Change log for fsl package in Debian
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fsl (5.0.8-6) unstable; urgency=medium
* Team upload.
[ Yaroslav Halchenko ]
* Add 'file' to Depends of fsl-5.0-core. Required by fslFixText utility
* debian/fsl.sh - place FSL's bin path first (not the last) within adjusted
$PATH (Closes: #804881)
* debian/patches/up_in_compar to fix FTBFS of melodic on 17.04
Closes: #837361
[ Michael Hanke ]
* Move 'fslview' from a dependency into suggests. It can no longer be
built in Debian unstable.
Closes: #864178
[ Andreas Tille ]
* Replace watch line pointing to alioth which does not exist any more
by fake watch file
* debhelper 9
* Point Vcs fields to salsa.debian.org
* Standards-Version: 4.3.0
* Fix call of overloaded 'round(float)' is ambiguous
* Silence lintian about false positive spelling
* fsl-5.0-core Depends: sensible-utils
* Drop Encoding key from desktop file
* Drop Debian menu file (since there is a desktop file)
* hardening=+all
-- Andreas Tille <email address hidden> Tue, 15 Jan 2019 16:42:15 +0100
fsl (5.0.8-5) unstable; urgency=medium * Disable unecessary unportable debugging code that breaks on kfreebsd. -- Michael Hanke <email address hidden> Fri, 21 Aug 2015 11:43:25 +0200
Available diffs
- diff from 5.0.8-4 to 5.0.8-5 (1.3 KiB)
fsl (5.0.8-4) unstable; urgency=medium
* Remove versioned dependencies on transitional packages libgd2-(no)xpm-dev
in favor of a dependency on libgd-dev (Closes: #792291). Thanks to
Mattia Rizzolo for the report.
* Add patch to force FSL to use its own modified version of the BWidget
TCL package. This prevents incompatibility issues if a system-wide
BWidget installation is found (Closes: #792758). The "fix" forces a
version requirement on BWidget 1.8 (matches embedded version,
Debian has 1.9.x as of now). This is not ideal, but a minimally intrusive
change that achieves the desired behavior. Thanks to Vincent Kersten
for the report.
* Move upstream meta data to debian/upstream/metadata.
* Drop embeded excanvas javascript library in favor of a dependency on
libjs-excanvas.
-- Michael Hanke <email address hidden> Mon, 17 Aug 2015 11:30:18 +0100
Available diffs
- diff from 5.0.7-4 to 5.0.8-4 (36.7 KiB)
| Deleted in stretch-release (Reason: None provided.) |
| Published in jessie-release |
| Superseded in sid-release |
fsl (5.0.7-4) unstable; urgency=medium
* Fix FTBFS on kfreebsd: Disable 'stack_dump' component that is "highly
non-portable" and can be replaced, if necessary, with plain gdb.
* Fix another bashism in the *monitor script generated by bedpostx.
-- Michael Hanke <email address hidden> Wed, 23 Jul 2014 08:01:53 +0200
Available diffs
- diff from 5.0.7-3 to 5.0.7-4 (1.3 KiB)
fsl (5.0.7-3) unstable; urgency=medium
* Improve FSL's build configuration to not treat any non-Linux platform
as a Mac (Closes: #755356).
-- Michael Hanke <email address hidden> Sun, 20 Jul 2014 11:36:26 +0200
Available diffs
- diff from 5.0.7-2 to 5.0.7-3 (1.1 KiB)
fsl (5.0.7-2) unstable; urgency=low
* Add a patch to make randomise_parallel work on systems that do not have
bash as their default shell (Closes: #693373). Thanks to Philip Chase for
the patch.
* Add a patch to honor an unset FSLPARALLEL (do not submit jobs to a
cluster) even in cases where SGE_ROOT is set (Closes: #685757). Thanks to
German Gomez-Herrero for the patch.
* Sanitize PATH and LD_LIBRARY_PATH when sourcing the configuration file.
Old/duplicate FSL path entries are now removed (Closes: #695257). Thanks
to Vincent Kersten for the patch.
