[Mne_analysis] Mne python coregistration error

[Abhishek Samal]

        External Email - Use Caution        

Hello All,
I am facing a problem during the coregistration process to get the
-trans.fif file.
I have reconstructed the anatomical data using freesurfer, used water shed
algo for the bem. But when I am trying to get the -trans.fif file using
mne.gui.coregistration() I am getting the below error  :

" mne.gui.coregistration(subject='IR1', subjects_dir=subjects_dir)
    Triangle neighbors and vertex normals...
    Triangle neighbors and vertex normals...
*** Error in `python': corrupted size vs. prev_size: 0x000055c45f5e5f10 ***
======= Backtrace: =========
/lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7f6e765777e5]
/lib/x86_64-linux-gnu/libc.so.6(+0x82aec)[0x7f6e76582aec]
/lib/x86_64-linux-gnu/libc.so.6(__libc_malloc+0x54)[0x7f6e76584184]
/usr/lib/nvidia-304/libGL.so.1(+0xa91f5)[0x7f6e640b11f5]
======= Memory map: ========
40111000-4018f000 rw-p 00000000 00:00 0
403b9000-40437000 rw-p 00000000 00:00 0
40ca0000-40ca2000 r-xs 00000000 08:02 7865993
/tmp/gl0Jagqw (deleted)
55c45bd43000-55c45bd9a000 r--p 00000000 08:02 10109726
/home/asamal/anaconda3/envs/mne/bin/python3.6
55c45bd9a000-55c45bf62000 r-xp 00057000 08:02 10109726
/home/asamal/anaconda3/envs/mne/bin/python3.6
55c45bf62000-55c45c000000 r--p 0021f000 08:02 10109726
/home/asamal/anaconda3/envs/mne/bin/python3.6
55c45c000000-55c45c003000 r--p 002bc000 08:02 10109726
/home/asamal/anaconda3/envs/mne/bin/python3.6
55c45c003000-55c45c066000 rw-p 002bf000 08:02 10109726
/home/asamal/anaconda3/envs/mne/bin/python3.6
55c45c066000-55c45c097000 rw-p 00000000 00:00 0
55c45ceb9000-55c460c94000 rw-p 00000000 00:00 0
[heap]
7f6e18000000-7f6e18021000 rw-p 00000000 00:00 0
7f6e18021000-7f6e1c000000 ---p 00000000 00:00 0
7f6e1f2b8000-7f6e1f320000 rw-s 00000000 00:05 24903735
/SYSV00000000 (deleted)
7f6e1f320000-7f6e1f41f000 rw-s 00000000 00:05 24870966
/SYSV00000000 (deleted)
7f6e1f420000-7f6e1f42f000 r--p 00000000 08:02 7864475
/usr/share/fonts/truetype/mathematica/VeraBd.ttf
7f6e1f430000-7f6e1f453000 r--s 00000000 08:02 51904922
/usr/share/mime/mime.cache
7f6e1f458000-7f6e1f462000 r--s 00000000 08:02 51904924
/usr/share/icons/hicolor/icon-theme.cache
7f6e1f465000-7f6e1f466000 ---p 00000000 00:00 0
7f6e1f466000-7f6e1fc66000 rwxp 00000000 00:00 0
7f6e1fc66000-7f6e1fd66000 rw-s 1c388e000 00:06 616
/dev/nvidia0
7f6e1fd68000-7f6e1ff3d000 rw-s 00000000 00:05 24838192
/SYSV00000000 (deleted)
7f6e1ff40000-7f6e20000000 rw-p 00000000 00:00 0
7f6e20000000-7f6e20021000 rw-p 00000000 00:00 0
7f6e20021000-7f6e24000000 ---p 00000000 00:00 0
7f6e24000000-7f6e24021000 rw-p 00000000 00:00 0
7f6e24021000-7f6e28000000 ---p 00000000 00:00 0
7f6e28000000-7f6e28021000 rw-p 00000000 00:00 0
7f6e28021000-7f6e2c000000 ---p 00000000 00:00 0
7f6e2c010000-7f6e2c7d0000 rw-p 00000000 00:00 0
7f6e2c7d0000-7f6e2c889000 r--p 00000000 08:02 51774201
/usr/share/fonts/truetype/dejavu/DejaVuSans.ttf
7f6e2c890000-7f6e2c8d0000 rw-p 00000000 00:00 0
7f6e2c8d0000-7f6e2c8ec000 r--s 00000000 08:02 52050892
/usr/share/icons/gnome/icon-theme.cache
7f6e2c8f0000-7f6e2c8f9000 r--s 00000000 08:02 51905086
/usr/share/icons/Adwaita/icon-theme.cache
7f6e2c900000-7f6e2c940000 rw-p 00000000 00:00 0
7f6e2c940000-7f6e2c951000 r--p 00000000 08:02 51777238
/usr/share/fonts/truetype/ttf-bitstream-vera/Vera.ttf
7f6e2c958000-7f6e2c95f000 r--s 00000000 08:02 10224983
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/4be9850f182b35c1350b6bbf2e42601c-le64.cache-7
7f6e2c960000-7f6e2c962000 r--s 00000000 08:02 10224981
