Your message dated Sun, 04 May 2025 04:15:09 +0000
with message-id <[email protected]>
and subject line Bug#1100037: fixed in ncbi-blast+ 2.16.0+ds-7
has caused the Debian Bug report #1100037,
regarding ncbi-blast+: missing commands (blastn_vdb, etc.)
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.
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--
1100037: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1100037
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: ncbi-blast+
Version: 2.16.0+ds-6+b1
Severity: wishlist
Dear Maintainer,
Since 2.13.0 NCBI BLAST+[1] provides the following tools (blastn_vdb,
tblastn_vdb) and maybe also some others (blast_vdb_cmd, blast_formatter_vdb)
which I currently found in the upstream ncbi-blast-2.16.0+-x64-linux.tar.gz
Moreover, all these VDB tools are not mentionned as excluded in the
README.Debian
Would it be possible to package them?
Regards,
Patrice
[1] https://blast.ncbi.nlm.nih.gov/doc/blast-news/2022-BLAST-News.html
-- System Information:
Debian Release: trixie/sid
APT prefers unstable-debug
APT policy: (500, 'unstable-debug'), (500, 'unstable'), (1, 'experimental')
Architecture: amd64 (x86_64)
Foreign Architectures: i386
Kernel: Linux 6.12.11-amd64 (SMP w/24 CPU threads; PREEMPT)
Kernel taint flags: TAINT_FIRMWARE_WORKAROUND
Locale: LANG=fr_FR.UTF-8, LC_CTYPE=fr_FR.UTF-8 (charmap=UTF-8), LANGUAGE not set
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled
Versions of packages ncbi-blast+ depends on:
ii libbz2-1.0 1.0.8-6
ii libc6 2.40-7
ii libgcc-s1 14.2.0-17
ii libgomp1 14.2.0-17
ii liblmdb0 0.9.31-1+b2
ii libmbedcrypto16 3.6.2-3
ii libmbedtls21 3.6.2-3
ii libmbedx509-7 3.6.2-3
ii libnghttp2-14 1.64.0-1
ii libpcre2-8-0 10.45-1
ii libsqlite3-0 3.46.1-1
ii libstdc++6 14.2.0-17
ii libuv1t64 1.50.0-2
ii ncbi-data 6.1.20170106+dfsg2-5
ii perl 5.40.1-2
ii python3 3.13.1-2
ii zlib1g 1:1.3.dfsg+really1.3.1-1+b1
ncbi-blast+ recommends no packages.
ncbi-blast+ suggests no packages.
-- no debconf information
--- End Message ---
--- Begin Message ---
Source: ncbi-blast+
Source-Version: 2.16.0+ds-7
Done: Aaron M. Ucko <[email protected]>
We believe that the bug you reported is fixed in the latest version of
ncbi-blast+, 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.
Aaron M. Ucko <[email protected]> (supplier of updated ncbi-blast+ 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])
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Hash: SHA512
Format: 1.8
Date: Sat, 03 May 2025 23:42:51 -0400
Source: ncbi-blast+
Architecture: source
Version: 2.16.0+ds-7
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Aaron M. Ucko <[email protected]>
Closes: 1097434 1100037
Changes:
ncbi-blast+ (2.16.0+ds-7) unstable; urgency=medium
.
* debian/control: Build-depend on libncbi-vdb-dev where available
(amd64, arm64, and x32).
* debian/copyright: Overhaul with much help from licenserecon (lrc).
* debian/patches/fix_bm_for_gcc15 (new): Cherry-pick a BitMagic fix
needed for modern compilers, adjusting the path appropriately.'
(Closes: #1097434.)
* debian/rules: Build against (packaged!) VDB where available, using
logic cribbed from ncbi-igblast. (Closes: #1100037.)
* Standards-Version: 4.7.2 (routine-update)
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