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Washington-University / HCPpipelines

Processing pipelines for the HCP
https://www.humanconnectome.org/
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an error for ICA_FIX, don't find file of fixversion #305

Open RuiWang0805 opened 1 day ago

RuiWang0805 commented 1 day ago

cat: /home/qwbrain/HCPpipelines/ICAFIX/fixversion: No such file or directory /home/qwbrain/HCPpipelines/ICAFIX/hcp_fix_multi_run: line 423: cd: /home/qwbrain/data/Pipelines_ExampleData/100307/MNINonLinear/Results/tfMRI_WM_RL: No such file or directory Sun Sep 29 18:01:02 CST 2024:hcp_fix_multi_run: While running '/home/qwbrain/HCPpipelines/ICAFIX/hcp_fix_multi_run --fmri-names=/home/qwbrain/data/Pipelines_ExampleData/100307/MNINonLinear/Results/tfMRI_WM_RL/tfMRI_WM_RL@/home/qwbrain/data/Pipelines_ExampleData/100307/MNINonLinear/Results/tfMRI_WM_LR/tfMRI_WM_LR@/home/qwbrain/data/Pipelines_ExampleData/100307/MNINonLinear/Results/tfMRI_GAMBLING_RL/tfMRI_GAMBLING_RL@/home/qwbrain/data/Pipelines_ExampleData/100307/MNINonLinear/Results/tfMRI_GAMBLING_LR/tfMRI_GAMBLING_LR@/home/qwbrain/data/Pipelines_ExampleData/100307/MNINonLinear/Results/tfMRI_MOTOR_RL/tfMRI_MOTOR_RL@/home/qwbrain/data/Pipelines_ExampleData/100307/MNINonLinear/Results/tfMRI_MOTOR_LR/tfMRI_MOTOR_LR --high-pass=0 --concat-fmri-name=/home/qwbrain/data/Pipelines_ExampleData/100307/MNINonLinear/Results/tfMRI_WM_GAMBLING_MOTOR_RL_LR/tfMRI_WM_GAMBLING_MOTOR_RL_LR --motion-regression=FALSE --training-file=HCP_Style_Single_Multirun_Dedrift.RData --fix-threshold=10 --delete-intermediates=FALSE --config= --processing-mode=HCPStyleData': Sun Sep 29 18:01:02 CST 2024:hcp_fix_multi_run: ERROR: 'cd' command failed with return code: 1

===> ERROR: Command returned with nonzero exit code

     script: hcp_fix_multi_run

stopped at line: 423 call: cd dirname $fmri hostname: ubuntu exit code: 1

===> Aborting execution!

glasserm commented 1 day ago

Please post how you called MR+FIX.

RuiWang0805 commented 1 day ago

Please post how you called MR+FIX.

@glasserm Thanks for your reply, sorry, I don't understand your intention

glasserm commented 1 day ago

What was the commandline you used to invoke hcp_fix_multi_run.

RuiWang0805 commented 1 day ago

@glasserm ./hcp_fix_multi_run.sh

glasserm commented 1 day ago

Did you run fMRIVolume and fMRISurface yet? Have you installed ICAFIX?

RuiWang0805 commented 1 day ago

![Uploading ICA_FIX_dir.png…]()

What was the commandline you used to invoke hcp_fix_multi_run. @glasserm I have run fMRIVolume and fMRISurface and git clone ICAFIX

glasserm commented 1 day ago

What does this show in the terminal: ls /home/qwbrain/data/Pipelines_ExampleData/100307/MNINonLinear/Results/tfMRI_WM_RL

RuiWang0805 commented 1 day ago

What does this show in the terminal: ls /home/qwbrain/data/Pipelines_ExampleData/100307/MNINonLinear/Results/tfMRI_WM_RL I only processed the 100307-fMRI raw data and did't processed the tfMRI data.

RuiWang0805 commented 1 day ago

What does this show in the terminal: ls /home/qwbrain/data/Pipelines_ExampleData/100307/MNINonLinear/Results/tfMRI_WM_RL @glasserm I processed the resting state fMRI data I collected myself, not the HCP data.

glasserm commented 19 hours ago

Then you need to point the HCP pipelines to your own data, not that of 100307.