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/30a99c4256905863f7aa12b5e873c27c-le64.cache-7
7f6e2c968000-7f6e2c969000 r--s 00000000 08:02 10224980
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/087e1975ba9a574b140bb1df193bf770-le64.cache-7
7f6e2c970000-7f6e2c974000 r--s 00000000 08:02 10224979
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/6aa41aa22e18b8fa06a12da28ea9c28b-le64.cache-7
7f6e2c978000-7f6e2c97e000 r--s 00000000 08:02 10224978
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/5e10083637a12ecd1bff191eb66bfa2f-le64.cache-7
7f6e2c980000-7f6e2c981000 r--s 00000000 08:02 10224977
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/c05880de57d1f5e948fdfacc138775d9-le64.cache-7
7f6e2c988000-7f6e2c99f000 r--s 00000000 08:02 10224976
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/99323171c53ab78df6914f910138fdd6-le64.cache-7
7f6e2c9a0000-7f6e2c9ac000 r--s 00000000 08:02 10224975
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/945677eb7aeaf62f1d50efc3fb3ec7d8-le64.cache-7
7f6e2c9b0000-7f6e2c9b2000 r--s 00000000 08:02 10224974
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/99e8ed0e538f840c565b6ed5dad60d56-le64.cache-7
7f6e2c9b8000-7f6e2c9bf000 r--s 00000000 08:02 10224973
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/63c7aca0c1b0a3f740ee470c2e28e675-le64.cache-7
7f6e2c9c0000-7f6e2c9c8000 r--s 00000000 08:02 10224972
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/a6d8cf8e4ec09cdbc8633c31745a07dd-le64.cache-7
7f6e2c9c8000-7f6e2c9ce000 r--s 00000000 08:02 10224971
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/2cd17615ca594fa2959ae173292e504c-le64.cache-7
7f6e2c9d0000-7f6e2c9d9000 r--s 00000000 08:02 10224970
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/bddabcf04192498a6a74911686fc6962-le64.cache-7
7f6e2c9e0000-7f6e2c9e5000 r--s 00000000 08:02 10224969
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/a46337af8a0b4c9b317ad981ec3bdf87-le64.cache-7
7f6e2c9e8000-7f6e2c9e9000 r--s 00000000 08:02 10224968
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/0d8c3b2ac0904cb8a57a757ad11a4a08-le64.cache-7
7f6e2c9f0000-7f6e2c9f7000 r--s 00000000 08:02 10224967
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/a755afe4a08bf5b97852ceb7400b47bc-le64.cache-7
7f6e2c9f8000-7f6e2ca03000 r--s 00000000 08:02 10224966
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/6d41288fd70b0be22e8c3a91e032eec0-le64.cache-7
7f6e2ca08000-7f6e2ca0c000 r--s 00000000 08:02 10224965
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/de156ccd2eddbdc19d37a45b8b2aac9c-le64.cache-7
7f6e2ca10000-7f6e2ca26000 r--s 00000000 08:02 10224964
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/04aabc0a78ac019cf9454389977116d2-le64.cache-7
7f6e2ca28000-7f6e2ca29000 r--s 00000000 08:02 10224963
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/1ac9eb803944fde146138c791f5cc56a-le64.cache-7
7f6e2ca30000-7f6e2ca33000 r--s 00000000 08:02 10224962
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/385c0604a188198f04d133e54aba7fe7-le64.cache-7
7f6e2ca38000-7f6e2ca39000 r--s 00000000 08:02 10224961
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/9c956a7723ca69a44b382d9179c9802f-le64.cache-7
7f6e2ca40000-7f6e2ca41000 r--s 00000000 08:02 10224960
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/dc05db6664285cc2f12bf69c139ae4c3-le64.cache-7
7f6e2ca48000-7f6e2ca4a000 r--s 00000000 08:02 10224958
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/767a8244fc0220cfb567a839d0392e0b-le64.cache-7
7f6e2ca50000-7f6e2ca51000 r--s 00000000 08:02 10224957
