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  1. sanchom@cook:/tmp/sage-5.9/logs/pkgs$ cat libgap-4.5.7.p2.log
  2. Found package libgap-4.5.7.p2 in spkg/standard/libgap-4.5.7.p2.spkg
  3. libgap-4.5.7.p2
  4. ====================================================
  5. Extracting package /tmp/sage-5.9/spkg/standard/libgap-4.5.7.p2.spkg
  6. -rw-r--r-- 1 sanchom grads 1022445 Mar 28 12:21 /tmp/sage-5.9/spkg/standard/libgap-4.5.7.p2.spkg
  7. Finished extraction
  8. ****************************************************
  9. Host system:
  10. Linux cook 3.7.10-1.4-default #1 SMP Fri Apr 19 12:06:34 UTC 2013 (8ef74f8) x86_64 x86_64 x86_64 GNU/Linux
  11. ****************************************************
  12. C compiler: gcc
  13. C compiler version:
  14. Using built-in specs.
  15. COLLECT_GCC=gcc
  16. COLLECT_LTO_WRAPPER=/usr/lib64/gcc/x86_64-suse-linux/4.7/lto-wrapper
  17. Target: x86_64-suse-linux
  18. Configured with: ../configure --prefix=/usr --infodir=/usr/share/info --mandir=/usr/share/man --libdir=/usr/lib64 --libexecdir=/usr/lib64 --enable-languages=c,c++,objc,fortran,obj-c++,java,ada --enable-checking=release --with-gxx-include-dir=/usr/include/c++/4.7 --enable-ssp --disable-libssp --disable-libitm --disable-plugin --with-bugurl=http://bugs.opensuse.org/ --with-pkgversion='SUSE Linux' --disable-libgcj --disable-libmudflap --with-slibdir=/lib64 --with-system-zlib --enable-__cxa_atexit --enable-libstdcxx-allocator=new --disable-libstdcxx-pch --enable-version-specific-runtime-libs --enable-linker-build-id --program-suffix=-4.7 --enable-linux-futex --without-system-libunwind --with-arch-32=i586 --with-tune=generic --build=x86_64-suse-linux
  19. Thread model: posix
  20. gcc version 4.7.2 20130108 [gcc-4_7-branch revision 195012] (SUSE Linux)
  21. ****************************************************
  22. GAP was configured with x86_64-unknown-linux-gnu-gcc-default64
  23. Configuring libGAP...
  24. configure: loading site script /usr/share/site/x86_64-unknown-linux-gnu
  25. checking build system type... x86_64-unknown-linux-gnu
  26. checking host system type... x86_64-unknown-linux-gnu
  27. checking target system type... x86_64-unknown-linux-gnu
  28. checking for a BSD-compatible install... /usr/bin/install -c
  29. checking whether build environment is sane... yes
  30. checking for a thread-safe mkdir -p... /bin/mkdir -p
  31. checking for gawk... gawk
  32. checking whether make sets $(MAKE)... yes
  33. checking for style of include used by make... GNU
  34. checking for gcc... gcc
  35. checking whether the C compiler works... yes
  36. checking for C compiler default output file name... a.out
  37. checking for suffix of executables...
  38. checking whether we are cross compiling... no
  39. checking for suffix of object files... o
  40. checking whether we are using the GNU C compiler... yes
  41. checking whether gcc accepts -g... yes
  42. checking for gcc option to accept ISO C89... none needed
  43. checking dependency style of gcc... gcc3
  44. checking whether gcc and cc understand -c and -o together... yes
  45. checking dependency style of gcc... gcc3
  46. checking for an ANSI C-conforming const... yes
  47. checking for inline... inline
  48. checking how to run the C preprocessor... gcc -E
  49. checking for grep that handles long lines and -e... /bin/grep
  50. checking for egrep... /bin/grep -E
  51. checking for ANSI C header files... yes
  52. checking for sys/types.h... yes
  53. checking for sys/stat.h... yes
  54. checking for stdlib.h... yes
  55. checking for string.h... yes
  56. checking for memory.h... yes
  57. checking for strings.h... yes
  58. checking for inttypes.h... yes
  59. checking for stdint.h... yes
  60. checking for unistd.h... yes
  61. checking whether byte ordering is bigendian... no
  62. checking size of void *... 8
  63. checking alignment of long... 8
  64. checking how to print strings... printf
  65. checking for a sed that does not truncate output... /bin/sed
  66. checking for fgrep... /bin/grep -F
  67. checking for ld used by gcc... ld
  68. checking if the linker (ld) is GNU ld... yes
  69. checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
  70. checking the name lister (/usr/bin/nm -B) interface... BSD nm
  71. checking whether ln -s works... yes
  72. checking the maximum length of command line arguments... 1572864
  73. checking whether the shell understands some XSI constructs... yes
  74. checking whether the shell understands "+="... yes
  75. checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop
  76. checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop
  77. checking for ld option to reload object files... -r
  78. checking for objdump... objdump
  79. checking how to recognize dependent libraries... pass_all
  80. checking for dlltool... no
  81. checking how to associate runtime and link libraries... printf %s\n
  82. checking for archiver @FILE support... @
  83. checking for strip... strip
  84. checking for ranlib... ranlib
  85. checking command to parse /usr/bin/nm -B output from gcc object... ok
  86. checking for sysroot... no
  87. checking for mt... mt
  88. checking if mt is a manifest tool... no
  89. checking for dlfcn.h... yes
  90. checking for objdir... .libs
  91. checking if gcc supports -fno-rtti -fno-exceptions... no
  92. checking for gcc option to produce PIC... -fPIC -DPIC
  93. checking if gcc PIC flag -fPIC -DPIC works... yes
  94. checking if gcc static flag -static works... no
  95. checking if gcc supports -c -o file.o... yes
  96. checking if gcc supports -c -o file.o... (cached) yes
  97. checking whether the gcc linker (ld -m elf_x86_64) supports shared libraries... yes
