Hello Dr. Greve, The analysis.info file is below. I should also say that, when I am trying to create new analysis and contrast files, while creating the .config file for contrast, th system gives the same error saying that it cannot enter the file.
# FSBUILD freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c # MKAVERSION $Id: mkanalysis-sess,v 1.78 2015/12/10 22:51:30 zkaufman Exp $ # MKACMD /home/vm01/local/freesurfer/fsfast/bin/mkanalysis-sess -surface self lh -analysis rtopyTR2.lh -paradigm rtopy.par -TR 2 -nconditions 1 -event-related -fwhm 5 -per-run -fsd bold -refeventdur 10 -gammafit 2.25 1.25 -force # DATE Tue Jan 30 07:14:05 EST 2018 analysis rtopyTR2.lh mcstem fmcpr fsd bold TR 2 RegDOF 6 PerSession 0 RawSpace surface self lh mask brain RawFWHM 5 RawSTC none nSliceGroups 1 UseB0DC 0 ApplySubCortMask 1 inorm 100 acfbins 30 fixacf 1 acffwhm 20 acfsvd 0 designtype event-related nskip 0 polyfit 2 HPFCutoffHz 0 HeteroGCor 0 nconditions 1 parname rtopy.par RefEventDur 10 timewindow 40.000000 prestim 0 TER 0.050000 gamma 2.25 1.25 2 0 stimulusdelay -1.00000000000000000000 Condition 1 Condition01 Best, Idil ________________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas Greve [gr...@nmr.mgh.harvard.edu] Sent: Saturday, February 03, 2018 9:21 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] fast_selxavg3.m error/analysis.info file Strange. Can you send me the analysis.info file? On 1/31/18 9:26 AM, Yagmur Ozdemir 19 wrote: > Hello Dr. Greve, > > Yes it exists. The output below was with debug option. > > Best > Idil > ________________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas Greve > [gr...@nmr.mgh.harvard.edu] > Sent: Tuesday, January 30, 2018 8:40 PM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] fast_selxavg3.m error/analysis.info file > > Does the file > /home/vm01/local/freesurfer/Project_bold/rtopyTR2.rh/analysis.info exist? If > so, can you run it with -debug as the first option and send the terminal > output? > > On 1/30/18 8:51 AM, Yagmur Ozdemir 19 wrote: > > > Hello FreeSurfer experts, > > I am getting this strange error when running selxavg3-sess. (in selxavg3 > command I am calling the analysis file with: -a rtopyTR2.rh) When the system > enters fast_selxavg3, it cannot read analysis.info, thus produces the > following output: > > #@# Sess05 ############################### > /home/vm01/local/freesurfer/Project_bold/Sess05 > ------------------------- > $Id: fast_selxavg3b.m,v 1.4 2016/05/04 22:16:47 greve Exp $ > ------------------------- > outtop = /home/vm01/local/freesurfer/Project_bold > Extension format = nii.gz > ERROR: could not open rtopyTR2.rh/analysis.info > else > else > echo "------------------------------------------" | tee -a $LF > echo ------------------------------------------ > tee -a > /home/vm01/local/freesurfer/Project_bold/log/selxavg3-sess-bold-rtopyTR2.rh-180130082919.log > ------------------------------------------ > rm $MLF > rm /tmp/selxavg3-sess-10173.m > if ( ! -e $okfile ) then > if ( ! -e /tmp/selxavg3-sess-10173.ok ) then > echo "ERROR: fast_selxavg3() failed\n" ; > echo ERROR: fast_selxavg3() failed\n > ERROR: fast_selxavg3() failed\n > exit 1 ; > exit 1 > > The analysis folder it is referring to( rtopyTR2.rh) is in the directory from > which I am calling selxavg3-sess. It has the analysis.info file in which > doesn't have any restrictions. To troubleshoot, I moved the folder to inside > the session's functional directory and inside the session folder and these > didn't create any changes. I looked at the script and tried to debug there > but didn't give any results. It gave a similar error when trying to open the > config file of contrast in mkcontrast-sess. (I also don't have root > access)Any help is appreciated! > > Best, > Idil > > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
