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Thanks Michael.
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<div class=""> You also have the option of reading in the DWI data directly as NIFTI, eg</div>
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<div class=""> wdtfit 4Ddwi_b1000.nii.gz dwi.scheme -outputfile dt.Bdouble</div>
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<div class="">You'll still need to increase the available RAM to do this.</div>
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<div class="">On Dec 3, 2018, at 7:36 AM, Michael Dayan <<a href="mailto:mdayan.research@gmail.com" class="">mdayan.research@gmail.com</a>> wrote:</div>
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<div dir="ltr" class="">Hi Maedeh,
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<div class="">You are running out of memory. You have to increase it by changing the maximum value with the following command:</div>
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<div class=""><font face="monospace, monospace" class="">export CAMINO_HEAP_SIZE=2000</font></div>
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<div class="">where 2000 = 2000 Mb and can be set to whatever maximum amount of RAM you want Camino to use (within the amount of RAM you have obviously).</div>
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<div class="">You can do it as a one off by typing this command in your terminal, or set it permanently by writing it in your
<font face="monospace, monospace" class=""><HOME_DIR>/.bashrc</font> file (for the changes to take effect you will need to refresh your current terminal with the new bash settings by typing <font face="monospace, monospace" class="">source ~/.bashrc</font>,
or you can just start a new terminal).</div>
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<div class="">Best,</div>
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<div class="">Michael</div>
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<div dir="ltr" class="">On Sun, Dec 2, 2018 at 5:15 PM maedeh khalilian <<a href="mailto:maedeh.kh73@gmail.com" class="">maedeh.kh73@gmail.com</a>> wrote:<br class="">
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<div class="">Dear Camino experts,</div>
<div class="">I want to reconstruct my DWI image to create dt.Bdouble in order to do a tractography.</div>
<div class="">But when I run the command below:</div>
<div class="">image2voxel -4dimage 4Ddwi_b1000.nii.gz -outputfile dwi.Bfloat<br class="">
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<div class="">I see the error below and the created dt.Bdouble is empty !!</div>
<div class="">Exception in thread "main" java.lang.OutOfMemoryError: Java heap space<br class="">
at data.ScannerOrderDataSource.init(ScannerOrderDataSource.java:169)<br class="">
at data.ScannerOrderDataSource.<init>(ScannerOrderDataSource.java:134)<br class="">
at data.ScannerOrderScaledDataSource.<init>(ScannerOrderScaledDataSource.java:52)<br class="">
at imaging.Nifti1Dataset.getImageDataSource(Nifti1Dataset.java:2312)<br class="">
at apps.ImageToVoxel.execute(ImageToVoxel.java:104)<br class="">
at apps.EntryPoint.main(EntryPoint.java:293)<br class="">
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<div class="">I dunno where the problem is from.</div>
<div class="">let me know if my scheme file and DWI image is necessary for checking.<br class="">
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<div class="">I would be grateful if u could help me.</div>
<div class="">Cheers</div>
<div class="">Maedeh<br class="">
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