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FSL  November 2018

FSL November 2018

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Subject:

feat registration

From:

Jimbo Connors <[log in to unmask]>

Reply-To:

FSL - FMRIB's Software Library <[log in to unmask]>

Date:

Wed, 7 Nov 2018 09:42:21 +0000

Content-Type:

text/plain

Parts/Attachments:

Parts/Attachments

text/plain (741 lines)

Hi,

The Feat registration works odd to me, it works well only for Registration of highres to standard  but Registration of example_func to standard and the other ones are wrong, the brain image is moved upwards and misses the red contour.
Any idea why?
Bellow is the log of the Feat 

Thanks!



Progress Report / Log
Started at Tue Nov 6 13:52:58 CET 2018

Feat main script


/bin/cp /tmp/feat_KRmtZD.fsf design.fsf

/usr/local/fsl/bin/feat_model design

mkdir .files;cp /usr/local/fsl/doc/fsl.css .files;cp -r /usr/local/fsl/doc/images .files/images

/usr/local/fsl/bin/fsl_sub -T 10 -l logs -N feat0_init   /usr/local/fsl/bin/feat /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat/design.fsf -D /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat -I 1 -init
14874

/usr/local/fsl/bin/fsl_sub -T 134 -l logs -N feat2_pre -j 14874  /usr/local/fsl/bin/feat /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat/design.fsf -D /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat -I 1 -prestats
14954

/usr/local/fsl/bin/fsl_sub -T 1 -l logs -N feat5_stop -j 14954  /usr/local/fsl/bin/feat /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat/design.fsf -D /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat -stop

Initialisation


/usr/local/fsl/bin/fslmaths /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/__fMRI_RESTING_S_20180508110525_9 prefiltered_func_data -odt float
Total original volumes = 200

/usr/local/fsl/bin/fslroi prefiltered_func_data example_func 100 1

Preprocessing:Stage 1


/usr/local/fsl/bin/mainfeatreg -F 6.00 -d /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat -l /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat/logs/feat2_pre -R /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat/report_unwarp.html -r /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat/report_reg.html  -i /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat/example_func.nii.gz  -h /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/__SAG_3D_IR_20180508110525_3 -w  BBR -x 90 -s /usr/local/fsl/data/standard/MNI152_T1_2mm_brain -y 12 -z 90 
Option -F ( FEAT version parameter ) selected with  argument "6.00"
Option -d ( output directory ) selected with  argument "/Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat"
Option -l ( logfile )input with argument "/Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat/logs/feat2_pre"
Option -R ( html unwarping report ) selected with  argument "/Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat/report_unwarp.html"
Option -r ( html registration report ) selected with  argument "/Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat/report_reg.html"
Option -i ( main input ) input with argument "/Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat/example_func.nii.gz"
Option -h ( high-res structural image ) selected with  argument "/Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/__SAG_3D_IR_20180508110525_3"
Option -w ( highres dof ) selected with  argument "BBR"
Option -x ( highres search ) selected with  argument "90"
Option -s ( standard image ) selected with  argument "/usr/local/fsl/data/standard/MNI152_T1_2mm_brain"
Option -y ( standard dof ) selected with  argument "12"
Option -z ( standard search ) selected with  argument "90"

Registration


/bin/mkdir -p /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/+.feat/reg


/usr/local/fsl/bin/fslmaths /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/__SAG_3D_IR_20180508110525_3 highres


/usr/local/fsl/bin/fslmaths /Users/jaime/vallecas/data/parpadeo/images_1/Subject_0441_y7/__SAG_3D_IR_20180508110525_3  highres_head


/usr/local/fsl/bin/fslmaths /usr/local/fsl/data/standard/MNI152_T1_2mm_brain standard

did not find file: example_func2highres.mat. Generating transform.

