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chaeusler
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studyforrest-ppa-analysis
DOI
10.12751/g-node.7is9s6
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studyforrest...
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sub-17
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run-1_movie-ppa-grp.feat
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report_log.html

report_log.html 13 KB
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  1. <HTML><HEAD>
    2. 

  2. <!--refreshstart-->
    3. 

  3. 

  4. <!--refreshstop-->
    5. 

  5. <link REL=stylesheet TYPE=text/css href=.files/fsl.css>
    6. 

  6. <TITLE>FSL</TITLE></HEAD><BODY><OBJECT data=report.html></OBJECT>
    7. 

  7. <h2>Progress Report / Log</h2>
    8. 

  8. Started at Fri 13 Mar 2020 11:47:17 PM CET<p>
    9. 

  9. Feat main script<br><pre>
    10. 

  10. 

  11. /bin/cp /data/project/studyforrest_ppa/sub-17/run-1_1st_movie-ppa-grp.fsf design.fsf
    12. 

  12. 

  13. /usr/share/fsl/5.0/bin/feat_model design
    14. 

  14. 

  15. mkdir .files;cp /usr/share/fsl/5.0/doc/fsl.css .files;cp -r /usr/share/fsl/5.0/doc/images .files/images
    16. 

  16. 

  17. /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-17/run-1_movie-ppa-grp.feat/design.fsf -D /data/project/studyforrest_ppa/sub-17/run-1_movie-ppa-grp.feat -I 1 -init
    18. 

  18. 13265
    19. 

  19. 

  20. /usr/share/fsl/5.0/bin/fsl_sub -T 111 -l logs -N feat2_pre -j 13265  /usr/share/fsl/5.0/bin/feat /data/project/studyforrest_ppa/sub-17/run-1_movie-ppa-grp.feat/design.fsf -D /data/project/studyforrest_ppa/sub-17/run-1_movie-ppa-grp.feat -I 1 -prestats
    21. 

  21. 15115
    22. 

  22. 

  23. /usr/share/fsl/5.0/bin/fsl_sub -T 206 -l logs -N feat3_film -j 15115  /usr/share/fsl/5.0/bin/feat /data/project/studyforrest_ppa/sub-17/run-1_movie-ppa-grp.feat/design.fsf -D /data/project/studyforrest_ppa/sub-17/run-1_movie-ppa-grp.feat -I 1 -stats
    24. 

  24. 23276
    25. 

  25. 

  26. /usr/share/fsl/5.0/bin/fsl_sub -T 119 -l logs -N feat4_post -j 23276  /usr/share/fsl/5.0/bin/feat /data/project/studyforrest_ppa/sub-17/run-1_movie-ppa-grp.feat/design.fsf -D /data/project/studyforrest_ppa/sub-17/run-1_movie-ppa-grp.feat -poststats 0 
    27. 

  27. couldn't open "tmpreport_poststats.html": no such file or directory
    28. 

  28.     while executing
    29. 

  29. "if { [ catch {
    30. 

  30. 

  31. for { set argindex 1 } { $argindex < $argc } { incr argindex 1 } {
    32. 

  32.     switch -- [ lindex $argv $argindex ] {
    33. 

  33. 

  34. 	-I {
    35. 

  35. 	    incr arginde..."
    36. 

  36.     (file "/usr/share/fsl/5.0/bin/feat" line 309)
    37. 

  37. 

  38. FATAL ERROR ENCOUNTERED:
    39. 

  39. COMMAND:
    40. 

  40. /usr/share/fsl/5.0/bin/fsl_sub -T 119 -l logs -N feat4_post -j 23276  /usr/share/fsl/5.0/bin/feat /data/project/studyforrest_ppa/sub-17/run-1_movie-ppa-grp.feat/design.fsf -D /data/project/studyforrest_ppa/sub-17/run-1_movie-ppa-grp.feat -poststats 0 
    41. 

  41. ERROR MESSAGE:
    42. 

  42. child process exited abnormally
    43. 

  43. END OF ERROR MESSAGE
    44. 

  44. </pre><hr>Initialisation<br><pre>
    45. 

