using the longitudinal stream in v6.0.0, I edited the cross and base runs, but still had to edit the long runs for some subjects. If I understood the LongitudinalEdits Wiki correctly, the long can still be edited if necessary.

Rerunning the respective recon-all command with -autorecon2 -autorecon3 and the edited long run as input did not work. How do I rerun the long correctly while incorporating the edits made directly to the long?

Here you see how I called the procedure:

    anna@anna-K56CM:~/FREESURFER/00_DATA_MABT1T2/08a_MABT1T2_long_edits_transfer/c1$ ls -lisa
    total 20
    8527874 4 drwxrwxr-x  5 anna anna 4096 Apr 15 21:18 .
    8527873 4 drwxrwxr-x 34 anna anna 4096 Apr 15 12:18 ..
    8544378 4 drwxrwxr-x 10 anna anna 4096 Mär 29 23:54 11904_base
    8527875 4 drwxrwxr-x 10 anna anna 4096 Apr 12 23:02 11904_T1_fs_edit.long.11904_base_edit
    8527888 4 drwxrwxr-x 10 anna anna 4096 Apr 12 23:29 11904_T2_fs_edit.long.11904_base_edit
    anna@anna-K56CM:~/FREESURFER/00_DATA_MABT1T2/08a_MABT1T2_long_edits_transfer/c1$ start=`date +%s`
    anna@anna-K56CM:~/FREESURFER/00_DATA_MABT1T2/08a_MABT1T2_long_edits_transfer/c1$ !recon
    recon-all -long 11904_T1_fs_edit.long.11904_base 11904_base -autorecon2 -autorecon3

    Unmatched ".
    anna@anna-K56CM:~/FREESURFER/00_DATA_MABT1T2/08a_MABT1T2_long_edits_transfer/c1$ end=`date +%s`
    anna@anna-K56CM:~/FREESURFER/00_DATA_MABT1T2/08a_MABT1T2_long_edits_transfer/c1$ runtime=$((end-start))
    anna@anna-K56CM:~/FREESURFER/00_DATA_MABT1T2/08a_MABT1T2_long_edits_transfer/c1$ echo $runtime
    10

As you can see, the process ends very quickly (10s) and only gives the error 'Unmatched ".' though I did not open any double quotes when calling the procedure.

Thanks a lot for your help!

Best,

Anna