Dear Maintainer,

A quote from cmalign(1):
     It is possible to merge two or more alignments created by the same CM  us‐
     ing the Easel miniapp esl-alimerge (included in the easel/miniapps/ subdi‐
     rectory  of  Infernal).  Previous  versions of cmalign included options to
     merge alignments but they were  deprecated  upon  development  of  esl-al‐
     imerge, which is significantly more memory efficient.

However, no such app is shipped:

~$ dpkg -L infernal | grep miniapps
/usr/lib/x86_64-linux-gnu/infernal/examples/easel/miniapps
/usr/lib/x86_64-linux-gnu/infernal/examples/easel/miniapps/esl-reformat
/usr/lib/x86_64-linux-gnu/infernal/examples/easel/miniapps/esl-sfetch
/usr/lib/x86_64-linux-gnu/infernal/examples/easel/miniapps/esl-shuffle


~$ dpkg -L infernal | grep alimerge
(empty)

But it would be really handy!

Hello,

Bug #1143882 in infernal reported by you has been fixed in the
Git repository and is awaiting an upload. You can see the commit
message below and you can check the diff of the fix at:

https://salsa.debian.org/med-team/infernal/-/commit/2f32544f5d8200adaa8f295387d1475432a3348b
------------------------------------------------------------------------
Install all easel miniapps.

Closes: #1143882

Please note that the files might distirbuted via the hmmer package in future.
------------------------------------------------------------------------

(this message was generated automatically)
-- 
Greetings

https://bugs.debian.org/1143882

We believe that the bug you reported is fixed in the latest version of
infernal, 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 1143882@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Charles Plessy <plessy@debian.org> (supplier of updated infernal 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 ftpmaster@ftp-master.debian.org)
Format: 1.8
Date: Sat, 08 Aug 2026 16:28:11 +0900
Source: infernal
Architecture: source
Version: 1.1.5-4
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Charles Plessy <plessy@debian.org>
Closes: 1143882
Changes:
 infernal (1.1.5-4) unstable; urgency=medium
 .
   [ Michael R. Crusoe ]
   * d/bin/cmalign: make machine architecture query quieter and not reliant
                    on the non-essential package dpkg-dev.
 .
   [ Charles Plessy ]
   * Install all easel miniapps.  Closes: #1143882.  Please note that the
     files might distirbuted via the hmmer package in future.
   * Standards-Version: 4.7.4 (routine-update)
   * Reflow Uploaders field (cme)
   * Remove Priority field (cme)
   * Drop 'Rules-Requires-Root: no' from d/control (routine-update)
   * Replace FSF postal address with a reference to
https://www.gnu.org/licenses/.
   * Set upstream metadata fields: Bug-Submit.
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Git-Tag-Info: tag=ea54aa7b8b505f39da3d5ddbe416b643daba5477 fp=73471499cc60ed9eee805946c5bd6c8f2295d502
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