report_log.html 14 KB

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  1. <HTML><HEAD>
  2. <!--refreshstart-->
  3. <!--refreshstop-->
  4. <link REL=stylesheet TYPE=text/css href=.files/fsl.css>
  5. <TITLE>FSL</TITLE></HEAD><BODY><OBJECT data=report.html></OBJECT>
  6. <h2>Progress Report / Log</h2>
  7. Started at Fri 13 Mar 2020 11:51:16 PM CET<p>
  8. Feat main script<br><pre>
  9. /bin/cp /data/project/studyforrest_ppa/sub-18/run-5_1st_movie-ppa-grp.fsf design.fsf
  10. /usr/share/fsl/5.0/bin/feat_model design
  11. Warning: at least one EV is (close to) a linear combination of the others. You probably need to alter your design.
  12. (Design matrix is rank deficient - ratio of min:max eigenvalues in SVD of matrix is 1.96541e-17)
  13. Contrasts involving these combinations will be set to zero.
  14. mkdir .files;cp /usr/share/fsl/5.0/doc/fsl.css .files;cp -r /usr/share/fsl/5.0/doc/images .files/images
  15. /usr/share/fsl/5.0/bin/fsl_sub -T 10 -l logs -N feat0_init /usr/share/fsl/5.0/bin/feat /data/project/studyforrest_ppa/sub-18/run-5_movie-ppa-grp.feat/design.fsf -D /data/project/studyforrest_ppa/sub-18/run-5_movie-ppa-grp.feat -I 1 -init
  16. 18981
  17. /usr/share/fsl/5.0/bin/fsl_sub -T 111 -l logs -N feat2_pre -j 18981 /usr/share/fsl/5.0/bin/feat /data/project/studyforrest_ppa/sub-18/run-5_movie-ppa-grp.feat/design.fsf -D /data/project/studyforrest_ppa/sub-18/run-5_movie-ppa-grp.feat -I 1 -prestats
  18. 20009
  19. /usr/share/fsl/5.0/bin/fsl_sub -T 211 -l logs -N feat3_film -j 20009 /usr/share/fsl/5.0/bin/feat /data/project/studyforrest_ppa/sub-18/run-5_movie-ppa-grp.feat/design.fsf -D /data/project/studyforrest_ppa/sub-18/run-5_movie-ppa-grp.feat -I 1 -stats
  20. 27503
  21. /usr/share/fsl/5.0/bin/fsl_sub -T 119 -l logs -N feat4_post -j 27503 /usr/share/fsl/5.0/bin/feat /data/project/studyforrest_ppa/sub-18/run-5_movie-ppa-grp.feat/design.fsf -D /data/project/studyforrest_ppa/sub-18/run-5_movie-ppa-grp.feat -poststats 0
  22. couldn't open "tmpreport_poststats.html": no such file or directory
  23. while executing
  24. "if { [ catch {
  25. for { set argindex 1 } { $argindex < $argc } { incr argindex 1 } {
  26. switch -- [ lindex $argv $argindex ] {
  27. -I {
  28. incr arginde..."
