[iMac-di-Stefano:/Applications/freesurfer/bin] Stefano% ls -ltotal 4780656-rwxr-xr-x 1 root wheel 60776 Jan 29 00:20 #trac-all#-rwxr-xr-x 1 root wheel 27224 May 14 17:07 4dfptoanalyze-rwxr-xr-x 1 root wheel 12925 May 14 17:07 LongQdecTable.py-rwxr-xr-x@ 1 Stefano wheel 7581520 Jun 6 23:24 Unknown-rwxr-xr-x 1 root wheel 936 May 14 17:07 UpdateNeeded-rwxr-xr-x 1 root wheel 22628 May 14 17:07 analyzeto4dfp-rwxr-xr-x 1 root wheel 7660 May 14 17:07 aparc2feat-rwxr-xr-x 1 root wheel 15795 May 14 17:07 aparcstats2table-rwxr-xr-x 1 root wheel 4657 May 14 17:07 aparcstatsdiff-rwxr-xr-x 1 root wheel 7075840 May 14 17:07 applyMorph-rwxr-xr-x 1 root wheel 8927 May 14 17:07 aseg2feat-rwxr-xr-x 1 root wheel 23702 May 14 17:07 asegstats2table-rwxr-xr-x 1 root wheel 3450 May 14 17:07 asegstatsdiff-rwxr-xr-x 1 root wheel 2087 May 14 17:07 avi2talxfm-rwxr-xr-x 1 root wheel 2209 May 14 17:07 batchjobs-rwxr-xr-x 1 root wheel 5756 May 14 17:07 bblabel-rwxr-xr-x 1 root wheel 24890 May 14 17:07 bbregister-rwxr-xr-x 1 root wheel 14696 May 14 17:07 bedpostx_mgh-rwxr-xr-x 1 root wheel 13268 May 14 17:07 bet.fsl-rwxr-xr-x 1 root wheel 7144 May 14 17:07 beta2sxa-rwxr-xr-x 1 root wheel 7710 May 14 17:07 biasfield-rwxr-xr-x 1 root wheel 417 May 14 17:07 brec-rwxr-xr-x 1 root wheel 973 May 14 17:07 brec.awk-rwxr-xr-x 1 root wheel 10814 May 14 17:07 browse-minc-header.tcl-rwxr-xr-x 1 root wheel 2201 May 14 17:07 bugr-rwxr-xr-x 1 root wheel 1245 May 14 17:07 build_desikan_killiany_gcs.csh-rwxr-xr-x 1 root wheel 75584 May 14 17:07 check_siemens_dir-rwxr-xr-x 1 root wheel 2496 May 14 17:07 check_subject-rwxr-xr-x 1 root wheel 1113 May 14 17:07 clear_fs_env.csh-rwxr-xr-x 1 root wheel 4458 May 14 17:07 compute_interrater_variability.csh-rwxr-xr-x 1 root wheel 4490 May 14 17:07 compute_label_volumes.csh-rwxr-xr-x 1 root wheel 214788 May 14 17:07 compute_vox2vox-rwxr-xr-x 1 root wheel 6389728 May 14 17:07 connectgraph-rwxr-xr-x 1 root wheel 6776500 May 14 17:07 conv1d_test-rwxr-xr-x 1 root wheel 7133948 May 14 17:07 conv1d_test_cuda-rwxr-xr-x 1 root wheel 6794716 May 14 17:07 convgaussian_test-rwxr-xr-x 1 root wheel 7119796 May 14 17:07 convgaussian_test_cuda-rwxr-xr-x 1 root wheel 1010 May 14 17:07 cor_to_minc-rwxr-xr-x 1 root wheel 4378 May 14 17:07 cp-dicom-rwxr-xr-x 1 root wheel 6893596 May 14 17:07 createMorph-rwxr-xr-x 1 root wheel 1851 May 14 17:07 cuda_setup-rwxr-xr-x 1 root wheel 76 May 14 17:07 cudadetect-rwxr-xr-x 1 root wheel 13308 May 14 17:07 cudadetect.bin-rwxr-xr-x 1 root wheel 12100 May 14 17:07 datastruct_utils.py-rwxr-xr-x 1 root wheel 6122 May 14 17:07 dcmdir-info-mgh-rwxr-xr-x 1 root wheel 23416 May 14 17:07 dcmunpack-rwxr-xr-x 1 root wheel 938 May 14 17:07 deface_subject-rwxr-xr-x 1 root wheel 8865 May 14 17:07 defect-seg-rwxr-xr-x 1 root wheel 4616 May 14 17:07 dicom-rename-rwxr-xr-x 1 root wheel 6452672 May 14 17:07 dmri_mergepaths-rwxr-xr-x 1 root wheel 6651560 May 14 17:07 dmri_paths-rwxr-xr-x 1 root wheel 6545252 May 14 17:07 dmri_pathstats-rwxr-xr-x 1 root wheel 6460264 May 14 17:07 dmri_spline-rwxr-xr-x 1 root wheel 6525716 May 14 17:07 dmri_tensoreig-rwxr-xr-x 1 root wheel 6660692 May 14 17:07 dmri_train-rwxr-xr-x 1 root wheel 6519924 May 14 17:07 dmri_trk2trk-rwxr-xr-x 1 root wheel 6501728 May 14 17:07 dmri_vox2vox-rwxr-xr-x 1 root wheel 6265 May 14 17:07 dmrirc.example-rwxr-xr-x 1 root wheel 7361 May 14 17:07 dmrirc.long.example-rwxr-xr-x 1 root wheel 20888 May 14 