aims segmentation fault (core dumped)

AIMS library and commands usage

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pdeman
Posts: 39
Joined: Thu Sep 17, 2015 4:09 pm
Location: moving sometimes

aims segmentation fault (core dumped)

Post by pdeman »

Hi,

I have some new problem with aims.
I have installed the brainvisa (ubuntu version) on a ubuntu16.04.
it worked for a long time, and now I have this problem:
/home/epinavubuntu/Desktop/brainvisa_4.5/bin/AimsFileConvert -i /media/epinavubuntu/backup_pierre2/brainvisa_4.5/Epilepsy/Gre_2016_coucou/t1mri/T1pre_2015-1-1/Gre_2016_RICl.nii -o /tmp/test.nii
Segmentation fault (core dumped)

the .nii that I am trying to convert is a nii that I already tried before and it worked.
all aims stuff seems to do a segmentation fault now, but I don't remember having change anything on my computers ....

I tried reinstalling brainvisa, it's still the same problem...

Any idea how I could solve this ?

Cheers,
Pierre
pdeman
Posts: 39
Joined: Thu Sep 17, 2015 4:09 pm
Location: moving sometimes

Re: aims segmentation fault (core dumped)

Post by pdeman »

if I do
ldd ./AimsFileConvert I have this
linux-vdso.so.1 => (0x00007ffeea7e6000)
libaimsdata.so.4.5.0 => /home/epinavubuntu/Desktop/brainvisa_4.5/lib/libaimsdata.so.4.5.0 (0x00007fee316b4000)
libcartodata.so.4.5.0 => /home/epinavubuntu/Desktop/brainvisa_4.5/lib/libcartodata.so.4.5.0 (0x00007fee30cbe000)
libsoma-io.so.4.5.0 => /home/epinavubuntu/Desktop/brainvisa_4.5/lib/libsoma-io.so.4.5.0 (0x00007fee308e7000)
libcartobase_1.so.4.5.0 => /home/epinavubuntu/Desktop/brainvisa_4.5/lib/libcartobase_1.so.4.5.0 (0x00007fee2fbb9000)
libcartobase_0.so.4.5.0 => /home/epinavubuntu/Desktop/brainvisa_4.5/lib/libcartobase_0.so.4.5.0 (0x00007fee2f598000)
libsigc-2.0.so.0 => /home/epinavubuntu/Desktop/brainvisa_4.5/lib/libsigc-2.0.so.0 (0x00007fee2f392000)
libstdc++.so.6 => /home/epinavubuntu/Desktop/brainvisa_4.5/lib/libstdc++.so.6 (0x00007fee2f092000)
libm.so.6 => /lib/x86_64-linux-gnu/libm.so.6 (0x00007fee2ed6e000)
libgcc_s.so.1 => /home/epinavubuntu/Desktop/brainvisa_4.5/lib/libgcc_s.so.1 (0x00007fee2eb57000)
libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007fee2e78e000)
libgraph.so.4.5.0 => /home/epinavubuntu/Desktop/brainvisa_4.5/lib/libgraph.so.4.5.0 (0x00007fee2e476000)
libcartobase.so.4.5.0 => /home/epinavubuntu/Desktop/brainvisa_4.5/lib/libcartobase.so.4.5.0 (0x00007fee2d862000)
libpthread.so.0 => /lib/x86_64-linux-gnu/libpthread.so.0 (0x00007fee2d645000)
libxml2.so.2 => /home/epinavubuntu/Desktop/brainvisa_4.5/lib/libxml2.so.2 (0x00007fee2d2e8000)
/lib64/ld-linux-x86-64.so.2 (0x0000560f7cfdf000)
libdl.so.2 => /lib/x86_64-linux-gnu/libdl.so.2 (0x00007fee2d0e4000)
libz.so.1 => /lib/x86_64-linux-gnu/libz.so.1 (0x00007fee2cec9000)
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riviere
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Location: CEA NeuroSpin, Saint Aubin, France
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Re: aims segmentation fault (core dumped)

Post by riviere »

Hi,
We have found that the Ubuntu version has more dependencies that we expected, and some of them are not packaged within the brainvisa distribution yet, so it's safer to use the Mandriva variant for now. We'll fix this for the next release.
Denis
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