AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

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tamtam
December 05, 2020 05:34PM
My apologies, I had edited an older version of the full script. I have included the afni.proc.py I just created below with the parameters I think are "good" for my study.

Thank you again!


# afni_proc.py -subj_id 1423 -script proc.Dec5_2020 -scr_overwrite \
# -blocks tshift align tlrc volreg blur mask scale regress -copy_anat \
# /imaging/Tamara/Youth/1423/1423.anat+orig -dsets \
# /imaging/Tamara/Youth/1423/1423.1+orig.HEAD \
# /imaging/Tamara/Youth/1423/1423.2+orig.HEAD \
# /imaging/Tamara/Youth/1423/1423.3+orig.HEAD \
# /imaging/Tamara/Youth/1423/1423.4+orig.HEAD \
# /imaging/Tamara/Youth/1423/1423.5+orig.HEAD \
# /imaging/Tamara/Youth/1423/1423.6+orig.HEAD \
# -tcat_remove_first_trs 0 -tlrc_base MNI152_T1_2009c+tlrc -tlrc_NL_warp \
# -volreg_align_to MIN_OUTLIER -volreg_align_e2a -volreg_tlrc_warp -blur_size \
# 4.0 -regress_stim_times \
# /imaging/Tamara/Youth/1423/ Dfeel_Bad_NoResp.txt \
# /imaging/Tamara/Youth/1423/Dfeel_Bad_Resp.txt \
# /imaging/Tamara/Youth/1423/ Dfeel_Happy_NoResp.txt \
# /imaging/Tamara/Youth/1423/ Dfeel_Happy_Resp.txt \
# /imaging/Tamara/Youth/1423/ Feel_Bad_NoResp.txt \
# /imaging/Tamara/Youth/1423/ Feel_Bad_Resp.txt \
# /imaging/Tamara/Youth/1423/ Feel_Happy_NoResp.txt \
# /imaging/Tamara/Youth/1423/ Feel_Happy_Resp.txt \
# /imaging/Tamara/Youth/1423/ Nat_neg_NoResp.txt \
# /imaging/Tamara/Youth/1423/ Nat_neg_Resp.txt \
# /imaging/Tamara/Youth/1423/ Nat_post_NoResp.txt \
# /imaging/Tamara/Youth/1423/ Nat_post_Resp.txt \
# /imaging/Tamara/Youth/1423/Rating.txt \
# /imaging/Tamara/Youth/1423/Instruct.txt \
# -regress_stim_labels Dfeel_Bad_NoResp Dfeel_Bad_Resp Dfeel_Happy_NoResp \
Dfeel_Happy_Resp Feel_Bad_NoResp Feel_Bad_Resp Feel_Happy_NoResp \
Feel_Happy_Resp Nat_neg_NoResp Nat_neg_Resp Nat_post_NoResp \
Nat_post_Resp Rating Instruct \
# -regress_basis dmBLOCK -regress_stim_types AM1 -regress_censor_motion \
# 1.0 -regress_censor_outliers 0.1 -regress_apply_mot_types demean deriv \
# -regress_motion_per_run -regress_make_ideal_sum sum_ideal.1D \
# -regress_est_blur_epits -regress_est_blur_errts -regress_run_clustsim no
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Subject Author Posted

Error message in afni proc script

tamtam December 04, 2020 04:28PM

Re: Error message in afni proc script

ptaylor December 04, 2020 05:35PM

Re: Error message in afni proc script

tamtam December 04, 2020 10:02PM

Re: Error message in afni proc script

ptaylor December 05, 2020 11:14AM

Re: Error message in afni proc script

tamtam December 05, 2020 11:34AM

Re: Error message in afni proc script

ptaylor December 05, 2020 03:56PM

Re: Error message in afni proc script

tamtam December 05, 2020 05:34PM

Re: Error message in afni proc script

rick reynolds December 07, 2020 10:26AM