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<div style="direction: ltr;font-family: Tahoma;color: #000000;font-size: 10pt;"><font class="Apple-style-span" face="'Times New Roman'" size="3">Hi,</font>
<div><font class="Apple-style-span" face="'Times New Roman'" size="3"><br>
</font></div>
<div><font class="Apple-style-span" face="'Times New Roman'" size="3">I recently installed brains2 on a Mac. I'd like to try out trimodal enhanced images for tracing of thalamus. I only have T1 and T2 images. When I try to generate the enhanced images I get
'Enhancement Successful' image but no new files appear. This is what pops up in terminal:</font></div>
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<div><span class="Apple-style-span" style="-webkit-border-horizontal-spacing: 4px; -webkit-border-vertical-spacing: 4px; ">
<div><font class="Apple-style-span" face="'Courier New'" size="2">b2 load image /Users/annadzieciol/Desktop/Au_t1.hdr </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Object loaded with filter: strictAnalyze75</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">WARNING: 'b2 load image' is loading an image of type SIGNED_16BIT into image memory of type UNSIGNED_8BIT.</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">This will exercise voxel conversion logic that attempts to preserve the nature of the data as per the image file.</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">b2 load image {} </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">b2 load mask {} </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Error Parsing Command Line : </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Option '-f' needs an argument.</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Exit code: 69</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Error Parsing Command Line : </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Option '-f' needs an argument.</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Exit code: 69</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Object loaded with filter: </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">b2 load image /Users/annadzieciol/Desktop/Au_t2_fit.hdr </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Object loaded with filter: strictAnalyze75</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">WARNING: 'b2 load image' is loading an image of type SIGNED_16BIT into image memory of type UNSIGNED_8BIT.</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">This will exercise voxel conversion logic that attempts to preserve the nature of the data as per the image file.</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">b2 load image {} </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">b2 load mask {} </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Error Parsing Command Line : </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Option '-f' needs an argument.</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Exit code: 69</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Error Parsing Command Line : </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Option '-f' needs an argument.</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Exit code: 69</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Object loaded with filter: </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">b2 load image /Users/annadzieciol/Desktop/Au_t1_enhanced.nii.gz </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">b2 load image /Users/annadzieciol/Desktop/Au_t2_fit_enhanced.nii.gz </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">b2 load table /opt/brains2/bin/tables/pseudoPD.tbl </font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">Object loaded with filter: brains2</font></div>
<div style="font-size: medium; font-family: Times; "><br>
</div>
<div style="font-size: medium; font-family: Times; ">Then when I go to Load Trimodal-Enhanced I get 'Failed to obtain current ACPC directory!' and Application Error: </div>
<div style="font-size: medium; font-family: Times; "><br>
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<div><font class="Apple-style-span" face="'Courier New'" size="2">bad option "-1/._PD_enhanced.nii.gz": must be -directory, -join, -nocomplain, -path, -tails, -types, or --</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">bad option "-1/._PD_enhanced.nii.gz": must be -directory, -join, -nocomplain, -path, -tails, -types, or --</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> while executing</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">"glob -nocomplain -1/._PD_enhanced.nii.gz"</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> ("eval" body line 1)</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> invoked from within</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">"eval "glob -nocomplain ${prefix}${extension}""</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> (procedure "searchPatternFileExists" line 5)</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> invoked from within</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">"searchPatternFileExists ".nii.gz .nii .hdr" "$myPath/${scanId}_PD_enhanced $myPath/${scanId}_pd_enhanced $myPath/${scanId}_${size}_pd_enhanced $myPath..."</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> (procedure "loadTrimodalEnhancedImage" line 17)</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> invoked from within</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">"loadTrimodalEnhancedImage "</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> invoked from within</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">".file.menu.load invoke active"</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> ("uplevel" body line 1)</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> invoked from within</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">"uplevel #0 [list $w invoke active]"</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> (procedure "tk::MenuInvoke" line 50)</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> invoked from within</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2">"tk::MenuInvoke .file.menu.load 1"</font></div>
<div><font class="Apple-style-span" face="'Courier New'" size="2"> (command bound to event) </font></div>
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<div><font class="Apple-style-span" face="'Courier New'" size="2"><br>
</font></div>
<div><font class="Apple-style-span" face="'Times New Roman'" size="3">I would be grateful for any help with this.</font></div>
<div><font class="Apple-style-span" face="'Times New Roman'" size="3"><br>
</font></div>
<div><font class="Apple-style-span" face="'Times New Roman'" size="3">Anna</font></div>
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