-- Michael Hanke <email address hidden> Thu, 17 Jul 2014 15:44:44 +0200
Available diffs
- diff from 5.0.7-1 to 5.0.7-2 (3.4 KiB)
fsl (5.0.7-1) unstable; urgency=medium
* New upstream release.
- new component: gps
* Remove the documentation from the source package due to a number of files
with unclear origin and license. Consequently, the -doc has been removed
as well. Upstream confirms that documentation is best consumed from the
live wiki on the project homepage.
* Move the -gpu package setup into a patch that can be applied to backports
to particular releases. The current Debian unstable doesn't have a
functional nvcc and it is i386 and amd64 only anyway.
* Cleanup and remove old and merged patches.
* Bumped Standard version to 3.9.5 -- no changes necessary.
-- Michael Hanke <email address hidden> Fri, 11 Jul 2014 17:22:13 +0200
Available diffs
- diff from 4.1.9-7.2 to 5.0.7-1 (1.6 MiB)
fsl (4.1.9-7.2) unstable; urgency=low
* Non-maintainer upload.
* Really replaced tcl8.4 and tk8.4 by tcl and tk in the package dependencies
(Closes: #737187).
-- Sergei Golovan <email address hidden> Sat, 15 Mar 2014 21:03:23 +0400
Available diffs
fsl (4.1.9-7.1) unstable; urgency=low
* Non-maintainer upload.
* Replaced tcl8.4 and tk8.4 by tcl and tk in the package dependencies
(Closes: #737187).
-- Sergei Golovan <email address hidden> Fri, 31 Jan 2014 22:19:04 +0400
fsl (4.1.9-7) unstable; urgency=low
* Stop regenerating tclIndex during postinst. This is no longer necessary
since libfslio and its TCL scripts are built from the FSL source package
-- which is since 4.1.1 or four years (Closes: #689166).
-- Michael Hanke <email address hidden> Thu, 06 Sep 2012 09:10:33 +0200
Available diffs
fsl (4.1.9-6) unstable; urgency=low
* Declare a conflict to pre-4.1.9-5 fsl4.1-doc packages. Otherwise,
upgrades might fail due to duplicate files .
-- Michael Hanke <email address hidden> Fri, 08 Jun 2012 07:54:20 +0200
fsl (4.1.9-5) unstable; urgency=low
* Bugfix release.
* Bumped Standard version to 3.9.3 -- no changes necessary.
* Adjustments for Octave transition: changed dependencies in debian/control,
make call to octave-depends conditional upon its presence to allow for
easy backports (Closes: #674426)
* Move fsl.css from -doc into the main package to prevent error message due
to failed access to this file when the -doc package is not installed.
(Closes: #675195)
-- Michael Hanke <email address hidden> Fri, 01 Jun 2012 10:35:16 +0200
fsl (4.1.9-4) unstable; urgency=low
* Actually do the changes listed for 4.1.9-3. They needed to be implemented
in the template files.
-- Michael Hanke <email address hidden> Sat, 17 Mar 2012 10:23:23 +0100
Available diffs
- diff from 4.1.8-1ubuntu1 (in Ubuntu) to 4.1.9-4 (162.3 KiB)
fsl (4.1.9-3) unstable; urgency=low
* Relax dependency of fsl-doc on fslview-doc to recommends. FSLView is
no longer available in unstable.
-- Michael Hanke <email address hidden> Sat, 14 Jan 2012 11:26:18 +0100
fsl (4.1.9-2) unstable; urgency=low
* Added patch to prevent MATLAB scripts from failing because MATLAB
redefines LD_LIBRARY_PATH. Courtesy of Duncan Mortimer.
* Added initial support for using Condor for cluster support instead of
SGE (FSLPARALLEL=condor).
-- Michael Hanke <email address hidden> Fri, 16 Dec 2011 19:24:00 +0100
fsl (4.1.9-1) unstable; urgency=low
* New upstream relase. Merged patches (gdc_bugfix, missing_newline,
gcc_compat).
* Make fslview recommended (instead of depend), as it is currently not
available for post-squeeze systems, due to VTK5-Qt3 dependency.
