Hi,

During a test rebuild of HDF5's reverse dependencies against HDF5 2.1.0
currently in experimental, stimfit FTBFS because its check on HDF5
version doesn't expect a majot release number > 1.

The attached patch fixes this issue and works with both HDF5 releases
1.14.6 and 2.1.0.

Best,
_g.


- -- System Information:
Debian Release: 12.0
Architecture: amd64 (x86_64)

Kernel: Linux 6.1.0-44-amd64 (SMP w/12 CPU threads; PREEMPT)
Kernel taint flags: TAINT_OOT_MODULE, TAINT_UNSIGNED_MODULE
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
-----BEGIN PGP SIGNATURE-----

iQEzBAEBCgAdFiEEoJObzArDE05WtIyR7+hsbH/+z4MFAmopLSsACgkQ7+hsbH/+
z4PmoggAkV7hRcKzhedaRxt4YQ5PRdTmz1SVfI6QMWOoOxDUzRvuW/ZbdGwH9qET
CgaX8w7FIJ5A55vX/VnSwLElExS41L+bwsYkutEC8wjE7GMxgWFQI3M+gg5WBo29
hznQYup1GdKseUVl+aFqTO46ZbEc6LAEqbjt239IKpVZkWm2DgwBUkzHM6nfXdFk
6/cE2tSFO6umzflkpG+NtAsbHyQ6hMFQPIPrbJ1ysBlywrFxblV47Ex+KPe6KfgH
Avw0Exp2+DEQ1vm5IVWghINcZn9Gxc8giVCTzK1TVyoUC1Cl3Lq8dLZEcogukWLh
lzRdrlCcb/JVgF9qerc8j+gCZZV/iA==
=c0wC
-----END PGP SIGNATURE-----

Dear Gilles,

thank you for the report and patch.

I have prepared stimfit 0.16.11-3 with your HDF5 2.x fix.

The source package is uploaded to mentors:

https://mentors.debian.net/package/stimfit/

Would it be possible for you to sponsor this upload?

Best,
Christoph

Hi Christoph,

Could you please push your changes to the package's repo?

Thanks,
_g.

Le 2026-06-10 14:36, Christoph Schmidt-Hieber a écrit :

