Your message dated Tue, 24 Dec 2013 09:20:36 +0000
with message-id <[email protected]>
and subject line Bug#715133: fixed in sra-sdk 2.3.4-2+dfsg-1
has caused the Debian Bug report #715133,
regarding Broken library symlink detected in sra-toolkit-libs-dev
to be marked as done.

This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.

(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact [email protected]
immediately.)


-- 
715133: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=715133
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: sra-toolkit-libs-dev
Version: 2.1.7a-1
Severity: serious
User: [email protected]
Usertags: piuparts, broken-symlink, broken-symlink-shared-library

Hi,

During a test with piuparts, I noticed your package is
responsible for the presence of broken symlinks involving
a shared library. Such failures may indicate a significant
problem with the package.

Usually this is caused by a missing Depends. It may also be
triggered if a Recommended or reverse dependency package
owning the symlink target file is not yet installed. This type
of failure mode needs to be eliminated so that other symlink
problems become more visible. In this case, the problem can be
resolved by creating a trigger for the target file. See the
dpkg triggers documentation[1] and an example on the net[2] for
implementation details.

This is being filed as Serious because it represents a violation
of Policy. Section 8 states "Packages containing shared
libraries must be constructed with a little care to make sure
that the shared library is always available".

A link to the log containing the indicated broken symlinks can
be found on piuparts.debian.org[3]. Search for "Warn: Broken
Symlinks" to see the failure point. A log showing the broken
symlink as an error is appended.

The log contains the following broken symlinks:

  /usr/lib/libsrareader.so
    -> libsrareader.so.1
  /usr/lib/libvdb.so
    -> libvdb.so.2
  /usr/lib/libkq.so
    -> libkq.so.1
  /usr/lib/libwvdb.so
    -> libwvdb.so.2
  /usr/lib/libkxfs.so
    -> libkxfs.so.1
  /usr/lib/libalign-access.so
    -> libalign-access.so.1
  /usr/lib/libwsradb.so
    -> libwsradb.so.3
  /usr/lib/libwsra-schema.so
    -> libwsra-schema.so.1
  /usr/lib/libwkdb.so
    -> libwkdb.so.1
  /usr/lib/libkproc.so
    -> libkproc.so.1
  /usr/lib/libsradb.so
    -> libsradb.so.3
  /usr/lib/libkfs.so
    -> libkfs.so.1
  /usr/lib/libkfg.so
    -> libkfg.so.1
  /usr/lib/libksrch.so
    -> libksrch.so.1
  /usr/lib/libkxml.so
    -> libkxml.so.1
  /usr/lib/libksproc.so
    -> libksproc.so.1
  /usr/lib/libalign-reader.so
    -> libalign-reader.so.1
  /usr/lib/libklib.so
    -> libklib.so.1
  /usr/lib/libkdb.so
    -> libkdb.so.1


[1] - file:///usr/share/doc/dpkg-dev/triggers.txt.gz
[2] - http://www.seanius.net/blog/2009/09/dpkg-triggers-howto/
[3] - http://piuparts.debian.org/sid/broken_symlinks_issue.html


----------

Start: 2013-07-05 22:14:40 EST

Package: sra-toolkit-libs-dev
Source: sra-sdk
Version: 2.1.7a-1
Installed-Size: 40
Maintainer: Debian Med Packaging Team 
<[email protected]>
Architecture: amd64
Description: Development files for the NCBI SRA Toolkit's libraries
Homepage: http://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=software
Description-md5: db6c561e7efde962727ce64ca7bc482d
Section: science
Priority: optional
Filename: pool/main/s/sra-sdk/sra-toolkit-libs-dev_2.1.7a-1_amd64.deb
Size: 6320
MD5sum: c553ab8849494dc77d2b6e1120c8a7cd
SHA1: aa8af248cef9a38dccf26bee24edd47a612c2ab4
SHA256: 3bc66fddaee7a4413a8c1ebe50e345195ea53cdb1bf4f392311d328cb8458f95

