Here it is... Thanks,
Ilya.
-----Original Message-----
From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On
Behalf Of Christian F. Beckmann
Sent: Thursday, November 15, 2007 9:58 AM
To: [log in to unmask]
Subject: Re: [FSL] mean group mask in melodic
Hi
the other mask should have been used - can you please send the log.txt
file to see what's going on.
christian
On 14 Nov 2007, at 10:12, Ilya Veer wrote:
> Hi Christian,
>
> Thanks for your swift reply! Indeed, all the components are inside the
> mask saved in the groupmelodic.ica folder. However, this mask seems to
> be based on the structural images from each subject because the entire
> standard brain falls within this mask. This could explain why the
> spatial pattern of several components exceeded the boundaries of
> some of
> the subjects' functional data... Another mask is saved in the parent
> directory, though, which does seem to be the mean mask based on the
> functional images (top of the brain is not included as expected). Why
> isn't this mask being used, rather than the one in groupmelodic.ica?
>
> Thanks!
>
> Ilya.
>
> -----Original Message-----
> From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On
> Behalf Of Christian F. Beckmann
> Sent: Tuesday, November 13, 2007 5:48 PM
> To: [log in to unmask]
> Subject: Re: [FSL] mean group mask in melodic
>
> Hi
>
> the mask melodic uses does get saved in the groupmelodic.ica folder -
> there certainly should not be any voxels within any of the components
> outside this mask. Wrt fsl_glm : just use the -c option and supply
> a .con file generated by the Feat or the Glm setup program. Have
> forgotten to list -c in the command line help, will be added to the
> next release
> hth
> christian
>
> On 13 Nov 2007, at 16:23, Ilya Veer wrote:
>
>> Hi,
>>
>> I have a question regarding multi-session temporal concatenation in
>> Melodic. The top of the brain is not scanned in about one third of
>> my subjects. A mean mask, including voxels that are present in all
>> subjects, is correctly generated by melodic. However, several
>> components found in the group ica do show a spatial pattern
>> exceeding this mask. Does melodic not take the mask information into
>> account? Should I therefore only look at components with spatial
>> patterns within the borders of the mean mask or maybe use fslroi
>> beforehand to exclude these voxels? Any suggestions would be greatly
>> appreciated.
>>
>> Second, I tried the fsl_glm command to redo post-stats on the
>> melodic subject modes (melodic_Smodes) using another design matrix
>> and other contrasts. However, I could not find a way to include a
>> contrast file. How does one do this using the fsl_glm command?
>>
>> Many thanks in advance!
>>
>> Ilya Veer
>> Leiden Institute for Brain and Cognition
>>
Melodic Version 3.05
/opt/fsl/bin/melodic -i .filelist -o groupmelodic.ica -v --nobet --bgthreshold=3 --tr=2.312 --report --guireport=../../report.html --bgimage=bg_image --mmthresh=0.5 -a concat --Tdes=/srv/fmri2/data1/neuro/ilya/Ilya_RS/nesda_rs_final_7nov.mat --Tcon=/srv/fmri2/data1/neuro/ilya/Ilya_RS/nesda_rs_final_7nov.con
---------------------------------------------
Melodic results will be in groupmelodic.ica
Create mask ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/Controls/110672/110672_rest/110672_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Estimating data smoothness ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/Controls/110702/110702_rest/110702_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/Controls/110801/110801_rest/110801_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310073/310073_rest/310073_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310193/310193_rest/310193_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310195/310195_rest/310195_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310269/310269_rest/310269_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310434/310434_rest/310434_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310448/310448_rest/310448_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310456/310456_rest/310456_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310472/310472_rest/310472_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/110660/110660_rest/110660_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/110774/110774_rest/110774_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/110878/110878_rest/110878_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210436/210436_rest/210436_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210456/210456_rest/210456_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210463/210463_rest/210463_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210480/210480_rest/210480_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210515/210515_rest/210515_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210519/210519_rest/210519_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210522/210522_rest/210522_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210605/210605_rest/210605_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210651/210651_rest/210651_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/MDD/110639/110639_rest/110639_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/MDD/110861/110861_rest/110861_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/MDD/120464/120464_rest/120464_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/MDD/120652/120652_rest/120652_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/310141/310141_rest/310141_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/310208/310208_rest/310208_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/310218/310218_rest/310218_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/310326/310326_rest/310326_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/310512/310512_rest/310512_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/320119/320119_rest/320119_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324037/324037_rest/324037_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324079/324079_rest/324079_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324107/324107_rest/324107_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324169/324169_rest/324169_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324233/324233_rest/324233_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324292/324292_rest/324292_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324293/324293_rest/324293_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/MDD/100101/100101_rest/100101_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/MDD/210364/210364_rest/210364_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/MDD/210410/210410_rest/210410_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/MDD/210566/210566_rest/210566_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/MDD/220285/220285_rest/220285_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/MDD/220421/220421_rest/220421_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Excluding voxels with constant value ... done
Normalising by voxel-wise variance ... done
Initial data size : 200 x 33689