17:07 dsh-rwxr-xr-x 1 root wheel 14691 May 14 17:07 dt_recon-rwxr-xr-x 1 root wheel 31462 May 14 17:07 epidewarp.fsl-rwxr-xr-x 1 root wheel 6944772 May 14 17:07 exportGcam-rwxr-xr-x 1 root wheel 313 May 14 17:07 extract_talairach_avi_QA.awk-rwxr-xr-x 1 root wheel 8070 May 14 17:07 feat2segstats-rwxr-xr-x 1 root wheel 12563 May 14 17:07 feat2surf-rwxr-xr-x 1 root wheel 581 May 14 17:07 findsession-rwxr-xr-x 1 root wheel 756 May 14 17:07 fix_subject-rwxr-xr-x 1 root wheel 1114 May 14 17:07 fix_subject-lh-rwxr-xr-x 1 root wheel 1114 May 14 17:07 fix_subject-rh-rwxr-xr-x 1 root wheel 731 May 14 17:07 fix_subject_corrected-rwxr-xr-x 1 root wheel 1447 May 14 17:07 fix_subject_corrected-lh-rwxr-xr-x 1 root wheel 1358 May 14 17:07 fix_subject_corrected-rh-rwxr-xr-x 1 root wheel 952 May 14 17:07 fix_subject_on_seychelles-rwxr-xr-x 1 root wheel 3369 May 14 17:07 fixup_mni_paths-rwxr-xr-x 1 root wheel 5781 May 14 17:07 flip4fsl-rwxr-xr-x 1 root wheel 23072 May 14 17:07 flip_4dfp-rwxr-xr-x 1 root wheel 9859960 May 14 17:07 flirt.fsl-rw-r--r-- 1 root wheel 2919 May 14 17:07 flirt.newdefault.20080811.sch-rwxr-xr-x 1 root wheel 1408 May 14 17:07 fname2ext-rwxr-xr-x 1 root wheel 1438 May 14 17:07 fname2stem-rwxr-xr-x 1 root wheel 855 May 14 17:07 freesurfer-rwxr-xr-x 1 root wheel 184 May 14 17:07 freeview-rwxr-xr-x 1 root wheel 445424 May 14 17:07 fsPrintHelp-rwxr-xr-x 1 root wheel 4352 May 14 17:07 fs_lib_check-rwxr-xr-x 1 root wheel 635 May 14 17:07 fs_time-rwxr-xr-x 1 root wheel 7691 May 14 17:07 fscalc-rwxr-xr-x 1 root wheel 5794 May 14 17:07 fscalc.fsl-rwxr-xr-x 1 root wheel 138 May 14 17:07 fsfget-rwxr-xr-x 1 root wheel 4391 May 14 17:07 fsfget.tcl-rwxr-xr-x 1 root wheel 2815 May 14 17:07 fsgd_parser.py-rwxr-xr-x 1 root wheel 445424 May 14 17:07 fshelp-rwxr-xr-x 1 root wheel 6368760 May 14 17:08 fsl_label2voxel-rwxr-xr-x 1 root wheel 15462 May 14 17:08 fsl_rigid_register-rwxr-xr-x 1 root wheel 16491 May 14 17:08 fsl_sub_mgh-rwxr-xr-x 1 root wheel 11157384 May 14 17:08 fslmaths.fsl-rwxr-xr-x 1 root wheel 8657972 May 14 17:08 fslorient.fsl-rwxr-xr-x 1 root wheel 20703 May 14 17:08 fslregister-rwxr-xr-x 1 root wheel 5964 May 14 17:08 fslswapdim.fsl-rwxr-xr-x 1 root wheel 445424 May 14 17:08 fsman-rwxr-xr-x 1 root wheel 1340 May 14 17:08 fsr-checkxopts-rwxr-xr-x 1 root wheel 1479 May 14 17:08 fsr-getxopts-rwxr-xr-x 1 root wheel 14608 May 14 17:08 fsutils.py-rwxr-xr-x 1 root wheel 236204 May 14 17:08 gauss_4dfp-rwxr-xr-x 1 root wheel 1069708 May 14 17:08 gca_read_test-rwxr-xr-x 1 root wheel 449800 May 14 17:08 gcamCompare-rwxr-xr-x 1 root wheel 1133256 May 14 17:08 gcam_addstatus_test-rwxr-xr-x 1 root wheel 818320 May 14 17:08 gcam_addstatus_test_cuda-rwxr-xr-x 1 root wheel 1167736 May 14 17:08 gcam_applygradient_test-rwxr-xr-x 1 root wheel 1266424 May 14 17:08 gcam_applygradient_test_cuda-rwxr-xr-x 1 root wheel 1092372 May 14 17:08 gcam_clear_test-rwxr-xr-x 1 root wheel 1217244 May 14 17:08 gcam_clear_test_cuda-rwxr-xr-x 1 root wheel 1101124 May 14 17:08 gcam_cmp_test-rwxr-xr-x 1 root wheel 818320 May 14 17:08 gcam_cmp_test_cuda-rwxr-xr-x 1 root wheel 6710676 May 14 17:08 gcam_jacobenergy_test-rwxr-xr-x 1 root wheel 818352 May 14 17:08 gcam_jacobenergy_test_cuda-rwxr-xr-x 1 root wheel 1146064 May 14 17:08 gcam_jacobterm_test-rwxr-xr-x 1 root wheel 818320 May 14 17:08 gcam_jacobterm_test_cuda-rwxr-xr-x 1 root wheel 1064196 May 14 17:08 gcam_labelenergy_test-rwxr-xr-x 1 root