  98. checking whether -lc should be explicitly linked in... no
  99. checking dynamic linker characteristics... GNU/Linux ld.so
  100. checking how to hardcode library paths into programs... immediate
  101. checking for shl_load... no
  102. checking for shl_load in -ldld... no
  103. checking for dlopen... no
  104. checking for dlopen in -ldl... yes
  105. checking whether a program can dlopen itself... yes
  106. checking whether a statically linked program can dlopen itself... yes
  107. checking whether stripping libraries is possible... yes
  108. checking if libtool supports shared libraries... yes
  109. checking whether to build shared libraries... yes
  110. checking whether to build static libraries... no
  111. checking math.h usability... yes
  112. checking math.h presence... yes
  113. checking for math.h... yes
  114. checking assert.h usability... yes
  115. checking assert.h presence... yes
  116. checking for assert.h... yes
  117. checking sys/sysmacros.h usability... yes
  118. checking sys/sysmacros.h presence... yes
  119. checking for sys/sysmacros.h... yes
  120. checking fcntl.h usability... yes
  121. checking fcntl.h presence... yes
  122. checking for fcntl.h... yes
  123. checking for sys/stat.h... (cached) yes
  124. checking mach/mach.h usability... no
  125. checking mach/mach.h presence... no
  126. checking for mach/mach.h... no
  127. checking sys/mman.h usability... yes
  128. checking sys/mman.h presence... yes
  129. checking for sys/mman.h... yes
  130. checking sgtty.h usability... yes
  131. checking sgtty.h presence... yes
  132. checking for sgtty.h... yes
  133. checking for stdlib.h... (cached) yes
  134. checking for string.h... (cached) yes
  135. checking sys/ioctl.h usability... yes
  136. checking sys/ioctl.h presence... yes
  137. checking for sys/ioctl.h... yes
  138. checking sys/param.h usability... yes
  139. checking sys/param.h presence... yes
  140. checking for sys/param.h... yes
  141. checking sys/time.h usability... yes
  142. checking sys/time.h presence... yes
  143. checking for sys/time.h... yes
  144. checking sys/resource.h usability... yes
  145. checking sys/resource.h presence... yes
  146. checking for sys/resource.h... yes
  147. checking termio.h usability... yes
  148. checking termio.h presence... yes
  149. checking for termio.h... yes
  150. checking termios.h usability... yes
  151. checking termios.h presence... yes
  152. checking for termios.h... yes
  153. checking for unistd.h... (cached) yes
  154. checking signal.h usability... yes
  155. checking signal.h presence... yes
  156. checking for signal.h... yes
  157. checking stdio.h usability... yes
  158. checking stdio.h presence... yes
  159. checking for stdio.h... yes
  160. checking libc.h usability... no
  161. checking libc.h presence... no
  162. checking for libc.h... no
  163. checking sys/times.h usability... yes
  164. checking sys/times.h presence... yes
  165. checking for sys/times.h... yes
  166. checking sys/wait.h usability... yes
  167. checking sys/wait.h presence... yes
  168. checking for sys/wait.h... yes
  169. checking vfork.h usability... no
  170. checking vfork.h presence... no
  171. checking for vfork.h... no
  172. checking dirent.h usability... yes
  173. checking dirent.h presence... yes
  174. checking for dirent.h... yes
  175. checking errno.h usability... yes
  176. checking errno.h presence... yes
  177. checking for errno.h... yes
  178. checking setjmp.h usability... yes
  179. checking setjmp.h presence... yes
  180. checking for setjmp.h... yes
  181. checking for pid_t... yes
  182. checking for vfork.h... (cached) no
  183. checking for fork... yes
  184. checking for vfork... yes
  185. checking for working fork... yes
  186. checking for working vfork... (cached) yes
  187. checking for vfork.h... (cached) no
  188. checking for fork... (cached) yes
  189. checking for vfork... (cached) yes