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/4794a0821666d79190d59a36cb4f44b5-le64.cache-7
7f6e2ca58000-7f6e2ca59000 r--s 00000000 08:02 10224956
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/9eae20f1ff8cc0a7d125749e875856bd-le64.cache-7
7f6e2ca60000-7f6e2ca63000 r--s 00000000 08:02 10224955
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/bf2c1853a9e9b00bb02fe2e9bcf1e201-le64.cache-7
7f6e2ca68000-7f6e2ca6d000 r--s 00000000 08:02 10224954
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/8801497958630a81b71ace7c5f9b32a8-le64.cache-7
7f6e2ca70000-7f6e2ca87000 r--s 00000000 08:02 10224953
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/365b55f210c0a22e9a19e35191240f32-le64.cache-7
7f6e2ca88000-7f6e2ca96000 r--s 00000000 08:02 10224952
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/e302478682accd753874ffa0d37e8e3c-le64.cache-7
7f6e2ca98000-7f6e2ca9c000 r--s 00000000 08:02 10224951
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/c57959a16110560c8d0fcea73374aeeb-le64.cache-7
7f6e2caa0000-7f6e2caa1000 r--s 00000000 08:02 10224950
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/bab58bb527bb656aaa9f116d68a48d89-le64.cache-7
7f6e2caa8000-7f6e2cab6000 r--s 00000000 08:02 10224949
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/5f38aebfb03f60a9655b5ffadc824a03-le64.cache-7
7f6e2cab8000-7f6e2cabf000 r--s 00000000 08:02 10224948
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7f6e2cac0000-7f6e2cac8000 r--s 00000000 08:02 10224947
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7f6e2cac8000-7f6e2cac9000 r--s 00000000 08:02 10224946
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7f6e2cad0000-7f6e2cad1000 r--s 00000000 08:02 10224945
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7f6e2cad8000-7f6e2cade000 r--s 00000000 08:02 10224944
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7f6e2cae0000-7f6e2cae3000 r--s 00000000 08:02 10224943
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7f6e2cae8000-7f6e2cae9000 r--s 00000000 08:02 10224942
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7f6e2caf0000-7f6e2caf8000 r--s 00000000 08:02 10224941
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7f6e2caf8000-7f6e2cafc000 r--s 00000000 08:02 10224940
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7f6e2cb00000-7f6e2cb02000 r--s 00000000 08:02 10224939
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/4b14b093aebc79c320de5e86ae1d3314-le64.cache-7
7f6e2cb08000-7f6e2cb10000 r--s 00000000 08:02 10224938
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/d52a8644073d54c13679302ca1180695-le64.cache-7
7f6e2cb10000-7f6e2cb11000 r--s 00000000 08:02 10224937
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/551ecf3b0e8b0bca0f25c0944f561853-le64.cache-7
7f6e2cb18000-7f6e2cb19000 r--s 00000000 08:02 10224936
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/8a687c406b77f27d99abfeeba937fcce-le64.cache-7
7f6e2cb20000-7f6e2cb25000 r--s 00000000 08:02 10224935
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/75ad6aa2358a85f0de2c8ee4837e8227-le64.cache-7
7f6e2cb28000-7f6e2cb31000 r--s 00000000 08:02 10224934
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/3f7329c5293ffd510edef78f73874cfd-le64.cache-7
7f6e2cb38000-7f6e2cb3a000 r--s 00000000 08:02 10224933
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/65f976e5259cbe6dc7697b8648396239-le64.cache-7
7f6e2cb40000-7f6e2cb4b000 r--s 00000000 08:02 10224932
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7f6e2cb60000-7f6e2cb62000 r--s 00000000 08:02 10224929
