[Mne_analysis] mne_edf2fiff error
Teon Brooks
teon.brooks at gmail.com
Tue Feb 28 18:11:44 EST 2017
Hi Dan,
The only thing I could see as potentially problematic would be the leading
zeros for the cardinal points (and making the hpi as well) in the hpts
file. I know that in the Python implementation of MNE, the hpts format is
compatible. This implementation is the most up-to-date. I know that the
original command line tools should be compatible for hpts but it is not
being actively developed anymore. Have you tried using the Python
implementation?
HTH,
teon <http://teonbrooks.github.io>
--
twitter: @teon_io <http://www.twitter.com/teon_io>
On Tue, Feb 28, 2017 at 2:02 PM, Song, Daniel <DSONG2 at mgh.harvard.edu>
wrote:
> Dear MNE users,
>
> I am running into a problem when trying to convert and edf file into a fif
> file with EEG electrode coordinates. I'm using the command mne_edf2fiff as
> below:
>
> mne_edf2fiff --edf MGH118_CTvsFspikes.edf --hpts MGH118.hpts --fifout
> MGH118_CTvsFspikes.fif
>
> This is the output I get:
>
> mne_edf2fiff version 1.9 compiled at Apr 26 2016 04:25:02
>
> EDF/EDF+/BDF file (input) : MGH118_CTvsFspikes.edf
> hpts file (input) : MGH118.hpts
> fif file (output) : MGH118_CTvsFspikes.fif
>
> Parsing EDF/EDF+/BDF header...[done]
>
> Reading the digitization data from MGH118.hpts (coordinates in
> millimeters)...
> Unknown digitizer point type :
>
> I'm not sure what it means by unknown digitizer point type. I've checked
> the format of my hpts file and believe it follows the correct format.
> Contents of my hpts file are below. Anyone have any ideas as to what I'm
> missing?
>
> Thanks!
>
> #
> # This file contains digitization data in the hpts format.
>
> # Cardinal landmark identifiers:
> #
> # Left auricular = 001
> # Nasion = 002
> # Right auricular = 003
> #
> cardinal 0001 -59.95 0 0
> cardinal 0002 0 91.6 0
> cardinal 0003 83.74 0 0
> hpi 0001 -0.46 101.9 21.3
> hpi 0002 2.82 98.76 15.96
> hpi 0003 0.94 95.24 13.23
> hpi 0004 5.87 94.18 23.95
> eeg 0000 2.65 95.39 36.05
> eeg AF7 -37.97 73.14 33.62
> eeg F7 -50.35 54.66 40.98
> eeg T1 -58.07 26.11 23.78
> eeg AFF5H -37.96 71.27 52.79
> eeg F5 -50.35 57.85 46.63
> eeg FFT7H -56.62 40.88 44.92
> eeg FT7 -64.94 21.17 35.39
> eeg FTT9H -61.42 15.27 31.15
> eeg F3 -32.48 66.12 65.86
> eeg FFC5H -46.99 54.59 58.63
> eeg FC5 -59.21 34.36 54.51
> eeg FTT7H -62.64 18.41 48.83
> eeg T3 -65.73 -0.25 32.56
> eeg M1 -58.66 -41.14 -6.6
> eeg FFC3H -29.88 56.92 77.83
> eeg FC3 -43.76 43.64 72.05
> eeg FCC5H -53.68 28.7 70.71
> eeg C5 -64.25 2.9 64.59
> eeg TTP7H -64.83 -10.83 56.67
> eeg TP7 -66.08 -34.52 44.47
> eeg TPP9H -56.39 -49.5 30.54
> eeg P9 -48.47 -61.04 24.36
> eeg FCC3H -43.99 31.75 74.99
> eeg C3 -51.16 19.61 74.22
> eeg CCP5H -66.49 -9.06 62.36
> eeg CP5 -64.71 -24.54 59.74
> eeg TPP7H -62.63 -41.31 51.49
> eeg T5 -55.15 -48.5 41.28
> eeg PPO9H -48.78 -61.25 34.82
> eeg PO9 -38.43 -73.6 34.07
> eeg CCP3H -38.18 -7.19 101.44
