Advertisement
Guest User

Untitled

a guest
Feb 24th, 2014
93
0
Never
Not a member of Pastebin yet? Sign Up, it unlocks many cool features!
text 77.45 KB | None | 0 0
  1. > install.packages("Rgraphviz_2.7.1.tar.gz", repos=NULL)
  2. Bioconductor version 2.13 (BiocInstaller 1.12.0), ?biocLite for help
  3.  
  4. Welcome to R!
  5.  
  6. * installing *source* package ‘Rgraphviz’ ...
  7. configure: Using bundled Graphviz.
  8. configure: Searching for the compilers specified by R.
  9. checking for gcc... gcc -std=gnu99
  10. checking whether the C compiler works... yes
  11. checking for C compiler default output file name... a.out
  12. checking for suffix of executables...
  13. checking whether we are cross compiling... no
  14. checking for suffix of object files... o
  15. checking whether we are using the GNU C compiler... yes
  16. checking whether gcc -std=gnu99 accepts -g... yes
  17. checking for gcc -std=gnu99 option to accept ISO C89... none needed
  18. checking how to run the C preprocessor... gcc -std=gnu99 -E
  19. checking whether we are using the GNU C++ compiler... yes
  20. checking whether g++ accepts -g... yes
  21. configure: Preparing to compile Graphviz.
  22. configure: Configuring bundled Graphviz.
  23. checking build system type... x86_64-unknown-linux-gnu
  24. checking host system type... x86_64-unknown-linux-gnu
  25. checking for a BSD-compatible install... /usr/bin/install -c
  26. checking whether build environment is sane... yes
  27. checking for a thread-safe mkdir -p... /bin/mkdir -p
  28. checking for gawk... gawk
  29. checking whether make sets $(MAKE)... yes
  30. checking whether make supports nested variables... yes
  31. checking for style of include used by make... GNU
  32. checking for gcc... gcc -std=gnu99
  33. checking whether the C compiler works... yes
  34. checking for C compiler default output file name... a.out
  35. checking for suffix of executables...
  36. checking whether we are cross compiling... no
  37. checking for suffix of object files... o
  38. checking whether we are using the GNU C compiler... yes
  39. checking whether gcc -std=gnu99 accepts -g... yes
  40. checking for gcc -std=gnu99 option to accept ISO C89... none needed
  41. checking dependency style of gcc -std=gnu99... gcc3
  42. checking for library containing strerror... none required
  43. checking for flex... flex
  44. checking lex output file root... lex.yy
  45. checking lex library... -lfl
  46. checking whether yytext is a pointer... yes
  47. checking for bison... bison -y
  48. checking for gawk... (cached) gawk
  49. checking whether ln -s works... yes
  50. checking for sed... /bin/sed
  51. checking for grep... grep
  52. checking for sort... sort
  53. checking for groff... groff
  54. checking for ps2pdf... ps2pdf
  55. checking for pstopdf... (cached) ps2pdf
  56. checking for pkg-config... /usr/bin/pkg-config
  57. checking pkg-config is at least version 0.9.0... yes
  58. checking for tclsh8.6... no
  59. checking for tclsh8.5... no
  60. checking for tclsh8.4... /GWD/bioinfo/tools/bin/tclsh8.4
  61. checking whether gcc -std=gnu99 and cc understand -c and -o together... yes
  62. checking whether we are using the GNU C++ compiler... yes
  63. checking whether g++ accepts -g... yes
  64. checking dependency style of g++... gcc3
  65. checking for gcc... gcc
  66. checking whether we are using the GNU Objective C compiler... no
  67. checking whether gcc accepts -g... no
  68. checking dependency style of gcc... gcc3
  69. checking for inline... inline
  70. checking for windres... no
  71. checking for an ANSI C-conforming const... yes
  72. checking how to run the C preprocessor... gcc -std=gnu99 -E
  73. checking for grep that handles long lines and -e... grep
  74. checking for egrep... grep -E
  75. checking for ANSI C header files... yes
  76. checking for sys/types.h... yes
  77. checking for sys/stat.h... yes
  78. checking for stdlib.h... yes
  79. checking for string.h... yes
  80. checking for memory.h... yes
  81. checking for strings.h... yes
  82. checking for inttypes.h... yes
  83. checking for stdint.h... yes
  84. checking for unistd.h... yes
  85. checking for mode_t... yes
  86. checking for pid_t... yes
  87. checking for size_t... yes
  88. checking for ssize_t... yes
  89. checking for uid_t in sys/types.h... yes
  90. checking stdarg.h usability... yes
  91. checking stdarg.h presence... yes
  92. checking for stdarg.h... yes
  93. checking stddef.h usability... yes
  94. checking stddef.h presence... yes
  95. checking for stddef.h... yes
  96. checking for stddef.h... (cached) yes
  97. checking for stdlib.h... (cached) yes
  98. checking for stdint.h... (cached) yes
  99. checking malloc.h usability... yes
  100. checking malloc.h presence... yes
  101. checking for malloc.h... yes
  102. checking fcntl.h usability... yes
  103. checking fcntl.h presence... yes
  104. checking for fcntl.h... yes
  105. checking search.h usability... yes
  106. checking search.h presence... yes
  107. checking for search.h... yes
  108. checking getopt.h usability... yes
  109. checking getopt.h presence... yes
  110. checking for getopt.h... yes
  111. checking pthread.h usability... yes
  112. checking pthread.h presence... yes
  113. checking for pthread.h... yes
  114. checking values.h usability... yes
  115. checking values.h presence... yes
  116. checking for values.h... yes
  117. checking float.h usability... yes
  118. checking float.h presence... yes
  119. checking for float.h... yes
  120. checking limits.h usability... yes
  121. checking limits.h presence... yes
  122. checking for limits.h... yes
  123. checking termios.h usability... yes
  124. checking termios.h presence... yes
  125. checking for termios.h... yes
  126. checking errno.h usability... yes
  127. checking errno.h presence... yes
  128. checking for errno.h... yes
  129. checking time.h usability... yes
  130. checking time.h presence... yes
  131. checking for time.h... yes
  132. checking for unistd.h... (cached) yes
  133. checking fenv.h usability... yes
  134. checking fenv.h presence... yes
  135. checking for fenv.h... yes
  136. checking for string.h... (cached) yes
  137. checking for strings.h... (cached) yes
  138. checking for inttypes.h... (cached) yes
  139. checking setjmp.h usability... yes
  140. checking setjmp.h presence... yes
  141. checking for setjmp.h... yes
  142. checking sys/time.h usability... yes
  143. checking sys/time.h presence... yes
  144. checking for sys/time.h... yes
  145. checking sys/times.h usability... yes
  146. checking sys/times.h presence... yes
  147. checking for sys/times.h... yes
  148. checking for sys/types.h... (cached) yes
  149. checking sys/select.h usability... yes
  150. checking sys/select.h presence... yes
  151. checking for sys/select.h... yes
  152. checking fpu_control.h usability... yes
  153. checking fpu_control.h presence... yes
  154. checking for fpu_control.h... yes
  155. checking sys/fpu.h usability... no
  156. checking sys/fpu.h presence... no
  157. checking for sys/fpu.h... no
  158. checking sys/socket.h usability... yes
  159. checking sys/socket.h presence... yes
  160. checking for sys/socket.h... yes
  161. checking for sys/stat.h... (cached) yes
  162. checking sys/mman.h usability... yes
  163. checking sys/mman.h presence... yes
  164. checking for sys/mman.h... yes
  165. checking sys/ioctl.h usability... yes
  166. checking sys/ioctl.h presence... yes
  167. checking for sys/ioctl.h... yes
  168. checking sys/inotify.h usability... yes
  169. checking sys/inotify.h presence... yes
  170. checking for sys/inotify.h... yes
  171. checking langinfo.h usability... yes
  172. checking langinfo.h presence... yes
  173. checking for langinfo.h... yes
  174. checking libintl.h usability... yes
  175. checking libintl.h presence... yes
  176. checking for libintl.h... yes
  177. checking crt_externs.h usability... no
  178. checking crt_externs.h presence... no
  179. checking for crt_externs.h... no
  180. checking whether time.h and sys/time.h may both be included... yes
  181. checking for dirent.h that defines DIR... yes
  182. checking for library containing opendir... none required
  183. checking for stdbool.h that conforms to C99... yes
  184. checking for _Bool... yes
  185. checking for socklen_t... yes
  186. checking for bool... yes
  187. checking for struct dioattr... no
  188. checking for main in -lm... yes
  189. checking for feenableexcept... yes
  190. checking for fesetenv... yes
  191. checking libgen.h usability... yes
  192. checking libgen.h presence... yes
  193. checking for libgen.h... yes
  194. checking for basename in -lgen... no
  195. checking for working alloca.h... yes
  196. checking for alloca... yes
  197. checking for lrand48... yes
  198. checking for drand48... yes
  199. checking for srand48... yes
  200. checking for setmode... no
  201. checking for setenv... yes
  202. checking for getenv... yes
  203. checking for __freadable... yes
  204. checking for _sysconf... no
  205. checking for getrusage... yes
  206. checking for strerror... yes
  207. checking for cbrt... no
  208. checking for lsqrt... no
  209. checking for vsnprintf... yes
  210. checking for strtoul... yes
  211. checking for strtoll... yes
  212. checking for strtoull... yes
  213. checking for uname... yes
  214. checking for memset... yes
  215. checking for nl_langinfo... yes
  216. checking for pow... no
  217. checking for sqrt... no
  218. checking for strchr... yes
  219. checking for strdup... yes
  220. checking for strerror... (cached) yes
