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spine-generic / data-multi-subject

Multi-subject data for the Spine Generic project
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`acq-MT{on,off}` -> `mt_{on,off}` #103

Closed kousu closed 1 year ago

kousu commented 2 years ago

We've misused the acq entity to store the MTState field. We should be using the mt entitity

All these files are affected:

``` u108545@joplin:~/data-multi-subject$ ls */*/*acq-MT*.nii.gz sub-amu01/anat/sub-amu01_acq-MToff_MTS.nii.gz sub-nwu02/anat/sub-nwu02_acq-MTon_MTS.nii.gz sub-amu01/anat/sub-amu01_acq-MTon_MTS.nii.gz sub-nwu03/anat/sub-nwu03_acq-MToff_MTS.nii.gz sub-amu02/anat/sub-amu02_acq-MToff_MTS.nii.gz sub-nwu03/anat/sub-nwu03_acq-MTon_MTS.nii.gz sub-amu02/anat/sub-amu02_acq-MTon_MTS.nii.gz sub-nwu04/anat/sub-nwu04_acq-MToff_MTS.nii.gz sub-amu03/anat/sub-amu03_acq-MToff_MTS.nii.gz sub-nwu04/anat/sub-nwu04_acq-MTon_MTS.nii.gz sub-amu03/anat/sub-amu03_acq-MTon_MTS.nii.gz sub-nwu05/anat/sub-nwu05_acq-MToff_MTS.nii.gz sub-amu04/anat/sub-amu04_acq-MToff_MTS.nii.gz sub-nwu05/anat/sub-nwu05_acq-MTon_MTS.nii.gz sub-amu04/anat/sub-amu04_acq-MTon_MTS.nii.gz sub-nwu06/anat/sub-nwu06_acq-MToff_MTS.nii.gz sub-amu05/anat/sub-amu05_acq-MToff_MTS.nii.gz sub-nwu06/anat/sub-nwu06_acq-MTon_MTS.nii.gz sub-amu05/anat/sub-amu05_acq-MTon_MTS.nii.gz sub-oxfordFmrib01/anat/sub-oxfordFmrib01_acq-MToff_MTS.nii.gz sub-balgrist01/anat/sub-balgrist01_acq-MToff_MTS.nii.gz sub-oxfordFmrib01/anat/sub-oxfordFmrib01_acq-MTon_MTS.nii.gz sub-balgrist01/anat/sub-balgrist01_acq-MTon_MTS.nii.gz sub-oxfordFmrib02/anat/sub-oxfordFmrib02_acq-MToff_MTS.nii.gz sub-balgrist02/anat/sub-balgrist02_acq-MToff_MTS.nii.gz sub-oxfordFmrib02/anat/sub-oxfordFmrib02_acq-MTon_MTS.nii.gz sub-balgrist02/anat/sub-balgrist02_acq-MTon_MTS.nii.gz sub-oxfordFmrib03/anat/sub-oxfordFmrib03_acq-MToff_MTS.nii.gz sub-balgrist03/anat/sub-balgrist03_acq-MToff_MTS.nii.gz sub-oxfordFmrib03/anat/sub-oxfordFmrib03_acq-MTon_MTS.nii.gz sub-balgrist03/anat/sub-balgrist03_acq-MTon_MTS.nii.gz sub-oxfordFmrib04/anat/sub-oxfordFmrib04_acq-MToff_MTS.nii.gz sub-balgrist04/anat/sub-balgrist04_acq-MToff_MTS.nii.gz sub-oxfordFmrib04/anat/sub-oxfordFmrib04_acq-MTon_MTS.nii.gz sub-balgrist04/anat/sub-balgrist04_acq-MTon_MTS.nii.gz sub-oxfordFmrib05/anat/sub-oxfordFmrib05_acq-MToff_MTS.nii.gz sub-balgrist05/anat/sub-balgrist05_acq-MToff_MTS.nii.gz sub-oxfordFmrib05/anat/sub-oxfordFmrib05_acq-MTon_MTS.nii.gz sub-balgrist05/anat/sub-balgrist05_acq-MTon_MTS.nii.gz sub-oxfordFmrib06/anat/sub-oxfordFmrib06_acq-MToff_MTS.nii.gz sub-balgrist06/anat/sub-balgrist06_acq-MToff_MTS.nii.gz sub-oxfordFmrib06/anat/sub-oxfordFmrib06_acq-MTon_MTS.nii.gz sub-balgrist06/anat/sub-balgrist06_acq-MTon_MTS.nii.gz sub-oxfordFmrib07/anat/sub-oxfordFmrib07_acq-MToff_MTS.nii.gz sub-barcelona01/anat/sub-barcelona01_acq-MToff_MTS.nii.gz sub-oxfordFmrib07/anat/sub-oxfordFmrib07_acq-MTon_MTS.nii.gz sub-barcelona01/anat/sub-barcelona01_acq-MTon_MTS.nii.gz sub-oxfordFmrib08/anat/sub-oxfordFmrib08_acq-MToff_MTS.nii.gz sub-barcelona02/anat/sub-barcelona02_acq-MToff_MTS.nii.gz