wheel 818328 May 14 17:08 gcam_labelenergy_test_cuda-rwxr-xr-x 1 root wheel 6784284 May 14 17:08 gcam_labelterm_copydeltas_test-rwxr-xr-x 1 root wheel 822472 May 14 17:08 gcam_labelterm_copydeltas_test_cuda-rwxr-xr-x 1 root wheel 6784284 May 14 17:08 gcam_labelterm_final_test-rwxr-xr-x 1 root wheel 822472 May 14 17:08 gcam_labelterm_final_test_cuda-rwxr-xr-x 1 root wheel 6897540 May 14 17:08 gcam_labelterm_mainloop_test-rwxr-xr-x 1 root wheel 822528 May 14 17:08 gcam_labelterm_mainloop_test_cuda-rwxr-xr-x 1 root wheel 6802372 May 14 17:08 gcam_labelterm_postantconsist_test-rwxr-xr-x 1 root wheel 822496 May 14 17:08 gcam_labelterm_postantconsist_test_cuda-rwxr-xr-x 1 root wheel 6869460 May 14 17:08 gcam_labelterm_removeoutliers_test-rwxr-xr-x 1 root wheel 822296 May 14 17:08 gcam_labelterm_removeoutliers_test_cuda-rwxr-xr-x 1 root wheel 6910236 May 14 17:08 gcam_labelterm_test-rwxr-xr-x 1 root wheel 822504 May 14 17:08 gcam_labelterm_test_cuda-rwxr-xr-x 1 root wheel 6735988 May 14 17:08 gcam_lle_test-rwxr-xr-x 1 root wheel 818352 May 14 17:08 gcam_lle_test_cuda-rwxr-xr-x 1 root wheel 6792924 May 14 17:08 gcam_llterm_test-rwxr-xr-x 1 root wheel 822504 May 14 17:08 gcam_llterm_test_cuda-rwxr-xr-x 1 root wheel 6871988 May 14 17:08 gcam_removesingularities_test-rwxr-xr-x 1 root wheel 1266080 May 14 17:08 gcam_removesingularities_test_cuda-rwxr-xr-x 1 root wheel 1133256 May 14 17:08 gcam_removestatus_test-rwxr-xr-x 1 root wheel 818320 May 14 17:08 gcam_removestatus_test_cuda-rwxr-xr-x 1 root wheel 6867788 May 14 17:08 gcam_smoothgradient_test-rwxr-xr-x 1 root wheel 818320 May 14 17:08 gcam_smoothgradient_test_cuda-rwxr-xr-x 1 root wheel 1064212 May 14 17:08 gcam_smoothnessenergy_test-rwxr-xr-x 1 root wheel 818328 May 14 17:08 gcam_smoothnessenergy_test_cuda-rwxr-xr-x 1 root wheel 1137616 May 14 17:08 gcam_smoothnessterm_test-rwxr-xr-x 1 root wheel 818320 May 14 17:08 gcam_smoothnessterm_test_cuda-rwxr-xr-x 1 root wheel 1092340 May 14 17:08 gcam_undogradient_test-rwxr-xr-x 1 root wheel 1217244 May 14 17:08 gcam_undogradient_test_cuda-rwxr-xr-x 1 root wheel 1092260 May 14 17:08 gcam_write_test-rwxr-xr-x 1 root wheel 1403736 May 14 17:08 gcam_write_test_cuda-rwxr-xr-x 1 root wheel 783 May 14 17:08 get_label_thickness-rwxr-xr-x 1 root wheel 968 May 14 17:08 getfullpath-rwxr-xr-x 1 root wheel 205384 May 14 17:08 gifti_test-rwxr-xr-x 1 root wheel 280720 May 14 17:08 gifti_tool-rwxr-xr-x 1 root wheel 16812 May 14 17:08 grad_unwarp-rwxr-xr-x 1 root wheel 228 May 14 17:08 help_xml_validate-rwxr-xr-x 1 root wheel 6668372 May 14 17:08 hiam_make_surfaces-rwxr-xr-x 1 root wheel 6723212 May 14 17:08 hiam_make_template-rwxr-xr-x 1 root wheel 6839244 May 14 17:08 hiam_register-rwxr-xr-x 1 root wheel 6470716 May 14 17:08 histo_compute_joint_density-rwxr-xr-x 1 root wheel 6449756 May 14 17:08 histo_fix_topology-rwxr-xr-x 1 root wheel 6557828 May 14 17:08 histo_register_block-rwxr-xr-x 1 root wheel 6449748 May 14 17:08 histo_segment-rwxr-xr-x 1 root wheel 6462572 May 14 17:08 histo_synthesize-rwxr-xr-x 1 root wheel 13344 May 14 17:08 ico_supersample-rw-r--r-- 1 root wheel 128 May 14 17:08 id.xfm-rwxr-xr-x 1 root wheel 18444 May 14 17:08 ifh2hdr-rwxr-xr-x 1 root wheel 260684 May 14 17:08 imgreg_4dfp-rwxr-xr-x 1 root wheel 993 May 14 17:08 inflate_subject-rwxr-xr-x 1 root wheel 979 May 14 17:08 inflate_subject-lh-rwxr-xr-x 1 root wheel 978 May 14 17:08 inflate_subject-rh-rwxr-xr-x 