  221. checking for strstr... yes
  222. checking for _NSGetEnviron... no
  223. checking for strcasecmp... yes
  224. checking for strncasecmp... yes
  225. checking for strcasestr... yes
  226. checking for a sed that does not truncate output... /bin/sed
  227. checking for fgrep... grep -F
  228. checking for ld used by gcc -std=gnu99... /usr/bin/ld
  229. checking if the linker (/usr/bin/ld) is GNU ld... yes
  230. checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
  231. checking the name lister (/usr/bin/nm -B) interface... BSD nm
  232. checking the maximum length of command line arguments... 98304
  233. checking whether the shell understands some XSI constructs... yes
  234. checking whether the shell understands "+="... yes
  235. checking for /usr/bin/ld option to reload object files... -r
  236. checking for objdump... objdump
  237. checking how to recognize dependent libraries... pass_all
  238. checking for ar... ar
  239. checking for strip... strip
  240. checking for ranlib... ranlib
  241. checking command to parse /usr/bin/nm -B output from gcc -std=gnu99 object... ok
  242. checking for dlfcn.h... yes
  243. checking whether we are using the GNU C++ compiler... (cached) yes
  244. checking whether g++ accepts -g... (cached) yes
  245. checking dependency style of g++... (cached) gcc3
  246. checking how to run the C++ preprocessor... g++ -E
  247. checking for objdir... .libs
  248. checking if gcc -std=gnu99 supports -fno-rtti -fno-exceptions... no
  249. checking for gcc -std=gnu99 option to produce PIC... -fPIC -DPIC
  250. checking if gcc -std=gnu99 PIC flag -fPIC -DPIC works... yes
  251. checking if gcc -std=gnu99 static flag -static works... yes
  252. checking if gcc -std=gnu99 supports -c -o file.o... yes
  253. checking if gcc -std=gnu99 supports -c -o file.o... (cached) yes
  254. checking whether the gcc -std=gnu99 linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
  255. checking dynamic linker characteristics... GNU/Linux ld.so
  256. checking how to hardcode library paths into programs... immediate
  257. checking for shl_load... no
  258. checking for shl_load in -ldld... no
  259. checking for dlopen... no
  260. checking for dlopen in -ldl... yes
  261. checking whether a program can dlopen itself... yes
  262. checking whether a statically linked program can dlopen itself... no
  263. checking whether stripping libraries is possible... yes
  264. checking if libtool supports shared libraries... yes
  265. checking whether to build shared libraries... no
  266. checking whether to build static libraries... yes
  267. checking for ld used by g++... /usr/bin/ld -m elf_x86_64
  268. checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes
  269. checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
  270. checking for g++ option to produce PIC... -fPIC -DPIC
  271. checking if g++ PIC flag -fPIC -DPIC works... yes
  272. checking if g++ static flag -static works... yes
  273. checking if g++ supports -c -o file.o... yes
  274. checking if g++ supports -c -o file.o... (cached) yes
  275. checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
  276. checking dynamic linker characteristics... GNU/Linux ld.so
  277. checking how to hardcode library paths into programs... immediate
  278. checking which extension is used for runtime loadable modules... .so
  279. checking which variable specifies run-time module search path... LD_LIBRARY_PATH
  280. checking for the default library search path... /lib64 /usr/lib64 /lib /usr/lib /usr/lib/mysql /usr/lib64/mysql /usr/lib/xulrunner /usr/lib64/xulrunner
  281. checking for library containing dlopen... -ldl
  282. checking for dlerror... yes
  283. checking for shl_load... (cached) no
  284. checking for shl_load in -ldld... (cached) no
  285. checking for dld_link in -ldld... no
  286. checking for _ prefix in compiled symbols... no
  287. checking whether deplibs are loaded by dlopen... yes
  288. checking for argz.h... yes
  289. checking for error_t... yes
  290. checking for argz_add... yes
  291. checking for argz_append... yes
  292. checking for argz_count... yes
  293. checking for argz_create_sep... yes
  294. checking for argz_insert... yes
  295. checking for argz_next... yes
  296. checking for argz_stringify... yes
  297. checking if argz actually works... yes
  298. checking whether libtool supports -dlopen/-dlpreopen... yes
  299. checking for ltdl.h... no
  300. checking where to find libltdl headers... -I${top_srcdir}/libltdl
  301. checking where to find libltdl library... ${top_build_prefix}libltdl/libltdlc.la
  302. checking for unistd.h... (cached) yes
  303. checking for dl.h... no
  304. checking for sys/dl.h... no
  305. checking for dld.h... no
  306. checking for mach-o/dyld.h... no
  307. checking for dirent.h... yes
  308. checking for closedir... yes
  309. checking for opendir... yes
  310. checking for readdir... yes
  311. checking for strlcat... no
  312. checking for strlcpy... no
  313. checking for X... disabled
  314. configure: WARNING: X11 not available.
  315. checking tcl.h usability... no
  316. checking tcl.h presence... no
  317. checking for tcl.h... no
  318. configure: WARNING: Unable to find header tcl.h. The Tcl packages will not be built
  319. configure: WARNING: No Tcl. The Tk packages will not be built either
  320. checking for connect... yes
  321. checking for gethostbyname... yes
  322. checking for main in -lXpm... no
  323. configure: WARNING: Optional Xpm library not available
  324. checking X11/Intrinsic.h usability... yes
  325. checking X11/Intrinsic.h presence... yes
  326. checking for X11/Intrinsic.h... yes
  327. checking for X11/Xaw/Text.h... no
  328. configure: WARNING: Optional Xaw library not available - missing headers
  329. checking zlib.h usability... yes
  330. checking zlib.h presence... yes
  331. checking for zlib.h... yes
  332. checking for main in -lz... yes
  333. checking for deflateBound... yes
  334. checking for GDK_PIXBUF... yes
  335. checking for GTK... yes
  336. checking for GTKGL... no
  337. checking for GTKGLEXT... no
  338. checking for GLADE... yes
  339. checking for qmake-qt4... no
  340. checking for qmake-qt3... no
  341. checking for qmake... qmake
  342. checking for QTCORE... no
  343. checking for sincos... yes
  344. checking if FILE struct contains _cnt... no
  345. checking if FILE struct contains _r... no
  346. checking if FILE struct contains _next... no
  347. checking if FILE struct contains _IO_read_end... yes
  348. checking if errno externs are declared... yes
  349. checking if getopt externs are declared... yes
  350. checking if intptr_t is declared... yes
  351. checking if assert needs __eprintf... no
  352. checking that generated files are newer than configure... done
  353. configure: creating ./config.status
  354. config.status: creating Makefile
  355. config.status: creating lib/Makefile
  356. config.status: creating lib/cdt/Makefile
  357. config.status: creating lib/cdt/libcdt.pc
  358. config.status: creating lib/graph/Makefile
  359. config.status: creating lib/graph/libgraph.pc
  360. config.status: creating lib/rbtree/Makefile
  361. config.status: creating lib/pathplan/Makefile
  362. config.status: creating lib/pathplan/libpathplan.pc
  363. config.status: creating lib/dotgen/Makefile
  364. config.status: creating lib/neatogen/Makefile
  365. config.status: creating lib/fdpgen/Makefile
  366. config.status: creating lib/sparse/Makefile
  367. config.status: creating lib/sfdpgen/Makefile
  368. config.status: creating lib/osage/Makefile
  369. config.status: creating lib/circogen/Makefile
  370. config.status: creating lib/twopigen/Makefile
  371. config.status: creating lib/patchwork/Makefile
  372. config.status: creating lib/pack/Makefile
  373. config.status: creating lib/ortho/Makefile
  374. config.status: creating lib/common/Makefile
  375. config.status: creating lib/vpsc/Makefile
  376. config.status: creating lib/gvc/Makefile
  377. config.status: creating lib/gvc/libgvc.pc
  378. config.status: creating lib/xdot/Makefile
  379. config.status: creating lib/xdot/libxdot.pc
  380. config.status: creating plugin/Makefile
  381. config.status: creating plugin/core/Makefile
  382. config.status: creating plugin/dot_layout/Makefile
  383. config.status: creating plugin/neato_layout/Makefile
  384. config.status: creating graphviz.spec
  385. config.status: creating Doxyfile
  386. config.status: creating config.h
  387. config.status: executing depfiles commands
  388. config.status: executing libtool commands
  389. === configuring in libltdl (/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/libltdl)
  390. configure: running /bin/sh ./configure --disable-option-checking '--prefix=/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix' 'CC=gcc -std=gnu99' 'CXX=g++' 'CFLAGS=-g -O2' 'CXXFLAGS=-g -O2' 'LDFLAGS=-L/usr/local/lib64' '--libdir=/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib' '--includedir=/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include' '--with-cgraph=no' '--enable-swig=no' '--enable-static' '--disable-shared' '--with-pic' '--with-libgd=no' '--disable-ltdl' '--without-x' '--without-expat' '--without-devil' '--without-rsvg' '--without-ghostscript' '--without-visio' '--without-pangocairo' '--without-lasi' '--without-glitz' '--without-freetype2' '--without-fontconfig' '--without-rpat' '--without-glut' '--without-gts' '--without-png' '--without-tcl' '--without-jpeg' 'R_LIBS=/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/library' '--enable-ltdl-convenience' --cache-file=/dev/null --srcdir=.
