Package Details: fsl 6.0.7.16-1

Git Clone URL: https://aur.archlinux.org/fsl.git (read-only, click to copy)
Package Base: fsl
Description: A comprehensive library of analysis tools for FMRI, MRI and DTI brain imaging data
Upstream URL: http://www.fmrib.ox.ac.uk/fsl/
Licenses: custom
Submitter: fishburn
Maintainer: tobac
Last Packager: tobac
Votes: 12
Popularity: 0.000000
First Submitted: 2012-07-02 23:36 (UTC)
Last Updated: 2024-12-22 17:38 (UTC)

Dependencies (1)

Required by (4)

Sources (1)

Latest Comments

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hottea commented on 2018-04-16 11:17 (UTC)

@jnvandermeer Yeah, I think it relates to a VTK versioning issue. If you look at the fsl/config/linux_64-gcc4.8/externallibs.mk, you could see:

VTKDIR_INC = /home/fs0/cowboy/var/caper_linux_64-gcc4.4/VTK7/include/vtk-7.0
VTKDIR_LIB = /home/fs0/cowboy/var/caper_linux_64-gcc4.4/VTK7/lib
VTKSUFFIX = -7.0

It might suggest that fsl needs vtk 7, so I installed vtk 7 from Arch Linux Archive, and then built fsl. It works great. Maybe one could upload a PKGBUILD for package vtk7?

jnvandermeer commented on 2018-02-05 10:43 (UTC)

For me the build hangs with a to my eyes rather arcane "undefined reference to `vtkDataArrayTemplate" error. It looks like a VTK versioning issue, but I haven't spent a lot of time on it yet.

Regarding the space issue mentioned before - yaourt in the initial settings uses /tmp, and that mayb possibly be within memory. To deal with compiling FSL you'd have to make sure that yaourt uses a directory on your harddrive (and that there's enough space).

fishburn commented on 2018-01-27 13:14 (UTC)

@MonsieurWave, my guess would be that you're running out of disk space or don't have permission to write to the build directory.

MonsieurWave commented on 2018-01-27 13:11 (UTC)

Hey Fishburn, Thanks for your work! can't get the package to build tough, it is always failing with "Write failed" errors on numerous files resulting in :

bsdtar: Error exit delayed from previous errors. ==> ERROR: Failed to extract fsl-5.0.10-feeds.tar.gz Aborting... ==> ERROR: Makepkg was unable to build fsl.

Any idea on how to fix this?

dvogel commented on 2018-01-11 12:51 (UTC)

Hey Fishburn, thanks for the package. I had issues building the package, however found fixes: - rebuilt newmat with -fPIC in CCFLAGS (solves linking issues, suggested in build.log) - changed include directories in externallibs.mk to vtk8 since vtk headers were not found with vtk6 (even though the latter is installed).

For now I only tested bet with this build.

fishburn commented on 2017-11-26 05:46 (UTC) (edited on 2017-11-26 07:28 (UTC) by fishburn)

I updated the checksums, bumped the pkgver (since I don't know what changed since the checksums changed), and got it building again. @rafaqzsu @AKSoo @jnvandermeer Would appreciate if you could verify its working on your end.

rafaqzsu commented on 2017-11-24 05:12 (UTC)

Still broken ==> Validating source files with sha1sums... fsl-5.0.10-sources.tar.gz ... FAILED fsl-5.0.10-feeds.tar.gz ... FAILED systemvars.mk ... Passed externallibs.mk ... Passed fsl_exec.patch ... Passed ==> ERROR: One or more files did not pass the validity check!

AKSoo commented on 2017-07-21 04:39 (UTC) (edited on 2017-08-16 17:18 (UTC) by AKSoo)

The tar.gz's from FMRIB fail the sha1sum validation. The build fails as well. I believe 'fftw' and 'boost' (for the headers) should be included as dependencies. Some entries in 'externallibs.mk' has header and library directories swapped.

fishburn commented on 2017-06-13 17:15 (UTC)

Updated to 5.0.10 and passes all FEEDS build tests

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