  29. (file "/usr/share/fsl/5.0/bin/feat" line 309)
  30. FATAL ERROR ENCOUNTERED:
  31. COMMAND:
  32. /usr/share/fsl/5.0/bin/fsl_sub -T 119 -l logs -N feat4_post -j 27503 /usr/share/fsl/5.0/bin/feat /data/project/studyforrest_ppa/sub-18/run-5_movie-ppa-grp.feat/design.fsf -D /data/project/studyforrest_ppa/sub-18/run-5_movie-ppa-grp.feat -poststats 0
  33. ERROR MESSAGE:
  34. child process exited abnormally
  35. END OF ERROR MESSAGE
  36. </pre><hr>Initialisation<br><pre>
  37. /usr/share/fsl/5.0/bin/fslmaths /data/project/studyforrest_ppa/inputs/studyforrest-data-aligned/sub-18/in_bold3Tp2/sub-18_task-avmovie_run-5_bold prefiltered_func_data -odt float
  38. Total original volumes = 462
  39. /usr/share/fsl/5.0/bin/fslroi prefiltered_func_data example_func 231 1
  40. </pre><hr>Preprocessing:Stage 1<br><pre>
  41. </pre><hr>Preprocessing:Stage 2<br><pre>
  42. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data -Tmean mean_func
  43. /usr/share/fsl/5.0/bin/bet2 mean_func mask -f 0.3 -n -m; /usr/share/fsl/5.0/bin/immv mask_mask mask
  44. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data -mas mask prefiltered_func_data_bet
  45. /usr/share/fsl/5.0/bin/fslstats prefiltered_func_data_bet -p 2 -p 98
  46. 0.000000 471.000000
  47. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_bet -thr 47.1 -Tmin -bin mask -odt char
  48. /usr/share/fsl/5.0/bin/fslstats prefiltered_func_data -k mask -p 50
  49. 368.000000
  50. /usr/share/fsl/5.0/bin/fslmaths mask -dilF mask
  51. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data -mas mask prefiltered_func_data_thresh
  52. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_thresh -Tmean mean_func
  53. /usr/share/fsl/5.0/bin/susan prefiltered_func_data_thresh 276.0 1.6985138004246285 3 1 1 mean_func 276.0 prefiltered_func_data_smooth
  54. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_smooth -mas mask prefiltered_func_data_smooth
  55. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_smooth -mul 27.17391304347826 prefiltered_func_data_intnorm
  56. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_intnorm -Tmean tempMean
  57. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_intnorm -bptf 37.49998125000937 -1 -add tempMean prefiltered_func_data_tempfilt
  58. /usr/share/fsl/5.0/bin/imrm tempMean
  59. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_tempfilt filtered_func_data
  60. /usr/share/fsl/5.0/bin/fslmaths filtered_func_data -Tmean mean_func
  61. /bin/rm -rf prefiltered_func_data*
  62. </pre><hr>Stats<br><pre>
  63. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/avmovie/run-5/vse_new.txt custom_timing_files/ev1.txt
  64. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/avmovie/run-5/vse_old.txt custom_timing_files/ev2.txt
  65. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/avmovie/run-5/vpe_new.txt custom_timing_files/ev4.txt
  66. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/avmovie/run-5/vpe_old.txt custom_timing_files/ev5.txt
  67. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/avmovie/run-5/vno_cut.txt custom_timing_files/ev6.txt
  68. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/aomovie/run-5/se_new.txt custom_timing_files/ev7.txt
  69. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/aomovie/run-5/se_old.txt custom_timing_files/ev8.txt
  70. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/avmovie/run-5/fg_av_ger_lr.txt custom_timing_files/ev9.txt
  71. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/avmovie/run-5/fg_av_ger_lrdiff.txt custom_timing_files/ev10.txt
  72. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/avmovie/run-5/fg_av_ger_ml.txt custom_timing_files/ev11.txt
  73. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/avmovie/run-5/fg_av_ger_pd.txt custom_timing_files/ev12.txt
  74. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/avmovie/run-5/fg_av_ger_rms.txt custom_timing_files/ev13.txt
  75. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-18/onsets/avmovie/run-5/fg_av_ger_ud.txt custom_timing_files/ev14.txt
  76. paste -d ' ' /data/project/studyforrest_ppa/inputs/studyforrest-data-aligned/sub-18/in_bold3Tp2/sub-18_task-avmovie_run-5_bold_mcparams.txt > confoundevs.txt
  77. /usr/share/fsl/5.0/bin/feat_model design confoundevs.txt
  78. Warning: at least one EV is (close to) a linear combination of the others. You probably need to alter your design.
  79. (Design matrix is rank deficient - ratio of min:max eigenvalues in SVD of matrix is 1.89113e-17)
  80. Contrasts involving these combinations will be set to zero.
  81. /usr/share/fsl/5.0/bin/film_gls --in=filtered_func_data --rn=stats --pd=design.mat --thr=1000.0 --sa --ms=5 --con=design.con
  82. Log directory is: stats
  83. paradigm.getDesignMatrix().Nrows()=462
  84. paradigm.getDesignMatrix().Ncols()=34
  85. sizeTS=462
  86. numTS=97600
  87. Calculating residuals...
  88. Completed
  89. Estimating residual autocorrelation...
  90. Calculating raw AutoCorrs... Completed
  91. mode = 10177.8
  92. sig = 951
  93. Spatially smoothing auto corr estimates
  94. ....................