Executing: sudo piuparts --scriptsdir /etc/piuparts/scripts 
--skip-logrotatefiles-test --warn-on-others --fail-on-broken-symlinks --mirror 
http://127.0.0.1/debian --tmpdir /var/tmp --arch amd64 -b 
/var/cache/piuparts/basetgz/sid.tar.gz -d sid --no-upgrade-test --apt 
sra-toolkit-libs-dev=2.1.7a-1
0m0.0s INFO: 
------------------------------------------------------------------------------
0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of 
this logfile.
0m0.0s INFO: FAQ available at http://wiki.debian.org/piuparts/FAQ
0m0.0s INFO: 
------------------------------------------------------------------------------
0m0.0s INFO: piuparts version 0.54~201306172307~0.53-14-ge8900a0 starting up.
0m0.0s INFO: Command line arguments: '/usr/sbin/piuparts' '--scriptsdir' 
'/etc/piuparts/scripts' '--skip-logrotatefiles-test' '--warn-on-others' 
'--fail-on-broken-symlinks' '--mirror' 'http://127.0.0.1/debian' '--tmpdir' 
'/var/tmp' '--arch' 'amd64' '-b' '/var/cache/piuparts/basetgz/sid.tar.gz' '-d' 
'sid' '--no-upgrade-test' '--apt' 'sra-toolkit-libs-dev=2.1.7a-1'
0m0.0s INFO: Running on: Linux debian-testing 3.9-1-amd64 #1 SMP Debian 3.9.8-1 
x86_64
0m0.0s DEBUG: Created temporary directory /var/tmp/tmpc5FTmP
0m0.0s DEBUG: Unpacking /var/cache/piuparts/basetgz/sid.tar.gz into 
/var/tmp/tmpc5FTmP
0m0.0s DEBUG: Starting command: ['tar', '-C', '/var/tmp/tmpc5FTmP', '-zxf', 
'/var/cache/piuparts/basetgz/sid.tar.gz']
0m1.2s DEBUG: Command ok: ['tar', '-C', '/var/tmp/tmpc5FTmP', '-zxf', 
'/var/cache/piuparts/basetgz/sid.tar.gz']
0m1.2s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'mount', '-t', 'proc', 'proc', '/proc']
0m1.2s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'mount', '-t', 'proc', 'proc', '/proc']
0m1.2s DEBUG: sources.list:
  deb http://127.0.0.1/debian sid main
  deb http://127.0.0.1/debian sid contrib
  deb http://127.0.0.1/debian sid non-free
0m1.2s DEBUG: Created policy-rc.d and chmodded it.
0m1.2s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-get', 'update']
0m5.4s DUMP: 
  Get:1 http://127.0.0.1 sid InRelease [205 kB]
  Get:2 http://127.0.0.1 sid/main amd64 Packages [6398 kB]
  Get:3 http://127.0.0.1 sid/contrib amd64 Packages [48.5 kB]
  Get:4 http://127.0.0.1 sid/non-free amd64 Packages [84.6 kB]
  Get:5 http://127.0.0.1 sid/contrib Translation-en [39.9 kB]
  Get:6 http://127.0.0.1 sid/main Translation-en [4246 kB]
  Get:7 http://127.0.0.1 sid/non-free Translation-en [72.7 kB]
  Fetched 11.1 MB in 3s (3535 kB/s)
  Reading package lists...
0m5.4s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-get', 'update']
0m5.4s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-get', '-yf', 'dist-upgrade']
0m7.0s DUMP: 
  Reading package lists...
  Building dependency tree...
  The following packages will be upgraded:
    apt libapt-pkg4.12 libc-bin libc6 multiarch-support
  5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
  Need to get 8332 kB of archives.
  After this operation, 132 kB of additional disk space will be used.
  Get:1 http://127.0.0.1/debian/ sid/main libc-bin amd64 2.17-7 [1298 kB]
  Get:2 http://127.0.0.1/debian/ sid/main libc6 amd64 2.17-7 [4624 kB]
  Get:3 http://127.0.0.1/debian/ sid/main libapt-pkg4.12 amd64 0.9.9 [926 kB]
  Get:4 http://127.0.0.1/debian/ sid/main apt amd64 0.9.9 [1323 kB]
  Get:5 http://127.0.0.1/debian/ sid/main multiarch-support amd64 2.17-7 [160 
kB]
  debconf: delaying package configuration, since apt-utils is not installed
  Fetched 8332 kB in 0s (45.1 MB/s)
  (Reading database ... 6639 files and directories currently installed.)
  Preparing to replace libc-bin 2.17-6 (using .../libc-bin_2.17-7_amd64.deb) ...
  Unpacking replacement libc-bin ...
  Setting up libc-bin (2.17-7) ...
  (Reading database ... 6639 files and directories currently installed.)
  Preparing to replace libc6:amd64 2.17-6 (using .../libc6_2.17-7_amd64.deb) ...
  Unpacking replacement libc6:amd64 ...
  Setting up libc6:amd64 (2.17-7) ...
  Processing triggers for libc-bin ...
  (Reading database ... 6639 files and directories currently installed.)
  Preparing to replace libapt-pkg4.12:amd64 0.9.8.2 (using 
.../libapt-pkg4.12_0.9.9_amd64.deb) ...
  Unpacking replacement libapt-pkg4.12:amd64 ...
  Setting up libapt-pkg4.12:amd64 (0.9.9) ...
  Processing triggers for libc-bin ...
  (Reading database ... 6639 files and directories currently installed.)
  Preparing to replace apt 0.9.8.2 (using .../archives/apt_0.9.9_amd64.deb) ...
  Unpacking replacement apt ...
  Setting up apt (0.9.9) ...
  gpg: key B98321F9: "Squeeze Stable Release Key 
<[email protected]>" not changed
  gpg: key 473041FA: "Debian Archive Automatic Signing Key (6.0/squeeze) 
<[email protected]>" not changed
  gpg: key 65FFB764: "Wheezy Stable Release Key 
<[email protected]>" not changed
  gpg: key 46925553: "Debian Archive Automatic Signing Key (7.0/wheezy) 
<[email protected]>" not changed
