mempcpy... (cached) yes
627checking for munmap... yes
628checking for stpcpy... yes
629checking for strcasecmp... yes
630checking for strdup... (cached) yes
631checking for strtoul... yes
632checking for tsearch... yes
633checking for argz_count... yes
634checking for argz_stringify... yes
635checking for argz_next... yes
636checking for __fsetlocking... yes
637checking whether feof_unlocked is declared... yes
638checking whether fgets_unlocked is declared... yes
639checking for iconv... (cached) yes
640checking for iconv declaration... (cached)
641         extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft);
642checking for NL_LOCALE_NAME macro... yes
643checking for bison... bison
644checking version of bison... 3.0.2, ok
645checking for long long int... yes
646checking for long double... yes
647checking for wchar_t... yes
648checking for wint_t... yes
649checking for intmax_t... yes
650checking whether printf() supports POSIX/XSI format strings... yes
651checking whether we are using the GNU C Library 2.1 or newer... yes
652checking for stdint.h... (cached) yes
653checking for SIZE_MAX... yes
654checking for stdint.h... (cached) yes
655checking for CFPreferencesCopyAppValue... no
656checking for CFLocaleCopyCurrent... no
657checking for ptrdiff_t... yes
658checking stddef.h usability... yes
659checking stddef.h presence... yes
660checking for stddef.h... yes
661checking for stdlib.h... (cached) yes
662checking for string.h... (cached) yes
663checking for asprintf... yes
664checking for fwprintf... yes
665checking for putenv... (cached) yes
666checking for setenv... yes
667checking for setlocale... yes
668checking for snprintf... yes
669checking for wcslen... yes
670checking whether _snprintf is declared... no
671checking whether _snwprintf is declared... no
672checking whether getc_unlocked is declared... yes
673checking for nl_langinfo and CODESET... (cached) yes
674checking for LC_MESSAGES... yes
675checking for CFPreferencesCopyAppValue... (cached) no
676checking for CFLocaleCopyCurrent... (cached) no
677checking whether included gettext is requested... no
678checking for GNU gettext in libc... yes
679checking whether to use NLS... yes
680checking where the gettext function comes from... libc
681Finished configuring src/extra/intl directory
682
683using as R_SHELL for scripts ... /bin/bash
684configure: creating ./config.status
685config.status: creating Makeconf
686config.status: creating Makefile
687config.status: creating doc/Makefile
688config.status: creating doc/html/Makefile
689config.status: creating doc/manual/Makefile
690config.status: creating etc/Makefile
691config.status: creating etc/Makeconf
692config.status: creating etc/Renviron
693config.status: creating etc/javaconf
694config.status: creating etc/ldpaths
695config.status: creating m4/Makefile
696config.status: creating po/Makefile
697config.status: creating share/Makefile
698config.status: creating src/Makefile
699config.status: creating src/appl/Makefile
700config.status: creating src/extra/Makefile
701config.status: creating src/extra/blas/Makefile
702config.status: creating src/extra/bzip2/Makefile
703config.status: creating src/extra/intl/Makefile
704config.status: creating src/extra/pcre/Makefile
705config.status: creating src/extra/tre/Makefile
706config.status: creating src/extra/tzone/Makefile
707config.status: creating src/extra/xdr/Makefile
708config.status: creating src/extra/xz/Makefile
709config.status: creating src/extra/zlib/Makefile
710config.status: creating src/include/Makefile
711config.status: creating src/include/Rmath.h0
712config.status: creating src/include/R_ext/Makefile
713config.status: creating src/library/Recommended/Makefile
714config.status: creating src/library/Makefile
715config.status: creating src/library/base/DESCRIPTION
716config.status: creating src/library/base/Makefile
717config.status: creating src/library/compiler/DESCRIPTION
718config.status: creating src/library/compiler/Makefile
719config.status: creating src/library/datasets/DESCRIPTION
720config.status: creating src/library/datasets/Makefile
721config.status: creating src/library/graphics/DESCRIPTION
722config.status: creating src/library/graphics/Makefile
723config.status: creating src/library/graphics/src/Makefile