/usr/local/fsl/bin/epi_reg --epi=example_func --t1=highres_head --t1brain=highres --out=example_func2highres
Running FAST segmentation FLIRT pre-alignment Running BBR 0.996395 0.992338 -0.059170 -0.108460 0.000000 0.071776 0.990620 0.116274 0.000000 0.100563 -0.123168 0.987277 0.000000 -106.877694 40.631984 457.536828 1.000000

/usr/local/fsl/bin/convert_xfm -inverse -omat highres2example_func.mat example_func2highres.mat


/usr/local/fsl/bin/slicer example_func2highres highres -s 2 -x 0.35 sla.png -x 0.45 slb.png -x 0.55 slc.png -x 0.65 sld.png -y 0.35 sle.png -y 0.45 slf.png -y 0.55 slg.png -y 0.65 slh.png -z 0.35 sli.png -z 0.45 slj.png -z 0.55 slk.png -z 0.65 sll.png ; /usr/local/fsl/bin/pngappend sla.png + slb.png + slc.png + sld.png + sle.png + slf.png + slg.png + slh.png + sli.png + slj.png + slk.png + sll.png example_func2highres1.png ; /usr/local/fsl/bin/slicer highres example_func2highres -s 2 -x 0.35 sla.png -x 0.45 slb.png -x 0.55 slc.png -x 0.65 sld.png -y 0.35 sle.png -y 0.45 slf.png -y 0.55 slg.png -y 0.65 slh.png -z 0.35 sli.png -z 0.45 slj.png -z 0.55 slk.png -z 0.65 sll.png ; /usr/local/fsl/bin/pngappend sla.png + slb.png + slc.png + sld.png + sle.png + slf.png + slg.png + slh.png + sli.png + slj.png + slk.png + sll.png example_func2highres2.png ; /usr/local/fsl/bin/pngappend example_func2highres1.png - example_func2highres2.png example_func2highres.png; /bin/rm -f sl?.png example_func2highres2.png


/bin/rm example_func2highres1.png

did not find file: highres2standard.mat. Generating transform.

/usr/local/fsl/bin/flirt -in highres -ref standard -out highres2standard -omat highres2standard.mat -cost corratio -dof 12 -searchrx -90 90 -searchry -90 90 -searchrz -90 90 -interp trilinear 


/usr/local/fsl/bin/convert_xfm -inverse -omat standard2highres.mat highres2standard.mat


/usr/local/fsl/bin/slicer highres2standard standard -s 2 -x 0.35 sla.png -x 0.45 slb.png -x 0.55 slc.png -x 0.65 sld.png -y 0.35 sle.png -y 0.45 slf.png -y 0.55 slg.png -y 0.65 slh.png -z 0.35 sli.png -z 0.45 slj.png -z 0.55 slk.png -z 0.65 sll.png ; /usr/local/fsl/bin/pngappend sla.png + slb.png + slc.png + sld.png + sle.png + slf.png + slg.png + slh.png + sli.png + slj.png + slk.png + sll.png highres2standard1.png ; /usr/local/fsl/bin/slicer standard highres2standard -s 2 -x 0.35 sla.png -x 0.45 slb.png -x 0.55 slc.png -x 0.65 sld.png -y 0.35 sle.png -y 0.45 slf.png -y 0.55 slg.png -y 0.65 slh.png -z 0.35 sli.png -z 0.45 slj.png -z 0.55 slk.png -z 0.65 sll.png ; /usr/local/fsl/bin/pngappend sla.png + slb.png + slc.png + sld.png + sle.png + slf.png + slg.png + slh.png + sli.png + slj.png + slk.png + sll.png highres2standard2.png ; /usr/local/fsl/bin/pngappend highres2standard1.png - highres2standard2.png highres2standard.png; /bin/rm -f sl?.png highres2standard2.png


/bin/rm highres2standard1.png


/usr/local/fsl/bin/convert_xfm -omat example_func2standard.mat -concat highres2standard.mat example_func2highres.mat


/usr/local/fsl/bin/flirt -ref standard -in example_func -out example_func2standard -applyxfm -init example_func2standard.mat -interp trilinear

Found file: example_func2standard.mat.

