[Mne_analysis] mne_make_movie and centOS 6
Burke Rosen
bqrosen at ucsd.edu
Thu Jul 31 17:47:12 EDT 2014
update:
Using the --tif instead of the --png option works. --jpg also does not
work. I am not sure why this is the case, but using the .tif files is a
usable work-around.
-Burke
On 07/28/14 12:04, Burke Rosen wrote:
> Hello, I am trying to save images with the following command:
>
> mne_make_movie \
> --pick 383 \
> --integ 100 \
> --subject fsaverage \
> --fthresh 0.08 \
> --fmid 0.11 \
> --fmax 0.17 \
> --stcin
> /home/bqrosen/projects/simon/MEG/group/TF/SC/groupavg_maps_n15/stcfiles/SC_groupavg_group_a_cond_21_mean-ico7
> \
> --png
> /home/bqrosen/projects/simon/MEG/group/TF/SC/groupavg_maps_n15/pngfiles_nolabel/test_ip82_SC_cong_a_0.08_0.11_0.17_mean_275_375
> \
> --view med \
> --rh \
> --qual 100 \
> --nocomments \
> --noscalebar \
> --snr 5 \
> --spm \
> --smooth 10
>
> When I run on my code on a centOS 5 machine it executes as expected
> and produces the intended .png file. However, when I run the same code
> on a centOS 6 machine, the output terminates with "system : No such
> file or directory". Interestingly, an output file /is/ created with
> the correct name in the correct directory, but this file is empty.
>
> It appear a similar issue was reported once before, though it was not
> resolved (and the OS comparison not made):
> https://mail.nmr.mgh.harvard.edu/pipermail//mne_analysis/2012-December/001314.html
>
> Below is the centOS 5 and centOS 6 output.
>
> Thank you for your insight.
>
> -Burke
>
> *centOS5:*
> mne_make_movie version 1.34 compiled at Dec 21 2009 19:48:23
> Create movies and tif, rgb, jpeg, png, or w files using a precomputed
> inverse operator decomposition
>
> stc input file :
> /home/bqrosen/projects/simon/MEG/group/TF/SC/groupavg_maps_n15/stcfiles/SC_groupavg_group_a_cond_21_mean-ico7
> PNG output :
> /home/bqrosen/projects/simon/MEG/group/TF/SC/groupavg_maps_n15/pngfiles_nolabel/test_ip82_SC_cong_a_0.08_0.11_0.17_mean_275_375
> The input stc file will be assumed to contain
> dSPM data
> Subject : fsaverage
> Visualization surface : inflated
> Process right hemisphere only
> Magnification factor : 1.00
> Time integration : 100.0 ms
> Thresholding:
> fthresh : 0.08
> fmid : 0.11
> fslope : 16.67
> fmax : 0.17
>
> -------------------------------------------------------------------
>
> 600 x 400 off-screen rendering initialized.
> Selected view called 'med'
>
> -------------------------------------------------------------------
>
> read stc file
> /home/bqrosen/projects/simon/MEG/group/TF/SC/groupavg_maps_n15/stcfiles/SC_groupavg_group_a_cond_21_mean-ico7-lh.stc
> read stc file
> /home/bqrosen/projects/simon/MEG/group/TF/SC/groupavg_maps_n15/stcfiles/SC_groupavg_group_a_cond_21_mean-ico7-rh.stc
>
> -------------------------------------------------------------------
>
> Loading inflated surfaces for subject fsaverage...
>
> Triangle file : created by nicks on Wed Aug 15 21:20:39 2007 nvert =
> 163842 ntri = 327680
> Triangle and vertex normals and neighboring triangles...[done]
> Vertex neighbors...[done]
> Distances between neighboring vertices...[983040 distances done]
> Triangle file : created by nicks on Wed Aug 15 21:20:57 2007 nvert =
> 163842 ntri = 327680
> Triangle and vertex normals and neighboring triangles...[done]
> Vertex neighbors...[done]
> Distances between neighboring vertices...[983040 distances done]
>
> -------------------------------------------------------------------
>
> Parameters set.
>
> -------------------------------------------------------------------
>
> No movie production requested.
>
> -------------------------------------------------------------------
>
> Some timeframes selected. Outputting png files (from stc files)
>
> dSPM at t = 383.0 ms...lh : -0.0202 .. 0.1664 ave = 0.03849 rh :
> -0.02223 .. 0.1747 ave = 0.04297
> produced png file
> /home/bqrosen/projects/simon/MEG/group/TF/SC/groupavg_maps_n15/pngfiles_nolabel/test_ip82_SC_cong_a_0.08_0.11_0.17_mean_275_375-00383.0-med-rh.png
>
> -------------------------------------------------------------------
>
> No labels to process
>
> -------------------------------------------------------------------
>
>
> I think I responded favorably to all your requests. Good bye.
>
> *centOS6:
> *mne_make_movie version 1.34 compiled at Dec 21 2009 19:48:23
> Create movies and tif, rgb, jpeg, png, or w files using a precomputed
> inverse operator decomposition
>
> stc input file :
> /home/bqrosen/projects/simon/MEG/group/TF/SC/groupavg_maps_n15/stcfiles/SC_groupavg_group_a_cond_21_mean-ico7
> PNG output :
> /home/bqrosen/projects/simon/MEG/group/TF/SC/groupavg_maps_n15/pngfiles_nolabel/test_ip50_SC_cong_a_0.08_0.11_0.17_mean_275_375
> The input stc file will be assumed to contain
> dSPM data
> Subject : fsaverage
> Visualization surface : inflated
> Process right hemisphere only
> Magnification factor : 1.00
> Time integration : 100.0 ms
> Thresholding:
> fthresh : 0.08
> fmid : 0.11
> fslope : 16.67
> fmax : 0.17
>
> -------------------------------------------------------------------
>
> 600 x 400 off-screen rendering initialized.
> Selected view called 'med'
>
> -------------------------------------------------------------------
>
> read stc file
> /home/bqrosen/projects/simon/MEG/group/TF/SC/groupavg_maps_n15/stcfiles/SC_groupavg_group_a_cond_21_mean-ico7-lh.stc
> read stc file
> /home/bqrosen/projects/simon/MEG/group/TF/SC/groupavg_maps_n15/stcfiles/SC_groupavg_group_a_cond_21_mean-ico7-rh.stc
>
> -------------------------------------------------------------------
>
> Loading inflated surfaces for subject fsaverage...
>
> Triangle file : created by nicks on Wed Aug 15 21:20:39 2007 nvert =
> 163842 ntri = 327680
> Triangle and vertex normals and neighboring triangles...[done]
> Vertex neighbors...[done]
> Distances between neighboring vertices...[983040 distances done]
> Triangle file : created by nicks on Wed Aug 15 21:20:57 2007 nvert =
> 163842 ntri = 327680
> Triangle and vertex normals and neighboring triangles...[done]
> Vertex neighbors...[done]
> Distances between neighboring vertices...[983040 distances done]
>
> -------------------------------------------------------------------
>
> Parameters set.
>
> -------------------------------------------------------------------
>
> No movie production requested.
>
> -------------------------------------------------------------------
>
> Some timeframes selected. Outputting png files (from stc files)
>
> dSPM at t = 383.0 ms...lh : -0.0202 .. 0.1664 ave = 0.03849 rh :
> -0.02223 .. 0.1747 ave = 0.04297
> system : No such file or directory
>
>
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