  95. Completed
  96. Tukey M = 21
  97. Tukey estimates... Completed
  98. Completed
  99. Prewhitening and Computing PEs...
  100. Percentage done:
  101. 1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,86,87,88,89,90,91,92,93,94,95,96,97,98,99,Completed
  102. Saving results...
  103. Completed
  104. /usr/share/fsl/5.0/bin/smoothest -d 428 -m mask -r stats/res4d > stats/smoothness
  105. </pre><hr>Post-stats<br><pre>
  106. /usr/share/fsl/5.0/bin/fslmaths stats/zstat1 -mas mask thresh_zstat1
  107. echo 97600 > thresh_zstat1.vol
  108. zstat1: DLH=0.245552 VOLUME=97600 RESELS=18.8119
  109. /usr/share/fsl/5.0/bin/fslmaths stats/zstat2 -mas mask thresh_zstat2
  110. echo 97600 > thresh_zstat2.vol
  111. zstat2: DLH=0.245552 VOLUME=97600 RESELS=18.8119
  112. /usr/share/fsl/5.0/bin/fslmaths stats/zstat3 -mas mask thresh_zstat3
  113. echo 97600 > thresh_zstat3.vol
  114. zstat3: DLH=0.245552 VOLUME=97600 RESELS=18.8119
  115. /usr/share/fsl/5.0/bin/fslmaths stats/zstat4 -mas mask thresh_zstat4
  116. echo 97600 > thresh_zstat4.vol
  117. zstat4: DLH=0.245552 VOLUME=97600 RESELS=18.8119
  118. /usr/share/fsl/5.0/bin/fslmaths stats/zstat5 -mas mask thresh_zstat5
  119. echo 97600 > thresh_zstat5.vol
  120. zstat5: DLH=0.245552 VOLUME=97600 RESELS=18.8119
  121. /usr/share/fsl/5.0/bin/fslmaths stats/zstat6 -mas mask thresh_zstat6
  122. echo 97600 > thresh_zstat6.vol
  123. zstat6: DLH=0.245552 VOLUME=97600 RESELS=18.8119
  124. /usr/share/fsl/5.0/bin/fslmaths stats/zstat7 -mas mask thresh_zstat7
  125. echo 97600 > thresh_zstat7.vol
  126. zstat7: DLH=0.245552 VOLUME=97600 RESELS=18.8119
  127. /usr/share/fsl/5.0/bin/fslmaths stats/zstat8 -mas mask thresh_zstat8
  128. echo 97600 > thresh_zstat8.vol
  129. zstat8: DLH=0.245552 VOLUME=97600 RESELS=18.8119
  130. /usr/share/fsl/5.0/bin/fslmaths stats/zstat9 -mas mask thresh_zstat9
  131. echo 97600 > thresh_zstat9.vol
  132. zstat9: DLH=0.245552 VOLUME=97600 RESELS=18.8119
  133. /usr/share/fsl/5.0/bin/fslmaths stats/zstat10 -mas mask thresh_zstat10
  134. echo 97600 > thresh_zstat10.vol
  135. zstat10: DLH=0.245552 VOLUME=97600 RESELS=18.8119
  136. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat1 -c stats/cope1 -t 3.4 -p 0.05 -d 0.245552 --volume=97600 --othresh=thresh_zstat1 -o cluster_mask_zstat1 --connectivity=26 --olmax=lmax_zstat1.txt --scalarname=Z > cluster_zstat1.txt
  137. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat1
  138. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat2 -c stats/cope2 -t 3.4 -p 0.05 -d 0.245552 --volume=97600 --othresh=thresh_zstat2 -o cluster_mask_zstat2 --connectivity=26 --olmax=lmax_zstat2.txt --scalarname=Z > cluster_zstat2.txt
  139. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat2
  140. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat3 -c stats/cope3 -t 3.4 -p 0.05 -d 0.245552 --volume=97600 --othresh=thresh_zstat3 -o cluster_mask_zstat3 --connectivity=26 --olmax=lmax_zstat3.txt --scalarname=Z > cluster_zstat3.txt
  141. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat3
  142. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat4 -c stats/cope4 -t 3.4 -p 0.05 -d 0.245552 --volume=97600 --othresh=thresh_zstat4 -o cluster_mask_zstat4 --connectivity=26 --olmax=lmax_zstat4.txt --scalarname=Z > cluster_zstat4.txt
  143. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat4