1 root wheel 1080 May 14 17:08 inflate_subject3-rwxr-xr-x 1 root wheel 1050 May 14 17:08 inflate_subject_new-rwxr-xr-x 1 root wheel 992 May 14 17:08 inflate_subject_new-lh-rwxr-xr-x 1 root wheel 995 May 14 17:08 inflate_subject_new-rh-rwxr-xr-x 1 root wheel 1060 May 14 17:08 inflate_subject_sc-rwxr-xr-x 1 root wheel 1857 May 14 17:08 is-surface-rwxr-xr-x 1 root wheel 1133 May 14 17:08 isanalyze-rwxr-xr-x 1 root wheel 1377 May 14 17:08 isnifti-rw-------@ 1 Stefano wheel 46574724 Mar 22 20:48 kvl.zip-rwxr-xr-x 1 root wheel 5059016 May 14 17:08 kvlAddBorder-rwxr-xr-x 1 root wheel 386448 May 14 17:08 kvlAddMeshToMeshCollection-rwxr-xr-x 1 root wheel 5123480 May 14 17:08 kvlAddProbabilityImages-rwxr-xr-x 1 root wheel 5776276 May 14 17:08 kvlApplyTransform-rwxr-xr-x 1 root wheel 5054592 May 14 17:08 kvlAugmentManualSegmentationWithAutomatedSegmentation-rwxr-xr-x 1 root wheel 5269008 May 14 17:08 kvlAutoCrop-rwxr-xr-x 1 root wheel 5233008 May 14 17:09 kvlBinaryThresholdImage-rwxr-xr-x 1 root wheel 5458048 May 14 17:09 kvlCalculateAtlasMeshCollectionTotalCost-rwxr-xr-x 1 root wheel 5410272 May 14 17:09 kvlCalculatePositionCost-rwxr-xr-x 1 root wheel 386576 May 14 17:09 kvlChangeKOfMeshCollection-rwxr-xr-x 1 root wheel 386576 May 14 17:09 kvlChangePointParametersOfMeshCollection-rwxr-xr-x 1 root wheel 5141260 May 14 17:09 kvlColorCodeProbabilityImages-rwxr-xr-x 1 root wheel 5054592 May 14 17:09 kvlCombineManualSegmentationProtocols-rwxr-xr-x 1 root wheel 5147652 May 14 17:09 kvlCompressImage-rwxr-xr-x 1 root wheel 5099284 May 14 17:09 kvlConvert-rwxr-xr-x 1 root wheel 5054592 May 14 17:09 kvlCorrectLeftSideLabelsToRightSideLabels-rwxr-xr-x 1 root wheel 5064152 May 14 17:09 kvlCrop-rwxr-xr-x 1 root wheel 5331608 May 14 17:09 kvlCropImage-rwxr-xr-x 1 root wheel 6325772 May 14 17:09 kvlEMSegment-rwxr-xr-x 1 root wheel 5041884 May 14 17:09 kvlEvaluateQuantitatively-rwxr-xr-x 1 root wheel 5540468 May 14 17:09 kvlEvaluateQuantitativelyWithHausdorffDistance-rwxr-xr-x 1 root wheel 659156 May 14 17:09 kvlMapDeformationField-rwxr-xr-x 1 root wheel 409828 May 14 17:09 kvlMapLabelsOfAtlasMesh-rwxr-xr-x 1 root wheel 5185832 May 14 17:09 kvlMaskImage-rwxr-xr-x 1 root wheel 5567716 May 14 17:09 kvlMathematicalMorphology-rwxr-xr-x 1 root wheel 386400 May 14 17:09 kvlMergeMeshCollections-rwxr-xr-x 1 root wheel 5469044 May 14 17:09 kvlOptimizePositionsWithICM-rwxr-xr-x 1 root wheel 5058872 May 14 17:09 kvlOverwriteEmptySlices-rwxr-xr-x 1 root wheel 7925 May 14 17:09 kvlQuantifyHippocampalSubfieldSegmentations.sh-rwxr-xr-x 1 root wheel 5068640 May 14 17:09 kvlQuantifyPosteriorProbabilityImages-rwxr-xr-x 1 root wheel 5474896 May 14 17:09 kvlRasterizeAtlasMesh-rwxr-xr-x 1 root wheel 5189624 May 14 17:09 kvlReduceNumberOfIntensityLevels-rwxr-xr-x 1 root wheel 6419628 May 14 17:09 kvlRegister-rwxr-xr-x 1 root wheel 5447184 May 14 17:09 kvlResample-rwxr-xr-x 1 root wheel 5779196 May 14 17:09 kvlSamplePositionsFromMeshCollection-rwxr-xr-x 1 root wheel 386576 May 14 17:09 kvlScaleMeshCollection-rwxr-xr-x 1 root wheel 13393 May 14 17:09 kvlSegmentHippocampalSubfields.sh-rwxr-xr-x 1 root wheel 6576776 May 14 17:09 kvlSegmentWithoutGUI-rwxr-xr-x 1 root wheel 87 May 14 17:09 kvlSetHardCodedLocations.sh-rwxr-xr-x 1 root wheel 386944 May 14 17:09 kvlSetReferencePosition-rwxr-xr-x 1 root wheel 398500 May 14 17:09 kvlSmoothMesh-rwxr-xr-x 1 root wheel 3772 May 14 17:09 kvlTestHippocampalSubfields.sh-rwxr-xr-x 