sub-oxfordFmrib08/anat/sub-oxfordFmrib08_acq-MTon_MTS.nii.gz sub-barcelona02/anat/sub-barcelona02_acq-MTon_MTS.nii.gz sub-oxfordFmrib09/anat/sub-oxfordFmrib09_acq-MToff_MTS.nii.gz sub-barcelona03/anat/sub-barcelona03_acq-MToff_MTS.nii.gz sub-oxfordFmrib09/anat/sub-oxfordFmrib09_acq-MTon_MTS.nii.gz sub-barcelona03/anat/sub-barcelona03_acq-MTon_MTS.nii.gz sub-oxfordFmrib10/anat/sub-oxfordFmrib10_acq-MToff_MTS.nii.gz sub-barcelona04/anat/sub-barcelona04_acq-MToff_MTS.nii.gz sub-oxfordFmrib10/anat/sub-oxfordFmrib10_acq-MTon_MTS.nii.gz sub-barcelona04/anat/sub-barcelona04_acq-MTon_MTS.nii.gz sub-oxfordFmrib11/anat/sub-oxfordFmrib11_acq-MToff_MTS.nii.gz sub-barcelona05/anat/sub-barcelona05_acq-MToff_MTS.nii.gz sub-oxfordFmrib11/anat/sub-oxfordFmrib11_acq-MTon_MTS.nii.gz sub-barcelona05/anat/sub-barcelona05_acq-MTon_MTS.nii.gz sub-oxfordOhba01/anat/sub-oxfordOhba01_acq-MToff_MTS.nii.gz sub-barcelona06/anat/sub-barcelona06_acq-MToff_MTS.nii.gz sub-oxfordOhba01/anat/sub-oxfordOhba01_acq-MTon_MTS.nii.gz sub-barcelona06/anat/sub-barcelona06_acq-MTon_MTS.nii.gz sub-oxfordOhba02/anat/sub-oxfordOhba02_acq-MToff_MTS.nii.gz sub-beijingPrisma01/anat/sub-beijingPrisma01_acq-MToff_MTS.nii.gz sub-oxfordOhba02/anat/sub-oxfordOhba02_acq-MTon_MTS.nii.gz sub-beijingPrisma01/anat/sub-beijingPrisma01_acq-MTon_MTS.nii.gz sub-oxfordOhba03/anat/sub-oxfordOhba03_acq-MToff_MTS.nii.gz sub-beijingPrisma02/anat/sub-beijingPrisma02_acq-MToff_MTS.nii.gz sub-oxfordOhba03/anat/sub-oxfordOhba03_acq-MTon_MTS.nii.gz sub-beijingPrisma02/anat/sub-beijingPrisma02_acq-MTon_MTS.nii.gz sub-oxfordOhba04/anat/sub-oxfordOhba04_acq-MToff_MTS.nii.gz sub-beijingPrisma03/anat/sub-beijingPrisma03_acq-MToff_MTS.nii.gz sub-oxfordOhba04/anat/sub-oxfordOhba04_acq-MTon_MTS.nii.gz sub-beijingPrisma03/anat/sub-beijingPrisma03_acq-MTon_MTS.nii.gz sub-oxfordOhba05/anat/sub-oxfordOhba05_acq-MToff_MTS.nii.gz sub-beijingPrisma04/anat/sub-beijingPrisma04_acq-MToff_MTS.nii.gz sub-oxfordOhba05/anat/sub-oxfordOhba05_acq-MTon_MTS.nii.gz sub-beijingPrisma04/anat/sub-beijingPrisma04_acq-MTon_MTS.nii.gz sub-pavia01/anat/sub-pavia01_acq-MToff_MTS.nii.gz sub-beijingPrisma05/anat/sub-beijingPrisma05_acq-MToff_MTS.nii.gz sub-pavia01/anat/sub-pavia01_acq-MTon_MTS.nii.gz sub-beijingPrisma05/anat/sub-beijingPrisma05_acq-MTon_MTS.nii.gz sub-pavia02/anat/sub-pavia02_acq-MToff_MTS.nii.gz sub-brnoCeitec01/anat/sub-brnoCeitec01_acq-MToff_MTS.nii.gz sub-pavia02/anat/sub-pavia02_acq-MTon_MTS.nii.gz sub-brnoCeitec01/anat/sub-brnoCeitec01_acq-MTon_MTS.nii.gz sub-pavia03/anat/sub-pavia03_acq-MToff_MTS.nii.gz sub-brnoCeitec02/anat/sub-brnoCeitec02_acq-MToff_MTS.nii.gz sub-pavia03/anat/sub-pavia03_acq-MTon_MTS.nii.gz sub-brnoCeitec02/anat/sub-brnoCeitec02_acq-MTon_MTS.nii.gz sub-pavia04/anat/sub-pavia04_acq-MToff_MTS.nii.gz sub-brnoCeitec03/anat/sub-brnoCeitec03_acq-MToff_MTS.nii.gz sub-pavia04/anat/sub-pavia04_acq-MTon_MTS.nii.gz sub-brnoCeitec03/anat/sub-brnoCeitec03_acq-MTon_MTS.nii.gz sub-pavia05/anat/sub-pavia05_acq-MToff_MTS.nii.gz sub-brnoCeitec04/anat/sub-brnoCeitec04_acq-MToff_MTS.nii.gz sub-pavia05/anat/sub-pavia05_acq-MTon_MTS.nii.gz sub-brnoCeitec04/anat/sub-brnoCeitec04_acq-MTon_MTS.nii.gz