  gpg: Total number processed: 4
  gpg:              unchanged: 4
  (Reading database ... 6639 files and directories currently installed.)
  Preparing to replace multiarch-support 2.17-6 (using 
.../multiarch-support_2.17-7_amd64.deb) ...
  Unpacking replacement multiarch-support ...
  Setting up multiarch-support (2.17-7) ...
0m7.0s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-get', '-yf', 'dist-upgrade']
0m7.0s DEBUG: Copying scriptsdir /etc/piuparts/scripts to 
/var/tmp/tmpc5FTmP/tmp/scripts/
0m7.0s INFO: Running scripts post_setup
0m7.0s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/post_setup_experimental']
0m7.0s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/post_setup_experimental']
0m7.0s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/post_setup_forbid_home']
0m7.0s DUMP: 
  Disabling /home
0m7.0s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/post_setup_forbid_home']
0m7.0s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/post_setup_squeeze-backports']
0m7.0s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/post_setup_squeeze-backports']
0m7.0s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-get', 'clean']
0m7.1s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-get', 'clean']
0m7.9s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'dpkg', '--get-selections', '*']
0m7.9s DUMP: 
  apt                                           install
  base-files                                    install
  base-passwd                                   install
  bash                                          install
  bsdutils                                      install
  coreutils                                     install
  dash                                          install
  debconf                                               install
  debconf-i18n                                  install
  debian-archive-keyring                                install
  debianutils                                   install
  diffutils                                     install
  dpkg                                          install
  e2fslibs:amd64                                        install
  e2fsprogs                                     install
  eatmydata                                     install
  findutils                                     install
  gcc-4.7-base:amd64                            install
  gcc-4.8-base:amd64                            install
  gnupg                                         install
  gpgv                                          install
  grep                                          install
  gzip                                          install
  hostname                                      install
  initscripts                                   install
  insserv                                               install
  libacl1:amd64                                 install
  libapt-pkg4.12:amd64                          install
  libattr1:amd64                                        install
  libblkid1:amd64                                       install
  libbz2-1.0:amd64                              install
  libc-bin                                      install
  libc6:amd64                                   install
  libcap2:amd64                                 install
  libcomerr2:amd64                              install
  libdb5.1:amd64                                        install
  libgcc1:amd64                                 install
  liblocale-gettext-perl                                install
  liblzma5:amd64                                        install
  libmount1                                     install
  libncurses5:amd64                             install
  libpam-modules:amd64                          install
  libpam-modules-bin                            install
  libpam-runtime                                        install
  libpam0g:amd64                                        install
  libpcre3:amd64                                        install
  libreadline6:amd64                            install
  libselinux1:amd64                             install
  libsemanage-common                            install
  libsemanage1:amd64                            install
  libsepol1:amd64                                       install
  libslang2:amd64                                       install
  libss2:amd64                                  install
  libstdc++6:amd64                              install
  libtext-charwidth-perl                                install
  libtext-iconv-perl                            install
  libtext-wrapi18n-perl                         install
  libtinfo5:amd64                                       install
  libusb-0.1-4:amd64                            install
  libustr-1.0-1:amd64                           install
  libuuid1:amd64                                        install