/usr/local/fsl/bin/convert_xfm -inverse -omat standard2example_func.mat example_func2standard.mat


/usr/local/fsl/bin/slicer example_func2standard standard -s 2 -x 0.35 sla.png -x 0.45 slb.png -x 0.55 slc.png -x 0.65 sld.png -y 0.35 sle.png -y 0.45 slf.png -y 0.55 slg.png -y 0.65 slh.png -z 0.35 sli.png -z 0.45 slj.png -z 0.55 slk.png -z 0.65 sll.png ; /usr/local/fsl/bin/pngappend sla.png + slb.png + slc.png + sld.png + sle.png + slf.png + slg.png + slh.png + sli.png + slj.png + slk.png + sll.png example_func2standard1.png ; /usr/local/fsl/bin/slicer standard example_func2standard -s 2 -x 0.35 sla.png -x 0.45 slb.png -x 0.55 slc.png -x 0.65 sld.png -y 0.35 sle.png -y 0.45 slf.png -y 0.55 slg.png -y 0.65 slh.png -z 0.35 sli.png -z 0.45 slj.png -z 0.55 slk.png -z 0.65 sll.png ; /usr/local/fsl/bin/pngappend sla.png + slb.png + slc.png + sld.png + sle.png + slf.png + slg.png + slh.png + sli.png + slj.png + slk.png + sll.png example_func2standard2.png ; /usr/local/fsl/bin/pngappend example_func2standard1.png - example_func2standard2.png example_func2standard.png; /bin/rm -f sl?.png example_func2standard2.png

Preprocessing:Stage 2


/usr/local/fsl/bin/mcflirt -in prefiltered_func_data -out prefiltered_func_data_mcf -mats -plots -reffile example_func -rmsrel -rmsabs -spline_final

/bin/mkdir -p mc ; /bin/mv -f prefiltered_func_data_mcf.mat prefiltered_func_data_mcf.par prefiltered_func_data_mcf_abs.rms prefiltered_func_data_mcf_abs_mean.rms prefiltered_func_data_mcf_rel.rms prefiltered_func_data_mcf_rel_mean.rms mc

/usr/local/fsl/bin/fsl_tsplot -i prefiltered_func_data_mcf.par -t 'MCFLIRT estimated rotations (radians)' -u 1 --start=1 --finish=3 -a x,y,z -w 640 -h 144 -o rot.png 

/usr/local/fsl/bin/fsl_tsplot -i prefiltered_func_data_mcf.par -t 'MCFLIRT estimated translations (mm)' -u 1 --start=4 --finish=6 -a x,y,z -w 640 -h 144 -o trans.png 

/usr/local/fsl/bin/fsl_tsplot -i prefiltered_func_data_mcf_abs.rms,prefiltered_func_data_mcf_rel.rms -t 'MCFLIRT estimated mean displacement (mm)' -u 1 -w 640 -h 144 -a absolute,relative -o disp.png 

/usr/local/fsl/bin/fslmaths prefiltered_func_data_mcf -Tmean mean_func

/usr/local/fsl/bin/bet2 mean_func mask -f 0.3 -n -m; /usr/local/fsl/bin/immv mask_mask mask

/usr/local/fsl/bin/fslmaths prefiltered_func_data_mcf -mas mask prefiltered_func_data_bet

/usr/local/fsl/bin/fslstats prefiltered_func_data_bet -p 2 -p 98
0.000000 4609.341309 

/usr/local/fsl/bin/fslmaths prefiltered_func_data_bet -thr 460.9341309 -Tmin -bin mask -odt char

/usr/local/fsl/bin/fslstats prefiltered_func_data_mcf -k mask -p 50
3592.911377 

/usr/local/fsl/bin/fslmaths mask -dilF mask

/usr/local/fsl/bin/fslmaths prefiltered_func_data_mcf -mas mask prefiltered_func_data_thresh

/usr/local/fsl/bin/fslmaths prefiltered_func_data_thresh -Tmean mean_func

/usr/local/fsl/bin/susan prefiltered_func_data_thresh 2694.68353275 2.12314225053 3 1 1 mean_func 2694.68353275 prefiltered_func_data_smooth

/usr/local/fsl/bin/fslmaths prefiltered_func_data_smooth -mas mask prefiltered_func_data_smooth

/usr/local/fsl/bin/fslmaths prefiltered_func_data_smooth -mul 2.78325818555 prefiltered_func_data_intnorm

/usr/local/fsl/bin/fslmaths prefiltered_func_data_intnorm -Tmean tempMean

/usr/local/fsl/bin/fslmaths prefiltered_func_data_intnorm -bptf 20.0 -1 -add tempMean prefiltered_func_data_tempfilt