sub-pavia06/anat/sub-pavia06_acq-MToff_MTS.nii.gz sub-brnoCeitec05/anat/sub-brnoCeitec05_acq-MToff_MTS.nii.gz sub-pavia06/anat/sub-pavia06_acq-MTon_MTS.nii.gz sub-brnoCeitec05/anat/sub-brnoCeitec05_acq-MTon_MTS.nii.gz sub-perform01/anat/sub-perform01_acq-MToff_MTS.nii.gz sub-brnoCeitec06/anat/sub-brnoCeitec06_acq-MToff_MTS.nii.gz sub-perform01/anat/sub-perform01_acq-MTon_MTS.nii.gz sub-brnoCeitec06/anat/sub-brnoCeitec06_acq-MTon_MTS.nii.gz sub-perform02/anat/sub-perform02_acq-MToff_MTS.nii.gz sub-brnoUhb01/anat/sub-brnoUhb01_acq-MToff_MTS.nii.gz sub-perform02/anat/sub-perform02_acq-MTon_MTS.nii.gz sub-brnoUhb01/anat/sub-brnoUhb01_acq-MTon_MTS.nii.gz sub-perform03/anat/sub-perform03_acq-MToff_MTS.nii.gz sub-brnoUhb02/anat/sub-brnoUhb02_acq-MToff_MTS.nii.gz sub-perform03/anat/sub-perform03_acq-MTon_MTS.nii.gz sub-brnoUhb02/anat/sub-brnoUhb02_acq-MTon_MTS.nii.gz sub-perform04/anat/sub-perform04_acq-MToff_MTS.nii.gz sub-brnoUhb03/anat/sub-brnoUhb03_acq-MToff_MTS.nii.gz sub-perform04/anat/sub-perform04_acq-MTon_MTS.nii.gz sub-brnoUhb03/anat/sub-brnoUhb03_acq-MTon_MTS.nii.gz sub-perform05/anat/sub-perform05_acq-MToff_MTS.nii.gz sub-brnoUhb04/anat/sub-brnoUhb04_acq-MToff_MTS.nii.gz sub-perform05/anat/sub-perform05_acq-MTon_MTS.nii.gz sub-brnoUhb04/anat/sub-brnoUhb04_acq-MTon_MTS.nii.gz sub-perform06/anat/sub-perform06_acq-MToff_MTS.nii.gz sub-brnoUhb05/anat/sub-brnoUhb05_acq-MToff_MTS.nii.gz sub-perform06/anat/sub-perform06_acq-MTon_MTS.nii.gz sub-brnoUhb05/anat/sub-brnoUhb05_acq-MTon_MTS.nii.gz sub-queensland01/anat/sub-queensland01_acq-MToff_MTS.nii.gz sub-brnoUhb06/anat/sub-brnoUhb06_acq-MToff_MTS.nii.gz sub-queensland01/anat/sub-queensland01_acq-MTon_MTS.nii.gz sub-brnoUhb06/anat/sub-brnoUhb06_acq-MTon_MTS.nii.gz sub-queensland02/anat/sub-queensland02_acq-MToff_MTS.nii.gz sub-brnoUhb07/anat/sub-brnoUhb07_acq-MToff_MTS.nii.gz sub-queensland02/anat/sub-queensland02_acq-MTon_MTS.nii.gz sub-brnoUhb07/anat/sub-brnoUhb07_acq-MTon_MTS.nii.gz sub-queensland03/anat/sub-queensland03_acq-MToff_MTS.nii.gz sub-brnoUhb08/anat/sub-brnoUhb08_acq-MToff_MTS.nii.gz sub-queensland03/anat/sub-queensland03_acq-MTon_MTS.nii.gz sub-brnoUhb08/anat/sub-brnoUhb08_acq-MTon_MTS.nii.gz sub-queensland04/anat/sub-queensland04_acq-MToff_MTS.nii.gz sub-cardiff01/anat/sub-cardiff01_acq-MToff_MTS.nii.gz sub-queensland04/anat/sub-queensland04_acq-MTon_MTS.nii.gz sub-cardiff01/anat/sub-cardiff01_acq-MTon_MTS.nii.gz sub-queensland05/anat/sub-queensland05_acq-MToff_MTS.nii.gz sub-cardiff02/anat/sub-cardiff02_acq-MToff_MTS.nii.gz sub-queensland05/anat/sub-queensland05_acq-MTon_MTS.nii.gz sub-cardiff02/anat/sub-cardiff02_acq-MTon_MTS.nii.gz sub-queensland06/anat/sub-queensland06_acq-MToff_MTS.nii.gz sub-cardiff03/anat/sub-cardiff03_acq-MToff_MTS.nii.gz sub-queensland06/anat/sub-queensland06_acq-MTon_MTS.nii.gz sub-cardiff03/anat/sub-cardiff03_acq-MTon_MTS.nii.gz sub-sherbrooke01/anat/sub-sherbrooke01_acq-MToff_MTS.nii.gz sub-cardiff04/anat/sub-cardiff04_acq-MToff_MTS.nii.gz sub-sherbrooke01/anat/sub-sherbrooke01_acq-MTon_MTS.nii.gz sub-cardiff04/anat/sub-cardiff04_acq-MTon_MTS.nii.gz sub-sherbrooke02/anat/sub-sherbrooke02_acq-MToff_MTS.nii.gz