  391. checking for a BSD-compatible install... /usr/bin/install -c
  392. checking whether build environment is sane... yes
  393. checking for a thread-safe mkdir -p... /bin/mkdir -p
  394. checking for gawk... gawk
  395. checking whether make sets $(MAKE)... yes
  396. checking build system type... x86_64-unknown-linux-gnu
  397. checking host system type... x86_64-unknown-linux-gnu
  398. checking for style of include used by make... GNU
  399. checking for gcc... gcc -std=gnu99
  400. checking whether the C compiler works... yes
  401. checking for C compiler default output file name... a.out
  402. checking for suffix of executables...
  403. checking whether we are cross compiling... no
  404. checking for suffix of object files... o
  405. checking whether we are using the GNU C compiler... yes
  406. checking whether gcc -std=gnu99 accepts -g... yes
  407. checking for gcc -std=gnu99 option to accept ISO C89... none needed
  408. checking dependency style of gcc -std=gnu99... gcc3
  409. checking for a sed that does not truncate output... /bin/sed
  410. checking for grep that handles long lines and -e... /bin/grep
  411. checking for egrep... /bin/grep -E
  412. checking for fgrep... /bin/grep -F
  413. checking for ld used by gcc -std=gnu99... /usr/bin/ld
  414. checking if the linker (/usr/bin/ld) is GNU ld... yes
  415. checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
  416. checking the name lister (/usr/bin/nm -B) interface... BSD nm
  417. checking whether ln -s works... yes
  418. checking the maximum length of command line arguments... 98304
  419. checking whether the shell understands some XSI constructs... yes
  420. checking whether the shell understands "+="... yes
  421. checking for /usr/bin/ld option to reload object files... -r
  422. checking for objdump... objdump
  423. checking how to recognize dependent libraries... pass_all
  424. checking for ar... ar
  425. checking for strip... strip
  426. checking for ranlib... ranlib
  427. checking command to parse /usr/bin/nm -B output from gcc -std=gnu99 object... ok
  428. checking how to run the C preprocessor... gcc -std=gnu99 -E
  429. checking for ANSI C header files... yes
  430. checking for sys/types.h... yes
  431. checking for sys/stat.h... yes
  432. checking for stdlib.h... yes
  433. checking for string.h... yes
  434. checking for memory.h... yes
  435. checking for strings.h... yes
  436. checking for inttypes.h... yes
  437. checking for stdint.h... yes
  438. checking for unistd.h... yes
  439. checking for dlfcn.h... yes
  440. checking for objdir... .libs
  441. checking if gcc -std=gnu99 supports -fno-rtti -fno-exceptions... no
  442. checking for gcc -std=gnu99 option to produce PIC... -fPIC -DPIC
  443. checking if gcc -std=gnu99 PIC flag -fPIC -DPIC works... yes
  444. checking if gcc -std=gnu99 static flag -static works... yes
  445. checking if gcc -std=gnu99 supports -c -o file.o... yes
  446. checking if gcc -std=gnu99 supports -c -o file.o... (cached) yes
  447. checking whether the gcc -std=gnu99 linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
  448. checking dynamic linker characteristics... GNU/Linux ld.so
  449. checking how to hardcode library paths into programs... immediate
  450. checking for shl_load... no
  451. checking for shl_load in -ldld... no
  452. checking for dlopen... no
  453. checking for dlopen in -ldl... yes
  454. checking whether a program can dlopen itself... yes
  455. checking whether a statically linked program can dlopen itself... no
  456. checking whether stripping libraries is possible... yes
  457. checking if libtool supports shared libraries... yes
  458. checking whether to build shared libraries... no
  459. checking whether to build static libraries... yes
  460. checking which extension is used for runtime loadable modules... .so
  461. checking which variable specifies run-time module search path... LD_LIBRARY_PATH
  462. checking for the default library search path... /lib64 /usr/lib64 /lib /usr/lib /usr/lib/mysql /usr/lib64/mysql /usr/lib/xulrunner /usr/lib64/xulrunner
  463. checking for library containing dlopen... -ldl
  464. checking for dlerror... yes
  465. checking for shl_load... (cached) no
  466. checking for shl_load in -ldld... (cached) no
  467. checking for dld_link in -ldld... no
  468. checking for _ prefix in compiled symbols... no
  469. checking whether deplibs are loaded by dlopen... yes
  470. checking for argz.h... yes
  471. checking for error_t... yes
  472. checking for argz_add... yes
  473. checking for argz_append... yes
  474. checking for argz_count... yes
  475. checking for argz_create_sep... yes
  476. checking for argz_insert... yes
  477. checking for argz_next... yes
  478. checking for argz_stringify... yes
  479. checking if argz actually works... yes
  480. checking whether libtool supports -dlopen/-dlpreopen... yes
  481. checking for unistd.h... (cached) yes
  482. checking for dl.h... no
  483. checking for sys/dl.h... no
  484. checking for dld.h... no
  485. checking for mach-o/dyld.h... no
  486. checking for dirent.h... yes
  487. checking for closedir... yes
  488. checking for opendir... yes
  489. checking for readdir... yes
  490. checking for strlcat... no
  491. checking for strlcpy... no
  492. checking that generated files are newer than configure... done
  493. configure: creating ./config.status
  494. config.status: creating Makefile
  495. config.status: creating config.h
  496. config.status: executing depfiles commands
  497. config.status: executing libtool commands
  498.  
  499. ----------------------------------------------------------------
  500.  
  501. graphviz-2.28.0 will be compiled with the following:
  502.  
  503. options:
  504. cgraph: No (disabled by default - experimental)
  505. digcola: Yes
  506. expat: No (disabled)
  507. fontconfig: No (disabled)
  508. freetype: No (disabled)
  509. glut: No (disabled)
  510. gts: No (disabled)
  511. ipsepcola: No (disabled by default - C++ portability issues)
  512. ltdl: No (disabled)
  513. ortho: Yes
  514. png: No (disabled)
  515. jpeg: No (disabled)
  516. sfdp: Yes
  517. shared: No (disabled)
  518. static: Yes
  519. qt: No (QtCore not available)
  520.  
  521. commands:
  522. dot: Yes (always enabled)
  523. neato: Yes (always enabled)
  524. fdp: Yes (always enabled)
  525. circo: Yes (always enabled)
  526. twopi: Yes (always enabled)
  527. gvpr: Yes (always enabled)
  528. gvmap: Yes (always enabled)
  529. lefty: No (missing Xaw headers)
  530. smyrna: No (disabled by default - experimental)
  531. gvedit: No (QtCore not available)
  532.  
  533. plugin libraries:
  534. dot_layout: Yes (always enabled)
  535. neato_layout: Yes (always enabled)
  536. core: Yes (always enabled)
  537. devil: No (disabled)
  538. gd: No (disabled)
  539. gdiplus: No (disabled by default - Windows only)
  540. gdk_pixbuf: Yes
  541. ghostscript: No (disabled)
  542. glitz: No (disabled by default - incomplete)
  543. gtk: Yes
  544. lasi: No (disabled)
  545. ming: No (disabled by default - incomplete)
  546. pangocairo: No (disabled)
  547. quartz: No (disabled by default - Mac only)
  548. rsvg: No (disabled)
  549. visio: No (disabled by default - experimental)
  550. xlib: No (disabled or unavailable)
  551.  
  552. language extensions:
  553. gv_sharp: No (swig not available)
  554. gv_go: No (disabled by default - experimental)
  555. gv_guile: No (swig not available)
  556. gv_io: No (disabled by default - no swig support yet)
  557. gv_java: No (swig not available)
  558. gv_lua: No (swig not available)
  559. gv_ocaml: No (swig not available)
  560. gv_perl: No (swig not available)
  561. gv_php: No (swig not available)
  562. gv_python: No (swig not available)
  563. gv_python23: No (disabled by default - for multiversion installs)
  564. gv_python24: No (disabled by default - for multiversion installs)
  565. gv_python25: No (disabled by default - for multiversion installs)
  566. gv_python26: No (disabled by default - for multiversion installs)
  567. gv_python27: No (disabled by default - for multiversion installs)
  568. gv_R: No (swig not available)
  569. gv_ruby: No (swig not available)
  570. gv_tcl: No (tcl not available)
  571.  
  572. tcldot: No (tcl not available)
  573. tclpathplan: No (tcl not available)
  574. gdtclft: No (tcl not available)
  575. tkspline: No (tk not available)
  576. (CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/sh /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/config/missing --run autoheader)
  577. aclocal.m4:20: warning: this file was generated for autoconf 2.69.
  578. You have another version of autoconf. It may work, but is not guaranteed to.
  579. If you have problems, you may need to regenerate the build system entirely.
  580. To do so, use the procedure documented by the package, typically 'autoreconf'.
  581. configure.ac:5: error: Autoconf version 2.61 or higher is required
  582. configure.ac:5: the top level
  583. autom4te: /usr/bin/m4 failed with exit status: 63
  584. autoheader: /usr/bin/autom4te failed with exit status: 63
  585. WARNING: `autoheader' is probably too old. You should only need it if
  586. you modified `acconfig.h' or `configure.ac'. You might want
  587. to install the `Autoconf' and `GNU m4' packages. Grab them
  588. from any GNU archive site.