  login                                         install
  lsb-base                                      install
  mawk                                          install
  mount                                         install
  multiarch-support                             install
  ncurses-base                                  install
  ncurses-bin                                   install
  passwd                                                install
  perl-base                                     install
  readline-common                                       install
  sed                                           install
  sensible-utils                                        install
  sysv-rc                                               install
  sysvinit                                      install
  sysvinit-utils                                        install
  tar                                           install
  tzdata                                                install
  util-linux                                    install
  zlib1g:amd64                                  install
0m7.9s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 'dpkg', 
'--get-selections', '*']
0m7.9s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'dpkg-divert', '--list']
0m7.9s DUMP: 
  diversion of /usr/share/man/man1/sh.1.gz to 
/usr/share/man/man1/sh.distrib.1.gz by dash
  diversion of /bin/sh to /bin/sh.distrib by dash
0m7.9s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'dpkg-divert', '--list']
0m7.9s INFO: Starting install/purge
0m7.9s INFO: apt-cache does not know about any of the requested packages
0m7.9s INFO: Running scripts pre_test
0m7.9s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/pre_test_root_password']
0m8.0s DUMP: 
  Enter new UNIX password: Retype new UNIX password: passwd: password updated 
successfully
0m8.0s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/pre_test_root_password']
0m8.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/var/tmp/tmpc5FTmP']
0m8.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', 
'+D', '/var/tmp/tmpc5FTmP']
0m9.1s DEBUG: No broken symlinks as far as we can find.
0m9.1s INFO: Running scripts pre_install
0m9.1s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/pre_install_database-server']
0m9.1s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/pre_install_database-server']
0m9.1s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/pre_install_exceptions']
0m9.1s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/pre_install_exceptions']
0m9.1s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/pre_install_foreign_architecture_i386']
0m9.1s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'tmp/scripts/pre_install_foreign_architecture_i386']
0m9.1s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-cache', 'show', 'sra-toolkit-libs-dev']
0m10.2s DUMP: 
  Package: sra-toolkit-libs-dev
  Source: sra-sdk
  Version: 2.1.7a-1
  Installed-Size: 40
  Maintainer: Debian Med Packaging Team 
<[email protected]>
  Architecture: amd64
  Description-en: Development files for the NCBI SRA Toolkit's libraries
   This package provides development support files for the
   NCBI SRA Toolkit's libraries.
  Description-md5: db6c561e7efde962727ce64ca7bc482d
  Homepage: http://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=software
  Description-md5: db6c561e7efde962727ce64ca7bc482d
  Section: science
  Priority: optional
  Filename: pool/main/s/sra-sdk/sra-toolkit-libs-dev_2.1.7a-1_amd64.deb
  Size: 6320
  MD5sum: c553ab8849494dc77d2b6e1120c8a7cd
  SHA1: aa8af248cef9a38dccf26bee24edd47a612c2ab4
  SHA256: 3bc66fddaee7a4413a8c1ebe50e345195ea53cdb1bf4f392311d328cb8458f95
0m10.2s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-cache', 'show', 'sra-toolkit-libs-dev']
0m10.2s DEBUG: Starting command: ['dpkg-deb', '-b', '--nocheck', 
'/var/tmp/tmpDP7k5_/piuparts-depends-dummy']
0m10.2s DUMP: 
  dpkg-deb: warning: not checking contents of control area
  dpkg-deb: building an unknown package in 
'/var/tmp/tmpDP7k5_/piuparts-depends-dummy.deb'.
0m10.2s DEBUG: Command ok: ['dpkg-deb', '-b', '--nocheck', 
'/var/tmp/tmpDP7k5_/piuparts-depends-dummy']
0m10.2s DEBUG: Copying /var/tmp/tmpDP7k5_/piuparts-depends-dummy.deb to 
/var/tmp/tmpc5FTmP/tmp
0m10.2s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'dpkg', '-i', 'tmp/piuparts-depends-dummy.deb']
0m10.2s DUMP: 
  Selecting previously unselected package piuparts-depends-dummy.
  (Reading database ... 6639 files and directories currently installed.)
  Unpacking piuparts-depends-dummy (from tmp/piuparts-depends-dummy.deb) ...
  Setting up piuparts-depends-dummy (0.invalid.0) ...
0m10.2s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'dpkg', '-i', 'tmp/piuparts-depends-dummy.deb']
0m10.2s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-get', '-yf', 'install']