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/Controls/110672/110672_rest/110672_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/Controls/110702/110702_rest/110702_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/Controls/110801/110801_rest/110801_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310073/310073_rest/310073_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310193/310193_rest/310193_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310195/310195_rest/310195_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310269/310269_rest/310269_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310434/310434_rest/310434_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310448/310448_rest/310448_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310456/310456_rest/310456_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/Controls/310472/310472_rest/310472_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/110660/110660_rest/110660_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/110774/110774_rest/110774_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/110878/110878_rest/110878_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210436/210436_rest/210436_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210456/210456_rest/210456_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210463/210463_rest/210463_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210480/210480_rest/210480_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210515/210515_rest/210515_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210519/210519_rest/210519_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210522/210522_rest/210522_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210605/210605_rest/210605_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/Controls/210651/210651_rest/210651_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/MDD/110639/110639_rest/110639_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/MDD/110861/110861_rest/110861_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/MDD/120464/120464_rest/120464_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_AMS/MDD/120652/120652_rest/120652_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/310141/310141_rest/310141_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/310208/310208_rest/310208_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/310218/310218_rest/310218_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/310326/310326_rest/310326_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/310512/310512_rest/310512_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/320119/320119_rest/320119_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324037/324037_rest/324037_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324079/324079_rest/324079_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324107/324107_rest/324107_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324169/324169_rest/324169_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324233/324233_rest/324233_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324292/324292_rest/324292_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_GRO/MDD/324293/324293_rest/324293_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/MDD/100101/100101_rest/100101_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/MDD/210364/210364_rest/210364_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/MDD/210410/210410_rest/210410_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/MDD/210566/210566_rest/210566_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/MDD/220285/220285_rest/220285_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Reading data file /srv/fmri2/data1/neuro/ilya/Ilya_RS/NESDA_RS_LEI/MDD/220421/220421_rest/220421_rest_NESDA_CONCAT_4mm_FINAL_7nov.ica/reg_standard/filtered_func_data ... done
Removing mean image ... done
Data size : 1610 x 33689
Starting PCA ... done
Start whitening using 35 dimensions ...
retaining 56.2134 percent of the variability
... done
Starting ICA estimation using concat
Step no. 1 change : 0.914415
Step no. 2 change : 0.185584
Step no. 3 change : 0.0805409
Step no. 4 change : 0.0593206
Step no. 5 change : 0.0390094
Step no. 6 change : 0.0304666
Step no. 7 change : 0.0288321
Step no. 8 change : 0.0222431
Step no. 9 change : 0.0159208
Step no. 10 change : 0.0110953
Step no. 11 change : 0.00739132
Step no. 12 change : 0.0039689
Step no. 13 change : 0.00246405
Step no. 14 change : 0.00201765
Step no. 15 change : 0.00175911
Step no. 16 change : 0.00155632
Step no. 17 change : 0.00154484
Step no. 18 change : 0.00151004
Step no. 19 change : 0.00141589
Step no. 20 change : 0.00125959
Step no. 21 change : 0.00105949
Step no. 22 change : 0.000844648
Step no. 23 change : 0.000642489
Step no. 24 change : 0.00047078
Convergence after 24 steps
Sorting IC maps
Calculating T- and S-modes
Writing results to :
groupmelodic.ica/melodic_IC
groupmelodic.ica/melodic_Tmodes
groupmelodic.ica/melodic_Smodes
groupmelodic.ica/melodic_mix
groupmelodic.ica/melodic_FTmix
groupmelodic.ica/melodic_PPCA
groupmelodic.ica/melodic_ICstats
groupmelodic.ica/mask
Running Mixture Modelling on Z-transformed IC maps ...
IC map 1 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 2 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 3 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 4 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 5 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 6 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 7 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 8 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 9 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 10 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 11 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 12 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 13 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 14 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 15 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 16 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 17 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 18 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 19 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 20 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 21 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 22 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 23 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 24 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 25 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 26 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 27 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 28 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 29 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 30 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 31 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 32 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 33 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 34 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
IC map 35 ...
calculating mixture-model fit
re-scaling spatial maps ...
thresholding ...
alternative hypothesis test at p > 0.5
creating report page ... done
Writing results to :
groupmelodic.ica/melodic_IC
groupmelodic.ica/melodic_Tmodes
groupmelodic.ica/melodic_Smodes
groupmelodic.ica/melodic_mix
groupmelodic.ica/melodic_FTmix
groupmelodic.ica/melodic_PPCA
groupmelodic.ica/melodic_ICstats
groupmelodic.ica/mask
To view the output report point your web browser at groupmelodic.ica/report/00index.html
finished!
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