  589. rm -f stamp-h1
  590. touch config.h.in
  591. cd . && /bin/sh ./config.status config.h
  592. config.status: creating config.h
  593. config.status: config.h is unchanged
  594. grep 'PACKAGE\|VERSION\|GVPLUGIN' config.h > graphviz_version.h
  595. make install-recursive
  596. make[1]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz'
  597. Making install in libltdl
  598. make[2]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/libltdl'
  599. make install-am
  600. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/libltdl'
  601. /bin/sh ./libtool --tag=CC --mode=compile gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT dlopen.lo -MD -MP -MF .deps/dlopen.Tpo -c -o dlopen.lo `test -f 'loaders/dlopen.c' || echo './'`loaders/dlopen.c
  602. libtool: compile: gcc -std=gnu99 -DHAVE_CONFIG_H -I. "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT dlopen.lo -MD -MP -MF .deps/dlopen.Tpo -c loaders/dlopen.c -fPIC -DPIC -o dlopen.o
  603. mv -f .deps/dlopen.Tpo .deps/dlopen.Plo
  604. /bin/sh ./libtool --tag=CC --mode=link gcc -std=gnu99 -g -O2 -module -avoid-version -L/usr/local/lib64 -o dlopen.la dlopen.lo -ldl -ldl
  605. libtool: link: ar cru .libs/dlopen.a dlopen.o
  606. libtool: link: ranlib .libs/dlopen.a
  607. libtool: link: ( cd ".libs" && rm -f "dlopen.la" && ln -s "../dlopen.la" "dlopen.la" )
  608. /bin/sh ./libtool --tag=CC --mode=compile gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT libltdlc_la-preopen.lo -MD -MP -MF .deps/libltdlc_la-preopen.Tpo -c -o libltdlc_la-preopen.lo `test -f 'loaders/preopen.c' || echo './'`loaders/preopen.c
  609. libtool: compile: gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT libltdlc_la-preopen.lo -MD -MP -MF .deps/libltdlc_la-preopen.Tpo -c loaders/preopen.c -fPIC -DPIC -o libltdlc_la-preopen.o
  610. mv -f .deps/libltdlc_la-preopen.Tpo .deps/libltdlc_la-preopen.Plo
  611. /bin/sh ./libtool --tag=CC --mode=compile gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT libltdlc_la-lt__alloc.lo -MD -MP -MF .deps/libltdlc_la-lt__alloc.Tpo -c -o libltdlc_la-lt__alloc.lo `test -f 'lt__alloc.c' || echo './'`lt__alloc.c
  612. libtool: compile: gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT libltdlc_la-lt__alloc.lo -MD -MP -MF .deps/libltdlc_la-lt__alloc.Tpo -c lt__alloc.c -fPIC -DPIC -o libltdlc_la-lt__alloc.o
  613. mv -f .deps/libltdlc_la-lt__alloc.Tpo .deps/libltdlc_la-lt__alloc.Plo
  614. /bin/sh ./libtool --tag=CC --mode=compile gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT libltdlc_la-lt_dlloader.lo -MD -MP -MF .deps/libltdlc_la-lt_dlloader.Tpo -c -o libltdlc_la-lt_dlloader.lo `test -f 'lt_dlloader.c' || echo './'`lt_dlloader.c
  615. libtool: compile: gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT libltdlc_la-lt_dlloader.lo -MD -MP -MF .deps/libltdlc_la-lt_dlloader.Tpo -c lt_dlloader.c -fPIC -DPIC -o libltdlc_la-lt_dlloader.o
  616. mv -f .deps/libltdlc_la-lt_dlloader.Tpo .deps/libltdlc_la-lt_dlloader.Plo
  617. /bin/sh ./libtool --tag=CC --mode=compile gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT libltdlc_la-lt_error.lo -MD -MP -MF .deps/libltdlc_la-lt_error.Tpo -c -o libltdlc_la-lt_error.lo `test -f 'lt_error.c' || echo './'`lt_error.c
  618. libtool: compile: gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT libltdlc_la-lt_error.lo -MD -MP -MF .deps/libltdlc_la-lt_error.Tpo -c lt_error.c -fPIC -DPIC -o libltdlc_la-lt_error.o
  619. mv -f .deps/libltdlc_la-lt_error.Tpo .deps/libltdlc_la-lt_error.Plo
  620. /bin/sh ./libtool --tag=CC --mode=compile gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT libltdlc_la-ltdl.lo -MD -MP -MF .deps/libltdlc_la-ltdl.Tpo -c -o libltdlc_la-ltdl.lo `test -f 'ltdl.c' || echo './'`ltdl.c
  621. libtool: compile: gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT libltdlc_la-ltdl.lo -MD -MP -MF .deps/libltdlc_la-ltdl.Tpo -c ltdl.c -fPIC -DPIC -o libltdlc_la-ltdl.o
  622. mv -f .deps/libltdlc_la-ltdl.Tpo .deps/libltdlc_la-ltdl.Plo
  623. /bin/sh ./libtool --tag=CC --mode=compile gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT libltdlc_la-slist.lo -MD -MP -MF .deps/libltdlc_la-slist.Tpo -c -o libltdlc_la-slist.lo `test -f 'slist.c' || echo './'`slist.c
  624. libtool: compile: gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT libltdlc_la-slist.lo -MD -MP -MF .deps/libltdlc_la-slist.Tpo -c slist.c -fPIC -DPIC -o libltdlc_la-slist.o
  625. mv -f .deps/libltdlc_la-slist.Tpo .deps/libltdlc_la-slist.Plo
  626. /bin/sh ./libtool --tag=CC --mode=compile gcc -std=gnu99 -DHAVE_CONFIG_H -I. -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT lt__strl.lo -MD -MP -MF .deps/lt__strl.Tpo -c -o lt__strl.lo lt__strl.c
  627. libtool: compile: gcc -std=gnu99 -DHAVE_CONFIG_H -I. "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -g -O2 -MT lt__strl.lo -MD -MP -MF .deps/lt__strl.Tpo -c lt__strl.c -fPIC -DPIC -o lt__strl.o
  628. mv -f .deps/lt__strl.Tpo .deps/lt__strl.Plo
  629. /bin/sh ./libtool --tag=CC --mode=link gcc -std=gnu99 -g -O2 -no-undefined -dlpreopen dlopen.la -L/usr/local/lib64 -o libltdlc.la libltdlc_la-preopen.lo libltdlc_la-lt__alloc.lo libltdlc_la-lt_dlloader.lo libltdlc_la-lt_error.lo libltdlc_la-ltdl.lo libltdlc_la-slist.lo lt__strl.lo -ldl
  630. libtool: link: rm -f .libs/libltdlc.nm .libs/libltdlc.nmS .libs/libltdlc.nmT
  631. libtool: link: (cd .libs && gcc -std=gnu99 -g -O2 -c -fno-builtin -fPIC -DPIC "libltdlcS.c")
  632. libtool: link: rm -f ".libs/libltdlcS.c" ".libs/libltdlc.nm" ".libs/libltdlc.nmS" ".libs/libltdlc.nmT"
  633. libtool: link: (cd .libs/libltdlc.lax/dlopen.a && ar x "/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/libltdl/./.libs/dlopen.a")
  634. libtool: link: ar cru .libs/libltdlc.a libltdlc_la-preopen.o libltdlc_la-lt__alloc.o libltdlc_la-lt_dlloader.o libltdlc_la-lt_error.o libltdlc_la-ltdl.o libltdlc_la-slist.o lt__strl.o .libs/libltdlcS.o .libs/libltdlc.lax/dlopen.a/dlopen.o
  635. libtool: link: ranlib .libs/libltdlc.a
  636. libtool: link: rm -fr .libs/libltdlc.lax
  637. libtool: link: ( cd ".libs" && rm -f "libltdlc.la" && ln -s "../libltdlc.la" "libltdlc.la" )
  638. (CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/sh /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/libltdl/config/missing --run autoheader)
  639. aclocal.m4:20: warning: this file was generated for autoconf 2.69.
  640. You have another version of autoconf. It may work, but is not guaranteed to.
  641. If you have problems, you may need to regenerate the build system entirely.
  642. To do so, use the procedure documented by the package, typically 'autoreconf'.
  643. configure.ac:55: error: Autoconf version 2.62 or higher is required
  644. aclocal.m4:537: AM_INIT_AUTOMAKE is expanded from...
  645. configure.ac:55: the top level
  646. autom4te: /usr/bin/m4 failed with exit status: 63
  647. autoheader: /usr/bin/autom4te failed with exit status: 63
  648. WARNING: `autoheader' is probably too old. You should only need it if
  649. you modified `acconfig.h' or `configure.ac'. You might want
  650. to install the `Autoconf' and `GNU m4' packages. Grab them
  651. from any GNU archive site.