  45. 

  46. /usr/share/fsl/5.0/bin/fslmaths /data/project/studyforrest_ppa/inputs/studyforrest-data-aligned/sub-17/in_bold3Tp2/sub-17_task-avmovie_run-1_bold prefiltered_func_data -odt float
    47. 

  47. Total original volumes = 451
    48. 

  48. 

  49. /usr/share/fsl/5.0/bin/fslroi prefiltered_func_data example_func 225 1
    50. 

  50. </pre><hr>Preprocessing:Stage 1<br><pre>
    51. 

  51. </pre><hr>Preprocessing:Stage 2<br><pre>
    52. 

  52. 

  53. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data -Tmean mean_func
    54. 

  54. 

  55. /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
    56. 

  56. 

  57. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data -mas mask prefiltered_func_data_bet
    58. 

  58. 

  59. /usr/share/fsl/5.0/bin/fslstats prefiltered_func_data_bet -p 2 -p 98
    60. 

  60. 0.000000 417.000000 
    61. 

  61. 

  62. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_bet -thr 41.7 -Tmin -bin mask -odt char
    63. 

  63. 

  64. /usr/share/fsl/5.0/bin/fslstats prefiltered_func_data -k mask -p 50
    65. 

  65. 322.000000 
    66. 

  66. 

  67. /usr/share/fsl/5.0/bin/fslmaths mask -dilF mask
    68. 

  68. 

  69. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data -mas mask prefiltered_func_data_thresh
    70. 

  70. 

  71. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_thresh -Tmean mean_func
    72. 

  72. 

  73. /usr/share/fsl/5.0/bin/susan prefiltered_func_data_thresh 241.5 1.6985138004246285 3 1 1 mean_func 241.5 prefiltered_func_data_smooth
    74. 

  74. 

  75. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_smooth -mas mask prefiltered_func_data_smooth
    76. 

  76. 

  77. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_smooth -mul 31.055900621118013 prefiltered_func_data_intnorm
    78. 

  78. 

  79. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_intnorm -Tmean tempMean
    80. 

  80. 

  81. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_intnorm -bptf 37.49998125000937 -1 -add tempMean prefiltered_func_data_tempfilt
    82. 

  82. 

  83. /usr/share/fsl/5.0/bin/imrm tempMean
    84. 

  84. 

  85. /usr/share/fsl/5.0/bin/fslmaths prefiltered_func_data_tempfilt filtered_func_data
    86. 

  86. 

  87. /usr/share/fsl/5.0/bin/fslmaths filtered_func_data -Tmean mean_func
    88. 

  88. 

  89. /bin/rm -rf prefiltered_func_data*
    90. 

  90. </pre><hr>Stats<br><pre>
    91. 

  91. 

  92. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/avmovie/run-1/vse_new.txt custom_timing_files/ev1.txt
    93. 

  93. 

  94. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/avmovie/run-1/vse_old.txt custom_timing_files/ev2.txt
    95. 

  95. 

  96. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/avmovie/run-1/vlo_ch.txt custom_timing_files/ev3.txt
    97. 

  97. 

  98. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/avmovie/run-1/vpe_new.txt custom_timing_files/ev4.txt
    99. 

  99. 

  100. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/avmovie/run-1/vpe_old.txt custom_timing_files/ev5.txt
    101. 

  101. 

  102. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/avmovie/run-1/vno_cut.txt custom_timing_files/ev6.txt
    103. 

  103. 

  104. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/aomovie/run-1/se_new.txt custom_timing_files/ev7.txt
    105. 

  105. 

  106. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/aomovie/run-1/se_old.txt custom_timing_files/ev8.txt
    107. 

  107. 

  108. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/avmovie/run-1/fg_av_ger_lr.txt custom_timing_files/ev9.txt
    109. 

  109. 

  110. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/avmovie/run-1/fg_av_ger_lrdiff.txt custom_timing_files/ev10.txt
    111. 

  111. 

  112. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/avmovie/run-1/fg_av_ger_ml.txt custom_timing_files/ev11.txt
    113. 