sub-cardiff05/anat/sub-cardiff05_acq-MToff_MTS.nii.gz sub-sherbrooke02/anat/sub-sherbrooke02_acq-MTon_MTS.nii.gz sub-cardiff05/anat/sub-cardiff05_acq-MTon_MTS.nii.gz sub-sherbrooke03/anat/sub-sherbrooke03_acq-MToff_MTS.nii.gz sub-cardiff06/anat/sub-cardiff06_acq-MToff_MTS.nii.gz sub-sherbrooke03/anat/sub-sherbrooke03_acq-MTon_MTS.nii.gz sub-cardiff06/anat/sub-cardiff06_acq-MTon_MTS.nii.gz sub-sherbrooke04/anat/sub-sherbrooke04_acq-MToff_MTS.nii.gz sub-cmrra01/anat/sub-cmrra01_acq-MToff_MTS.nii.gz sub-sherbrooke04/anat/sub-sherbrooke04_acq-MTon_MTS.nii.gz sub-cmrra01/anat/sub-cmrra01_acq-MTon_MTS.nii.gz sub-sherbrooke05/anat/sub-sherbrooke05_acq-MToff_MTS.nii.gz sub-cmrra02/anat/sub-cmrra02_acq-MToff_MTS.nii.gz sub-sherbrooke05/anat/sub-sherbrooke05_acq-MTon_MTS.nii.gz sub-cmrra02/anat/sub-cmrra02_acq-MTon_MTS.nii.gz sub-sherbrooke06/anat/sub-sherbrooke06_acq-MToff_MTS.nii.gz sub-cmrra03/anat/sub-cmrra03_acq-MToff_MTS.nii.gz sub-sherbrooke06/anat/sub-sherbrooke06_acq-MTon_MTS.nii.gz sub-cmrra03/anat/sub-cmrra03_acq-MTon_MTS.nii.gz sub-sherbrooke07/anat/sub-sherbrooke07_acq-MToff_MTS.nii.gz sub-cmrra04/anat/sub-cmrra04_acq-MToff_MTS.nii.gz sub-sherbrooke07/anat/sub-sherbrooke07_acq-MTon_MTS.nii.gz sub-cmrra04/anat/sub-cmrra04_acq-MTon_MTS.nii.gz sub-stanford01/anat/sub-stanford01_acq-MToff_MTS.nii.gz sub-cmrra05/anat/sub-cmrra05_acq-MToff_MTS.nii.gz sub-stanford01/anat/sub-stanford01_acq-MTon_MTS.nii.gz sub-cmrra05/anat/sub-cmrra05_acq-MTon_MTS.nii.gz sub-stanford02/anat/sub-stanford02_acq-MToff_MTS.nii.gz sub-cmrra06/anat/sub-cmrra06_acq-MToff_MTS.nii.gz sub-stanford02/anat/sub-stanford02_acq-MTon_MTS.nii.gz sub-cmrra06/anat/sub-cmrra06_acq-MTon_MTS.nii.gz sub-stanford03/anat/sub-stanford03_acq-MToff_MTS.nii.gz sub-cmrrb01/anat/sub-cmrrb01_acq-MToff_MTS.nii.gz sub-stanford03/anat/sub-stanford03_acq-MTon_MTS.nii.gz sub-cmrrb01/anat/sub-cmrrb01_acq-MTon_MTS.nii.gz sub-stanford04/anat/sub-stanford04_acq-MToff_MTS.nii.gz sub-cmrrb02/anat/sub-cmrrb02_acq-MToff_MTS.nii.gz sub-stanford04/anat/sub-stanford04_acq-MTon_MTS.nii.gz sub-cmrrb02/anat/sub-cmrrb02_acq-MTon_MTS.nii.gz sub-stanford05/anat/sub-stanford05_acq-MToff_MTS.nii.gz sub-cmrrb03/anat/sub-cmrrb03_acq-MToff_MTS.nii.gz sub-stanford05/anat/sub-stanford05_acq-MTon_MTS.nii.gz sub-cmrrb03/anat/sub-cmrrb03_acq-MTon_MTS.nii.gz sub-stanford06/anat/sub-stanford06_acq-MToff_MTS.nii.gz sub-cmrrb04/anat/sub-cmrrb04_acq-MToff_MTS.nii.gz sub-stanford06/anat/sub-stanford06_acq-MTon_MTS.nii.gz sub-cmrrb04/anat/sub-cmrrb04_acq-MTon_MTS.nii.gz sub-strasbourg01/anat/sub-strasbourg01_acq-MToff_MTS.nii.gz sub-cmrrb05/anat/sub-cmrrb05_acq-MToff_MTS.nii.gz 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sub-mountSinai06/anat/sub-mountSinai06_acq-MTon_MTS.nii.gz sub-vallHebron06/anat/sub-vallHebron06_acq-MToff_MTS.nii.gz sub-mpicbs01/anat/sub-mpicbs01_acq-MToff_MTS.nii.gz sub-vallHebron06/anat/sub-vallHebron06_acq-MTon_MTS.nii.gz sub-mpicbs01/anat/sub-mpicbs01_acq-MTon_MTS.nii.gz sub-vallHebron07/anat/sub-vallHebron07_acq-MToff_MTS.nii.gz sub-mpicbs02/anat/sub-mpicbs02_acq-MToff_MTS.nii.gz