We believe that the bug you reported is fixed in the latest version of
stimfit, 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 1139613@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Christoph Schmidt-Hieber <christsc@gmx.de> (supplier of updated stimfit 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: Wed, 10 Jun 2026 11:06:16 +0000
Source: stimfit
Binary: python3-stfio python3-stfio-dbgsym stimfit stimfit-dbgsym
Architecture: source amd64
Version: 0.16.11-3
Distribution: unstable
Urgency: medium
Maintainer: Christoph Schmidt-Hieber <christsc@gmx.de>
Changed-By: Christoph Schmidt-Hieber <christsc@gmx.de>
Description:
 python3-stfio - Python module to read common electrophysiology file formats
 stimfit    - Program for viewing and analyzing electrophysiological data
Closes: 1139613
Changes:
 stimfit (0.16.11-3) unstable; urgency=medium
 .
   * Fix FTBFS with HDF5 2.x. Thanks to Gilles Filippini for the patch.
     (Closes: #1139613)
Checksums-Sha1:
 d0d47d1f8beec38b467e60ecefb2f919aecb9184 1863 stimfit_0.16.11-3.dsc
 a8f4d62e4c4de0bee7d216320dfc1725b5688506 13524 stimfit_0.16.11-3.debian.tar.xz
 5718264cc0c17dc7056db21254e25cc25f949bcd 2476100 python3-stfio-dbgsym_0.16.11-3_amd64.deb
 e19217e678a2893da1bba73852f6257d563ebec0 293680 python3-stfio_0.16.11-3_amd64.deb
 7906e7d49dda7bf24eff4c1e7c3166bdd4eca1b4 8526256 stimfit-dbgsym_0.16.11-3_amd64.deb
 1cf09bb38d9b759baffe5b26e1ed604fdedc8c21 16800 stimfit_0.16.11-3_amd64.buildinfo
 05f5f3c05a4d79c931b30290ff2821e42dbe6dff 818644 stimfit_0.16.11-3_amd64.deb
Checksums-Sha256:
 1433990597508fd718f99750fe5ac63367f9e3d742c954e060a4bb2174bb7542 1863 stimfit_0.16.11-3.dsc
 6496406676b801392eb453078d1b07253727de228352414b530c20edd516efc3 13524 stimfit_0.16.11-3.debian.tar.xz
 d34cb158edd5ec333748a8983493df3ac932a0b7a87fec51f4c3af044edabe18 2476100 python3-stfio-dbgsym_0.16.11-3_amd64.deb
 ea0c146dafff271e17d1a1ad24beedc16262001573c853712a6bb85235a8fb06 293680 python3-stfio_0.16.11-3_amd64.deb
 d2512023d5864020ff82b863666a04560b106c824386f3d96a3d3176c1d9886c 8526256 stimfit-dbgsym_0.16.11-3_amd64.deb
 6eb2c65b740a56a15b3dba4de426c994514ba4254123aa83c72daaa187029edb 16800 stimfit_0.16.11-3_amd64.buildinfo
 41f5f78a0b12041222d408acd1420a764fa72e79ddfef1dc2b2531fd1dc9643e 818644 stimfit_0.16.11-3_amd64.deb
Files:
 fd80ab34b038a93fb23b66e72c0a039e 1863 science optional stimfit_0.16.11-3.dsc
 c60fe575e5ce42dd4bfb732c9f66ada0 13524 science optional stimfit_0.16.11-3.debian.tar.xz
 f0cf824e7254c82881133fbdb5855c75 2476100 debug optional python3-stfio-dbgsym_0.16.11-3_amd64.deb
 b69dad30f80820e77299e2df13db748f 293680 python optional python3-stfio_0.16.11-3_amd64.deb
 0dc7e29c2c6fb63c89e0ed86bee1661e 8526256 debug optional stimfit-dbgsym_0.16.11-3_amd64.deb
 7e2f1147f360948f7edc0fbf9fae949a 16800 science optional stimfit_0.16.11-3_amd64.buildinfo
 8b03eae6b9bdb3d77c5d045ee370bf14 818644 science optional stimfit_0.16.11-3_amd64.deb
-----BEGIN PGP SIGNATURE-----

iQFEBAEBCgAuFiEEoJObzArDE05WtIyR7+hsbH/+z4MFAmopcRMQHHBpbmlAZGVi
aWFuLm9yZwAKCRDv6Gxsf/7Pg/7OCACoe6iLwulLe75LNdw2Ji0NJVRDnsH4IymQ
0hzWSXn72YTu6DxQWJfrqlUb9SnJ6TsaGO73UgKWBK9jodw3XFclw7EVpR4GkY++
jlomegc71LGCdCVz1PEpGw0cGGLy81+0Kd2rtL4eJyX+nEVIeA1IoPK92qlLnoZJ
mD4AAdp2iKrbRj+BATxHLZBU71X3MYCOBlMJ10dJNn4NWCDe8FrqcpZU1pV+GJ8L
7f7ZI4fkZTthj1kEGvO0oipb487jjjDPYk4MN7uSOyWzdeWu9RefEQ8fu7AsZo+u
7OSk0K9/50F6GjiZTzSVQoxESBkm7mg/6+cjAGQi+hNHYHf7mYr8
=UrMh
-----END PGP SIGNATURE-----

work:

https://buildd.debian.org/status/logs.php?pkg=stimfit&ver=0.17.1-2%2Bb1

...
CMake Error at /usr/share/cmake-4.3/Modules/FindHDF5.cmake:1257 (message):
  HDF5 was found, but a different variable was set which contains the
  location of the `hdf5::hdf5` library.
Call Stack (most recent call first):
  cmake/StimfitDependencies.cmake:253 (find_package)
  CMakeLists.txt:27 (include)


CMake Error at /usr/share/cmake-4.3/Modules/FindHDF5.cmake:1340 (message):
  HDF5 was found, but a different variable was set which contains the
  location of the `hdf5::hdf5_hl` library.
Call Stack (most recent call first):
  cmake/StimfitDependencies.cmake:253 (find_package)
  CMakeLists.txt:27 (include)
...

cu
Adrian

A fix for this bug in 0.17 (separate from the bug fix that has already
been applied to the 0.16 branch) is included in 0.17.2-1, which has been
uploaded to mentors:

https://mentors.debian.net/package/stimfit/

It also fixes #1140597

Gilles or Adrian, I would appreciate if one of you could sponsor this
upload.

