Debian Bug report logs - #596733
unblock: ncbi-tools6/6.1.20090809-2

Package: release.debian.org; Maintainer for release.debian.org is Debian Release Team <debian-release@lists.debian.org>;

Reported by: "Aaron M. Ucko" <ucko@debian.org>

Date: Mon, 13 Sep 2010 18:39:02 UTC

Severity: normal

Tags: confirmed

Done: Mehdi Dogguy <mehdi@dogguy.org>

Bug is archived. No further changes may be made.

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Report forwarded to debian-bugs-dist@lists.debian.org, ucko@debian.org, debian-med@lists.debian.org, Debian Release Team <debian-release@lists.debian.org>:
Bug#596733; Package release.debian.org. (Mon, 13 Sep 2010 18:39:04 GMT) Full text and rfc822 format available.

Acknowledgement sent to "Aaron M. Ucko" <ucko@debian.org>:
New Bug report received and forwarded. Copy sent to ucko@debian.org, debian-med@lists.debian.org, Debian Release Team <debian-release@lists.debian.org>. (Mon, 13 Sep 2010 18:39:05 GMT) Full text and rfc822 format available.

Message #5 received at submit@bugs.debian.org (full text, mbox):

From: "Aaron M. Ucko" <ucko@debian.org>
To: Debian Bug Tracking System <submit@bugs.debian.org>
Subject: unblock: ncbi-tools6/6.1.20100808-1 (as -2)
Date: Mon, 13 Sep 2010 14:36:21 -0400
Package: release.debian.org
Severity: normal
User: release.debian.org@packages.debian.org
Usertags: unblock

Greetings!

ncbi-tools6 recently had its first upstream release in a year, issued
a few days before your latest announcement.  (As the version number
indicates, the sources themselves are somewhat older; however, the
public release thereof didn't occur until August 27.)  Here's the
changelog block:

ncbi-tools6 (6.1.20100808-1) experimental; urgency=low

  * New upstream release; the upgrade to BLAST 2.2.24 (from 2.2.21) should
    address a formatdb regression.  (LP: #586219.)
  * Uploading to experimental because squeeze is frozen.
  * debian/rules
    - Clean up compilation settings; in particular, use dpkg-buildflags rather
      than relying on dpkg-buildpackage to have set CFLAGS appropriately.
    - (clean): restore expected empty directories if necessary,
      for compatibility with VCSes (notably git) that don't track them.
    - (install-indep-stamp): adapt to new ncbilogo.ico contents.
    - (VIB): add asndisc, as upstream takes care to publish binaries thereof.
  * debian/ncbi-tools6.install: likewise add asndisc.
  * (debian/).gitignore: Ignore content generated during build.
  * debian/lib{ncbi6,vibrant6a}.symbols: update for latest release.
  * make/makenet.unx: don't link asndisc against extraneous libraries.
  * doc/man/*.1: update for latest release.
  * doc/man/asndisc.1: throw together a man page for asndisc.
  * doc/man/cleanasn.1: fix SEE ALSO formatting.
  * debian/control:
    - bump dpkg-dev build-dep to >= 1.15.7 for dpkg-buildflags.
    - Standards-Version: 3.9.1 (already compliant).
    - note switch to git-mediated Debian-Med team maintenance.

 -- Aaron M. Ucko <ucko@debian.org>  Fri, 03 Sep 2010 17:43:17 -0400

In particular, please note that this upload fixes a nasty regression
reported in Launchpad:

https://bugs.launchpad.net/ubuntu/+source/ncbi-tools6/+bug/586219

There's no corresponding Debian bug report at present, but I can
formally issue one if you'd like. ;-)

At any rate, I uploaded my packages of the new release to experimental
out of respect for the freeze, but would greatly appreciate it if you
could please authorize a reupload to unstable with the intent of
making it into squeeze.  I concede that the diff

http://git.debian.org/?p=debian-med/ncbi-tools6.git;a=commitdiff;hp=3a98718;h=c4b77b0

is on the large side; however, the impact on reverse dependencies
should be negligible, as most of the changed interfaces are only used
internally.  (Also, leaving out changes to spacing and fully generated
files helps a fair bit; the result is still larger than I care to
attach :-/, but I've posted a copy at

http://people.debian.org/~ucko/ncbi-tools6_6.1.20100808-1.full-diff

that you're welcome to review as you see fit.)

Per reportbug, I'm including the relevant unblock directive for your
convenience:

unblock ncbi-tools6/6.1.20100808-2

Thanks in advance for considering this request; please let me know if
you have any questions or concerns.




Information forwarded to debian-bugs-dist@lists.debian.org, Debian Release Team <debian-release@lists.debian.org>:
Bug#596733; Package release.debian.org. (Sun, 03 Oct 2010 11:45:06 GMT) Full text and rfc822 format available.

Acknowledgement sent to Mehdi Dogguy <mehdi@dogguy.org>:
Extra info received and forwarded to list. Copy sent to Debian Release Team <debian-release@lists.debian.org>. (Sun, 03 Oct 2010 11:45:06 GMT) Full text and rfc822 format available.