  113. 

  114. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/avmovie/run-1/fg_av_ger_pd.txt custom_timing_files/ev12.txt
    115. 

  115. 

  116. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/avmovie/run-1/fg_av_ger_rms.txt custom_timing_files/ev13.txt
    117. 

  117. 

  118. mkdir -p custom_timing_files ; /usr/share/fsl/5.0/bin/fslFixText /data/project/studyforrest_ppa/sub-17/onsets/avmovie/run-1/fg_av_ger_ud.txt custom_timing_files/ev14.txt
    119. 

  119. 

  120. paste -d  ' '  /data/project/studyforrest_ppa/inputs/studyforrest-data-aligned/sub-17/in_bold3Tp2/sub-17_task-avmovie_run-1_bold_mcparams.txt > confoundevs.txt
    121. 

  121. 

  122. /usr/share/fsl/5.0/bin/feat_model design confoundevs.txt
    123. 

  123. 

  124. /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  
    125. 

  125. Log directory is: stats
    126. 

  126. paradigm.getDesignMatrix().Nrows()=451
    127. 

  127. paradigm.getDesignMatrix().Ncols()=34
    128. 

  128. sizeTS=451
    129. 

  129. numTS=85669
    130. 

  130. Calculating residuals...
    131. 

  131. Completed
    132. 

  132. Estimating residual autocorrelation...
    133. 

  133. Calculating raw AutoCorrs... Completed
    134. 

  134. mode = 10091.8
    135. 

  135. sig = 1073
    136. 

  136. Spatially smoothing auto corr estimates
    137. 

  137. ....................
    138. 

  138. Completed
    139. 

  139. Tukey M = 21
    140. 

  140. Tukey estimates... Completed
    141. 

  141. Completed
    142. 

  142. Prewhitening and Computing PEs...
    143. 

  143. Percentage done:
    144. 

  144. 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
    145. 

  145. Saving results... 
    146. 

  146. Completed
    147. 

  147. 

  148. /usr/share/fsl/5.0/bin/smoothest -d 417   -m mask -r stats/res4d > stats/smoothness
    149. 

  149. </pre><hr>Post-stats<br><pre>
    150. 

  150. 

  151. /usr/share/fsl/5.0/bin/fslmaths stats/zstat1 -mas mask thresh_zstat1
    152. 

  152. 

  153. echo 85669 > thresh_zstat1.vol
    154. 

  154. zstat1: DLH=0.249593 VOLUME=85669 RESELS=18.508
    155. 

  155. 

  156. /usr/share/fsl/5.0/bin/fslmaths stats/zstat2 -mas mask thresh_zstat2
    157. 

  157. 

  158. echo 85669 > thresh_zstat2.vol
    159. 

  159. zstat2: DLH=0.249593 VOLUME=85669 RESELS=18.508
    160. 

  160. 

  161. /usr/share/fsl/5.0/bin/fslmaths stats/zstat3 -mas mask thresh_zstat3
    162. 

  162. 

  163. echo 85669 > thresh_zstat3.vol
    164. 

  164. zstat3: DLH=0.249593 VOLUME=85669 RESELS=18.508
    165. 

  165. 

  166. /usr/share/fsl/5.0/bin/fslmaths stats/zstat4 -mas mask thresh_zstat4
    167. 

  167. 

  168. echo 85669 > thresh_zstat4.vol
    169. 

  169. zstat4: DLH=0.249593 VOLUME=85669 RESELS=18.508
    170. 

  170. 

  171. /usr/share/fsl/5.0/bin/fslmaths stats/zstat5 -mas mask thresh_zstat5
    172. 

  172. 

  173. echo 85669 > thresh_zstat5.vol
    174. 

  174. zstat5: DLH=0.249593 VOLUME=85669 RESELS=18.508
    175. 

  175. 

  176. /usr/share/fsl/5.0/bin/fslmaths stats/zstat6 -mas mask thresh_zstat6
    177. 

  177. 

  178. echo 85669 > thresh_zstat6.vol
    179. 