Best wishes
Christoph

We believe that the bug you reported is fixed in the latest version of
stimfit, 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 1139613@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Christoph Schmidt-Hieber <christsc@gmx.de> (supplier of updated stimfit 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: Tue, 11 Aug 2026 11:03:52 +0000
Source: stimfit
Architecture: source
Version: 0.17.2-1
Distribution: unstable
Urgency: medium
Maintainer: Christoph Schmidt-Hieber <christsc@gmx.de>
Changed-By: Christoph Schmidt-Hieber <christsc@gmx.de>
Closes: 1139613 1140597
Changes:
 stimfit (0.17.2-1) unstable; urgency=medium
 .
   * New upstream release
   * Fix command-line help to print usage and exit successfully.
   * Exercise command-line help under Xvfb in autopkgtest without masking
     failures. (Closes: #1140597)
   * Fix FTBFS with HDF5 2.1 by accepting the unnamespaced CMake targets
     exported by libhdf5-dev. (Closes: #1139613)
Checksums-Sha1:
 8bb48a66385f19e4e4764d99b1cb9530cb728677 1950 stimfit_0.17.2-1.dsc
 2ff846be9967ec99f43af65d118c991807dd03b6 5350760 stimfit_0.17.2.orig.tar.gz
 4b7155d7bcb45e3f5b973e863f3476423a541cca 14956 stimfit_0.17.2-1.debian.tar.xz
 0000173d97ac2bb952a4b2248b83693a0f78c228 16943 stimfit_0.17.2-1_amd64.buildinfo
Checksums-Sha256:
 d2f6a9ede449e3f96721e3f7a628a5f887902fb892896e876d60c1dafb6996ea 1950 stimfit_0.17.2-1.dsc
 418fcdb48d375236900c0fd30daa9bdbfc0c9867e1ed9206b67da87317a0be0c 5350760 stimfit_0.17.2.orig.tar.gz
 699edbfe6bbeab230337a4983901decd81754c4fa57859517589874479eb43fe 14956 stimfit_0.17.2-1.debian.tar.xz
 efac99cab3f3bc48e2010dd30a0801b96f5333a10b57faffb56017fe610201c6 16943 stimfit_0.17.2-1_amd64.buildinfo
Files:
 f0ac35fc85754195b7e631f9470b81a7 1950 science optional stimfit_0.17.2-1.dsc
 b6fe67957795f09dc8178ffbb8a3fe81 5350760 science optional stimfit_0.17.2.orig.tar.gz
 d81c4f3aaa9acace175ae650b11d1bee 14956 science optional stimfit_0.17.2-1.debian.tar.xz
 c1e66bc249b5277fc282102ff14908f6 16943 science optional stimfit_0.17.2-1_amd64.buildinfo
-----BEGIN PGP SIGNATURE-----

iQFEBAEBCgAuFiEEoJObzArDE05WtIyR7+hsbH/+z4MFAmp7IOkQHHBpbmlAZGVi
aWFuLm9yZwAKCRDv6Gxsf/7Pg6ZAB/4vavQ/WQGKb/A8SCXbuPzTlOFZjk2MbB6Y
SHiXbBJdVPbkc7ovvyDkb8LnAExM0jKqcdZZm4JckG+9yXQQaO/Zw2ggl3QfR0S9
7boij0HxTIDCotzzAhVA4+zvwq/sFBWEh5k/OCbFCWUwZXNMb5gje8Qh+5GA30sU
9btvrNFXKRygmiSxieMV4RIljzKtSYbt0Sfny0KsxV96zb509BV0Y6oeWv6v3gbb
nqGekdYK1LF/o8D3wsx6RhpWplOk6enY+dp0CdDZk5QSPh9d+dUhXewapMYDbqS7
CHKpnrXd+lki3PPN/ZZAO902KH/yTcPGL1L8CIwV+0NUamVuBuhX
=9Ikf
-----END PGP SIGNATURE-----