Message #10 received at 596733@bugs.debian.org (full text, mbox):

From: Mehdi Dogguy <mehdi@dogguy.org>
To: "Aaron M. Ucko" <ucko@debian.org>, 596733@bugs.debian.org
Subject: Re: Bug#596733: unblock: ncbi-tools6/6.1.20100808-1 (as -2)
Date: Sun, 03 Oct 2010 13:41:59 +0200
On 09/13/2010 08:36 PM, Aaron M. Ucko wrote:
> At any rate, I uploaded my packages of the new release to experimental
> out of respect for the freeze, but would greatly appreciate it if you
> could please authorize a reupload to unstable with the intent of
> making it into squeeze.

No, sorry.

-- 
Mehdi Dogguy مهدي الدڤي
http://dogguy.org/




Information forwarded to debian-bugs-dist@lists.debian.org, Debian Release Team <debian-release@lists.debian.org>:
Bug#596733; Package release.debian.org. (Sun, 03 Oct 2010 21:00:03 GMT) Full text and rfc822 format available.

Acknowledgement sent to amu@alum.mit.edu (Aaron M. Ucko):
Extra info received and forwarded to list. Copy sent to Debian Release Team <debian-release@lists.debian.org>. (Sun, 03 Oct 2010 21:00:03 GMT) Full text and rfc822 format available.

Message #15 received at 596733@bugs.debian.org (full text, mbox):

From: amu@alum.mit.edu (Aaron M. Ucko)
To: Mehdi Dogguy <mehdi@dogguy.org>
Cc: "Aaron M. Ucko" <ucko@debian.org>, 596733@bugs.debian.org
Subject: Re: Bug#596733: unblock: ncbi-tools6/6.1.20100808-1 (as -2)
Date: Sun, 03 Oct 2010 16:56:52 -0400
Mehdi Dogguy <mehdi@dogguy.org> writes:

> No, sorry.

That's fair; I'll plan to go through backports, then.  Should I upload
any of the packaging changes to unstable, or leave it as is altogether?

  * debian/rules
    - Clean up compilation settings; in particular, use dpkg-buildflags rather
      than relying on dpkg-buildpackage to have set CFLAGS appropriately.
    - (clean): restore expected empty directories if necessary,
      for compatibility with VCSes (notably git) that don't track them.
    - (install-indep-stamp): adapt to new ncbilogo.ico contents.
    - (VIB): add asndisc, as upstream takes care to publish binaries thereof.
  * debian/ncbi-tools6.install: likewise add asndisc.
  * (debian/).gitignore: Ignore content generated during build.
  * make/makenet.unx: don't link asndisc against extraneous libraries.
  * doc/man/asndisc.1: throw together a man page for asndisc.
  * doc/man/cleanasn.1: fix SEE ALSO formatting.
  * debian/control:
    - bump dpkg-dev build-dep to >= 1.15.7 for dpkg-buildflags.
    - Standards-Version: 3.9.1 (already compliant).
    - note switch to git-mediated Debian-Med team maintenance.

Thanks again for considering my request.

-- 
Aaron M. Ucko, KB1CJC (amu at alum.mit.edu, ucko at debian.org)
http://www.mit.edu/~amu/ | http://stuff.mit.edu/cgi/finger/?amu@monk.mit.edu




Information forwarded to debian-bugs-dist@lists.debian.org, Debian Release Team <debian-release@lists.debian.org>:
Bug#596733; Package release.debian.org. (Wed, 13 Oct 2010 13:21:06 GMT) Full text and rfc822 format available.

Acknowledgement sent to Mehdi Dogguy <mehdi@dogguy.org>:
Extra info received and forwarded to list. Copy sent to Debian Release Team <debian-release@lists.debian.org>. (Wed, 13 Oct 2010 13:21:06 GMT) Full text and rfc822 format available.

Message #20 received at 596733@bugs.debian.org (full text, mbox):

From: Mehdi Dogguy <mehdi@dogguy.org>
To: "Aaron M. Ucko" <amu@alum.mit.edu>, 596733@bugs.debian.org
Cc: "Aaron M. Ucko" <ucko@debian.org>
Subject: Re: Bug#596733: unblock: ncbi-tools6/6.1.20100808-1 (as -2)
Date: Wed, 13 Oct 2010 15:15:54 +0200
retitle 596733 unblock: ncbi-tools6/6.1.20090809-2
tags 596733 + confirmed
thanks

On 10/03/2010 10:56 PM, Aaron M. Ucko wrote:
> Mehdi Dogguy <mehdi@dogguy.org> writes:
> 
>> No, sorry.
> 
> That's fair; I'll plan to go through backports, then.  Should I upload
> any of the packaging changes to unstable, or leave it as is altogether?
> 

The packaging changes look ok (I'll re-review them once they hit the
archive).

Cheers,

-- 
Mehdi Dogguy مهدي الدڤي
http://dogguy.org/




Changed Bug title to 'unblock: ncbi-tools6/6.1.20090809-2' from 'unblock: ncbi-tools6/6.1.20100808-1 (as -2)' Request was from Mehdi Dogguy <mehdi@dogguy.org> to control@bugs.debian.org. (Wed, 13 Oct 2010 13:21:08 GMT) Full text and rfc822 format available.