724config.status: creating src/library/grDevices/DESCRIPTION
725config.status: creating src/library/grDevices/Makefile
726config.status: creating src/library/grDevices/src/Makefile
727config.status: creating src/library/grDevices/src/cairo/Makefile
728config.status: creating src/library/grid/DESCRIPTION
729config.status: creating src/library/grid/Makefile
730config.status: creating src/library/grid/src/Makefile
731config.status: creating src/library/methods/DESCRIPTION
732config.status: creating src/library/methods/Makefile
733config.status: creating src/library/methods/src/Makefile
734config.status: creating src/library/parallel/DESCRIPTION
735config.status: creating src/library/parallel/Makefile
736config.status: creating src/library/parallel/src/Makefile
737config.status: creating src/library/profile/Makefile
738config.status: creating src/library/stats/DESCRIPTION
739config.status: creating src/library/stats/Makefile
740config.status: creating src/library/stats/src/Makefile
741config.status: creating src/library/stats4/DESCRIPTION
742config.status: creating src/library/stats4/Makefile
743config.status: creating src/library/splines/DESCRIPTION
744config.status: creating src/library/splines/Makefile
745config.status: creating src/library/splines/src/Makefile
746config.status: creating src/library/tcltk/DESCRIPTION
747config.status: creating src/library/tcltk/Makefile
748config.status: creating src/library/tcltk/src/Makefile
749config.status: creating src/library/tools/DESCRIPTION
750config.status: creating src/library/tools/Makefile
751config.status: creating src/library/tools/src/Makefile
752config.status: creating src/library/translations/DESCRIPTION
753config.status: creating src/library/translations/Makefile
754config.status: creating src/library/utils/DESCRIPTION
755config.status: creating src/library/utils/Makefile
756config.status: creating src/library/utils/src/Makefile
757config.status: creating src/main/Makefile
758config.status: creating src/modules/Makefile
759config.status: creating src/modules/X11/Makefile
760config.status: creating src/modules/internet/Makefile
761config.status: creating src/modules/lapack/Makefile
762config.status: creating src/nmath/Makefile
763config.status: creating src/nmath/standalone/Makefile
764config.status: creating src/scripts/Makefile
765config.status: creating src/scripts/R.sh
766config.status: creating src/scripts/Rcmd
767config.status: creating src/scripts/f77_f2c
768config.status: creating src/scripts/javareconf
769config.status: creating src/scripts/mkinstalldirs
770config.status: creating src/scripts/pager
771config.status: creating src/scripts/rtags
772config.status: creating src/unix/Makefile
773config.status: creating tests/Makefile
774config.status: creating tests/Embedding/Makefile
775config.status: creating tests/Examples/Makefile
776config.status: creating tools/Makefile
777config.status: creating src/include/config.h
778config.status: executing libtool commands
779config.status: executing stamp-h commands
780
781R is now configured for x86_64-pc-linux-gnu
782
783  Source directory:          .
784  Installation directory:    /home/travis/sage-build/local
785
786  C compiler:                gcc -std=gnu99  -g -O2
787  Fortran 77 compiler:       gfortran  -g -O2
788
789  C++ compiler:              g++  -g -O2
790  C++ 11 compiler:           g++  -std=c++11 -g -O2
791  Fortran 90/95 compiler:    gfortran -g -O2
792  Obj-C compiler:             
793
794  Interfaces supported:      X11
795  External libraries:        readline, BLAS(ATLAS), LAPACK(generic), zlib, bzlib, PCRE
796  Additional capabilities:   PNG, NLS
797  Options enabled:           shared R library, R profiling
798
799  Capabilities skipped:      JPEG, TIFF, cairo, ICU
800  Options not enabled:       shared BLAS, memory profiling
801
802  Recommended packages:      yes
803
804configure: WARNING: you cannot build info or HTML versions of the R manuals
805configure: WARNING: neither inconsolata.sty nor zi4.sty found: PDF vignettes and package manuals will not be rendered optimally
806make[3]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src'
807make[4]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/m4'
808make[4]: Nothing to be done for `R'.