  190. checking for working fork... (cached) yes
  191. checking for working vfork... (cached) yes
  192. checking for stdlib.h... (cached) yes
  193. checking for GNU libc compatible malloc... yes
  194. checking for getpseudotty... no
  195. checking for _getpty... no
  196. checking for getpt... yes
  197. checking for ptsname_r... yes
  198. checking for setpgid... yes
  199. checking for setjmp... yes
  200. checking for sigsetjmp... no
  201. checking for sbrk... yes
  202. checking for rld_load... no
  203. checking for times... yes
  204. checking for getrusage... yes
  205. checking for vm_allocate... no
  206. checking for fork... (cached) yes
  207. checking for popen... yes
  208. checking for waitpid... yes
  209. checking for wait4... yes
  210. checking for dup2... yes
  211. checking for floor... no
  212. checking for memmove... yes
  213. checking for mkdir... yes
  214. checking for pow... no
  215. checking for rint... no
  216. checking for select... yes
  217. checking for ttyname... yes
  218. checking for strerror... yes
  219. checking for select... (cached) yes
  220. checking for access... yes
  221. checking for stat... yes
  222. checking for fstat... yes
  223. checking for lstat... yes
  224. checking for unlink... yes
  225. checking for mkdir... (cached) yes
  226. checking for mkdtemp... yes
  227. checking for mkstemp... yes
  228. checking for rmdir... yes
  229. checking for link... yes
  230. checking for rename... yes
  231. checking for symlink... yes
  232. checking for readlink... yes
  233. checking for chmod... yes
  234. checking for fchmod... yes
  235. checking for chown... yes
  236. checking for fchown... yes
  237. checking for lchown... yes
  238. checking for dup... yes
  239. checking for dup2... (cached) yes
  240. checking for mknod... yes
  241. checking for mkfifo... yes
  242. checking for socket... yes
  243. checking for listen... yes
  244. checking for accept... yes
  245. checking for connect... yes
  246. checking for bind... yes
  247. checking for getsockname... yes
  248. checking for recv... yes
  249. checking for recvfrom... yes
  250. checking for recvmsg... yes
  251. checking for send... yes
  252. checking for sendto... yes
  253. checking for sendmsg... yes
  254. checking for getsockopt... yes
  255. checking for setsockopt... yes
  256. checking for getprotobyname... yes
  257. checking for gethostbyname... yes
  258. checking for opendir... yes
  259. checking for closedir... yes
  260. checking for dirfd... yes
  261. checking for readdir... yes
  262. checking for rewinddir... yes
  263. checking for seekdir... yes
  264. checking for telldir... yes
  265. checking for stdbool.h that conforms to C99... yes
  266. checking for _Bool... yes
  267. checking for ANSI C header files... (cached) yes
  268. checking for sys/wait.h that is POSIX.1 compatible... (cached) yes
  269. checking for dirent.h that defines DIR... yes
  270. checking for library containing opendir... none required
  271. checking whether sys/types.h defines makedev... yes
  272. checking whether stat file-mode macros are broken... no
  273. checking for inline... (cached) inline
  274. checking for size_t... yes
  275. checking for pid_t... (cached) yes
  276. checking return type of signal handlers... void
  277. checking for struct stat.st_rdev... yes
  278. checking for signal... yes
  279. checking return type of signal handlers... (cached) void
  280. checking that generated files are newer than configure... done
  281. configure: creating ./config.status
  282. config.status: creating Makefile
  283. config.status: creating src/Makefile
  284. config.status: creating test/Makefile
  285. config.status: creating src/config.h
  286. config.status: executing depfiles commands
  287. config.status: executing libtool commands
  288. Building libGAP...
  289. make[3]: Entering directory `/tmp/sage-5.9/spkg/build/libgap-4.5.7.p2/src'