Added tag(s) confirmed. Request was from Mehdi Dogguy <mehdi@dogguy.org> to control@bugs.debian.org. (Wed, 13 Oct 2010 13:21:08 GMT) Full text and rfc822 format available.

Information forwarded to debian-bugs-dist@lists.debian.org, Debian Release Team <debian-release@lists.debian.org>:
Bug#596733; Package release.debian.org. (Thu, 14 Oct 2010 21:03:05 GMT) Full text and rfc822 format available.

Acknowledgement sent to "Aaron M. Ucko" <ucko@debian.org>:
Extra info received and forwarded to list. Copy sent to Debian Release Team <debian-release@lists.debian.org>. (Thu, 14 Oct 2010 21:03:05 GMT) Full text and rfc822 format available.

Message #29 received at 596733@bugs.debian.org (full text, mbox):

From: "Aaron M. Ucko" <ucko@debian.org>
To: Mehdi Dogguy <mehdi@dogguy.org>
Cc: 596733@bugs.debian.org, "Aaron M. Ucko" <ucko@debian.org>
Subject: Re: Bug#596733: unblock: ncbi-tools6/6.1.20090809-2
Date: Thu, 14 Oct 2010 17:01:52 -0400
Mehdi Dogguy <mehdi@dogguy.org> writes:

> The packaging changes look ok (I'll re-review them once they hit the
> archive).

Thanks!  I uploaded them last night, with the following changelog entry:

ncbi-tools6 (6.1.20090809-2) unstable; urgency=low

  * debian/rules
    - Clean up compilation settings; in particular, use dpkg-buildflags rather
      than relying on dpkg-buildpackage to have set CFLAGS appropriately.
    - (clean): restore expected empty directories if necessary,
      for compatibility with VCSes (notably git) that don't track them.
    - (VIB): add asndisc, as upstream takes care to publish binaries thereof.
  * debian/ncbi-tools6.install: likewise add asndisc.
  * (debian/).gitignore: Ignore content generated during build.
  * make/makenet.unx: don't link asndisc against extraneous libraries.
  * doc/man/asndisc.1: throw together a man page for asndisc.
  * doc/man/cleanasn.1: fix SEE ALSO formatting.
  * debian/control:
    - bump dpkg-dev build-dep to >= 1.15.7 for dpkg-buildflags.
    - Standards-Version: 3.9.1 (already compliant).
    - note switch to git-mediated Debian-Med team maintenance.

 -- Aaron M. Ucko <ucko@debian.org>  Wed, 13 Oct 2010 20:23:37 -0400

and corresponding changes:

http://git.debian.org/?p=debian-med/ncbi-tools6.git;a=commitdiff;hp=110ec87;h=5e28c56

 .gitignore                    |    6 ++
 debian/.gitignore             |   18 ++++
 debian/changelog              |   20 +++++
 debian/control                |    9 ++-
 debian/ncbi-tools-bin.install |    1 +
 debian/rules                  |   12 ++-
 doc/man/asndisc.1             |  188 +++++++++++++++++++++++++++++++++++++++++
 doc/man/asnval.1              |    3 +-
 doc/man/cleanasn.1            |    7 +-
 make/makenet.unx              |    3 +-
 10 files changed, 253 insertions(+), 14 deletions(-)

-- 
Aaron M. Ucko, KB1CJC (amu at alum.mit.edu, ucko at debian.org)
http://www.mit.edu/~amu/ | http://stuff.mit.edu/cgi/finger/?amu@monk.mit.edu




Reply sent to Mehdi Dogguy <mehdi@dogguy.org>:
You have taken responsibility. (Thu, 14 Oct 2010 21:21:05 GMT) Full text and rfc822 format available.

Notification sent to "Aaron M. Ucko" <ucko@debian.org>:
Bug acknowledged by developer. (Thu, 14 Oct 2010 21:21:06 GMT) Full text and rfc822 format available.

Message #34 received at 596733-done@bugs.debian.org (full text, mbox):

From: Mehdi Dogguy <mehdi@dogguy.org>
To: "Aaron M. Ucko" <ucko@debian.org>
Cc: 596733-done@bugs.debian.org
Subject: Re: Bug#596733: unblock: ncbi-tools6/6.1.20090809-2
Date: Thu, 14 Oct 2010 23:15:58 +0200
On 10/14/2010 11:01 PM, Aaron M. Ucko wrote:
> Mehdi Dogguy <mehdi@dogguy.org> writes:
> 
>> The packaging changes look ok (I'll re-review them once they hit the
>> archive).
> 
> Thanks!  I uploaded them last night, with the following changelog entry:
> 
> ncbi-tools6 (6.1.20090809-2) unstable; urgency=low
> 

Unblocked.

Regards,

-- 
Mehdi Dogguy مهدي الدڤي
http://dogguy.org/




Bug archived. Request was from Debbugs Internal Request <owner@bugs.debian.org> to internal_control@bugs.debian.org. (Fri, 12 Nov 2010 07:30:55 GMT) Full text and rfc822 format available.

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