this is actually not part of FreeSurfer proper, but rather something that Avi Synder (ccd) was kind enough to contribute. Avi: can you comment?
thanks Bruce On Tue, 3 Jan 2012, LAOUCHEDI MAKHLOUF wrote:
hi everyone we run recon-all on a cloud and we obtained this error:
mpr2mni305 failed, see transforms/talairach_avi.log
The log says the file name is too long perhaps because of the tmp dir file names:
get_4dfp_dimoe:/var/spool/pbs/tmpdir/169536.gridgate.scg.nuigalway.ie/https_3a_2f_2fwms01. ihep.ac.cn_3a9000_2fM72N6GZlEC95pE7rgch5YQ/ws15158/.tmp/8d3aa62d-5994-47e5- ba6d-031806ec9ffb/systemExecTask8201883777111446775/freesurfer/average/711- 2B_as_mni_average_305_mask.4dfp.img filename too long ERROR: 'imgreg_4dfp/var/spool/pbs/tmpdir/169536.gridgate.scg.nuigalway.ie/https_3a_2f_2fwms01. ihep.ac.cn_3a9000_2fM72N6GZlEC95pE7rgch5YQ/ws15158/.tmp/8d3aa62d-5994-47e5- ba6d-031806ec9ffb/systemExecTask8201883777111446775/freesurfer/average/711- 2C_as_mni_average_305 /var/spool/pbs/tmpdir/169536.gridgate.scg.nuigalway.i e/https_3a_2f_2fwms01.ihep.ac.cn_3a9000_2fM72N6GZlEC95pE7rgch5YQ/ws15158/.t mp/8d3aa62d-5994-47e5-ba6d-031806ec9ffb/systemExecTask8201883777111446775/f reesurfer/average/711-2B_as_mni_average_305_masktalsrcimg_g11 none talsrcimg_to_711-2C_as_mni_average_305_t4 4355' failed! status=255
knowing that it is difficult for us to do things differently (to change the path); is it possible to do something in freesurfer to work with thesse filenames ?
thanks for your help