> eeg CP3 -46.21 -23.31 93.37
> eeg CPP5H -55.48 -38.38 74.97
> eeg P5 -52.39 -51.54 63.24
> eeg CPP3H -32.22 -27.76 100.45
> eeg P3 -38.02 -47.18 87.8
> eeg PPO5H -40.49 -58.59 75.37
> eeg PO5 -39.5 -70.89 62.22
> eeg PO7 -39.65 -71.63 51.18
> eeg FP2 34.29 92.34 22
> eeg FPZ 6.13 98.7 14.67
> eeg FP1 -22.08 91.15 14.69
> eeg AFP4H 25.64 93.76 33.25
> eeg AFP3H -5.79 95.95 24.42
> eeg AF4 41.28 84.42 47.11
> eeg AFZ 11.63 93.36 47.68
> eeg AF3 -23.21 86.04 46.55
> eeg AFF2 32.25 85.59 64.85
> eeg AFF1 -0.59 85.29 65.42
> eeg F2 43.21 70.55 80.43
> eeg FZ 18.24 71.87 90.29
> eeg F1 -10.75 59.33 94.14
> eeg FFC2H 21.55 67.83 88.7
> eeg FFC1H 12.05 67.33 96.39
> eeg FC2 41.62 42.56 102.48
> eeg FCZ 20.95 58.32 98.8
> eeg FC1 0.42 51.7 104.35
> eeg FCC2H 42.62 36.53 114.62
> eeg FCC1H 17.72 42.91 115.61
> eeg C2 54.52 20.76 110.55
> eeg CZ 25.96 25.92 116.86
> eeg C1 -3.5 26.33 114.14
> eeg CCP2H 42.46 9.07 119.59
> eeg CCP1H 16.85 10.55 125.16
> eeg CP2 49.22 -11.4 116.48
> eeg CPZ 26.47 -3.48 121.61
> eeg CP1 -0.77 -5.16 121.76
> eeg CPP2H 37.18 -24.47 117.69
> eeg CPP1H 12.18 -20.87 120.96
> eeg P2 43.12 -36.34 108.23
> eeg PZ 21.99 -28.15 114
> eeg P1 -1.44 -30.06 115.4
> eeg PPO2 32.74 -52.95 107.03
> eeg PPO1 4.83 -46.84 107.71
> eeg PO4 46.16 -57.99 89.04
> eeg POZ 12.61 -58.72 92.68
> eeg PO3 -20.31 -49.97 89.52
> eeg POO4H 26.74 -73.74 76.6
> eeg POO3H -4.63 -65.32 80.67
> eeg O2 30.09 -75.58 64.35
> eeg OZ 11.37 -78.78 70.8
> eeg O1 -13.96 -72.55 68.66
> eeg POO10H 20.84 -84.17 49.96
> eeg OI2H -4.82 -80.9 53.31
> eeg OI1H -17.22 -75.93 53.87
> eeg POO9H -21.33 -75.19 52.69
> eeg EKG/I2 32.11 -78.36 31.28
> eeg IZ/CII 4.22 -78.45 39.36
> eeg I1 -25.2 -75.61 38.32
> eeg AF8 43.95 53.92 87.89
> eeg F8 52.49 63.39 73.55
> eeg T2 59.31 69.68 62.18
> eeg AFF6H 40.94 20.87 104.59
> eeg F6 50.68 32.43 94.38
> eeg FFT8H 62.29 41.84 76.37
> eeg FT8 51.14 47.97 70.51
> eeg FTT10H 53.47 72.25 40.1
> eeg F4 32.48 -9.98 107.59
> eeg FFC6H 50.65 3.46 101.84
> eeg FC6 66.27 13.06 92.57
> eeg FTT8H 76.24 22.78 77.56
> eeg T4 77.11 35.35 63.04
> eeg M2 79.96 47.36 46.1
> eeg FFC4H 31.83 -35.07 105.78
> eeg FC4 42.7 -22.78 103.62
> eeg FCC6H 59.31 -9.84 91.93
> eeg C6 70.4 -1.11 81.92
> eeg TTP8H 80.55 9.7 64.02
> eeg TP8 83.08 16.12 53.75
> eeg TPP10H 70.62 23.3 32.23
> eeg P10 77.1 -40.89 8.48
> eeg FCC4H 47 -53.69 97.52
> eeg C4 60.96 -43.34 93.15
> eeg CCP6H 75.4 -30.64 83.67
> eeg CP6 82.22 -20.77 71.26
> eeg TPP8H 88.17 -0.93 44.3
> eeg T6 86.04 13.86 37.3
> eeg PPO10H 84.55 23.35 22.8
> eeg PO10 76.12 29.61 -12.63
> eeg CCP4H 50.18 -58.79 84.25
> eeg CP4 59.18 -52.25 80.79
> eeg CPP6H 71.43 -41.73 64.74
> eeg P6 79.15 -32.69 51.56
> eeg CPP4H 48.35 -72.68 72.11
> eeg P4 70.41 -58.23 58.92
> eeg PPO6H 76.69 -51.94 40.74
> eeg PO6 73.98 -32.38 10.64
> eeg PO8 75.13 -20.76 -0.01
>
>
>
> Dan Song
> Clinical Research Coordinator
> Massachusetts General Hospital Neurology Department
>
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