Your message dated Fri, 27 Mar 2015 12:21:27 +0000
with message-id <[email protected]>
and subject line Bug#781259: fixed in fasttree 2.1.7-2
has caused the Debian Bug report #781259,
regarding fasttree: hard-coded limit on branch length precision leads to
erroneous results
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.)
--
781259: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=781259
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: fasttree
Version: 2.1.7-1
Hi,
as described in detail at
http://darlinglab.org/blog/2015/03/23/not-so-fast-fasttree.html
fasttree 2.1.7 has a a serious issue for many genomic epidemiology
studies which can lead to completely wrong conclusions about research
results in biomedicine. The current version of fasttree in jessie
(2.1.7-1) has this severe deficiency.
The above article describes the patch needed to prevent the
flaw. Upstream incorporated the fix in version 2.1.8. In my opinion this
bug is release critical and should be fixed before the release of
jessie. I've already prepared a patched new package for this, so the bug
could be closed very fast after uploading that new package version.
Roland
-------
http://www.q-leap.com / http://qlustar.com
--- HPC / Storage / Cloud Linux Cluster OS ---
--- End Message ---
--- Begin Message ---
Source: fasttree
Source-Version: 2.1.7-2
We believe that the bug you reported is fixed in the latest version of
fasttree, 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.
Roland Fehrenbacher <[email protected]> (supplier of updated fasttree 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: SHA256
Format: 1.8
Date: Tue, 24 Mar 2015 18:37:23 +0000
Source: fasttree
Binary: fasttree
Architecture: source amd64
Version: 2.1.7-2
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Roland Fehrenbacher <[email protected]>
Description:
fasttree - phylogenetic trees from alignments of nucleotide or protein seque
Closes: 781259
Changes:
fasttree (2.1.7-2) unstable; urgency=low
.
* Team upload
* Modify/add patches to use double precision and increase branch
length precision. This is absolutely crucial to prevent flawed datas
analysis as described e.g. in
http://darlinglab.org/blog/2015/03/23/not-so-fast-fasttree.html
Closes: #781259
Checksums-Sha1:
d2421de9bcbc9f9bb6f1c4c4bd9b9b38f560e743 2012 fasttree_2.1.7-2.dsc
b303586a1297081ef8d043f437640ce5dc4f765d 8444 fasttree_2.1.7-2.debian.tar.xz
a02f2585c4e249a8d50aaa44947ef6210c3182b7 127978 fasttree_2.1.7-2_amd64.deb
Checksums-Sha256:
de23ccb963ca451c902319455dde025ba612ef2d6d3a7dba7d94fef6ed92e7ce 2012
fasttree_2.1.7-2.dsc
c8c6769825f4a71e17d561323aea8e14a6286fa332936af5236ed5574d17fb3d 8444
fasttree_2.1.7-2.debian.tar.xz
34b09b1563f7d352d3d19e28555e96c1ef088cf68629e5884c10928af8d1479b 127978
fasttree_2.1.7-2_amd64.deb
Files:
b8bbe18ec1d2e531e60c65edca973218 2012 science extra fasttree_2.1.7-2.dsc
ef65cd2f36924b08ebb6e85331c02336 8444 science extra
fasttree_2.1.7-2.debian.tar.xz
735b9a93eaa80e3cfe7508059bafa96a 127978 science extra
fasttree_2.1.7-2_amd64.deb
-----BEGIN PGP SIGNATURE-----
Version: GnuPG v1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=QeRC
-----END PGP SIGNATURE-----
--- End Message ---