sub-vallHebron07/anat/sub-vallHebron07_acq-MTon_MTS.nii.gz sub-mpicbs02/anat/sub-mpicbs02_acq-MTon_MTS.nii.gz sub-vuiisAchieva01/anat/sub-vuiisAchieva01_acq-MToff_MTS.nii.gz sub-mpicbs03/anat/sub-mpicbs03_acq-MToff_MTS.nii.gz sub-vuiisAchieva01/anat/sub-vuiisAchieva01_acq-MTon_MTS.nii.gz sub-mpicbs03/anat/sub-mpicbs03_acq-MTon_MTS.nii.gz sub-vuiisAchieva02/anat/sub-vuiisAchieva02_acq-MToff_MTS.nii.gz sub-mpicbs05/anat/sub-mpicbs05_acq-MToff_MTS.nii.gz sub-vuiisAchieva02/anat/sub-vuiisAchieva02_acq-MTon_MTS.nii.gz sub-mpicbs05/anat/sub-mpicbs05_acq-MTon_MTS.nii.gz sub-vuiisAchieva03/anat/sub-vuiisAchieva03_acq-MToff_MTS.nii.gz sub-mpicbs06/anat/sub-mpicbs06_acq-MToff_MTS.nii.gz sub-vuiisAchieva03/anat/sub-vuiisAchieva03_acq-MTon_MTS.nii.gz sub-mpicbs06/anat/sub-mpicbs06_acq-MTon_MTS.nii.gz sub-vuiisAchieva04/anat/sub-vuiisAchieva04_acq-MToff_MTS.nii.gz sub-mpicbs07/anat/sub-mpicbs07_acq-MToff_MTS.nii.gz sub-vuiisAchieva04/anat/sub-vuiisAchieva04_acq-MTon_MTS.nii.gz sub-mpicbs07/anat/sub-mpicbs07_acq-MTon_MTS.nii.gz sub-vuiisAchieva05/anat/sub-vuiisAchieva05_acq-MToff_MTS.nii.gz sub-nottwil01/anat/sub-nottwil01_acq-MToff_MTS.nii.gz sub-vuiisAchieva05/anat/sub-vuiisAchieva05_acq-MTon_MTS.nii.gz sub-nottwil01/anat/sub-nottwil01_acq-MTon_MTS.nii.gz sub-vuiisAchieva06/anat/sub-vuiisAchieva06_acq-MToff_MTS.nii.gz sub-nottwil02/anat/sub-nottwil02_acq-MToff_MTS.nii.gz sub-vuiisAchieva06/anat/sub-vuiisAchieva06_acq-MTon_MTS.nii.gz sub-nottwil02/anat/sub-nottwil02_acq-MTon_MTS.nii.gz sub-vuiisIngenia01/anat/sub-vuiisIngenia01_acq-MToff_MTS.nii.gz sub-nottwil03/anat/sub-nottwil03_acq-MToff_MTS.nii.gz sub-vuiisIngenia01/anat/sub-vuiisIngenia01_acq-MTon_MTS.nii.gz sub-nottwil03/anat/sub-nottwil03_acq-MTon_MTS.nii.gz sub-vuiisIngenia02/anat/sub-vuiisIngenia02_acq-MToff_MTS.nii.gz sub-nottwil04/anat/sub-nottwil04_acq-MToff_MTS.nii.gz sub-vuiisIngenia02/anat/sub-vuiisIngenia02_acq-MTon_MTS.nii.gz sub-nottwil04/anat/sub-nottwil04_acq-MTon_MTS.nii.gz sub-vuiisIngenia03/anat/sub-vuiisIngenia03_acq-MToff_MTS.nii.gz sub-nottwil05/anat/sub-nottwil05_acq-MToff_MTS.nii.gz sub-vuiisIngenia03/anat/sub-vuiisIngenia03_acq-MTon_MTS.nii.gz sub-nottwil05/anat/sub-nottwil05_acq-MTon_MTS.nii.gz sub-vuiisIngenia04/anat/sub-vuiisIngenia04_acq-MToff_MTS.nii.gz sub-nottwil06/anat/sub-nottwil06_acq-MToff_MTS.nii.gz sub-vuiisIngenia04/anat/sub-vuiisIngenia04_acq-MTon_MTS.nii.gz sub-nottwil06/anat/sub-nottwil06_acq-MTon_MTS.nii.gz sub-vuiisIngenia05/anat/sub-vuiisIngenia05_acq-MToff_MTS.nii.gz sub-nwu01/anat/sub-nwu01_acq-MToff_MTS.nii.gz sub-vuiisIngenia05/anat/sub-vuiisIngenia05_acq-MTon_MTS.nii.gz sub-nwu01/anat/sub-nwu01_acq-MTon_MTS.nii.gz sub-vuiisIngenia06/anat/sub-vuiisIngenia06_acq-MToff_MTS.nii.gz sub-nwu02/anat/sub-nwu02_acq-MToff_MTS.nii.gz sub-vuiisIngenia06/anat/sub-vuiisIngenia06_acq-MTon_MTS.nii.gz ```
kousu commented 2 years ago

Here's the distribution of how we've used this field:

u108545@joplin:~/data-multi-subject$ ls */*/*acq-*.nii.gz | sed 's/.*\(acq-.*\)_.*/\1/' | sort | uniq -c
     22 acq-b0
    259 acq-MToff
    259 acq-MTon
    254 acq-T1w

So, I know what I want to do with MToff and MTon. Do we need the other two?