0m10.5s DUMP: 
  Reading package lists...
  Building dependency tree...
  Reading state information...
  0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
0m10.5s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-get', '-yf', 'install']
0m10.5s INFO: Installation of ['tmp/piuparts-depends-dummy.deb'] ok
0m10.5s DEBUG: Removing /var/tmp/tmpc5FTmP/tmp/piuparts-depends-dummy.deb
0m10.5s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'dpkg', '--purge', 'piuparts-depends-dummy']
0m10.5s DUMP: 
  (Reading database ... 6639 files and directories currently installed.)
  Removing piuparts-depends-dummy ...
0m10.5s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'dpkg', '--purge', 'piuparts-depends-dummy']
0m10.5s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-get', 'clean']
0m10.6s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-get', 'clean']
0m11.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/var/tmp/tmpc5FTmP']
0m11.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', 
'+D', '/var/tmp/tmpc5FTmP']
0m12.5s DEBUG: No broken symlinks as far as we can find.
0m12.5s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-cache', 'policy']
0m13.7s DUMP: 
  Package files:
   100 /var/lib/dpkg/status
       release a=now
   500 http://127.0.0.1/debian/ sid/non-free Translation-en
   500 http://127.0.0.1/debian/ sid/main Translation-en
   500 http://127.0.0.1/debian/ sid/contrib Translation-en
   500 http://127.0.0.1/debian/ sid/non-free amd64 Packages
       release o=Debian,a=unstable,n=sid,l=Debian,c=non-free
       origin 127.0.0.1
   500 http://127.0.0.1/debian/ sid/contrib amd64 Packages
       release o=Debian,a=unstable,n=sid,l=Debian,c=contrib
       origin 127.0.0.1
   500 http://127.0.0.1/debian/ sid/main amd64 Packages
       release o=Debian,a=unstable,n=sid,l=Debian,c=main
       origin 127.0.0.1
  Pinned packages:
0m13.7s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-cache', 'policy']
0m13.7s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-cache', 'policy', 'sra-toolkit-libs-dev']
0m13.7s DUMP: 
  sra-toolkit-libs-dev:
    Installed: (none)
    Candidate: 2.1.7a-1
    Version table:
       2.1.7a-1 0
          500 http://127.0.0.1/debian/ sid/main amd64 Packages
0m13.7s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-cache', 'policy', 'sra-toolkit-libs-dev']
0m13.7s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-get', '-y', 'install', 'sra-toolkit-libs-dev=2.1.7a-1']
0m14.2s DUMP: 
  Reading package lists...
  Building dependency tree...
  Reading state information...
  The following NEW packages will be installed:
    sra-toolkit-libs-dev
  0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
  Need to get 6320 B of archives.
  After this operation, 41.0 kB of additional disk space will be used.
  Get:1 http://127.0.0.1/debian/ sid/main sra-toolkit-libs-dev amd64 2.1.7a-1 
[6320 B]
  debconf: delaying package configuration, since apt-utils is not installed
  Fetched 6320 B in 0s (147 kB/s)
  Selecting previously unselected package sra-toolkit-libs-dev.
  (Reading database ... 6639 files and directories currently installed.)
  Unpacking sra-toolkit-libs-dev (from 
.../sra-toolkit-libs-dev_2.1.7a-1_amd64.deb) ...
  Setting up sra-toolkit-libs-dev (2.1.7a-1) ...
0m14.2s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'apt-get', '-y', 'install', 'sra-toolkit-libs-dev=2.1.7a-1']
0m14.2s INFO: Running scripts post_install
0m14.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/var/tmp/tmpc5FTmP']
0m14.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', 
'+D', '/var/tmp/tmpc5FTmP']
0m15.3s ERROR: FAIL: Broken symlinks:
  /usr/lib/libsrareader.so -> libsrareader.so.1
  /usr/lib/libvdb.so -> libvdb.so.2
  /usr/lib/libkq.so -> libkq.so.1
  /usr/lib/libwvdb.so -> libwvdb.so.2
  /usr/lib/libkxfs.so -> libkxfs.so.1
  /usr/lib/libalign-access.so -> libalign-access.so.1
  /usr/lib/libwsradb.so -> libwsradb.so.3
  /usr/lib/libwsra-schema.so -> libwsra-schema.so.1
  /usr/lib/libwkdb.so -> libwkdb.so.1
  /usr/lib/libkproc.so -> libkproc.so.1
  /usr/lib/libsradb.so -> libsradb.so.3
  /usr/lib/libkfs.so -> libkfs.so.1
  /usr/lib/libkfg.so -> libkfg.so.1
  /usr/lib/libksrch.so -> libksrch.so.1
  /usr/lib/libkxml.so -> libkxml.so.1
  /usr/lib/libksproc.so -> libksproc.so.1
  /usr/lib/libalign-reader.so -> libalign-reader.so.1
  /usr/lib/libklib.so -> libklib.so.1
  /usr/lib/libkdb.so -> libkdb.so.1
0m15.8s DEBUG: Starting command: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'umount', '/proc']
0m15.8s DEBUG: Command ok: ['chroot', '/var/tmp/tmpc5FTmP', 'eatmydata', 
'umount', '/proc']
0m15.8s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', 
'/var/tmp/tmpc5FTmP']
0m15.8s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', 
'/var/tmp/tmpc5FTmP']
0m15.8s DEBUG: Removed directory tree at /var/tmp/tmpc5FTmP
0m15.8s ERROR: piuparts run ends.