  290. Making all in src
  291. make[4]: Entering directory `/tmp/sage-5.9/spkg/build/libgap-4.5.7.p2/src/src'
  292. make all-am
  293. make[5]: Entering directory `/tmp/sage-5.9/spkg/build/libgap-4.5.7.p2/src/src'
  294. /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.. -DCONFIG_H -I/tmp/sage-5.9/local/include -I/tmp/sage-5.9/local/include/csage -I/tmp/sage-5.9/local/include/python2.7 -MT libgap_la-ariths.lo -MD -MP -MF .deps/libgap_la-ariths.Tpo -c -o libgap_la-ariths.lo `test -f 'ariths.c' || echo './'`ariths.c
  295. libtool: compile: gcc -DHAVE_CONFIG_H -I.. -DCONFIG_H -I/tmp/sage-5.9/local/include -I/tmp/sage-5.9/local/include/csage -I/tmp/sage-5.9/local/include/python2.7 -MT libgap_la-ariths.lo -MD -MP -MF .deps/libgap_la-ariths.Tpo -c ariths.c -fPIC -DPIC -o .libs/libgap_la-ariths.o
  296. /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.. -DCONFIG_H -I/tmp/sage-5.9/local/include -I/tmp/sage-5.9/local/include/csage -I/tmp/sage-5.9/local/include/python2.7 -MT libgap_la-c_random.lo -MD -MP -MF .deps/libgap_la-c_random.Tpo -c -o libgap_la-c_random.lo `test -f 'c_random.c' || echo './'`c_random.c
  297. libtool: compile: gcc -DHAVE_CONFIG_H -I.. -DCONFIG_H -I/tmp/sage-5.9/local/include -I/tmp/sage-5.9/local/include/csage -I/tmp/sage-5.9/local/include/python2.7 -MT libgap_la-c_random.lo -MD -MP -MF .deps/libgap_la-c_random.Tpo -c c_random.c -fPIC -DPIC -o .libs/libgap_la-c_random.o
  298. c_random.c: In function 'libGAP_InitLibrary':
  299. c_random.c:372:2: warning: incompatible implicit declaration of built-in function 'memcpy' [enabled by default]
  300. c_random.c:373:2: warning: incompatible implicit declaration of built-in function 'memcpy' [enabled by default]
  301. mv -f .deps/libgap_la-ariths.Tpo .deps/libgap_la-ariths.Plo
  302. mv -f .deps/libgap_la-c_random.Tpo .deps/libgap_la-c_random.Plo
  303. /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.. -DCONFIG_H -I/tmp/sage-5.9/local/include -I/tmp/sage-5.9/local/include/csage -I/tmp/sage-5.9/local/include/python2.7 -MT libgap_la-gmpints.lo -MD -MP -MF .deps/libgap_la-gmpints.Tpo -c -o libgap_la-gmpints.lo `test -f 'gmpints.c' || echo './'`gmpints.c
  304. libtool: compile: gcc -DHAVE_CONFIG_H -I.. -DCONFIG_H -I/tmp/sage-5.9/local/include -I/tmp/sage-5.9/local/include/csage -I/tmp/sage-5.9/local/include/python2.7 -MT libgap_la-gmpints.lo -MD -MP -MF .deps/libgap_la-gmpints.Tpo -c gmpints.c -fPIC -DPIC -o .libs/libgap_la-gmpints.o
  305. mv -f .deps/libgap_la-gmpints.Tpo .deps/libgap_la-gmpints.Plo
  306. /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.. -DCONFIG_H -I/tmp/sage-5.9/local/include -I/tmp/sage-5.9/local/include/csage -I/tmp/sage-5.9/local/include/python2.7 -MT libgap_la-objccoll.lo -MD -MP -MF .deps/libgap_la-objccoll.Tpo -c -o libgap_la-objccoll.lo `test -f 'objccoll.c' || echo './'`objccoll.c
  307. libtool: compile: gcc -DHAVE_CONFIG_H -I.. -DCONFIG_H -I/tmp/sage-5.9/local/include -I/tmp/sage-5.9/local/include/csage -I/tmp/sage-5.9/local/include/python2.7 -MT libgap_la-objccoll.lo -MD -MP -MF .deps/libgap_la-objccoll.Tpo -c objccoll.c -fPIC -DPIC -o .libs/libgap_la-objccoll.o
  308. mv -f .deps/libgap_la-objccoll.Tpo .deps/libgap_la-objccoll.Plo
  309. /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.. -DCONFIG_H -I/tmp/sage-5.9/local/include -I/tmp/sage-5.9/local/include/csage -I/tmp/sage-5.9/local/include/python2.7 -MT libgap_la-rational.lo -MD -MP -MF .deps/libgap_la-rational.Tpo -c -o libgap_la-rational.lo `test -f 'rational.c' || echo './'`rational.c
  310. libtool: compile: gcc -DHAVE_CONFIG_H -I.. -DCONFIG_H -I/tmp/sage-5.9/local/include -I/tmp/sage-5.9/local/include/csage -I/tmp/sage-5.9/local/include/python2.7 -MT libgap_la-rational.lo -MD -MP -MF .deps/libgap_la-rational.Tpo -c rational.c -fPIC -DPIC -o .libs/libgap_la-rational.o
  311. mv -f .deps/libgap_la-rational.Tpo .deps/libgap_la-rational.Plo