We can get rid of acq-T1w by renaming those files to match how most files in this dataset tagged T1w do it, putting it into the final label: _T1w.nii.gz:

``` u108545@joplin:~/data-multi-subject$ ls */*/*T1w*.nii.gz | grep -v acq sub-amu01/anat/sub-amu01_T1w.nii.gz sub-amu02/anat/sub-amu02_T1w.nii.gz sub-amu03/anat/sub-amu03_T1w.nii.gz sub-amu04/anat/sub-amu04_T1w.nii.gz sub-amu05/anat/sub-amu05_T1w.nii.gz sub-balgrist01/anat/sub-balgrist01_T1w.nii.gz sub-balgrist02/anat/sub-balgrist02_T1w.nii.gz sub-balgrist03/anat/sub-balgrist03_T1w.nii.gz sub-balgrist04/anat/sub-balgrist04_T1w.nii.gz sub-balgrist05/anat/sub-balgrist05_T1w.nii.gz sub-balgrist06/anat/sub-balgrist06_T1w.nii.gz sub-barcelona01/anat/sub-barcelona01_T1w.nii.gz sub-barcelona02/anat/sub-barcelona02_T1w.nii.gz sub-barcelona03/anat/sub-barcelona03_T1w.nii.gz sub-barcelona04/anat/sub-barcelona04_T1w.nii.gz sub-barcelona05/anat/sub-barcelona05_T1w.nii.gz sub-barcelona06/anat/sub-barcelona06_T1w.nii.gz sub-beijingGE01/anat/sub-beijingGE01_T1w.nii.gz sub-beijingGE02/anat/sub-beijingGE02_T1w.nii.gz sub-beijingGE03/anat/sub-beijingGE03_T1w.nii.gz sub-beijingGE04/anat/sub-beijingGE04_T1w.nii.gz sub-beijingPrisma01/anat/sub-beijingPrisma01_T1w.nii.gz sub-beijingPrisma02/anat/sub-beijingPrisma02_T1w.nii.gz sub-beijingPrisma03/anat/sub-beijingPrisma03_T1w.nii.gz sub-beijingPrisma04/anat/sub-beijingPrisma04_T1w.nii.gz sub-beijingPrisma05/anat/sub-beijingPrisma05_T1w.nii.gz sub-beijingVerio01/anat/sub-beijingVerio01_T1w.nii.gz sub-beijingVerio02/anat/sub-beijingVerio02_T1w.nii.gz sub-beijingVerio03/anat/sub-beijingVerio03_T1w.nii.gz sub-beijingVerio04/anat/sub-beijingVerio04_T1w.nii.gz sub-brnoCeitec01/anat/sub-brnoCeitec01_T1w.nii.gz sub-brnoCeitec02/anat/sub-brnoCeitec02_T1w.nii.gz sub-brnoCeitec03/anat/sub-brnoCeitec03_T1w.nii.gz sub-brnoCeitec04/anat/sub-brnoCeitec04_T1w.nii.gz sub-brnoCeitec05/anat/sub-brnoCeitec05_T1w.nii.gz sub-brnoCeitec06/anat/sub-brnoCeitec06_T1w.nii.gz sub-brnoUhb01/anat/sub-brnoUhb01_T1w.nii.gz sub-brnoUhb02/anat/sub-brnoUhb02_T1w.nii.gz sub-brnoUhb03/anat/sub-brnoUhb03_T1w.nii.gz sub-brnoUhb04/anat/sub-brnoUhb04_T1w.nii.gz sub-brnoUhb05/anat/sub-brnoUhb05_T1w.nii.gz sub-brnoUhb06/anat/sub-brnoUhb06_T1w.nii.gz sub-brnoUhb07/anat/sub-brnoUhb07_T1w.nii.gz sub-brnoUhb08/anat/sub-brnoUhb08_T1w.nii.gz sub-cardiff01/anat/sub-cardiff01_T1w.nii.gz sub-cardiff02/anat/sub-cardiff02_T1w.nii.gz sub-cardiff03/anat/sub-cardiff03_T1w.nii.gz sub-cardiff04/anat/sub-cardiff04_T1w.nii.gz sub-cardiff05/anat/sub-cardiff05_T1w.nii.gz sub-cardiff06/anat/sub-cardiff06_T1w.nii.gz sub-cmrra01/anat/sub-cmrra01_T1w.nii.gz sub-cmrra02/anat/sub-cmrra02_T1w.nii.gz sub-cmrra03/anat/sub-cmrra03_T1w.nii.gz sub-cmrra04/anat/sub-cmrra04_T1w.nii.gz sub-cmrra05/anat/sub-cmrra05_T1w.nii.gz sub-cmrra06/anat/sub-cmrra06_T1w.nii.gz sub-cmrrb01/anat/sub-cmrrb01_T1w.nii.gz sub-cmrrb02/anat/sub-cmrrb02_T1w.nii.gz sub-cmrrb03/anat/sub-cmrrb03_T1w.nii.gz sub-cmrrb04/anat/sub-cmrrb04_T1w.nii.gz sub-cmrrb05/anat/sub-cmrrb05_T1w.nii.gz sub-cmrrb06/anat/sub-cmrrb06_T1w.nii.gz sub-cmrrb07/anat/sub-cmrrb07_T1w.nii.gz sub-dresden01/anat/sub-dresden01_T1w.nii.gz sub-dresden02/anat/sub-dresden02_T1w.nii.gz sub-fslAchieva01/anat/sub-fslAchieva01_T1w.nii.gz sub-fslAchieva02/anat/sub-fslAchieva02_T1w.nii.gz sub-fslAchieva03/anat/sub-fslAchieva03_T1w.nii.gz sub-fslAchieva04/anat/sub-fslAchieva04_T1w.nii.gz