809make[4]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/m4'
810make[4]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/tools'
811make[4]: Nothing to be done for `R'.
812make[4]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/tools'
813make[4]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/doc'
814make[5]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/doc/html'
815make[5]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/doc/html'
816make[5]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/doc/manual'
817make[5]: Nothing to be done for `R'.
818make[5]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/doc/manual'
819make[4]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/doc'
820make[4]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/etc'
821make[4]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/etc'
822make[4]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/share'
823make[4]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/share'
824make[4]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src'
825make[5]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/scripts'
826creating src/scripts/R.fe
827make[6]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/scripts'
828mkdir -p -- ../../bin
829make[6]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/scripts'
830make[5]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/scripts'
831make[5]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/include'
832mkdir -p -- ../../include
833make[6]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/include/R_ext'
834mkdir -p -- ../../../include/R_ext
835make[6]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/include/R_ext'
836make[5]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/include'
837make[5]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/extra'
838make[6]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/extra/xz'
839make[6]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/extra/tre'
840make[7]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/extra/tre'
841touch stamp
842making regcomp.d from regcomp.c
843making regexec.d from regexec.c
844making regerror.d from regerror.c
845making tre-ast.d from tre-ast.c
846make[7]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/extra/xz'
847gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c alone_decoder.c -o alone_decoder.o
848making tre-compile.d from tre-compile.c
849gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c alone_encoder.c -o alone_encoder.o
850making tre-match-approx.d from tre-match-approx.c
851gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c arm.c -o arm.o
852making tre-match-backtrack.d from tre-match-backtrack.c
853gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c armthumb.c -o armthumb.o
854making tre-match-parallel.d from tre-match-parallel.c
855making tre-mem.d from tre-mem.c
856making tre-parse.d from tre-parse.c
857making tre-stack.d from tre-stack.c
858making xmalloc.d from xmalloc.c
859gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c auto_decoder.c -o auto_decoder.o
860gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c block_buffer_decoder.c -o block_buffer_decoder.o
861gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c block_buffer_encoder.c -o block_buffer_encoder.o
862make[7]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/extra/tre'
863make[7]: Entering directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/extra/tre'
864gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c regcomp.c -o regcomp.o
865gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c block_decoder.c -o block_decoder.o
866gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c block_encoder.c -o block_encoder.o
867gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c block_header_decoder.c -o block_header_decoder.o
868gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c block_header_encoder.c -o block_header_encoder.o
869gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c block_util.c -o block_util.o
870gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c regerror.c -o regerror.o
871gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c regexec.c -o regexec.o
872gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c tre-ast.c -o tre-ast.o
873gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c check.c -o check.o
874gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c common.c -o common.o
875gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c crc32_fast.c -o crc32_fast.o
876gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c crc32_table.c -o crc32_table.o
877gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c tre-compile.c -o tre-compile.o
878gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c crc64_fast.c -o crc64_fast.o
879gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c crc64_table.c -o crc64_table.o
880gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c tre-match-approx.c -o tre-match-approx.o
881gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c delta_common.c -o delta_common.o
882gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c delta_decoder.c -o delta_decoder.o
883gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c delta_encoder.c -o delta_encoder.o
884gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c easy_buffer_encoder.c -o easy_buffer_encoder.o
885gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c tre-match-backtrack.c -o tre-match-backtrack.o
886gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c tre-match-parallel.c -o tre-match-parallel.o
887gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c tre-mem.c -o tre-mem.o
888gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c easy_decoder_memusage.c -o easy_decoder_memusage.o
889gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c tre-parse.c -o tre-parse.o
890gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c easy_encoder.c -o easy_encoder.o
891gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c easy_encoder_memusage.c -o easy_encoder_memusage.o
892gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c tre-stack.c -o tre-stack.o
893gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c easy_preset.c -o easy_preset.o
894gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c fastpos_table.c -o fastpos_table.o
895gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c filter_buffer_decoder.c -o filter_buffer_decoder.o
896gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c xmalloc.c -o xmalloc.o
897gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c filter_buffer_encoder.c -o filter_buffer_encoder.o
898gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c filter_common.c -o filter_common.o
899gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c filter_decoder.c -o filter_decoder.o
900gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c filter_encoder.c -o filter_encoder.o
901gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c filter_flags_decoder.c -o filter_flags_decoder.o
902gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c filter_flags_encoder.c -o filter_flags_encoder.o
903gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c ia64.c -o ia64.o
904gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c index.c -o index.o
905gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c index_decoder.c -o index_decoder.o
906gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c index_encoder.c -o index_encoder.o
907gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c index_hash.c -o index_hash.o
908gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c lz_decoder.c -o lz_decoder.o
909gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c lz_encoder.c -o lz_encoder.o
910gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c lz_encoder_mf.c -o lz_encoder_mf.o
911gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c lzma2_decoder.c -o lzma2_decoder.o
912gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c lzma2_encoder.c -o lzma2_encoder.o
913gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c lzma_decoder.c -o lzma_decoder.o
914gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c lzma_encoder.c -o lzma_encoder.o
915gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c lzma_encoder_optimum_fast.c -o lzma_encoder_optimum_fast.o
916gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c lzma_encoder_optimum_normal.c -o lzma_encoder_optimum_normal.o
917gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c lzma_encoder_presets.c -o lzma_encoder_presets.o
918gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c powerpc.c -o powerpc.o
919gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c price_table.c -o price_table.o
920gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c sha256.c -o sha256.o
921gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c simple_coder.c -o simple_coder.o
922ar -cr libtre.a regcomp.o regerror.o regexec.o tre-ast.o tre-compile.o tre-match-approx.o tre-match-backtrack.o tre-match-parallel.o tre-mem.o tre-parse.o tre-stack.o xmalloc.o
923gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c simple_decoder.c -o simple_decoder.o
924ranlib libtre.a
925make[7]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/extra/tre'
926make[6]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/extra/tre'
927gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c simple_encoder.c -o simple_encoder.o
928gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c sparc.c -o sparc.o
929gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c stream_buffer_decoder.c -o stream_buffer_decoder.o
930gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c stream_buffer_encoder.c -o stream_buffer_encoder.o
931gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c stream_decoder.c -o stream_decoder.o
932gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c stream_encoder.c -o stream_encoder.o
933gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c stream_flags_common.c -o stream_flags_common.o
934gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c stream_flags_decoder.c -o stream_flags_decoder.o
935gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c stream_flags_encoder.c -o stream_flags_encoder.o
936gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c vli_decoder.c -o vli_decoder.o
937gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c vli_encoder.c -o vli_encoder.o
938gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c vli_size.c -o vli_size.o
939gcc -std=gnu99 -I./api -I. -I../../../src/include -I../../../src/include  -DHAVE_CONFIG_H   -fopenmp -fpic  -g -O2   -fvisibility=hidden -c x86.c -o x86.o
940m -f liblzma.a
941/bin/bash: m: command not found
942make[7]: *** [liblzma.a] Error 127
943make[7]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/extra/xz'
944make[6]: *** [R] Error 2
945make[6]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/extra/xz'
946make[5]: *** [make.xz] Error 2
947make[5]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src/extra'
948make[4]: *** [R] Error 1
949make[4]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src/src'
950make[3]: *** [R] Error 1
951make[3]: Leaving directory `/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0/src'
952Error building R.
953
954real    0m22.953s
955user    0m20.915s
956sys     0m13.406s
957************************************************************************
958Error installing package r-3.2.4.p0
959************************************************************************
960Please email sage-devel (http://groups.google.com/group/sage-devel)
961explaining the problem and including the relevant part of the log file
962  /home/travis/sage-build/logs/pkgs/r-3.2.4.p0.log
963Describe your computer, operating system, etc.
964If you want to try to fix the problem yourself, *don't* just cd to
965/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0 and type 'make' or whatever is appropriate.
966Instead, the following commands setup all environment variables
967correctly and load a subshell for you to debug the error:
968  (cd '/home/travis/sage-build/local/var/tmp/sage/build/r-3.2.4.p0' && '/home/travis/sage-build/sage' --sh)
969When you are done debugging, you can type "exit" to leave the subshell.
970************************************************************************