/usr/local/fsl/bin/imrm tempMean

/usr/local/fsl/bin/fslmaths prefiltered_func_data_tempfilt filtered_func_data

/usr/local/fsl/bin/melodic -i filtered_func_data -o filtered_func_data.ica -v --nobet --bgthreshold=1 --tr=2.500000 -d 0 --mmthresh=0.5 --report --guireport=../../report.html 

Melodic Version 3.14

Melodic results will be in filtered_func_data.ica

Create mask ... done
Reading data file filtered_func_data  ...  done
  Estimating data smoothness ...  done 
  Removing mean image ... done
  Normalising by voxel-wise variance ... done
Excluding voxels with constant value ... done

  Data size : 200 x 133742

Starting PCA  ... done
Start whitening using  61 dimensions ... 
  retaining 91.0531 percent of the variability 
 ... done

Starting ICA estimation using symm

  Step no. 1 change : 0.943505
  Step no. 2 change : 0.224871
  Step no. 3 change : 0.0747827
  Step no. 4 change : 0.0481219
  Step no. 5 change : 0.0365843
  Step no. 6 change : 0.0320263
  Step no. 7 change : 0.0226615
  Step no. 8 change : 0.0175984
  Step no. 9 change : 0.0141098
  Step no. 10 change : 0.0149054
  Step no. 11 change : 0.0129849
  Step no. 12 change : 0.0111707
  Step no. 13 change : 0.0113642
  Step no. 14 change : 0.0095607
  Step no. 15 change : 0.00715731
  Step no. 16 change : 0.00562082
  Step no. 17 change : 0.00462123
  Step no. 18 change : 0.00426238
  Step no. 19 change : 0.00467218
  Step no. 20 change : 0.00519164
  Step no. 21 change : 0.00556686
  Step no. 22 change : 0.00552086
  Step no. 23 change : 0.0049731
  Step no. 24 change : 0.00411733
  Step no. 25 change : 0.00324799
  Step no. 26 change : 0.00255056
  Step no. 27 change : 0.00206154
  Step no. 28 change : 0.00173887
  Step no. 29 change : 0.0015258
  Step no. 30 change : 0.00137735
  Step no. 31 change : 0.0012648
  Step no. 32 change : 0.00117307
  Step no. 33 change : 0.0010966
  Step no. 34 change : 0.00103525
  Step no. 35 change : 0.000990343
  Step no. 36 change : 0.000961355
  Step no. 37 change : 0.000943914
  Step no. 38 change : 0.000929494
  Step no. 39 change : 0.000906975
  Step no. 40 change : 0.00104328
  Step no. 41 change : 0.00123962
  Step no. 42 change : 0.00147418
  Step no. 43 change : 0.00173238
  Step no. 44 change : 0.00197604
  Step no. 45 change : 0.00214433
  Step no. 46 change : 0.00217415
  Step no. 47 change : 0.00203454
  Step no. 48 change : 0.00175013
  Step no. 49 change : 0.00142232
  Step no. 50 change : 0.00114155
  Step no. 51 change : 0.000886275
  Step no. 52 change : 0.000678868
  Step no. 53 change : 0.000521285
  Step no. 54 change : 0.000405677
  Step no. 55 change : 0.000321917
  Step no. 56 change : 0.000296354
  Step no. 57 change : 0.000283079
  Step no. 58 change : 0.000270816
  Step no. 59 change : 0.000259082
  Step no. 60 change : 0.000247582
  Step no. 61 change : 0.000237269
  Step no. 62 change : 0.000251966
  Step no. 63 change : 0.000265309
  Step no. 64 change : 0.000276597
  Step no. 65 change : 0.000285094
  Step no. 66 change : 0.000290102
  Step no. 67 change : 0.000291037
  Step no. 68 change : 0.000287517
  Step no. 69 change : 0.000279431
  Step no. 70 change : 0.000266974
  Step no. 71 change : 0.000250654
  Step no. 72 change : 0.000231249
  Step no. 73 change : 0.000236736
  Step no. 74 change : 0.000243403
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  Step no. 78 change : 0.000368683
  Step no. 79 change : 0.000412995
  Step no. 80 change : 0.000457904
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  Step no. 83 change : 0.000549954
  Step no. 84 change : 0.000550077
  Step no. 85 change : 0.000530789
  Step no. 86 change : 0.000494147
  Step no. 87 change : 0.000444979
  Step no. 88 change : 0.000389427
  Step no. 89 change : 0.000333303
  Step no. 90 change : 0.000331985
  Step no. 91 change : 0.000340856
  Step no. 92 change : 0.000345838
  Step no. 93 change : 0.000346746
  Step no. 94 change : 0.000343647
  Step no. 95 change : 0.00033691
  Step no. 96 change : 0.000327183
  Step no. 97 change : 0.000315336
  Step no. 98 change : 0.000302367
  Step no. 99 change : 0.000289307
  Step no. 100 change : 0.000277129
  Step no. 101 change : 0.000266687
  Step no. 102 change : 0.000258677
  Step no. 103 change : 0.000253625
  Step no. 104 change : 0.000251896
  Step no. 105 change : 0.000253712
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  Step no. 113 change : 0.000467063
  Step no. 114 change : 0.000503461
  Step no. 115 change : 0.000538208
  Step no. 116 change : 0.000568948
  Step no. 117 change : 0.000593032
  Step no. 118 change : 0.000607832
  Step no. 119 change : 0.000611164
  Step no. 120 change : 0.000601742
  Step no. 121 change : 0.000579529
  Step no. 122 change : 0.000545844
  Step no. 123 change : 0.00050316
  Step no. 124 change : 0.000454648
  Step no. 125 change : 0.00040361
  Step no. 126 change : 0.000352968
  Step no. 127 change : 0.000304951
  Step no. 128 change : 0.000260994
  Step no. 129 change : 0.000221811
  Step no. 130 change : 0.000187565
  Step no. 131 change : 0.000158051
  Step no. 132 change : 0.000139914
  Step no. 133 change : 0.0001247
  Step no. 134 change : 0.000110398
  Step no. 135 change : 9.71585e-05
  Step no. 136 change : 8.50661e-05
  Step no. 137 change : 7.86899e-05
  Step no. 138 change : 7.66286e-05
  Step no. 139 change : 7.43335e-05
  Step no. 140 change : 7.18307e-05
  Step no. 141 change : 6.91516e-05
  Step no. 142 change : 6.63307e-05
  Step no. 143 change : 6.46641e-05
  Step no. 144 change : 6.36361e-05
  Step no. 145 change : 6.25585e-05
  Step no. 146 change : 6.14376e-05
  Step no. 147 change : 6.02799e-05
  Step no. 148 change : 5.9092e-05
  Step no. 149 change : 5.78803e-05
  Step no. 150 change : 5.66508e-05
  Step no. 151 change : 5.54088e-05
  Step no. 152 change : 5.41593e-05
  Step no. 153 change : 5.29063e-05
  Step no. 154 change : 5.16537e-05
  Step no. 155 change : 5.04046e-05
  Step no. 156 change : 4.91618e-05
  Convergence after 156 steps 

