Dear all,
when applying the B0 unwarping in FEAT I ran into some troubles that I can't solve myself. Before using FEAT, I convert my dicom files to nii, reorient them if needed with fslreorient2std and bet the structural. So far, applying the unwraping was never a problem for me, but - for reasons I don't understand - it doesn't work with data I have acquired recently. It seems that most parts of the unwraping process work without any troubles, but the part "fieldmap2edges" stops a one point. In the htlm report the figure titled "White matter edges, overlaid on top of fieldmap image" remains empty and the log shows the following error:
/usr/local/fsl/bin/slicer fieldmap2edges -s 3 -x 0.35 sla.png -x 0.45 slb.png -x 0.55 slc.png -x 0.65 sld.png -y 0.35 sle.png -y 0.45 slf.png -y 0.55 slg.png -y 0.65 slh.png -z 0.35 sli.png -z 0.45 slj.png -z 0.55 slk.png -z 0.65 sll.png ; /usr/local/fsl/bin/pngappend sla.png + slb.png + slc.png + sld.png + sle.png + slf.png + slg.png + slh.png + sli.png + slj.png + slk.png + sll.png fieldmap2edges.png; rm sl?.png
slicer(56048,0x7fff76b0d310) malloc: *** mach_vm_map(size=18446744071830503424) failed (error code=3)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
slicer(56048,0x7fff76b0d310) malloc: *** mach_vm_map(size=18446744071830503424) failed (error code=3)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
slicer(56048,0x7fff76b0d310) malloc: *** mach_vm_map(size=18446744071830503424) failed (error code=3)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
sh: line 1: 56048 Segmentation fault: 11 /usr/local/fsl/bin/slicer fieldmap2edges -s 3 -x 0.35 sla.png -x 0.45 slb.png -x 0.55 slc.png -x 0.65 sld.png -y 0.35 sle.png -y 0.45 slf.png -y 0.55 slg.png -y 0.65 slh.png -z 0.35 sli.png -z 0.45 slj.png -z 0.55 slk.png -z 0.65 sll.png
Cannot open sla.png for reading
rm: sl?.png: No such file or directory
What confuses me is that when applying the unwraping to data that was not reoriented (and obviously not in the correct orientation) it works, it even works without applying bet to the structural and not doing the reorientation. I tried different structural images and field maps (both acquired with parameters that I uses without problems in the unwrapping before). I also tried it on different computers and servers ensuring that there is enough space and working memory. But all that did not help, I tried to apply the unwraping to the reoriented data, the message above appears and the above mentioned figure is not generated. It also doesn't help to apply the reorient command to all files, i.e. the structural, the epi, and the field map files.
Please find the complete log report here:https://www.dropbox.com/s/rz95u4cb0yth429/report_log.html?dl=0
Any help is highly appreciated.
Susanne
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