  144. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat5 -c stats/cope5 -t 3.4 -p 0.05 -d 0.245552 --volume=97600 --othresh=thresh_zstat5 -o cluster_mask_zstat5 --connectivity=26 --olmax=lmax_zstat5.txt --scalarname=Z > cluster_zstat5.txt
  145. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat5
  146. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat6 -c stats/cope6 -t 3.4 -p 0.05 -d 0.245552 --volume=97600 --othresh=thresh_zstat6 -o cluster_mask_zstat6 --connectivity=26 --olmax=lmax_zstat6.txt --scalarname=Z > cluster_zstat6.txt
  147. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat6
  148. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat7 -c stats/cope7 -t 3.4 -p 0.05 -d 0.245552 --volume=97600 --othresh=thresh_zstat7 -o cluster_mask_zstat7 --connectivity=26 --olmax=lmax_zstat7.txt --scalarname=Z > cluster_zstat7.txt
  149. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat7
  150. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat8 -c stats/cope8 -t 3.4 -p 0.05 -d 0.245552 --volume=97600 --othresh=thresh_zstat8 -o cluster_mask_zstat8 --connectivity=26 --olmax=lmax_zstat8.txt --scalarname=Z > cluster_zstat8.txt
  151. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat8
  152. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat9 -c stats/cope9 -t 3.4 -p 0.05 -d 0.245552 --volume=97600 --othresh=thresh_zstat9 -o cluster_mask_zstat9 --connectivity=26 --olmax=lmax_zstat9.txt --scalarname=Z > cluster_zstat9.txt
  153. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat9
  154. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat10 -c stats/cope10 -t 3.4 -p 0.05 -d 0.245552 --volume=97600 --othresh=thresh_zstat10 -o cluster_mask_zstat10 --connectivity=26 --olmax=lmax_zstat10.txt --scalarname=Z > cluster_zstat10.txt
  155. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat10
  156. /usr/share/fsl/5.0/bin/fslstats thresh_zstat1 -l 0.0001 -R 2>/dev/null
  157. 3.401447 4.449197
  158. /usr/share/fsl/5.0/bin/fslstats thresh_zstat2 -l 0.0001 -R 2>/dev/null
  159. 3.400339 4.822146
  160. /usr/share/fsl/5.0/bin/fslstats thresh_zstat3 -l 0.0001 -R 2>/dev/null
  161. 3.403844 3.852815
  162. /usr/share/fsl/5.0/bin/fslstats thresh_zstat4 -l 0.0001 -R 2>/dev/null
  163. 3.402735 5.217531
  164. /usr/share/fsl/5.0/bin/fslstats thresh_zstat5 -l 0.0001 -R 2>/dev/null
  165. 0.000000 0.000000
  166. /usr/share/fsl/5.0/bin/fslstats thresh_zstat6 -l 0.0001 -R 2>/dev/null
  167. 0.000000 0.000000
  168. /usr/share/fsl/5.0/bin/fslstats thresh_zstat7 -l 0.0001 -R 2>/dev/null
  169. 3.403521 5.405951
  170. /usr/share/fsl/5.0/bin/fslstats thresh_zstat8 -l 0.0001 -R 2>/dev/null
  171. 3.409250 5.253582
  172. /usr/share/fsl/5.0/bin/fslstats thresh_zstat9 -l 0.0001 -R 2>/dev/null
  173. 3.407098 4.318953
  174. /usr/share/fsl/5.0/bin/fslstats thresh_zstat10 -l 0.0001 -R 2>/dev/null
  175. 3.403963 5.395765
  176. Rendering using zmin=3.400339 zmax=5.405951
  177. couldn't open "tmpreport_poststats.html": no such file or directory
  178. while executing
  179. "if { [ catch {
  180. for { set argindex 1 } { $argindex < $argc } { incr argindex 1 } {
  181. switch -- [ lindex $argv $argindex ] {
  182. -I {
  183. incr arginde..."
  184. (file "/usr/share/fsl/5.0/bin/feat" line 309)
  185. Error encountered while running in main feat script, halting.
  186. couldn't open "tmpreport_poststats.html": no such file or directory
  187. </pre><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br></BODY></HTML>