  179. zstat6: DLH=0.249593 VOLUME=85669 RESELS=18.508
    180. 

  180. 

  181. /usr/share/fsl/5.0/bin/fslmaths stats/zstat7 -mas mask thresh_zstat7
    182. 

  182. 

  183. echo 85669 > thresh_zstat7.vol
    184. 

  184. zstat7: DLH=0.249593 VOLUME=85669 RESELS=18.508
    185. 

  185. 

  186. /usr/share/fsl/5.0/bin/fslmaths stats/zstat8 -mas mask thresh_zstat8
    187. 

  187. 

  188. echo 85669 > thresh_zstat8.vol
    189. 

  189. zstat8: DLH=0.249593 VOLUME=85669 RESELS=18.508
    190. 

  190. 

  191. /usr/share/fsl/5.0/bin/fslmaths stats/zstat9 -mas mask thresh_zstat9
    192. 

  192. 

  193. echo 85669 > thresh_zstat9.vol
    194. 

  194. zstat9: DLH=0.249593 VOLUME=85669 RESELS=18.508
    195. 

  195. 

  196. /usr/share/fsl/5.0/bin/fslmaths stats/zstat10 -mas mask thresh_zstat10
    197. 

  197. 

  198. echo 85669 > thresh_zstat10.vol
    199. 

  199. zstat10: DLH=0.249593 VOLUME=85669 RESELS=18.508
    200. 

  200. 

  201. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat1 -c stats/cope1 -t 3.4 -p 0.05 -d 0.249593 --volume=85669 --othresh=thresh_zstat1 -o cluster_mask_zstat1 --connectivity=26  --olmax=lmax_zstat1.txt --scalarname=Z > cluster_zstat1.txt
    202. 

  202. 

  203. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat1 
    204. 

  204. 

  205. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat2 -c stats/cope2 -t 3.4 -p 0.05 -d 0.249593 --volume=85669 --othresh=thresh_zstat2 -o cluster_mask_zstat2 --connectivity=26  --olmax=lmax_zstat2.txt --scalarname=Z > cluster_zstat2.txt
    206. 

  206. 

  207. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat2 
    208. 

  208. 

  209. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat3 -c stats/cope3 -t 3.4 -p 0.05 -d 0.249593 --volume=85669 --othresh=thresh_zstat3 -o cluster_mask_zstat3 --connectivity=26  --olmax=lmax_zstat3.txt --scalarname=Z > cluster_zstat3.txt
    210. 

  210. 

  211. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat3 
    212. 

  212. 

  213. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat4 -c stats/cope4 -t 3.4 -p 0.05 -d 0.249593 --volume=85669 --othresh=thresh_zstat4 -o cluster_mask_zstat4 --connectivity=26  --olmax=lmax_zstat4.txt --scalarname=Z > cluster_zstat4.txt
    214. 

  214. 

  215. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat4 
    216. 

  216. 

  217. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat5 -c stats/cope5 -t 3.4 -p 0.05 -d 0.249593 --volume=85669 --othresh=thresh_zstat5 -o cluster_mask_zstat5 --connectivity=26  --olmax=lmax_zstat5.txt --scalarname=Z > cluster_zstat5.txt
    218. 

  218. 

  219. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat5 
    220. 

  220. 

  221. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat6 -c stats/cope6 -t 3.4 -p 0.05 -d 0.249593 --volume=85669 --othresh=thresh_zstat6 -o cluster_mask_zstat6 --connectivity=26  --olmax=lmax_zstat6.txt --scalarname=Z > cluster_zstat6.txt
    222. 

  222. 

  223. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat6 
    224. 

  224. 

  225. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat7 -c stats/cope7 -t 3.4 -p 0.05 -d 0.249593 --volume=85669 --othresh=thresh_zstat7 -o cluster_mask_zstat7 --connectivity=26  --olmax=lmax_zstat7.txt --scalarname=Z > cluster_zstat7.txt
    226. 

  226. 

  227. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat7 
    228. 

  228. 