  312. /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I.. -DCONFIG_H -I/tmp/sage-5.9/local/include -I/tmp/sage-5.9/local/include/csage -I/tmp/sage-5.9/local/include/python2.7 -MT libgap_la-system.lo -MD -MP -MF .deps/libgap_la-system.Tpo -c -o libgap_la-system.lo `test -f 'system.c' || echo './'`system.c
  313. libtool: compile: gcc -DHAVE_CONFIG_H -I.. -DCONFIG_H -I/tmp/sage-5.9/local/include -I/tmp/sage-5.9/local/include/csage -I/tmp/sage-5.9/local/include/python2.7 -MT libgap_la-system.lo -MD -MP -MF .deps/libgap_la-system.Tpo -c system.c -fPIC -DPIC -o .libs/libgap_la-system.o
  314. In file included from system.c:45:0:
  315. ./string.h:213:56: error: 'libGAP_LAST_REAL_TNUM' undeclared here (not in a function)
  316. system.c: In function 'libGAP_SyStrlen':
  317. system.c:590:12: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default]
  318. system.c: In function 'libGAP_SyStrncat':
  319. system.c:681:12: warning: incompatible implicit declaration of built-in function 'strncat' [enabled by default]
  320. system.c: In function 'libGAP_strlcat':
  321. system.c:759:31: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default]
  322. system.c: In function 'libGAP_strlncat':
  323. system.c:798:11: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default]
  324. system.c: In function 'libGAP_SyAllocBags':
  325. system.c:1261:15: warning: incompatible implicit declaration of built-in function 'memset' [enabled by default]
  326. system.c: In function 'libGAP_SySetGapRootPath':
  327. system.c:1525:22: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default]
  328. system.c:1537:13: warning: incompatible implicit declaration of built-in function 'memcpy' [enabled by default]
  329. system.c: In function 'libGAP_ParseMemory':
  330. system.c:1620:27: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default]
  331. system.c: In function 'libGAP_InitSystem':
  332. system.c:1889:16: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default]
  333. system.c:2014:27: warning: incompatible implicit declaration of built-in function 'strlen' [enabled by default]
  334. system.c:2021:13: warning: incompatible implicit declaration of built-in function 'memmove' [enabled by default]
  335. system.c:2024:13: warning: incompatible implicit declaration of built-in function 'memcpy' [enabled by default]
  336. make[5]: *** [libgap_la-system.lo] Error 1
  337. make[5]: Leaving directory `/tmp/sage-5.9/spkg/build/libgap-4.5.7.p2/src/src'
  338. make[4]: *** [all] Error 2
  339. make[4]: Leaving directory `/tmp/sage-5.9/spkg/build/libgap-4.5.7.p2/src/src'
  340. make[3]: *** [all-recursive] Error 1
  341. make[3]: Leaving directory `/tmp/sage-5.9/spkg/build/libgap-4.5.7.p2/src'
  342. Error building libGAP.
  343.  
  344. real 0m11.765s
  345. user 0m4.704s
  346. sys 0m2.676s
  347. ************************************************************************
  348. Error installing package libgap-4.5.7.p2
  349. ************************************************************************
  350. Please email sage-devel (http://groups.google.com/group/sage-devel)
  351. explaining the problem and including the relevant part of the log file
  352. /tmp/sage-5.9/logs/pkgs/libgap-4.5.7.p2.log
  353. Describe your computer, operating system, etc.
  354. If you want to try to fix the problem yourself, *don't* just cd to
  355. /tmp/sage-5.9/spkg/build/libgap-4.5.7.p2 and type 'make' or whatever is appropriate.
  356. Instead, the following commands setup all environment variables
  357. correctly and load a subshell for you to debug the error:
  358. (cd '/tmp/sage-5.9/spkg/build/libgap-4.5.7.p2' && '/tmp/sage-5.9/sage' --sh)
  359. When you are done debugging, you can type "exit" to leave the subshell.
  360. ************************************************************************
  361. sanchom@cook:/tmp/sage-5.9/logs/pkgs$
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