ret=1
End: 2013-07-05 22:14:57 EST

--- End Message ---
--- Begin Message ---
Source: sra-sdk
Source-Version: 2.3.4-2+dfsg-1

We believe that the bug you reported is fixed in the latest version of
sra-sdk, which is due to be installed in the Debian FTP archive.

A summary of the changes between this version and the previous one is
attached.

Thank you for reporting the bug, which will now be closed.  If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Andreas Tille <[email protected]> (supplier of updated sra-sdk package)

(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])


-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA1

Format: 1.8
Date: Mon, 23 Dec 2013 22:27:00 +0100
Source: sra-sdk
Binary: sra-toolkit sra-toolkit-libs0 sra-toolkit-libs-dev
Architecture: source amd64
Version: 2.3.4-2+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Description: 
 sra-toolkit - utilities for the NCBI Sequence Read Archive
 sra-toolkit-libs-dev - Development files for the NCBI SRA Toolkit's libraries
 sra-toolkit-libs0 - Libraries for the SRA Toolkit
Closes: 715133
Changes: 
 sra-sdk (2.3.4-2+dfsg-1) unstable; urgency=medium
 .
   * New upstream version
   * debian/control:
      - Add missing Depends: sra-toolkit-libs0 to sra-toolkit-libs-dev
        Closes: #715133
      - Standards-Version: 3.9.5 (no changes needed)
   * debian/sra-toolkit-libs0.symbols: Adapted to new upstream version
Checksums-Sha1: 
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sra-sdk_2.3.4-2+dfsg.orig.tar.xz
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sra-sdk_2.3.4-2+dfsg-1.debian.tar.gz
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sra-toolkit-libs-dev_2.3.4-2+dfsg-1_amd64.deb
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sra-sdk_2.3.4-2+dfsg.orig.tar.xz
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sra-sdk_2.3.4-2+dfsg-1.debian.tar.gz
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sra-toolkit-libs-dev_2.3.4-2+dfsg-1_amd64.deb
Files: 
 f809b727a2e0100583b70b1b673e78a6 1558 science optional 
sra-sdk_2.3.4-2+dfsg-1.dsc
 bbf4f9edc6b680d7768e8673c224d813 2213588 science optional 
sra-sdk_2.3.4-2+dfsg.orig.tar.xz
 92c5377f5407a65c2c815af38fdfe69e 40246 science optional 
sra-sdk_2.3.4-2+dfsg-1.debian.tar.gz
 49e22c2e15107d86dbdc339f1ed012f9 878946 science optional 
sra-toolkit_2.3.4-2+dfsg-1_amd64.deb
 eb0c8f1f747f760f2e55e4ac00d0360c 1114540 science optional 
sra-toolkit-libs0_2.3.4-2+dfsg-1_amd64.deb
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sra-toolkit-libs-dev_2.3.4-2+dfsg-1_amd64.deb

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--- End Message ---

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