1 root wheel 5252204 May 14 17:09 kvlUpsample-rwxr-xr-x 1 root wheel 707040 May 14 17:09 kvlUpsampleMesh-rwxr-xr-x 1 root wheel 1685 May 14 17:09 kww_setup-rwxr-xr-x 1 root wheel 6568164 May 14 17:09 label2flat-rwxr-xr-x 1 root 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17:09 long_submit_postproc-rwxr-xr-x 1 root wheel 13038 May 14 17:09 lpcregister-rwxr-xr-x 1 root wheel 6416496 May 14 17:09 lta_diff-rwxr-xr-x 1 root wheel 7565 May 14 17:09 make-segvol-table-rwxr-xr-x 1 root wheel 7465 May 14 17:09 make_average_subcort-rwxr-xr-x 1 root wheel 9386 May 14 17:09 make_average_subject-rwxr-xr-x 1 root wheel 19017 May 14 17:09 make_average_surface-rwxr-xr-x 1 root wheel 14641 May 14 17:09 make_average_volume-rwxr-xr-x 1 root wheel 4176 May 14 17:09 make_cortex_label-rwxr-xr-x 1 root wheel 2230 May 14 17:09 make_hemi_mask-rwxr-xr-x 1 root wheel 2088 May 14 17:09 make_symmetric-rwxr-xr-x 1 root wheel 2198 May 14 17:09 make_upright-rwxr-xr-x 1 root wheel 6437328 May 14 17:09 makevol-rwxr-xr-x 1 root wheel 915 May 14 17:09 map_all_labels-rwxr-xr-x 1 root wheel 809 May 14 17:09 map_all_labels-lh-rwxr-xr-x 1 root wheel 849 May 14 17:09 map_central_sulcus-rwxr-xr-x 1 root wheel 2726 May 14 17:09 map_to_base-rwxr-xr-x 1 root wheel 6772308 May 14 17:09 meanfilter_test-rwxr-xr-x 1 root wheel 7137180 May 14 17:09 meanfilter_test_cuda-rwxr-xr-x 1 root wheel 3747 May 14 17:09 meanval-rwxr-xr-x 1 root wheel 20796 May 14 17:09 merge_stats_tables-rwxr-xr-x 1 root wheel 3506 May 14 17:09 minc2seqinfo-rwxr-xr-x 1 root wheel 694 May 14 17:09 misc.py-rwxr-xr-x 1 root wheel 19858 May 14 17:09 mkfsdist-rwxr-xr-x 1 root wheel 9407 May 14 17:09 mkheadsurf-rwxr-xr-x 1 root wheel 555 May 14 17:09 mkima_index.tcl-rwxr-xr-x 1 root wheel 555 May 14 17:09 mkmnc_index.tcl-rwxr-xr-x 1 root wheel 1694 May 14 17:09 mksubjdirs-rwxr-xr-x 1 root wheel 7215 May 14 17:09 mksurfatlas-rwxr-xr-x 1 root wheel 6400044 May 14 17:09 mkxsubjreg-rwxr-xr-x 1 root wheel 6222 May 14 17:09 mni152reg-rwxr-xr-x 1 root wheel 713 May 14 17:09 morph_only_subject-rwxr-xr-x 1 root wheel 989 May 14 17:09 morph_only_subject-lh-rwxr-xr-x 1 root wheel 989 May 14 17:09 morph_only_subject-rh-rwxr-xr-x 1 root wheel 1802 May 14 17:09 morph_rgb-lh-rwxr-xr-x 1 root wheel 1697 May 14 17:09 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May 14 17:15 mris_convert-rwxr-xr-x 1 root wheel 7075312 May 14 17:15 mris_curvature-rwxr-xr-x 1 root wheel 6681628 May 14 17:15 mris_curvature_stats-rwxr-xr-x 1 root wheel 7059836 May 14 17:15 mris_deform-rwxr-xr-x 1 root wheel 6533908 May 14 17:15 mris_density-rwxr-xr-x 1 root wheel 6533604 May 14 17:15 mris_diff-rwxr-xr-x 1 root wheel 6516924 May 14 17:15 mris_distance_map-rwxr-xr-x 1 root wheel 6557252 May 14 17:15 mris_distance_to_label-rwxr-xr-x 1 root wheel 6622540 May 14 17:15 mris_distance_transform-rwxr-xr-x 1 root wheel 6550828 May 14 17:15 mris_divide_parcellation-rwxr-xr-x 1 root wheel 6458332 May 14 17:15 mris_entropy-rwxr-xr-x 1 root wheel 6626300 May 14 17:15 mris_errors-rwxr-xr-x 1 root wheel 6898552 May 14 17:15 mris_euler_number-rwxr-xr-x 1 root wheel 6851748 May 14 17:15 mris_expand-rwxr-xr-x 1 root wheel 6919364 May 14 17:15 mris_extract_main_component-rwxr-xr-x 1 root wheel 6876788 May 14 17:15 mris_exvivo_surfaces-rwxr-xr-x 1 root wheel 80480 May 14 17:15 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mris_topo_fixer-rwxr-xr-x 1 root wheel 6587956 