  652. rm -f stamp-h1
  653. touch config-h.in
  654. cd . && /bin/sh ./config.status config.h
  655. config.status: creating config.h
  656. config.status: config.h is unchanged
  657. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/libltdl'
  658. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/libltdl'
  659. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/libltdl'
  660. make[2]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/libltdl'
  661. Making install in lib
  662. make[2]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib'
  663. Making install in cdt
  664. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/cdt'
  665. CC dtclose.lo
  666. CC dtdisc.lo
  667. dtdisc.c:14: warning: function declaration isn't a prototype
  668. CC dtextract.lo
  669. CC dtflatten.lo
  670. CC dthash.lo
  671. dthash.c:16: warning: function declaration isn't a prototype
  672. dthash.c:82: warning: function declaration isn't a prototype
  673. dthash.c: In function 'dthash':
  674. dthash.c:87: warning: 'r' may be used uninitialized in this function
  675. dthash.c:93: warning: 's' may be used uninitialized in this function
  676. CC dtlist.lo
  677. dtlist.c:12: warning: function declaration isn't a prototype
  678. CC dtmethod.lo
  679. CC dtopen.lo
  680. CC dtrenew.lo
  681. CC dtrestore.lo
  682. CC dtsize.lo
  683. dtsize.c:12: warning: function declaration isn't a prototype
  684. CC dtstat.lo
  685. dtstat.c:12: warning: function declaration isn't a prototype
  686. dtstat.c:32: warning: function declaration isn't a prototype
  687. CC dtstrhash.lo
  688. CC dttree.lo
  689. dttree.c:15: warning: function declaration isn't a prototype
  690. dttree.c: In function 'dttree':
  691. dttree.c:23: warning: 'me' may be used uninitialized in this function
  692. CC dttreeset.lo
  693. dttreeset.c:12: warning: function declaration isn't a prototype
  694. CC dtview.lo
  695. dtview.c:13: warning: function declaration isn't a prototype
  696. dtview.c: In function 'dtvsearch':
  697. dtview.c:19: warning: 'o' may be used uninitialized in this function
  698. CC dtwalk.lo
  699. dtwalk.c: In function 'dtwalk':
  700. dtwalk.c:14: warning: function declaration isn't a prototype
  701. CCLD libcdt.la
  702. CCLD libcdt_C.la
  703. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/cdt'
  704. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib'
  705. /bin/sh ../../libtool --mode=install /usr/bin/install -c libcdt.la '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib'
  706. libtool: install: /usr/bin/install -c .libs/libcdt.lai /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libcdt.la
  707. libtool: install: /usr/bin/install -c .libs/libcdt.a /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libcdt.a
  708. libtool: install: chmod 644 /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libcdt.a
  709. libtool: install: ranlib /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libcdt.a
  710. libtool: finish: PATH="/GWD/bioinfo/projects/cb-software/personal/ef884766/bin/:/GWD/bioinfo/projects/cb-software/personal/ef884766/bin/:/GWD/bioinfo/share/scripts:/GWD/bioinfo/apps/bin:/GWD/bioinfo/common/scripts:/GWD/bioinfo/tools/bin:/usr/local/bin:/usr/reg-central/bin:/usr/central/bin:/usr/reg-common/scripts:/usr/common/scripts:/home/ef884766/bin:/home/ef884766/bin/Linux:/bioinfo/apps/2.6.18-371.3.1.el5/bin:/bioinfo/apps/bin:/bioinfo/apps/gene/bin:/bioinfo/apps/unsupported/bin:/bioinfo/share/bin:/bioinfo/share/unsupported/bin:/bioinfo/apps/sybase/bin:/bin:/usr/bin:/usr/bin/X11:/sbin:/usr/sbin:/opt/TWWfsw/TWW/bin:/sbin" ldconfig -n /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib
  711. ----------------------------------------------------------------------
  712. Libraries have been installed in:
  713. /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib
  714.  
  715. If you ever happen to want to link against installed libraries
  716. in a given directory, LIBDIR, you must either use libtool, and
  717. specify the full pathname of the library, or use the `-LLIBDIR'
  718. flag during linking and do at least one of the following:
  719. - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
  720. during execution
  721. - add LIBDIR to the `LD_RUN_PATH' environment variable
  722. during linking
  723. - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
  724. - have your system administrator add LIBDIR to `/etc/ld.so.conf'
  725.  
  726. See any operating system documentation about shared libraries for
  727. more information, such as the ld(1) and ld.so(8) manual pages.
  728. ----------------------------------------------------------------------
  729. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/man/man3'
  730. /usr/bin/install -c -m 644 cdt.3 '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/man/man3'
  731. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/graphviz/doc/pdf'
  732. /usr/bin/install -c -m 644 cdt.3.pdf '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/graphviz/doc/pdf'
  733. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/pkgconfig'
  734. /usr/bin/install -c -m 644 libcdt.pc '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/pkgconfig'
  735. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  736. /usr/bin/install -c -m 644 cdt.h '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  737. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/cdt'
  738. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/cdt'
  739. Making install in graph
  740. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/graph'
  741. CC attribs.lo
  742. CC agxbuf.lo
  743. CC edge.lo
  744. CC graph.lo
  745. CC graphio.lo
  746. CC lexer.lo
  747. lexer.c: In function 'scan_token':
  748. lexer.c:147: warning: pointer targets in return differ in signedness
  749. lexer.c: In function 'aglex':
  750. lexer.c:435: warning: pointer targets in passing argument 1 of 'scan_token' differ in signedness
  751. lexer.c:435: warning: pointer targets in passing argument 2 of 'scan_token' differ in signedness
  752. CC node.lo
  753. CC parser.lo
  754. CC refstr.lo
  755. CC trie.lo
  756. CCLD libgraph.la
  757. CCLD libgraph_C.la
  758. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/graph'
  759. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib'
  760. /bin/sh ../../libtool --mode=install /usr/bin/install -c libgraph.la '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib'
  761. libtool: install: /usr/bin/install -c .libs/libgraph.lai /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libgraph.la
  762. libtool: install: /usr/bin/install -c .libs/libgraph.a /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libgraph.a
  763. libtool: install: chmod 644 /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libgraph.a
  764. libtool: install: ranlib /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libgraph.a
  765. libtool: finish: PATH="/GWD/bioinfo/projects/cb-software/personal/ef884766/bin/:/GWD/bioinfo/projects/cb-software/personal/ef884766/bin/:/GWD/bioinfo/share/scripts:/GWD/bioinfo/apps/bin:/GWD/bioinfo/common/scripts:/GWD/bioinfo/tools/bin:/usr/local/bin:/usr/reg-central/bin:/usr/central/bin:/usr/reg-common/scripts:/usr/common/scripts:/home/ef884766/bin:/home/ef884766/bin/Linux:/bioinfo/apps/2.6.18-371.3.1.el5/bin:/bioinfo/apps/bin:/bioinfo/apps/gene/bin:/bioinfo/apps/unsupported/bin:/bioinfo/share/bin:/bioinfo/share/unsupported/bin:/bioinfo/apps/sybase/bin:/bin:/usr/bin:/usr/bin/X11:/sbin:/usr/sbin:/opt/TWWfsw/TWW/bin:/sbin" ldconfig -n /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib
  766. ----------------------------------------------------------------------
  767. Libraries have been installed in:
  768. /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib
  769.  
  770. If you ever happen to want to link against installed libraries
  771. in a given directory, LIBDIR, you must either use libtool, and
  772. specify the full pathname of the library, or use the `-LLIBDIR'
  773. flag during linking and do at least one of the following:
  774. - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
  775. during execution
  776. - add LIBDIR to the `LD_RUN_PATH' environment variable
  777. during linking
  778. - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
  779. - have your system administrator add LIBDIR to `/etc/ld.so.conf'
  780.  
  781. See any operating system documentation about shared libraries for
  782. more information, such as the ld(1) and ld.so(8) manual pages.
  783. ----------------------------------------------------------------------
  784. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/man/man3'
  785. /usr/bin/install -c -m 644 graph.3 '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/man/man3'
  786. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/graphviz/doc/pdf'
  787. /usr/bin/install -c -m 644 graph.3.pdf '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/graphviz/doc/pdf'
  788. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/pkgconfig'
  789. /usr/bin/install -c -m 644 libgraph.pc '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/pkgconfig'
  790. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  791. /usr/bin/install -c -m 644 graph.h '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  792. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/graph'
  793. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/graph'
  794. Making install in pathplan
  795. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/pathplan'
  796. CC cvt.lo
  797. CC inpoly.lo
  798. CC route.lo
  799. CC shortest.lo
  800. CC shortestpth.lo
  801. CC solvers.lo
  802. CC triang.lo
  803. CC util.lo
  804. CC visibility.lo
  805. CCLD libpathplan.la
  806. CCLD libpathplan_C.la
  807. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/pathplan'
  808. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib'
  809. /bin/sh ../../libtool --mode=install /usr/bin/install -c libpathplan.la '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib'
  810. libtool: install: /usr/bin/install -c .libs/libpathplan.lai /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libpathplan.la
  811. libtool: install: /usr/bin/install -c .libs/libpathplan.a /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libpathplan.a
  812. libtool: install: chmod 644 /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libpathplan.a
  813. libtool: install: ranlib /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libpathplan.a
  814. libtool: finish: PATH="/GWD/bioinfo/projects/cb-software/personal/ef884766/bin/:/GWD/bioinfo/projects/cb-software/personal/ef884766/bin/:/GWD/bioinfo/share/scripts:/GWD/bioinfo/apps/bin:/GWD/bioinfo/common/scripts:/GWD/bioinfo/tools/bin:/usr/local/bin:/usr/reg-central/bin:/usr/central/bin:/usr/reg-common/scripts:/usr/common/scripts:/home/ef884766/bin:/home/ef884766/bin/Linux:/bioinfo/apps/2.6.18-371.3.1.el5/bin:/bioinfo/apps/bin:/bioinfo/apps/gene/bin:/bioinfo/apps/unsupported/bin:/bioinfo/share/bin:/bioinfo/share/unsupported/bin:/bioinfo/apps/sybase/bin:/bin:/usr/bin:/usr/bin/X11:/sbin:/usr/sbin:/opt/TWWfsw/TWW/bin:/sbin" ldconfig -n /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib
  815. ----------------------------------------------------------------------
  816. Libraries have been installed in:
  817. /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib
  818.  
  819. If you ever happen to want to link against installed libraries
  820. in a given directory, LIBDIR, you must either use libtool, and
  821. specify the full pathname of the library, or use the `-LLIBDIR'
  822. flag during linking and do at least one of the following:
  823. - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
  824. during execution
  825. - add LIBDIR to the `LD_RUN_PATH' environment variable
  826. during linking
  827. - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
  828. - have your system administrator add LIBDIR to `/etc/ld.so.conf'
  829.  