sub-fslAchieva05/anat/sub-fslAchieva05_T1w.nii.gz sub-fslAchieva06/anat/sub-fslAchieva06_T1w.nii.gz sub-fslPrisma01/anat/sub-fslPrisma01_T1w.nii.gz sub-fslPrisma02/anat/sub-fslPrisma02_T1w.nii.gz sub-fslPrisma03/anat/sub-fslPrisma03_T1w.nii.gz sub-fslPrisma04/anat/sub-fslPrisma04_T1w.nii.gz sub-fslPrisma05/anat/sub-fslPrisma05_T1w.nii.gz sub-fslPrisma06/anat/sub-fslPrisma06_T1w.nii.gz sub-geneva01/anat/sub-geneva01_T1w.nii.gz sub-geneva02/anat/sub-geneva02_T1w.nii.gz sub-geneva03/anat/sub-geneva03_T1w.nii.gz sub-geneva04/anat/sub-geneva04_T1w.nii.gz sub-geneva05/anat/sub-geneva05_T1w.nii.gz sub-geneva06/anat/sub-geneva06_T1w.nii.gz sub-hamburg01/anat/sub-hamburg01_T1w.nii.gz sub-hamburg02/anat/sub-hamburg02_T1w.nii.gz sub-hamburg03/anat/sub-hamburg03_T1w.nii.gz sub-hamburg04/anat/sub-hamburg04_T1w.nii.gz sub-hamburg05/anat/sub-hamburg05_T1w.nii.gz sub-hamburg06/anat/sub-hamburg06_T1w.nii.gz sub-juntendo750w01/anat/sub-juntendo750w01_T1w.nii.gz sub-juntendo750w02/anat/sub-juntendo750w02_T1w.nii.gz sub-juntendo750w03/anat/sub-juntendo750w03_T1w.nii.gz sub-juntendo750w04/anat/sub-juntendo750w04_T1w.nii.gz sub-juntendo750w05/anat/sub-juntendo750w05_T1w.nii.gz sub-juntendo750w06/anat/sub-juntendo750w06_T1w.nii.gz sub-mgh01/anat/sub-mgh01_T1w.nii.gz sub-mgh02/anat/sub-mgh02_T1w.nii.gz sub-mgh03/anat/sub-mgh03_T1w.nii.gz sub-mgh04/anat/sub-mgh04_T1w.nii.gz sub-mgh05/anat/sub-mgh05_T1w.nii.gz sub-mgh06/anat/sub-mgh06_T1w.nii.gz sub-milan01/anat/sub-milan01_T1w.nii.gz sub-milan02/anat/sub-milan02_T1w.nii.gz sub-milan03/anat/sub-milan03_T1w.nii.gz sub-milan04/anat/sub-milan04_T1w.nii.gz sub-milan05/anat/sub-milan05_T1w.nii.gz sub-milan06/anat/sub-milan06_T1w.nii.gz sub-milan07/anat/sub-milan07_T1w.nii.gz sub-mniPilot1/anat/sub-mniPilot1_T1w.nii.gz sub-mniS01/anat/sub-mniS01_T1w.nii.gz sub-mniS02/anat/sub-mniS02_T1w.nii.gz sub-mniS03/anat/sub-mniS03_T1w.nii.gz sub-mniS04/anat/sub-mniS04_T1w.nii.gz sub-mniS05/anat/sub-mniS05_T1w.nii.gz sub-mniS06/anat/sub-mniS06_T1w.nii.gz sub-mniS07/anat/sub-mniS07_T1w.nii.gz sub-mniS08/anat/sub-mniS08_T1w.nii.gz sub-mniS09/anat/sub-mniS09_T1w.nii.gz sub-mountSinai01/anat/sub-mountSinai01_T1w.nii.gz sub-mountSinai02/anat/sub-mountSinai02_T1w.nii.gz sub-mountSinai03/anat/sub-mountSinai03_T1w.nii.gz sub-mountSinai04/anat/sub-mountSinai04_T1w.nii.gz sub-mountSinai05/anat/sub-mountSinai05_T1w.nii.gz sub-mountSinai06/anat/sub-mountSinai06_T1w.nii.gz sub-mpicbs01/anat/sub-mpicbs01_T1w.nii.gz sub-mpicbs02/anat/sub-mpicbs02_T1w.nii.gz sub-mpicbs03/anat/sub-mpicbs03_T1w.nii.gz sub-mpicbs05/anat/sub-mpicbs05_T1w.nii.gz sub-mpicbs06/anat/sub-mpicbs06_T1w.nii.gz sub-mpicbs07/anat/sub-mpicbs07_T1w.nii.gz sub-nottwil01/anat/sub-nottwil01_T1w.nii.gz sub-nottwil02/anat/sub-nottwil02_T1w.nii.gz sub-nottwil03/anat/sub-nottwil03_T1w.nii.gz sub-nottwil04/anat/sub-nottwil04_T1w.nii.gz sub-nottwil05/anat/sub-nottwil05_T1w.nii.gz sub-nottwil06/anat/sub-nottwil06_T1w.nii.gz sub-nwu01/anat/sub-nwu01_T1w.nii.gz sub-nwu02/anat/sub-nwu02_T1w.nii.gz sub-nwu03/anat/sub-nwu03_T1w.nii.gz sub-nwu04/anat/sub-nwu04_T1w.nii.gz sub-nwu05/anat/sub-nwu05_T1w.nii.gz sub-nwu06/anat/sub-nwu06_T1w.nii.gz sub-oxfordFmrib01/anat/sub-oxfordFmrib01_T1w.nii.gz sub-oxfordFmrib02/anat/sub-oxfordFmrib02_T1w.nii.gz sub-oxfordFmrib03/anat/sub-oxfordFmrib03_T1w.nii.gz sub-oxfordFmrib04/anat/sub-oxfordFmrib04_T1w.nii.gz sub-oxfordFmrib05/anat/sub-oxfordFmrib05_T1w.nii.gz