May 14 17:17 mris_transform-rwxr-xr-x 1 root wheel 6458356 May 14 17:17 mris_translate_annotation-rwxr-xr-x 1 root wheel 6571324 May 14 17:17 mris_twoclass-rwxr-xr-x 1 root wheel 7048064 May 14 17:17 mris_volmask-rwxr-xr-x 1 root wheel 7024080 May 14 17:17 mris_volmask_novtk-rwxr-xr-x 1 root wheel 81 May 14 17:17 mris_volmask_vtk-rwxr-xr-x 1 root wheel 7008888 May 14 17:17 mris_volmask_vtk.bin-rwxr-xr-x 1 root wheel 11555 May 14 17:17 mris_volsmooth-rwxr-xr-x 1 root wheel 6454212 May 14 17:17 mris_volume-rwxr-xr-x 1 root wheel 6525444 May 14 17:17 mris_w_to_curv-rwxr-xr-x 1 root wheel 6529676 May 14 17:17 mris_wm_volume-rwxr-xr-x 1 root wheel 7058520 May 14 17:17 mrisp_paint-rwxr-xr-x 1 root wheel 927 May 14 17:17 ms_refine_subject-rwxr-xr-x 1 root wheel 361548 May 14 17:17 nmovie-rwxr-xr-x 1 root wheel 171716 May 14 17:17 optseq2-rwxr-xr-x 1 root wheel 15570 May 14 17:17 parc_atlas_jackknife_test-rwxr-xr-x 1 root wheel 8818 May 14 17:17 pctsurfcon-rwxr-xr-x 1 root wheel 2283 May 14 17:17 petsc_setup-rwxr-xr-x 1 root wheel 22465 May 14 17:17 plot_structure_stats.tcl-rwxr-xr-x 1 root wheel 4323 May 14 17:17 predict_v1.sh-rwxr-xr-x 1 root wheel 26812 May 14 17:17 progressbar.tcl-rwxr-xr-x 1 root wheel 259 May 14 17:17 qdec-rwxr-xr-x 1 root wheel 8733444 May 14 17:17 qdec.bin-rwxr-xr-x 1 root wheel 658640 May 14 17:17 qdec_glmfit-rwxr-xr-x 1 root wheel 1764 May 14 17:17 qt_setup-rwxr-xr-x 1 root wheel 209408 May 14 17:17 rbftest-rwxr-xr-x 1 root wheel 7611 May 14 17:17 rcbf-prep-rwxr-xr-x 1 root wheel 15908 May 14 17:17 rebuild_gca_atlas.csh-rwxr-xr-x 1 root wheel 268538 May 14 17:17 recon-all-rwxr-xr-x 1 root wheel 23095 May 14 17:17 recon-all.makefile-rwxr-xr-x 1 root wheel 22846 May 14 17:17 reg-feat2anat-rwxr-xr-x 1 root wheel 4341 May 14 17:17 reg-mni305.2mm-rwxr-xr-x 1 root wheel 6376400 May 14 17:17 regdat2xfm-rwxr-xr-x 1 root wheel 2503 May 14 17:17 register.csh-rwxr-xr-x 1 root wheel 972 May 14 17:17 register_child-rwxr-xr-x 1 root wheel 1106 May 14 17:17 register_elderly_subject-rwxr-xr-x 1 root wheel 971 May 14 17:17 register_subject-rwxr-xr-x 1 root wheel 967 May 14 17:17 register_subject_flash-rwxr-xr-x 1 root wheel 986 May 14 17:17 register_subject_mixed-rwxr-xr-x 1 root wheel 763 May 14 17:17 reinflate_subject-rwxr-xr-x 1 root wheel 931 May 14 17:17 reinflate_subject-lh-rwxr-xr-x 1 root wheel 931 May 14 17:17 reinflate_subject-rh-rwxr-xr-x 1 root wheel 993 May 14 17:17 remove_talairach-rwxr-xr-x 1 root wheel 763 May 14 17:17 renormalize_T1_subject-rwxr-xr-x 1 root wheel 788 May 14 17:17 renormalize_subject-rwxr-xr-x 1 root wheel 1002 May 14 17:17 renormalize_subject_keep_editting-rwxr-xr-x 1 root wheel 75392 May 14 17:17 repair_siemens_file-rwxr-xr-x 1 root wheel 948 May 14 17:17 reregister_subject_mixed-rwxr-xr-x 1 root wheel 9158 May 14 17:17 rtview-rwxr-xr-x 1 root wheel 6291 May 14 17:17 run-qdec-glm-rwxr-xr-x 1 root wheel 3732 May 14 17:17 run_mris_preproc-rwxr-xr-x 1 root wheel 1676 May 14 17:17 segment_monkey-rwxr-xr-x 1 root wheel 1443 May 14 17:17 segment_subject-rwxr-xr-x 1 root wheel 1732 May 14 17:17 segment_subject_notal-rwxr-xr-x 1 root wheel 1545 May 14 17:17 segment_subject_notal2-rwxr-xr-x 1 root wheel 1516 May 14 17:17 segment_subject_old_skull_strip-rwxr-xr-x 1 root wheel 1585 May 14 17:17 segment_subject_sc-rwxr-xr-x 1 root wheel 1599 May 14 17:17 segment_subject_talmgh-rwxr-xr-x 1 root wheel 3330 May 14 17:17 setlabelstat-rwxr-xr-x 