* Remove brace expansion in debhelper install file (reported by lintian).
-- Michael Hanke <email address hidden> Mon, 24 Oct 2011 15:06:03 +0200
fsl (4.1.8-1) unstable; urgency=low * New upstream bugfix release. * Install README.Debian into the versioned FSL package. * Bumped Standard version to 3.9.2 -- no changes necessary. -- Michael Hanke <email address hidden> Tue, 17 May 2011 16:45:10 -0400
fsl (4.1.7-1) unstable; urgency=low * New upstream bugfix release. Improved TFCE handling in fslmaths. Better error detection in randomise. MELODIC now has an option to use a user-defined seed. There are a number of minor fixes to FEAT. fslmerge now attempts to detect orientation problems during a temporal merge. -- Michael Hanke <email address hidden> Wed, 19 Jan 2011 14:19:59 -0500
fsl (4.1.6-4) unstable; urgency=low
* Remove /usr/bin symlinks from 'fsl' package and remove now obsolete
package conflicts (Closes: #592242 again). Instead, the 'fsl-4.1' package
now installs properly prefixed ('fsl4.1-') symlinks into /usr/bin that do
not conflict with existing files in any package and, moreover, allow tools
from multiple FSL versions to coexist on the same system. Any internal FSL
scripts are unaffected by this change. Adjust manpage and README.Debian to
document this change, as well as added a NEWS entry.
* Bumped Standard version to 3.9.1.0 -- no changes necessary.
* Removed menu integration of 'Nudge' tool to prevent overcrowding of menu
categories. It is of limited functionality and rarely used.
-- Michael Hanke <email address hidden> Fri, 03 Sep 2010 09:35:39 -0400
fsl (4.1.6-3) unstable; urgency=low
* Add package conflict between 'fsl' and 'cyrus-clients-2.2', due to file
conflict (Closes: #592242). Thanks to Ralf Treinen for detecting.
-- Michael Hanke <email address hidden> Sun, 08 Aug 2010 12:20:38 -0400
fsl (4.1.6-2) unstable; urgency=low
* Install package content into version-specific locations to allow multiple
major FSL release to coexist on the same system (Closes: #546241). The
previous unversioned 'fsl' package remains and serves as a meta package
that depends on the latest versioned FSL package and installs wrappers
for all binaries into /usr/bin that can be used without manually sourcing
a config file first. This change is based on work by Mark Hymers -- Thanks!
* Add package conflicts to 'yagiuda', 'kolab-cyrus-clients', 'multimail',
and 'im' due to namespace conflicts of symlinks in /usr/bin installed by
the new FSL meta package. The versioned FSL packages are usable without the
meta package (in case someone installs these packages on a neuroscience
workstation) and the added convenience of a readily usable FSL (without
manual environment tweaks) seems to outweigh the disadvantages.
* Adjust build-dependency on libnifti1-dev to libnifti-dev.
-- Michael Hanke <email address hidden> Sun, 25 Jul 2010 11:12:30 -0400
fsl (4.1.6-1) unstable; urgency=low
* New upstream release. Merged various patches with upstream.
Closes: #581095.
-- Michael Hanke <email address hidden> Mon, 05 Jul 2010 10:44:16 -0400
fsl (4.1.5.2-3) unstable; urgency=low
* Switch to source package format 3.0 (quilt). Convert all Git
feature/bugfix branches into quilt patch series.
* Remove obsolete dh_desktop call from debian/rules.
* Add debhelper dependency variables to fsl-doc control stanza.
* No longer compile with '-Wl,--as-needed' to prevent symbols from
libcprob to be substituted by external replacements.
* Updated and extended the package description.
* Changed maintainer to NeuroDebian. Moved myself into uploaders and
added Yaroslav Halchenko.
* Fix syntax error in 'rotate_bvecs' script.
-- Michael Hanke <email address hidden> Sun, 02 May 2010 19:19:25 -0400
fsl (4.1.5.2-2) unstable; urgency=low
* Fix broken fslmaths option (-tfce). Thanks to Clark Johnson and Matthew
Webster.