/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/423767150eb258c59035de29db6fca84-le64.cache-7
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/home/asamal/anaconda3/envs/mne/var/cache/fontconfig/9b89f8e3dae116d678bbf48e5f21f69b-le64.cache-7
7f6e2cbb0000-7f6e2cbb9000 r--s 00000000 08:02 10224919
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7f6e2cbf8000-7f6e2cc23000 r--s 00000000 08:02 10224821
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7f6e2cc28000-7f6e2ccc0000 r--s 00000000 08:02 10224820
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7f6e2ccc0000-7f6e2cd33000 r--s 00000000 08:02 10224819
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7f6e2cd38000-7f6e2cfb8000 rw-p 00000000 00:00 0
7f6e2cfb8000-7f6e2d015000 r-xp 00000000 08:02 8276590
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7f6e2d017000-7f6e2d018000 rw-p 0005e000 08:02 8276590
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7f6e2d018000-7f6e2d01a000 rw-p 00000000 00:00 0
7f6e2d020000-7f6e2d07a000 r-xp 00000000 08:02 8276589
/home/asamal/anaconda3/envs/mne/plugins/imageformats/libqtiff.so
7f6e2d07a000-7f6e2d07b000 ---p 0005a000 08:02 8276589
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7f6e2d07b000-7f6e2d07e000 r--p 0005a000 08:02 8276589
/home/asamal/anaconda3/envs/mne/plugins/imageformats/libqtiff.so
7f6e2d07e000-7f6e2d07f000 rw-p 0005d000 08:02 8276589
/home/asamal/anaconda3/envs/mne/plugins/imageformats/libqtiff.so
7f6e2d080000-7f6e2d083000 r--p 00000000 08:02 9968621
/home/asamal/anaconda3/envs/mne/lib/python3.6/site-packages/sklearn/utils/_
random.cpython-36m-x86_64-linux-gnu.so
7f6e2d083000-7f6e2d092000 r-xp 00003000 08:02 9968621
/home/asamal/anaconda3/envs/mne/lib/python3.6/site-packages/sklearn/utils/_
random.cpython-36m-x86_64-linux-gnu.so
7f6e2d092000-7f6e2d095000 r--p 00012000 08:02 9968621
/home/asamal/anaconda3/envs/mne/lib/python3.6/site-packages/sklearn/utils/_
random.cpython-36m-x86_64-linux-gnu.so
7f6e2d095000-7f6e2d096000 ---p 00015000 08:02 9968621
/home/asamal/anaconda3/envs/mne/lib/python3.6/site-packages/sklearn/utils/_
random.cpython-36m-x86_64-linux-gnu.so
7f6e2d096000-7f6e2d097000 r--p 00015000 08:02 9968621
/home/asamal/anaconda3/envs/mne/lib/python3.6/site-packages/sklearn/utils/_
random.cpython-36m-x86_64-linux-gnu.so
7f6e2d097000-7f6e2d099000 rw-p 00016000 08:02 9968621
/home/asamal/anaconda3/envs/mne/lib/python3.6/site-packages/sklearn/utils/_
random.cpython-36m-x86_64-linux-gnu.so
7f6e2d099000-7f6e2d09a000 rw-p 00000000 00:00 0
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7f6e2d0e0000-7f6e2d0e7000 r--p 00000000 08:02 9968634
/home/asamal/anaconda3/envs/mne/lib/python3.6/site-packages/sklearn/metrics/
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logistic_sigmoid.cpython-36m-x86_64-linux-gnu.so
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logistic_sigmoid.cpython-36m-x86_64-linux-gnu.so
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logistic_sigmoid.cpython-36m-x86_64-linux-gnu.so
7f6e2d6db000-7f6e2d6dc000 r--p 0000a000 08:02 9968612
/home/asamal/anaconda3/envs/mne/lib/python3.6/site-packages/sklearn/utils/_logistic_sigmoid.cpython-36m-x86_64-linux-gnu.soAborted
(core dumped) "


Also when I am trying :
'mne.gui.coregistration(subject='IR1',
subjects_dir=subjects_dir,head_high_res=False) '
I am getting error :
'Triangle neighbors and vertex normals...
    Triangle neighbors and vertex normals...
Segmentation fault (core dumped) '


Please help with the above issue.
Regards,
Abhishek.
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