Re: [Freesurfer] if: Expression Syntax - preproc-sess

External Email - Use Caution 傻逼 别tm给我发消息了！退订  Replied Message | From | Stefano Delli Pizzi | | Date | 03/22/2024 19:03 | | To | Douglas N. Greve | | Cc | Freesurfer support list | | Subject | Re: [Freesurfer] if: Expression Syntax - preproc-sess | External

Re: [Freesurfer] if: Expression Syntax - preproc-sess

External Email - Use Caution II have copied the f.nii.gz file (which contains the functional data filtered by AROMA) and renamed it as 'fmcpr.nii.gz’. Do you agree? The scripts run fine. Stefano > Il giorno 21 mar 2024, alle ore 17:01, Stefano Delli Pizzi > ha scritto: > >

Re: [Freesurfer] if: Expression Syntax - preproc-sess

External Email - Use Caution My command line is fcseed-sess -s 156484 -cfg wm.config. I do not understand where I'm making an error or if a change is needed. Thanks Stefano > Il giorno 21 mar 2024, alle ore 14:35, Douglas N. Greve > ha scritto: > > -funcstem f.even

Re: [Freesurfer] if: Expression Syntax - preproc-sess

What is your fcseed-config command line? If the input is not fmcpr, then you have to set the input when you config, eg, -funcstem f.even On 3/19/2024 11:37 AM, Stefano Delli Pizzi wrote: External Email - Use Caution Thank you Doug. The preproc-sess command line runs fine. An error

Re: [Freesurfer] if: Expression Syntax - preproc-sess

External Email - Use Caution Thank you Doug. The preproc-sess command line runs fine. An error occurs on: fcseed-sess -s ID -cfg wm.config -overwrite ERROR: could not determine file for rs-fMRI_AROMA/ID/rest/001/fmcpr Best regards Stefano > Il giorno 19 mar 2024, alle ore 15:54,

Re: [Freesurfer] if: Expression Syntax - preproc-sess

Hi Stefano, I think I found and fixed the problem. Can you try these? On 3/19/2024 7:30 AM, Stefano Delli Pizzi wrote: External Email - Use Caution Hi Doug, The raw functional file is firstly passed with motion correction (i.e., mc-sess -s ID -fsd rest -per-run) and AROMA filtering.

Re: [Freesurfer] if: Expression Syntax - preproc-sess

Are you sure that you are using the new version that I gave you? It looks like the previous version. Also, it does not look like the entire terminal output. On 3/8/2024 12:11 PM, Stefano Delli Pizzi wrote: External Email - Use Caution The entire terminal output is attached. Thanks!

Re: [Freesurfer] if: Expression Syntax - preproc-sess

External Email - Use CautionThe entire terminal output is attached.Thanks! preproc-141696-rest.log Description: Binary data Il giorno 8 mar 2024, alle ore 15:56, Douglas N. Greve ha scritto:entire terminal

Re: [Freesurfer] if: Expression Syntax - preproc-sess

c up -update -per-run -per-session ) >> if ( $#ProjFrac ) set cmd = ( $cmd -projfrac $ProjFrac -expkey >> $ProjFracExpKey ) >> if ( 0 ) set cmd = ( rawfunc2surf-sess -fwhm 0 -s 091223sbj01m_tp1 -d >> /Users/stefano/Desktop/MODAFINIL/rs-fMRI_AROMA -fsd rest -trgsubject &

Re: [Freesurfer] if: Expression Syntax - preproc-sess

capture the >> copious terminal output. >> >> On 2/6/2024 8:39 AM, Huang, Yujing wrote: >>> Not sure where this happened. Does it produce any log files that you can >>> share? Maybe both logs with and without the -nomc option. >>> >>> Best, >&g

Re: [Freesurfer] if: Expression Syntax - preproc-sess

? Maybe both logs with and without the -nomc option. Best, Yujing *From:* freesurfer-boun...@nmr.mgh.harvard.edu *On Behalf Of *Stefano Delli Pizzi *Sent:* Saturday, February 3, 2024 2:33 PM *To:* freesurfer@nmr.mgh.harvard.edu *Subject:* [Freesurfer] if: Expression Syntax - preproc-sess

Re: [Freesurfer] if: Expression Syntax - preproc-sess with -nomc option

t; > Best, > > Yujing > > From: freesurfer-boun...@nmr.mgh.harvard.edu > On Behalf Of Stefano Delli Pizzi > Sent: Tuesday, February 13, 2024 4:32 AM > To: Greve, Douglas N.,Ph.D. ; Freesurfer support list > > Subject: Re: [Freesurfer] if: Expression Syntax

Re: [Freesurfer] if: Expression Syntax - preproc-sess with -nomc option

N.,Ph.D. ; Freesurfer support list Subject: Re: [Freesurfer] if: Expression Syntax - preproc-sess with -nomc option External Email - Use Caution Thank you. Stefano Binarizing based on threshold min1e-09 max+infinity binval1 binvalnot 0 fstart = 0, fend = 0

Re: [Freesurfer] if: Expression Syntax - preproc-sess with -nomc option

External Email - Use Caution Thank you. Stefano Binarizing based on threshold min1e-09 max+infinity binval1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Found 149926 values in range Counting number of voxels in first frame Found 149925 voxels in final

Re: [Freesurfer] if: Expression Syntax - preproc-sess with -nomc option

Can you run it with -debug as the first option, capture the output, and send it to me? It will be a lot of output, so just capture it in a file and send the file, eg preproc-sess -debug -s subj -surface fsaverage lhrh -fwhm 0 -nomc -mni305 -fsd rest -per-run -sliceorder up -force | tee pps.log

Re: [Freesurfer] if: Expression Syntax - preproc-sess

@nmr.mgh.harvard.edu Subject: [Freesurfer] if: Expression Syntax - preproc-sess External Email - Use Caution Hello FreeSurfer Developers, I'm attempting to run preproc-sess with -nomc option preproc-sess -s subj -surface fsaverage lhrh -fwhm 0 -nomc -mni305 -fsd rest -per-run -sliceorder up -force

[Freesurfer] if: Expression Syntax - preproc-sess

External Email - Use Caution Hello FreeSurfer Developers, I'm attempting to run preproc-sess with -nomc option preproc-sess -s subj -surface fsaverage lhrh -fwhm 0 -nomc -mni305 -fsd rest -per-run -sliceorder up -force if: Expression Syntax. This error occurred before to create

[Freesurfer] if: Expression Syntax - preproc-sess with -nomc option

External Email - Use Caution Hello FreeSurfer Developers, I'm attempting to run preproc-sess with -nomc option preproc-sess -s subj -surface fsaverage lhrh -fwhm 0 -nomc -mni305 -fsd rest -per-run -sliceorder up -force if: Expression Syntax. This error occurred before to