1 root wheel 10224 May 14 17:17 sfa2fieldsign-rwxr-xr-x 1 root wheel 774 May 14 17:17 show_tal-rwxr-xr-x 1 root wheel 220 May 14 17:17 skip_long_make_checks-rwxr-xr-x 1 root wheel 8771600 May 14 17:17 slicetimer.fsl-rwxr-xr-x 1 root wheel 707 May 14 17:17 sphere_subject-rwxr-xr-x 1 root wheel 882 May 14 17:17 sphere_subject-lh-rwxr-xr-x 1 root wheel 881 May 14 17:17 sphere_subject-rh-rwxr-xr-x 1 root wheel 6558884 May 14 17:17 spherical_stats-rwxr-xr-x 1 root wheel 1802 May 14 17:17 spm_t_to_b-rwxr-xr-x 1 root wheel 5922 May 14 17:17 spmmat2register-rwxr-xr-x 1 root wheel 21612 May 14 17:17 spmregister-rwxr-xr-x 1 root wheel 2455 May 14 17:17 sratio-rwxr-xr-x 1 root wheel 6554748 May 14 17:17 stat_normalize-rwxr-xr-x 1 root wheel 1829 May 14 17:17 stem2fname-rwxr-xr-x 1 root wheel 8756 May 14 17:17 stim_polar-rwxr-xr-x 1 root wheel 556 May 14 17:17 subject_info.py-rwxr-xr-x 1 root wheel 10583672 May 14 17:17 surf2vol-rwxr-xr-x 1 root wheel 7698 May 14 17:17 surfreg-rwxr-xr-x 1 root wheel 1494 May 14 17:17 t4img_4dfp-rwxr-xr-x 1 root wheel 265468 May 14 17:17 t4imgs_4dfp-rwxr-xr-x 1 root wheel 1049 May 14 17:17 tal_QC_AZS-rwxr-xr-x 1 root wheel 856 May 14 17:17 tal_compare-rwxr-xr-x 1 root wheel 5185 May 14 17:17 talairach-rwxr-xr-x 1 root wheel 3115 May 14 17:17 talairach2-rwxr-xr-x 1 root wheel 6835816 May 14 17:17 talairach_afd-rwxr-xr-x 1 root wheel 5387 May 14 17:17 talairach_avi-rwxr-xr-x 1 root wheel 1132 May 14 17:17 talairach_mgh-rwxr-xr-x 1 root wheel 14605 May 14 17:17 talsegprob-rwxr-xr-x 1 root wheel 2405 May 14 17:17 tcl_setup-rwxr-xr-x 1 root wheel 10407 May 14 17:17 test_fs_tutorial.csh-rwxr-xr-x 1 root wheel 25884 May 14 17:17 test_recon-all.csh-rwxr-xr-x 1 root wheel 668968 May 14 17:17 tetgen-rwxr-xr-x 1 root wheel 3231 May 14 17:17 thickdiffmap-rwxr-xr-x 1 root wheel 102 May 14 17:17 tkmedit-rwxr-xr-x 1 root wheel 8859 May 14 17:17 tkmeditfv-rwxr-xr-x 1 root wheel 106 May 14 17:17 tkregister2-rwxr-xr-x 1 root wheel 6493700 May 14 17:17 tkregister2_cmdl-rwxr-xr-x 1 root wheel 103 May 14 17:17 tksurfer-rwxr-xr-x 1 root wheel 43553 May 14 17:17 trac-all-rwxr-xr-x 1 root wheel 26633 May 14 17:17 trac-paths-rwxr-xr-x 1 root wheel 58360 May 14 17:17 trac-preproc-rwxr-xr-x 1 root wheel 15106 May 14 17:17 tractstats2table-rwxr-xr-x 1 root wheel 75180 May 14 17:17 tridec-rwxr-xr-x 1 root wheel 110675 May 14 17:17 unpack_ima.tcl-rwxr-xr-x 1 root wheel 45265 May 14 17:17 unpack_ima1.tcl-rwxr-xr-x 1 root wheel 38901 May 14 17:17 unpack_mnc.tcl-rwxr-xr-x 1 root wheel 6596 May 14 17:17 unpackimadir-rwxr-xr-x 1 root wheel 35562 May 14 17:17 unpackimadir2-rwxr-xr-x 1 root wheel 18546 May 14 17:17 unpackmincdir-rwxr-xr-x 1 root wheel 145 May 14 17:17 unpacksdcmdir-rwxr-xr-x 1 root wheel 46836 May 14 17:17 unpacksdcmdir.tcl-rwxr-xr-x 1 root wheel 4690 May 14 17:17 usbtree-rwxr-xr-x 1 root wheel 3743 May 14 17:17 vno_match_check-rwxr-xr-x 1 root wheel 7108540 May 14 17:18 volume_copy_test_cuda-rwxr-xr-x 1 root wheel 4659 May 14 17:18 vsm-smooth-rwxr-xr-x 1 root wheel 3339 May 14 17:18 vtk_setup-rwxr-xr-x 1 root wheel 5376 May 14 17:18 wfilemask-rwxr-xr-x 1 root wheel 7046 May 14 17:18 wm-anat-snr-rwxr-xr-x 1 root wheel 2550 May 14 17:18 xfmrot-rwxr-xr-x 1 root wheel 9128 May 14 17:18 xhemireg-rwxr-xr-x 1 root wheel 445416 May 14 17:18 xmlToHtml-rwxr-xr-x 1 root wheel 5265 May 14 17:18 xsanatreg-rwxr-xr-x 1 root wheel 23032 May 14 17:18 zero_lt_4dfp