  229. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat8 -c stats/cope8 -t 3.4 -p 0.05 -d 0.249593 --volume=85669 --othresh=thresh_zstat8 -o cluster_mask_zstat8 --connectivity=26  --olmax=lmax_zstat8.txt --scalarname=Z > cluster_zstat8.txt
    230. 

  230. 

  231. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat8 
    232. 

  232. 

  233. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat9 -c stats/cope9 -t 3.4 -p 0.05 -d 0.249593 --volume=85669 --othresh=thresh_zstat9 -o cluster_mask_zstat9 --connectivity=26  --olmax=lmax_zstat9.txt --scalarname=Z > cluster_zstat9.txt
    234. 

  234. 

  235. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat9 
    236. 

  236. 

  237. /usr/share/fsl/5.0/bin/cluster -i thresh_zstat10 -c stats/cope10 -t 3.4 -p 0.05 -d 0.249593 --volume=85669 --othresh=thresh_zstat10 -o cluster_mask_zstat10 --connectivity=26  --olmax=lmax_zstat10.txt --scalarname=Z > cluster_zstat10.txt
    238. 

  238. 

  239. /usr/share/fsl/5.0/bin/cluster2html . cluster_zstat10 
    240. 

  240. 

  241. /usr/share/fsl/5.0/bin/fslstats thresh_zstat1 -l 0.0001 -R 2>/dev/null
    242. 

  242. 3.404256 5.087826 
    243. 

  243. 

  244. /usr/share/fsl/5.0/bin/fslstats thresh_zstat2 -l 0.0001 -R 2>/dev/null
    245. 

  245. 0.000000 0.000000 
    246. 

  246. 

  247. /usr/share/fsl/5.0/bin/fslstats thresh_zstat3 -l 0.0001 -R 2>/dev/null
    248. 

  248. 0.000000 0.000000 
    249. 

  249. 

  250. /usr/share/fsl/5.0/bin/fslstats thresh_zstat4 -l 0.0001 -R 2>/dev/null
    251. 

  251. 0.000000 0.000000 
    252. 

  252. 

  253. /usr/share/fsl/5.0/bin/fslstats thresh_zstat5 -l 0.0001 -R 2>/dev/null
    254. 

  254. 3.409079 4.709275 
    255. 

  255. 

  256. /usr/share/fsl/5.0/bin/fslstats thresh_zstat6 -l 0.0001 -R 2>/dev/null
    257. 

  257. 3.422384 4.553940 
    258. 

  258. 

  259. /usr/share/fsl/5.0/bin/fslstats thresh_zstat7 -l 0.0001 -R 2>/dev/null
    260. 

  260. 0.000000 0.000000 
    261. 

  261. 

  262. /usr/share/fsl/5.0/bin/fslstats thresh_zstat8 -l 0.0001 -R 2>/dev/null
    263. 

  263. 0.000000 0.000000 
    264. 

  264. 

  265. /usr/share/fsl/5.0/bin/fslstats thresh_zstat9 -l 0.0001 -R 2>/dev/null
    266. 

  266. 3.400136 4.366525 
    267. 

  267. 

  268. /usr/share/fsl/5.0/bin/fslstats thresh_zstat10 -l 0.0001 -R 2>/dev/null
    269. 

  269. 0.000000 0.000000 
    270. 

  270. Rendering using zmin=3.400136 zmax=5.087826
    271. 

  271. couldn't open "tmpreport_poststats.html": no such file or directory
    272. 

  272.     while executing
    273. 

  273. "if { [ catch {
    274. 

  274. 

  275. for { set argindex 1 } { $argindex < $argc } { incr argindex 1 } {
    276. 

  276.     switch -- [ lindex $argv $argindex ] {
    277. 

  277. 

  278. 	-I {
    279. 

  279. 	    incr arginde..."
    280. 

  280.     (file "/usr/share/fsl/5.0/bin/feat" line 309)
    281. 

  281. Error encountered while running in main feat script, halting.
    282. 

  282. couldn't open "tmpreport_poststats.html": no such file or directory
    283. 

  283. </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>
    284.