  830. See any operating system documentation about shared libraries for
  831. more information, such as the ld(1) and ld.so(8) manual pages.
  832. ----------------------------------------------------------------------
  833. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/man/man3'
  834. /usr/bin/install -c -m 644 pathplan.3 '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/man/man3'
  835. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/graphviz/doc/pdf'
  836. /usr/bin/install -c -m 644 pathplan.3.pdf '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/graphviz/doc/pdf'
  837. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/pkgconfig'
  838. /usr/bin/install -c -m 644 libpathplan.pc '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/pkgconfig'
  839. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  840. /usr/bin/install -c -m 644 pathgeom.h pathplan.h '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  841. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/pathplan'
  842. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/pathplan'
  843. Making install in vpsc
  844. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/vpsc'
  845. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/vpsc'
  846. make[4]: Nothing to be done for `install-exec-am'.
  847. make[4]: Nothing to be done for `install-data-am'.
  848. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/vpsc'
  849. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/vpsc'
  850. Making install in rbtree
  851. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/rbtree'
  852. CC misc.lo
  853. CC red_black_tree.lo
  854. CC stack.lo
  855. CCLD librbtree_C.la
  856. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/rbtree'
  857. make[4]: Nothing to be done for `install-exec-am'.
  858. make[4]: Nothing to be done for `install-data-am'.
  859. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/rbtree'
  860. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/rbtree'
  861. Making install in ortho
  862. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/ortho'
  863. CC fPQ.lo
  864. CC intset.lo
  865. CC maze.lo
  866. maze.c: In function 'mkMazeGraph':
  867. maze.c:411: warning: value computed is not used
  868. CC ortho.lo
  869. ortho.c: In function 'bendToStr':
  870. ortho.c:518: warning: 's' may be used uninitialized in this function
  871. ortho.c: In function 'emitSearchGraph':
  872. ortho.c:1409: warning: 'p.x' may be used uninitialized in this function
  873. ortho.c:1409: warning: 'p.y' may be used uninitialized in this function
  874. ortho.c: In function 'orthoEdges':
  875. ortho.c:1250: warning: 'ps' may be used uninitialized in this function
  876. ortho.c:152: warning: 'prevbp.y' may be used uninitialized in this function
  877. ortho.c:152: warning: 'prevbp.x' may be used uninitialized in this function
  878. CC partition.lo
  879. partition.c: In function 'make_new_monotone_poly':
  880. partition.c:212: warning: 'tp' may be used uninitialized in this function
  881. partition.c:212: warning: 'tq' may be used uninitialized in this function
  882. partition.c: In function 'monotonate_trapezoids':
  883. partition.c:620: warning: 'size' may be used uninitialized in this function
  884. CC rawgraph.lo
  885. CC sgraph.lo
  886. CC trapezoid.lo
  887. trapezoid.c:22:1: warning: "__USE_ISOC99" redefined
  888. In file included from /usr/include/string.h:26,
  889. from trapezoid.c:19:
  890. /usr/include/features.h:185:1: warning: this is the location of the previous definition
  891. trapezoid.c:67: warning: function declaration isn't a prototype
  892. trapezoid.c: In function 'add_segment':
  893. trapezoid.c:434: warning: 'tlastr' may be used uninitialized in this function
  894. trapezoid.c:434: warning: 'tfirstr' may be used uninitialized in this function
  895. CCLD libortho_C.la
  896. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/ortho'
  897. make[4]: Nothing to be done for `install-exec-am'.
  898. make[4]: Nothing to be done for `install-data-am'.
  899. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/ortho'
  900. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/ortho'
  901. Making install in sparse
  902. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/sparse'
  903. CC SparseMatrix.lo
  904. CC general.lo
  905. CC BinaryHeap.lo
  906. CC IntStack.lo
  907. CCLD libsparse_C.la
  908. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/sparse'
  909. make[4]: Nothing to be done for `install-exec-am'.
  910. make[4]: Nothing to be done for `install-data-am'.
  911. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/sparse'
  912. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/sparse'
  913. Making install in patchwork
  914. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/patchwork'
  915. CC patchwork.lo
  916. CC patchworkinit.lo
  917. CC tree_map.lo
  918. CCLD libpatchwork_C.la
  919. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/patchwork'
  920. make[4]: Nothing to be done for `install-exec-am'.
  921. make[4]: Nothing to be done for `install-data-am'.
  922. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/patchwork'
  923. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/patchwork'
  924. Making install in common
  925. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/common'
  926. CC arrows.lo
  927. arrows.c: In function 'arrowOrthoClip':
  928. arrows.c:317: warning: 'hlen' may be used uninitialized in this function
  929. CC colxlate.lo
  930. CC fontmetrics.lo
  931. CC args.lo
  932. CC memory.lo
  933. CC globals.lo
  934. CC htmllex.lo
  935. CC htmlparse.lo
  936. CC htmltable.lo
  937. CC input.lo
  938. CC pointset.lo
  939. CC postproc.lo
  940. postproc.c: In function 'gv_postprocess':
  941. postproc.c:197: warning: 'pp.x' may be used uninitialized in this function
  942. CC routespl.lo
  943. CC splines.lo
  944. CC psusershape.lo
  945. CC timing.lo
  946. CC labels.lo
  947. CC ns.lo
  948. CC shapes.lo
  949. CC utils.lo
  950. CC geom.lo
  951. CC output.lo
  952. CC emit.lo
  953. emit.c: In function 'getObjId':
  954. emit.c:183: warning: 'pfx' may be used uninitialized in this function
  955. emit.c:182: warning: 'idnum' may be used uninitialized in this function
  956. emit.c: In function 'emit_edge':
  957. emit.c:1721: warning: 'segs' may be used uninitialized in this function
  958. emit.c:1723: warning: 'endcolor' may be used uninitialized in this function
  959. emit.c:1792: warning: 'bz.ep.y' may be used uninitialized in this function
  960. emit.c:1792: warning: 'bz.ep.x' may be used uninitialized in this function
  961. emit.c:1792: warning: 'bz.sp.y' may be used uninitialized in this function
  962. emit.c:1792: warning: 'bz.sp.x' may be used uninitialized in this function
  963. emit.c:1792: warning: 'bz.size' may be used uninitialized in this function
  964. emit.c:1792: warning: 'bz.list' may be used uninitialized in this function
  965. emit.c:1792: warning: 'bz.sflag' may be used uninitialized in this function
  966. emit.c:1792: warning: 'bz.eflag' may be used uninitialized in this function
  967. emit.c: In function 'xdotBB':
  968. emit.c:2437: warning: 'bb.LL.x' may be used uninitialized in this function
  969. emit.c:2437: warning: 'bb.UR.x' may be used uninitialized in this function
  970. emit.c:2472: warning: 'fontname' may be used uninitialized in this function
  971. emit.c:2471: warning: 'fontsize' may be used uninitialized in this function
  972. CCLD libcommon_C.la
  973. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/common'
  974. make[4]: Nothing to be done for `install-exec-am'.
  975. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  976. /usr/bin/install -c -m 644 arith.h geom.h color.h types.h textpara.h usershape.h '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  977. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/common'
  978. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/common'
  979. Making install in pack
  980. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/pack'
  981. CC ccomps.lo
  982. CC pack.lo
  983. pack.c: In function 'putGraphs':
  984. pack.c:920: warning: 'pts' may be used uninitialized in this function
  985. CCLD libpack_C.la
  986. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/pack'
  987. make[4]: Nothing to be done for `install-exec-am'.
  988. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/man/man3'
  989. /usr/bin/install -c -m 644 pack.3 '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/man/man3'
  990. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/graphviz/doc/pdf'
  991. /usr/bin/install -c -m 644 pack.3.pdf '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/graphviz/doc/pdf'
  992. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  993. /usr/bin/install -c -m 644 pack.h '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  994. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/pack'
  995. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/pack'
  996. Making install in xdot
  997. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/xdot'
  998. CC xdot.lo
  999. CCLD libxdot.la
  1000. CCLD libxdot_C.la
  1001. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/xdot'
  1002. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib'
  1003. /bin/sh ../../libtool --mode=install /usr/bin/install -c libxdot.la '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib'
  1004. libtool: install: /usr/bin/install -c .libs/libxdot.lai /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libxdot.la
  1005. libtool: install: /usr/bin/install -c .libs/libxdot.a /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libxdot.a
  1006. libtool: install: chmod 644 /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libxdot.a
  1007. libtool: install: ranlib /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libxdot.a
  1008. libtool: finish: PATH="/GWD/bioinfo/projects/cb-software/personal/ef884766/bin/:/GWD/bioinfo/projects/cb-software/personal/ef884766/bin/:/GWD/bioinfo/share/scripts:/GWD/bioinfo/apps/bin:/GWD/bioinfo/common/scripts:/GWD/bioinfo/tools/bin:/usr/local/bin:/usr/reg-central/bin:/usr/central/bin:/usr/reg-common/scripts:/usr/common/scripts:/home/ef884766/bin:/home/ef884766/bin/Linux:/bioinfo/apps/2.6.18-371.3.1.el5/bin:/bioinfo/apps/bin:/bioinfo/apps/gene/bin:/bioinfo/apps/unsupported/bin:/bioinfo/share/bin:/bioinfo/share/unsupported/bin:/bioinfo/apps/sybase/bin:/bin:/usr/bin:/usr/bin/X11:/sbin:/usr/sbin:/opt/TWWfsw/TWW/bin:/sbin" ldconfig -n /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib
  1009. ----------------------------------------------------------------------
  1010. Libraries have been installed in:
  1011. /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib
  1012.  