* Bumped Standard version to 3.8.4.0 -- no changes necessary.
* Remove support for octave2.1 dependency and allow for octave3.2.
Thanks to Thomas Weber for the report (Closes: #572763).
-- Michael Hanke <email address hidden> Sat, 06 Mar 2010 08:28:38 -0500
fsl (4.1.5-1) unstable; urgency=low
* New upstream release.
* An issue with Randomise "pausing" has been fixed.
* There are some improvements to the bedpostx monitor script.
* Large speedup for invwarp by automatically adjusting the useful FOV
internally (no cropping of the original images needed).
* Non-linear initialisation in bedpostx to allow better convergence of
the MCMC chains
* Some improvements and new options in Probtrackx:
- allows to input nonlinear (FNIRT) warpfield instead of FLIRT
matrices
- bug fix in initial fibre selection
- tracking from freesurfer cortical surface (into the brain)
- tracking from random locations within a seed voxel
* No longer compile with '-ansi -pedantic', since a significant part of the
sources is actually not ANSI compliant (Closes: #546003).
* Don't use roundl() to round doubles in src/basisfield/splinefield.cpp to
prevent FTFBS on ARMEL (Closes: #513272).
* Bumped Standard version to 3.8.3.0 -- no changes necessary.
* New config variable FSLPARALLEL. If set, FSL will submit jobs to a running
Sun Gridengine. By default, this setting is disabled in /etc/fsl/fsl.sh.
(Closes: #546238). Added suggested package 'gridengine-client'.
See README.Debian for more information.
* Remove all menu items of GUI-apps that are directly accessible from the
central FSL GUI. The menu got too crowded with all the different FSL
items.
-- Michael Hanke <email address hidden> Fri, 22 Jan 2010 18:01:24 -0500
fsl (4.1.4-2) unstable; urgency=low
* Include a number of upstream patches that went into 4.1.4 after the
4.1.4-1 package got uploaded.
* Revert from -O3 to -O2 for compiler optimizations. -O3 seems to cause
trouble for some pieces (miscmaths, avwutils) on some architectures.
-- Michael Hanke <email address hidden> Wed, 03 Jun 2009 20:52:45 +0200
fsl (4.1.3-1) unstable; urgency=low
* New Upstream Version.
* Reverse the order of the octave*-headers build-dependency alternatives
to account for the removal of octave2.1-headers from unstable
(Closes: #523826).
* Do not build-depend on FSLView anymore. That setup was way to complex and
error-prone.
* Bumped Standard version to 3.8.1 -- no changes necessary.
-- Michael Hanke <email address hidden> Mon, 27 Apr 2009 22:13:12 +0200
fsl (4.1.2-2) unstable; urgency=low
* Use internals libs compiled by the fslview package, instead of building
them again from fsl sources.
* Added 'XS-DM-Upload-Allowed: yes' in debian/control.
* Install fslio im* scripts.
-- Michael Hanke <email address hidden> Sat, 07 Feb 2009 10:33:03 +0100
fsl (4.1.1-1) unstable; urgency=low
* New Upstream Version fixing a number of bugs in FEAT, FDT and FNIRT.
* Updated repackaging. Repackaging procedure was changed to keep fslio in
the package. This version contains more up-to-date scripts than the ones
in the nifticlibs package.
* Install im* and tcl scripts from local fslio sources, instead of using the
(discontinued) ones in the nifticlibs package. Therefore also removing
dependency to 'nifti-bin'.
* Do not install installer script -- useless on Debian (Closes: #489596).
* Remove broken get-orig-source target from debian/rules. The repackaging
procedure is implemented in the 'repackage-fsl' script shipped with the
fslview package.
-- Michael Hanke <email address hidden> Thu, 16 Oct 2008 14:28:34 +0200
fsl (4.0.4-1) unstable; urgency=low
* New bugfix release.
* Install missing IRTK configuration, which are not covered by the IRTK
liccense.
-- Michael Hanke <email address hidden> Tue, 01 Apr 2008 11:04:19 +0200
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