1. * Package: sci-biology/prank-111130
2. * Repository: gentoo
3. * Maintainer: weaver@gentoo.org sci-biology@gentoo.org
4. * USE: amd64 elibc_glibc kernel_linux multilib test userland_GNU
5. * FEATURES: sandbox test userpriv usersandbox
6. >>> Unpacking source...
7. >>> Unpacking prank.src.111130.tgz to /tmp/portage/sci-biology/prank-111130/work
8. >>> Source unpacked in /tmp/portage/sci-biology/prank-111130/work
9. >>> Preparing source in /tmp/portage/sci-biology/prank-111130/work/prank-msa/src ...
10. >>> Source prepared.
11. >>> Configuring source in /tmp/portage/sci-biology/prank-111130/work/prank-msa/src ...
12. >>> Source configured.
13. >>> Compiling source in /tmp/portage/sci-biology/prank-111130/work/prank-msa/src ...
14. make -j24 LINK=x86_64-pc-linux-gnu-g++ 'CFLAGS=-O2 -pipe -ggdb -march=native -ftracer' CXX=x86_64-pc-linux-gnu-g++ 'CXXFLAGS=-O2 -pipe -ggdb -march=native -ftracer'
15. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o ancestralnode.o ancestralnode.cpp
16. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o ancestralsequence.o ancestralsequence.cpp
17. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o boolmatrix.o boolmatrix.cpp
18. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o chaosanchors.o chaosanchors.cpp
19. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o characterprobability.o characterprobability.cpp
20. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o check_version.o check_version.cpp
21. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o dbmatrix.o dbmatrix.cpp
22. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o eigen.o eigen.cpp
23. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o exonerate_reads.o exonerate_reads.cpp
24. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o flmatrix.o flmatrix.cpp
25. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o fullprobability.o fullprobability.cpp
26. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o guidetree.o guidetree.cpp
27. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o hirschberg.o hirschberg.cpp
28. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o hmmodel.o hmmodel.cpp
29. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o intmatrix.o intmatrix.cpp
30. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o node.o node.cpp
31. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o phylomatchscore.o phylomatchscore.cpp
32. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o postprobability.o postprobability.cpp
33. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o prank.o prank.cpp
34. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o progressivealignment.o progressivealignment.cpp
35. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o pwhirschberg.o pwhirschberg.cpp
36. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o pwsite.o pwsite.cpp
37. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o readalignment.o readalignment.cpp
38. x86_64-pc-linux-gnu-g++ -c -O2 -pipe -ggdb -march=native -ftracer -I/usr/include -I. -o readannotation.o readannotation.cpp
39. check_version.cpp: In constructor 'Check_version::Check_version(int)':
40. check_version.cpp:137:15: error: 'close' was not declared in this scope
41. make: *** [check_version.o] Error 1
42. make: *** Waiting for unfinished jobs....
43. * ERROR: sci-biology/prank-111130 failed (compile phase):
44. * emake failed
45. *
46. * If you need support, post the output of `emerge --info '=sci-biology/prank-111130'`,
47. * the complete build log and the output of `emerge -pqv '=sci-biology/prank-111130'`.
48. * The complete build log is located at '/var/log/portage/sci-biology:prank-111130:20120620-024618.log'.
49. * For convenience, a symlink to the build log is located at '/tmp/portage/sci-biology/prank-111130/temp/build.log'.
50. * The ebuild environment file is located at '/tmp/portage/sci-biology/prank-111130/temp/environment'.
51. * Working directory: '/tmp/portage/sci-biology/prank-111130/work/prank-msa/src'
52. * S: '/tmp/portage/sci-biology/prank-111130/work/prank-msa/src'