psychoinformatics-de / fairly-big-processing-workflow

A template for decentralized, reproducible processing
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create-sibling-ria error while replicating the tutorial #9

Closed just-meng closed 2 months ago

just-meng commented 2 months ago

As I was trying to go through this tutorial I encountered the following error which was fixed by adding --new-store-ok to the datalad create-sibling-ria for both input and output ria-store in the bootstrap_forrest_fmriprep.sh file. Perhaps this could just be added to the file for future users?

(base) meng@meng-MS-7D06:/mnt/Data/processing-workflow$ bash bootstrap_forrest_fmriprep.sh
[INFO   ] Running procedure cfg_yoda 
[INFO   ] == Command start (output follows) ===== 
[INFO   ] == Command exit (modification check follows) =====                    
run(ok): /mnt/Data/processing-workflow/forrest (dataset) [/home/meng/anaconda3/bin/python /home/me...]
create(ok): /mnt/Data/processing-workflow/forrest (dataset)
action summary:
  create (ok: 1)
  run (ok: 1)
[INFO   ] Remote origin not usable by git-annex; setting annex-ignore           
[INFO   ] https://github.com/ReproNim/containers.git/config download failed: Not Found 
install(ok): code/pipeline (dataset)
add(ok): code/pipeline (dataset)                                                
add(ok): .gitmodules (file)                                                     
save(ok): . (dataset)                                                           
add(ok): .gitmodules (file)                                                     
save(ok): . (dataset)                                                           
action summary:                                                                 
  add (ok: 3)
  install (ok: 1)
  save (ok: 2)
add(ok): .datalad/config (file)                                                 
save(ok): . (dataset)                                                           
action summary:                                                                 
  add (ok: 1)
  save (ok: 1)
add(ok): .datalad/config (file)
save(ok): . (dataset)
containers_add(ok): /mnt/Data/processing-workflow/forrest/code/pipeline/images/bids/bids-fmriprep--20.2.0.sing (file)
action summary:
  add (ok: 1)
  containers_add (ok: 1)
  save (ok: 1)
[master d52fc06] Register pipeline dataset
 Date: Wed Aug 14 13:30:26 2024 +0200
 1 file changed, 3 insertions(+)
add(ok): code/license.txt (file)                                                
save(ok): . (dataset)                                                           
action summary:                                                                 
  add (ok: 1)
  save (ok: 1)
create-sibling-ria(error): /mnt/Data/processing-workflow/forrest (dataset) [No store found at '/media/meng/ProData/output-store'. Forgot --new-store-ok ?]
adswa commented 2 months ago

Indeed, thanks! It even seems there has been a long standing PR fixing this: https://github.com/psychoinformatics-de/fairly-big-processing-workflow/pull/7. Will merge right away!