  1013. If you ever happen to want to link against installed libraries
  1014. in a given directory, LIBDIR, you must either use libtool, and
  1015. specify the full pathname of the library, or use the `-LLIBDIR'
  1016. flag during linking and do at least one of the following:
  1017. - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
  1018. during execution
  1019. - add LIBDIR to the `LD_RUN_PATH' environment variable
  1020. during linking
  1021. - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
  1022. - have your system administrator add LIBDIR to `/etc/ld.so.conf'
  1023.  
  1024. See any operating system documentation about shared libraries for
  1025. more information, such as the ld(1) and ld.so(8) manual pages.
  1026. ----------------------------------------------------------------------
  1027. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/man/man3'
  1028. /usr/bin/install -c -m 644 xdot.3 '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/man/man3'
  1029. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/graphviz/doc/pdf'
  1030. /usr/bin/install -c -m 644 xdot.3.pdf '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/graphviz/doc/pdf'
  1031. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/pkgconfig'
  1032. /usr/bin/install -c -m 644 libxdot.pc '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/pkgconfig'
  1033. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  1034. /usr/bin/install -c -m 644 xdot.h '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  1035. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/xdot'
  1036. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/xdot'
  1037. Making install in gvc
  1038. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/gvc'
  1039. CC gvrender.lo
  1040. CC gvlayout.lo
  1041. CC gvdevice.lo
  1042. CC gvloadimage.lo
  1043. CC gvcontext.lo
  1044. CC gvjobs.lo
  1045. CC gvevent.lo
  1046. CC gvplugin.lo
  1047. CC gvconfig.lo
  1048. CC gvtextlayout.lo
  1049. CC gvusershape.lo
  1050. CC gvc.lo
  1051. CCLD libgvc.la
  1052. CCLD libgvc_C.la
  1053. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/gvc'
  1054. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib'
  1055. /bin/sh ../../libtool --mode=install /usr/bin/install -c libgvc.la '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib'
  1056. libtool: install: /usr/bin/install -c .libs/libgvc.lai /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libgvc.la
  1057. libtool: install: /usr/bin/install -c .libs/libgvc.a /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libgvc.a
  1058. libtool: install: chmod 644 /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libgvc.a
  1059. libtool: install: ranlib /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/libgvc.a
  1060. libtool: finish: PATH="/GWD/bioinfo/projects/cb-software/personal/ef884766/bin/:/GWD/bioinfo/projects/cb-software/personal/ef884766/bin/:/GWD/bioinfo/share/scripts:/GWD/bioinfo/apps/bin:/GWD/bioinfo/common/scripts:/GWD/bioinfo/tools/bin:/usr/local/bin:/usr/reg-central/bin:/usr/central/bin:/usr/reg-common/scripts:/usr/common/scripts:/home/ef884766/bin:/home/ef884766/bin/Linux:/bioinfo/apps/2.6.18-371.3.1.el5/bin:/bioinfo/apps/bin:/bioinfo/apps/gene/bin:/bioinfo/apps/unsupported/bin:/bioinfo/share/bin:/bioinfo/share/unsupported/bin:/bioinfo/apps/sybase/bin:/bin:/usr/bin:/usr/bin/X11:/sbin:/usr/sbin:/opt/TWWfsw/TWW/bin:/sbin" ldconfig -n /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib
  1061. ----------------------------------------------------------------------
  1062. Libraries have been installed in:
  1063. /tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib
  1064.  
  1065. If you ever happen to want to link against installed libraries
  1066. in a given directory, LIBDIR, you must either use libtool, and
  1067. specify the full pathname of the library, or use the `-LLIBDIR'
  1068. flag during linking and do at least one of the following:
  1069. - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
  1070. during execution
  1071. - add LIBDIR to the `LD_RUN_PATH' environment variable
  1072. during linking
  1073. - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
  1074. - have your system administrator add LIBDIR to `/etc/ld.so.conf'
  1075.  
  1076. See any operating system documentation about shared libraries for
  1077. more information, such as the ld(1) and ld.so(8) manual pages.
  1078. ----------------------------------------------------------------------
  1079. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/man/man3'
  1080. /usr/bin/install -c -m 644 gvc.3 '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/man/man3'
  1081. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/graphviz/doc/pdf'
  1082. /usr/bin/install -c -m 644 gvc.3.pdf '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/share/graphviz/doc/pdf'
  1083. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/pkgconfig'
  1084. /usr/bin/install -c -m 644 libgvc.pc '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/pkgconfig'
  1085. /bin/mkdir -p '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  1086. /usr/bin/install -c -m 644 gvc.h gvcext.h gvplugin.h gvcjob.h gvcommon.h gvplugin_render.h gvplugin_layout.h gvconfig.h gvplugin_textlayout.h gvplugin_device.h gvplugin_loadimage.h '/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz'
  1087. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/gvc'
  1088. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/gvc'
  1089. Making install in circogen
  1090. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/circogen'
  1091. CC circularinit.lo
  1092. CC nodelist.lo
  1093. CC block.lo
  1094. CC edgelist.lo
  1095. CC circular.lo
  1096. CC deglist.lo
  1097. CC blocktree.lo
  1098. CC blockpath.lo
  1099. CC circpos.lo
  1100. circpos.c: In function 'doBlock':
  1101. circpos.c:264: warning: 'midAngle' may be used uninitialized in this function
  1102. CC nodeset.lo
  1103. CCLD libcircogen_C.la
  1104. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/circogen'
  1105. make[4]: Nothing to be done for `install-exec-am'.
  1106. make[4]: Nothing to be done for `install-data-am'.
  1107. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/circogen'
  1108. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/circogen'
  1109. Making install in dotgen
  1110. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/dotgen'
  1111. CC acyclic.lo
  1112. CC class1.lo
  1113. CC class2.lo
  1114. CC cluster.lo
  1115. CC compound.lo
  1116. CC conc.lo
  1117. CC decomp.lo
  1118. CC fastgr.lo
  1119. CC flat.lo
  1120. CC dotinit.lo
  1121. CC mincross.lo
  1122. mincross.c: In function 'mincross':
  1123. mincross.c:581: warning: 'maxthispass' may be used uninitialized in this function
  1124. mincross.c:374: warning: 'sepIndex' may be used uninitialized in this function
  1125. CC position.lo
  1126. CC rank.lo
  1127. CC sameport.lo
  1128. CC dotsplines.lo
  1129. dotsplines.c: In function '_dot_splines':
  1130. dotsplines.c:269: warning: 'P' may be used uninitialized in this function
  1131. dotsplines.c:268: warning: 'edges' may be used uninitialized in this function
  1132. dotsplines.c: In function 'make_flat_edge':
  1133. dotsplines.c:882: warning: 'lmaxx' may be used uninitialized in this function
  1134. dotsplines.c:882: warning: 'lminx' may be used uninitialized in this function
  1135. CC aspect.lo
  1136. aspect.c: In function 'rank3':
  1137. aspect.c:707: warning: 'fstNdGrp' may be used uninitialized in this function
  1138. aspect.c:703: warning: 'nextMaxWidth' may be used uninitialized in this function
  1139. aspect.c:702: warning: 'maxLayerIndex' may be used uninitialized in this function
  1140. CCLD libdotgen_C.la
  1141. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/dotgen'
  1142. make[4]: Nothing to be done for `install-exec-am'.
  1143. make[4]: Nothing to be done for `install-data-am'.
  1144. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/dotgen'
  1145. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/dotgen'
  1146. Making install in fdpgen
  1147. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/fdpgen'
  1148. CC comp.lo
  1149. CC dbg.lo
  1150. CC grid.lo
  1151. CC fdpinit.lo
  1152. CC layout.lo
  1153. CC tlayout.lo
  1154. CC xlayout.lo
  1155. CC clusteredges.lo
  1156. CCLD libfdpgen_C.la
  1157. make[4]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/fdpgen'
  1158. make[4]: Nothing to be done for `install-exec-am'.
  1159. make[4]: Nothing to be done for `install-data-am'.
