Your message dated Mon, 19 Oct 2026 12:34:06 +0000
with message-id <[email protected]>
and subject line Bug#1140261: fixed in mrtrix3 3.0.8-3
has caused the Debian Bug report #1140261,
regarding mrtrix3: FTBFS: core/math/stats/glm.cpp:185:34: error: invalid use of
non-static member function 'Eigen::JacobiSVD<typename
Eigen::DenseBase<Derived>::PlainObject>
Eigen::MatrixBase<Derived>::jacobiSvd(unsigned int) const [with Derived =
Eigen::Matrix<double, -1, -1>; typename Eigen::DenseBase<Derived>::PlainObject
= Eigen::Matrix<double, -1, -1>]'
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.)
--
1140261: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1140261
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: src:mrtrix3
Version: 3.0.8-2
Severity: serious
Tags: ftbfs forky sid
Dear maintainer:
During a rebuild of all packages in unstable, this package failed to build.
Below you will find the last part of the build log (probably the most
relevant part, but not necessarily). If required, the full build log
is available here:
https://people.debian.org/~sanvila/build-logs/202606/
About the archive rebuild: The build was made on virtual machines from AWS,
using sbuild and a reduced chroot with only build-essential packages.
If you cannot reproduce the bug please contact me privately, as I
am willing to provide ssh access to a virtual machine where the bug is
fully reproducible.
If this is really a bug in one of the build-depends, please use
reassign and add an affects on src:mrtrix3, so that this is still
visible in the BTS web page for this package.
Thanks.
--------------------------------------------------------------------------------
[...]
( 82/548) [CC] tmp/core/misc/bitset.o
g++ -c -std=c++14 -DMRTRIX_BUILD_TYPE="release version with openmp" -pthread
-fPIC -mmmx -msse -msse2 -mfpmath=sse -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong
-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -mmmx
-msse -msse2 -mfpmath=sse -DMRTRIX_WORD64
-DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -DMRTRIX_TIFF_SUPPORT
-isystem /usr/include/x86_64-linux-gnu -isystem /usr/include/webp
-DEIGEN_FFTW_DEFAULT -fopenmp -Wall -O3 -DNDEBUG -Isrc -I./core -Icmd -isystem
/usr/include/eigen3 core/misc/bitset.cpp -o tmp/core/misc/bitset.o
( 83/548) [CC] tmp/core/file/dicom/image.o
g++ -c -std=c++14 -DMRTRIX_BUILD_TYPE="release version with openmp" -pthread
-fPIC -mmmx -msse -msse2 -mfpmath=sse -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong
-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -mmmx
-msse -msse2 -mfpmath=sse -DMRTRIX_WORD64
-DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -DMRTRIX_TIFF_SUPPORT
-isystem /usr/include/x86_64-linux-gnu -isystem /usr/include/webp
-DEIGEN_FFTW_DEFAULT -fopenmp -Wall -O3 -DNDEBUG -Isrc -I./core -Icmd -isystem
/usr/include/eigen3 core/file/dicom/image.cpp -o tmp/core/file/dicom/image.o
ERROR: ( 80/548) [CC] tmp/core/math/stats/glm.o
g++ -c -std=c++14 -DMRTRIX_BUILD_TYPE="release version with openmp" -pthread
-fPIC -mmmx -msse -msse2 -mfpmath=sse -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2
-ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong
-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -mmmx
-msse -msse2 -mfpmath=sse -DMRTRIX_WORD64
-DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -DMRTRIX_TIFF_SUPPORT
-isystem /usr/include/x86_64-linux-gnu -isystem /usr/include/webp
-DEIGEN_FFTW_DEFAULT -fopenmp -Wall -O3 -DNDEBUG -Isrc -I./core -Icmd -isystem
/usr/include/eigen3 core/math/stats/glm.cpp -o tmp/core/math/stats/glm.o
failed with output
core/math/stats/glm.cpp: In function âMR::Math::Stats::matrix_type
MR::Math::Stats::GLM::solve_betas(const MR::Math::Stats::matrix_type&, const
MR::Math::Stats::matrix_type&)â:
core/math/stats/glm.cpp:185:34: error: invalid use of non-static member
function âEigen::JacobiSVD<typename Eigen::DenseBase<Derived>::PlainObject>
Eigen::MatrixBase<Derived>::jacobiSvd(unsigned int) const [with Derived =
Eigen::Matrix<double, -1, -1>; typename Eigen::DenseBase<Derived>::PlainObject
= Eigen::Matrix<double, -1, -1>]â
185 | return design.jacobiSvd<Eigen::ComputeThinU |
Eigen::ComputeThinV>().solve (measurements);
| ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/eigen3/Eigen/SVD:37,
from /usr/include/eigen3/Eigen/Geometry:13,
from ./core/types.h:78,
from ./core/mrtrix.h:38,
from ./core/cmdline_option.h:28,
from ./core/app.h:29,
from ./core/math/stats/glm.h:20,
from core/math/stats/glm.cpp:17:
/usr/include/eigen3/Eigen/src/SVD/JacobiSVD.h:805:1: note: declared here
805 | MatrixBase<Derived>::jacobiSvd(unsigned int computationOptions) const
| ^~~~~~~~~~~~~~~~~~~
core/math/stats/glm.cpp:185:78: error: expected primary-expression before
â)â token
185 | return design.jacobiSvd<Eigen::ComputeThinU |
Eigen::ComputeThinV>().solve (measurements);
|
^
make[1]: *** [debian/rules:39: override_dh_auto_build] Error 1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:33: binary] Error 2
dpkg-buildpackage: error: debian/rules binary subprocess failed with exit
status 2
--------------------------------------------------------------------------------
--- End Message ---
--- Begin Message ---
Source: mrtrix3
Source-Version: 3.0.8-3
Done: Andreas Tille <[email protected]>
We believe that the bug you reported is fixed in the latest version of
mrtrix3, 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.
Andreas Tille <[email protected]> (supplier of updated mrtrix3 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: SHA512
Format: 1.8
Date: Mon, 19 Oct 2026 13:16:05 +0200
Source: mrtrix3
Architecture: source
Version: 3.0.8-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Andreas Tille <[email protected]>
Closes: 1140261
Changes:
mrtrix3 (3.0.8-3) unstable; urgency=medium
.
* Team upload.
* Fix build with Eigen 5.0 which changed jacobiSvd.
Closes: #1140261
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