Sorting IC maps

Writing results to : 
  filtered_func_data.ica/melodic_IC
  filtered_func_data.ica/melodic_Tmodes
  filtered_func_data.ica/melodic_mix
  filtered_func_data.ica/melodic_FTmix
  filtered_func_data.ica/melodic_PPCA
  filtered_func_data.ica/melodic_ICstats
  filtered_func_data.ica/mask
...done
Creating report index page ...done


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
  IC map 36 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 37 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 38 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 39 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 40 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 41 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 42 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 43 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 44 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 45 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 46 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 47 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 48 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 49 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 50 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 51 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 52 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 53 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 54 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 55 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 56 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 57 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 58 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 59 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 60 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done
  IC map 61 ... 
   calculating mixture-model fit 
   re-scaling spatial maps ... 
   thresholding ... 
   alternative hypothesis test at p > 0.5
   creating report page ...    done

Writing results to : 
  filtered_func_data.ica/melodic_IC
  filtered_func_data.ica/melodic_Tmodes
  filtered_func_data.ica/melodic_mix
  filtered_func_data.ica/melodic_FTmix
  filtered_func_data.ica/melodic_PPCA
  filtered_func_data.ica/melodic_ICstats
  filtered_func_data.ica/mask
...done


 To view the output report point your web browser at filtered_func_data.ica/report/00index.html

finished!


/usr/local/fsl/bin/fslmaths filtered_func_data -Tmean mean_func

/bin/rm -rf prefiltered_func_data*

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