  1160. make[4]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/fdpgen'
  1161. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/fdpgen'
  1162. Making install in neatogen
  1163. make[3]: Entering directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/neatogen'
  1164. CC adjust.lo
  1165. adjust.c: In function 'removeOverlapWith':
  1166. adjust.c:1045: warning: 'ret' may be used uninitialized in this function
  1167. adjust.c: In function 'getSizes':
  1168. adjust.c:670: warning: 'nedge_nodes' may be used uninitialized in this function
  1169. CC circuit.lo
  1170. CC edges.lo
  1171. CC geometry.lo
  1172. CC heap.lo
  1173. CC hedges.lo
  1174. CC info.lo
  1175. CC neatoinit.lo
  1176. CC legal.lo
  1177. CC lu.lo
  1178. CC matinv.lo
  1179. CC memory.lo
  1180. CC poly.lo
  1181. CC printvis.lo
  1182. CC site.lo
  1183. CC solve.lo
  1184. CC neatosplines.lo
  1185. neatosplines.c: In function '_spline_edges':
  1186. neatosplines.c:603: warning: unused variable 'rtr'
  1187. CC stuff.lo
  1188. CC voronoi.lo
  1189. CC stress.lo
  1190. stress.c: In function 'mdsModel':
  1191. stress.c:1370: warning: 'delta' may be used uninitialized in this function
  1192. CC kkutils.lo
  1193. CC matrix_ops.lo
  1194. CC embed_graph.lo
  1195. CC dijkstra.lo
  1196. CC conjgrad.lo
  1197. CC pca.lo
  1198. CC closest.lo
  1199. CC bfs.lo
  1200. CC constraint.lo
  1201. CC quad_prog_solve.lo
  1202. CC smart_ini_x.lo
  1203. CC constrained_majorization.lo
  1204. CC opt_arrangement.lo
  1205. CC overlap.lo
  1206. CC call_tri.lo
  1207. CC compute_hierarchy.lo
  1208. CC delaunay.lo
  1209. CC multispline.lo
  1210. multispline.c:1245: error: expected specifier-qualifier-list before 'PQ'
  1211. multispline.c:1250:1: warning: "N_VAL" redefined
  1212. In file included from multispline.c:1241:
  1213. ../../lib/ortho/fPQ.h:19:1: warning: this is the location of the previous definition
  1214. multispline.c:1251:1: warning: "N_IDX" redefined
  1215. ../../lib/ortho/fPQ.h:20:1: warning: this is the location of the previous definition
  1216. In file included from multispline.c:1254:
  1217. ../../lib/ortho/fPQ.h:19:1: warning: "N_VAL" redefined
  1218. multispline.c:1250:1: warning: this is the location of the previous definition
  1219. ../../lib/ortho/fPQ.h:20:1: warning: "N_IDX" redefined
  1220. multispline.c:1251:1: warning: this is the location of the previous definition
  1221. multispline.c:1257:1: warning: "N_DAD" redefined
  1222. ../../lib/ortho/fPQ.h:21:1: warning: this is the location of the previous definition
  1223. multispline.c:1258:1: warning: "E_WT" redefined
  1224. ../../lib/ortho/fPQ.h:23:1: warning: this is the location of the previous definition
  1225. multispline.c:1268: error: expected declaration specifiers or '...' before 'PQ'
  1226. multispline.c: In function 'triPath':
  1227. multispline.c:1276: error: 'pq' undeclared (first use in this function)
  1228. multispline.c:1276: error: (Each undeclared identifier is reported only once
  1229. multispline.c:1276: error: for each function it appears in.)
  1230. multispline.c:1277:13: error: macro "N_VAL" passed 2 arguments, but takes just 1
  1231. multispline.c:1277: error: 'N_VAL' undeclared (first use in this function)
  1232. multispline.c:1279: error: too many arguments to function 'PQinit'
  1233. multispline.c:1281:17: error: macro "N_VAL" passed 2 arguments, but takes just 1
  1234. multispline.c:1282: warning: implicit declaration of function 'PQinsert'
  1235. multispline.c:1284: error: too many arguments to function 'PQremove'
  1236. multispline.c:1284: warning: assignment makes integer from pointer without a cast
  1237. multispline.c:1285:13: error: macro "N_VAL" passed 2 arguments, but takes just 1
  1238. multispline.c:1295:24: error: macro "N_VAL" passed 2 arguments, but takes just 1
  1239. multispline.c:1296:20: error: macro "N_VAL" passed 2 arguments, but takes just 1
  1240. multispline.c:1297:21: error: macro "N_VAL" passed 2 arguments, but takes just 1
  1241. multispline.c:1298:21: error: macro "N_VAL" passed 2 arguments, but takes just 1
  1242. multispline.c:1301:28: error: macro "N_VAL" passed 2 arguments, but takes just 1
  1243. multispline.c:1302: error: too many arguments to function 'PQupdate'
  1244. multispline.c: In function 'makeMultiSpline':
  1245. multispline.c:1339: error: 'PPQ' has no member named 'pq'
  1246. multispline.c:1339: error: too many arguments to function 'PQgen'
  1247. multispline.c:1340: error: 'PPQ' has no member named 'pq'
  1248. multispline.c:1341: error: 'PPQ' has no member named 'pq'
  1249. multispline.c:1343: error: 'PPQ' has no member named 'vals'
  1250. multispline.c:1344: error: 'PPQ' has no member named 'idxs'
  1251. multispline.c:1347: error: 'PQ' undeclared (first use in this function)
  1252. multispline.c:1347: error: expected expression before ')' token
  1253. multispline.c:1347: error: too many arguments to function 'triPath'
  1254. multispline.c:1351: error: 'PPQ' has no member named 'pq'
  1255. multispline.c:1351: error: too many arguments to function 'PQfree'
  1256. make[3]: *** [multispline.lo] Error 1
  1257. make[3]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib/neatogen'
  1258. make[2]: *** [install-recursive] Error 1
  1259. make[2]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz/lib'
  1260. make[1]: *** [install-recursive] Error 1
  1261. make[1]: Leaving directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/graphviz'
  1262. make: *** [install] Error 2
  1263. cp: omitting directory `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/pkgconfig'
  1264. cp: cannot stat `/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/lib/graphviz/*': No such file or directory
  1265. checking for grep that handles long lines and -e... /bin/grep
  1266. checking for egrep... /bin/grep -E
  1267. checking for ANSI C header files... yes
  1268. checking for sys/types.h... yes
  1269. checking for sys/stat.h... yes
  1270. checking for stdlib.h... yes
  1271. checking for string.h... yes
  1272. checking for memory.h... yes
  1273. checking for strings.h... yes
  1274. checking for inttypes.h... yes
  1275. checking for stdint.h... yes
  1276. checking for unistd.h... yes
  1277. checking zlib.h usability... yes
  1278. checking zlib.h presence... yes
  1279. checking for zlib.h... yes
  1280. checking for deflateBound in -lz... yes
  1281. checking for stdbool.h that conforms to C99... yes
  1282. checking for _Bool... yes
  1283. checking for whether compiler has bool... yes
  1284. configure: Using the following compilation and linking flags for Rgraphviz
  1285. configure: PKG_CFLAGS= -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz
  1286. configure: PKG_LIBS=libxdot.a libgvplugin_dot_layout.a libgvplugin_neato_layout.a libgvplugin_core.a libgvc.a libpathplan.a libgraph.a libcdt.a -lz
  1287. configure: GVIZ_DEFS=-DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1
  1288. configure: Compiling using Graphviz version: '2.28.0'.
  1289. configure: Using bundled Graphviz: 'TRUE'.
  1290. configure: creating ./config.status
  1291. config.status: creating R/graphviz_build_version.R
  1292. config.status: creating src/Makevars
  1293. ** libs
  1294. gcc -std=gnu99 -I/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/include -DNDEBUG -I/usr/local/include -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -fpic -g -O2 -c LL_funcs.c -o LL_funcs.o
  1295. gcc -std=gnu99 -I/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/include -DNDEBUG -I/usr/local/include -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -fpic -g -O2 -c Rgraphviz.c -o Rgraphviz.o
  1296. gcc -std=gnu99 -I/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/include -DNDEBUG -I/usr/local/include -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -fpic -g -O2 -c RgraphvizInit.c -o RgraphvizInit.o
  1297. gcc -std=gnu99 -I/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/include -DNDEBUG -I/usr/local/include -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -fpic -g -O2 -c agopen.c -o agopen.o
  1298. gcc -std=gnu99 -I/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/include -DNDEBUG -I/usr/local/include -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -fpic -g -O2 -c agread.c -o agread.o
  1299. gcc -std=gnu99 -I/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/include -DNDEBUG -I/usr/local/include -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -fpic -g -O2 -c agwrite.c -o agwrite.o
  1300. gcc -std=gnu99 -I/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/include -DNDEBUG -I/usr/local/include -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -fpic -g -O2 -c bezier.c -o bezier.o
  1301. gcc -std=gnu99 -I/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/include -DNDEBUG -I/usr/local/include -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -fpic -g -O2 -c buildEdgeList.c -o buildEdgeList.o
  1302. gcc -std=gnu99 -I/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/include -DNDEBUG -I/usr/local/include -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -fpic -g -O2 -c buildNodeList.c -o buildNodeList.o
  1303. gcc -std=gnu99 -I/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/include -DNDEBUG -I/usr/local/include -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -fpic -g -O2 -c doLayout.c -o doLayout.o
  1304. gcc -std=gnu99 -I/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/include -DNDEBUG -I/usr/local/include -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -fpic -g -O2 -c graphvizVersion.c -o graphvizVersion.o
  1305. gcc -std=gnu99 -I/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/include -DNDEBUG -I/usr/local/include -I/tmp/Rtmp5lnUVa/R.INSTALL71c64d6a2eca/Rgraphviz/src/libunix/include/graphviz -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -fpic -g -O2 -c init.c -o init.o
  1306. gcc -std=gnu99 -shared -L/usr/local/lib64 -o Rgraphviz.so LL_funcs.o Rgraphviz.o RgraphvizInit.o agopen.o agread.o agwrite.o bezier.o buildEdgeList.o buildNodeList.o doLayout.o graphvizVersion.o init.o libxdot.a libgvplugin_dot_layout.a libgvplugin_neato_layout.a libgvplugin_core.a libgvc.a libpathplan.a libgraph.a libcdt.a -lz
  1307. gcc: libgvplugin_dot_layout.a: No such file or directory
  1308. gcc: libgvplugin_neato_layout.a: No such file or directory
  1309. gcc: libgvplugin_core.a: No such file or directory
  1310. make: *** [Rgraphviz.so] Error 1
  1311. ERROR: compilation failed for package ‘Rgraphviz’
  1312. * removing ‘/GWD/bioinfo/projects/cb-software/personal/ef884766/lib64/R/library/Rgraphviz’
Advertisement
Add Comment
Please, Sign In to add comment
Advertisement