----Messaggio originale---- Da: zkaufman@nmr.mgh.harvard.edu Data: 7-giu-2013 18.02 A: freesurfer@nmr.mgh.harvard.edu Ogg: Re: [Freesurfer] mris resample: Command not found. This error is permanent after new patch download

Stefano, step 4 should be:

"chmod +x $FREESURFER_HOME/bin/mris_resample"

When you do an "ls -l" in the $FREESURFER_HOME/bin directory, you need to see the to see the x's next to mris_resample just like you do with all the other files in that directory.

-Zeke

On 06/07/2013 11:49 AM, stdp82@virgilio.it wrote:

Hi list,

during trac-all -prep I have this error:

MRISregister() return, current seed 0 writing registered surface to /Applications/freesurfer/subjects/subject_prova/Diff03/surf/rh.cvs.tocvs_avg35.sphere.reg... expanding nbhd size to 1 mris_resample: Command not found. Darwin iMac

I have performed my analysis by the following steps (as recommended by Zeke and Lilla):

1. download "unKnow" file (7.6 MB) at

ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/patches/mris_resample 2. put file in $FREESURFER/bin/ 4. chmod +x ~/mris_resample as recommended by Daniel (in the first test I did not use this command) 5. start trac-all -prep 6. ERROR (in inter-reg step)

What's happen?

Thank you very much,

Stefano

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