[Debian-med-packaging] Bug#618057: dialign: FTBFS: dialign.c:345: undefined reference to `para_read'

[Lucas Nussbaum]

Source: dialign
Version: 2.2.1-4
Severity: serious
Tags: wheezy sid
User: debian-qa at lists.debian.org
Usertags: qa-ftbfs-20110313 qa-ftbfs
Justification: FTBFS on amd64

Hi,

During a rebuild of all packages in sid, your package failed to build on
amd64.

Relevant part:
> gcc -g -O2 -g -O2 dialign.c
> /tmp/cc7u3cW4.o: In function `main':
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:345: undefined reference to `para_read'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:389: undefined reference to `seq_read'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:489: undefined reference to `seq_shift'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:545: undefined reference to `matrix_read'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:547: undefined reference to `mem_alloc'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:629: undefined reference to `tp400_read'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:736: undefined reference to `newAligGraphClosure'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:787: undefined reference to `translate'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:791: undefined reference to `translate'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:794: undefined reference to `invert'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:795: undefined reference to `invert'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:796: undefined reference to `invert'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:798: undefined reference to `translate'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1150: undefined reference to `ow_bubble_sort'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1176: undefined reference to `filter'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1190: undefined reference to `print_log'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1193: undefined reference to `print_fragments'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1195: undefined reference to `throw_out'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1197: undefined reference to `sel_test'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:867: undefined reference to `bubble_sort'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:880: undefined reference to `filter'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:968: undefined reference to `para_print'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1144: undefined reference to `ow_add'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1047: undefined reference to `frag_chain'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1152: undefined reference to `frag_sort'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1158: undefined reference to `bubble_sort'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1160: undefined reference to `frag_sort'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1226: undefined reference to `av_tree_print'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1234: undefined reference to `subst_mat'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:1239: undefined reference to `ali_arrange'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:869: undefined reference to `frag_sort'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:392: undefined reference to `regex_parse'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:487: undefined reference to `seq_parse'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:627: undefined reference to `tp400_read'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:625: undefined reference to `tp400_read'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:596: undefined reference to `multi_anc_read'
> /build/user-dialign_2.2.1-4-amd64-rVHY9k/dialign-2.2.1/src/dialign.c:619: undefined reference to `exclude_frg_read'
> collect2: ld returned 1 exit status

The full build log is available from:
   http://people.debian.org/~lucas/logs/2011/03/13/dialign_2.2.1-4_lsid64.buildlog

A list of current common problems and possible solutions is available at 
http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!

About the archive rebuild: The rebuild was done on about 50 AMD64 nodes
of the Grid'5000 platform, using a clean chroot.  Internet was not
accessible from the build systems.

-- 
| Lucas Nussbaum
| lucas at lucas-nussbaum.net   http://www.lucas-nussbaum.net/ |
| jabber: lucas at nussbaum.fr             GPG: 1024D/023B3F4F |