sub-oxfordFmrib06/anat/sub-oxfordFmrib06_T1w.nii.gz sub-oxfordFmrib07/anat/sub-oxfordFmrib07_T1w.nii.gz sub-oxfordFmrib08/anat/sub-oxfordFmrib08_T1w.nii.gz sub-oxfordFmrib09/anat/sub-oxfordFmrib09_T1w.nii.gz sub-oxfordFmrib10/anat/sub-oxfordFmrib10_T1w.nii.gz sub-oxfordFmrib11/anat/sub-oxfordFmrib11_T1w.nii.gz sub-oxfordOhba01/anat/sub-oxfordOhba01_T1w.nii.gz sub-oxfordOhba02/anat/sub-oxfordOhba02_T1w.nii.gz sub-oxfordOhba03/anat/sub-oxfordOhba03_T1w.nii.gz sub-oxfordOhba04/anat/sub-oxfordOhba04_T1w.nii.gz sub-oxfordOhba05/anat/sub-oxfordOhba05_T1w.nii.gz sub-pavia01/anat/sub-pavia01_T1w.nii.gz sub-pavia02/anat/sub-pavia02_T1w.nii.gz sub-pavia03/anat/sub-pavia03_T1w.nii.gz sub-pavia04/anat/sub-pavia04_T1w.nii.gz sub-pavia05/anat/sub-pavia05_T1w.nii.gz sub-pavia06/anat/sub-pavia06_T1w.nii.gz sub-perform01/anat/sub-perform01_T1w.nii.gz sub-perform02/anat/sub-perform02_T1w.nii.gz sub-perform03/anat/sub-perform03_T1w.nii.gz sub-perform04/anat/sub-perform04_T1w.nii.gz sub-perform05/anat/sub-perform05_T1w.nii.gz sub-perform06/anat/sub-perform06_T1w.nii.gz sub-queensland01/anat/sub-queensland01_T1w.nii.gz sub-queensland02/anat/sub-queensland02_T1w.nii.gz sub-queensland03/anat/sub-queensland03_T1w.nii.gz sub-queensland04/anat/sub-queensland04_T1w.nii.gz sub-queensland05/anat/sub-queensland05_T1w.nii.gz sub-queensland06/anat/sub-queensland06_T1w.nii.gz sub-sherbrooke01/anat/sub-sherbrooke01_T1w.nii.gz sub-sherbrooke02/anat/sub-sherbrooke02_T1w.nii.gz sub-sherbrooke03/anat/sub-sherbrooke03_T1w.nii.gz sub-sherbrooke04/anat/sub-sherbrooke04_T1w.nii.gz sub-sherbrooke05/anat/sub-sherbrooke05_T1w.nii.gz sub-sherbrooke06/anat/sub-sherbrooke06_T1w.nii.gz sub-sherbrooke07/anat/sub-sherbrooke07_T1w.nii.gz sub-stanford01/anat/sub-stanford01_T1w.nii.gz sub-stanford02/anat/sub-stanford02_T1w.nii.gz sub-stanford03/anat/sub-stanford03_T1w.nii.gz sub-stanford04/anat/sub-stanford04_T1w.nii.gz sub-stanford05/anat/sub-stanford05_T1w.nii.gz sub-stanford06/anat/sub-stanford06_T1w.nii.gz sub-strasbourg01/anat/sub-strasbourg01_T1w.nii.gz sub-strasbourg02/anat/sub-strasbourg02_T1w.nii.gz sub-strasbourg03/anat/sub-strasbourg03_T1w.nii.gz sub-strasbourg04/anat/sub-strasbourg04_T1w.nii.gz sub-strasbourg05/anat/sub-strasbourg05_T1w.nii.gz sub-strasbourg06/anat/sub-strasbourg06_T1w.nii.gz sub-tehranS01/anat/sub-tehranS01_T1w.nii.gz sub-tehranS02/anat/sub-tehranS02_T1w.nii.gz sub-tehranS03/anat/sub-tehranS03_T1w.nii.gz sub-tehranS04/anat/sub-tehranS04_T1w.nii.gz sub-tehranS05/anat/sub-tehranS05_T1w.nii.gz sub-tehranS06/anat/sub-tehranS06_T1w.nii.gz sub-tokyo750w01/anat/sub-tokyo750w01_T1w.nii.gz sub-tokyo750w02/anat/sub-tokyo750w02_T1w.nii.gz sub-tokyo750w03/anat/sub-tokyo750w03_T1w.nii.gz sub-tokyo750w04/anat/sub-tokyo750w04_T1w.nii.gz sub-tokyo750w05/anat/sub-tokyo750w05_T1w.nii.gz sub-tokyo750w06/anat/sub-tokyo750w06_T1w.nii.gz sub-tokyo750w07/anat/sub-tokyo750w07_T1w.nii.gz sub-tokyoIngenia01/anat/sub-tokyoIngenia01_T1w.nii.gz sub-tokyoIngenia02/anat/sub-tokyoIngenia02_T1w.nii.gz sub-tokyoIngenia03/anat/sub-tokyoIngenia03_T1w.nii.gz sub-tokyoIngenia04/anat/sub-tokyoIngenia04_T1w.nii.gz sub-tokyoIngenia05/anat/sub-tokyoIngenia05_T1w.nii.gz sub-tokyoIngenia06/anat/sub-tokyoIngenia06_T1w.nii.gz sub-tokyoIngenia07/anat/sub-tokyoIngenia07_T1w.nii.gz sub-tokyoSkyra01/anat/sub-tokyoSkyra01_T1w.nii.gz sub-tokyoSkyra02/anat/sub-tokyoSkyra02_T1w.nii.gz sub-tokyoSkyra03/anat/sub-tokyoSkyra03_T1w.nii.gz sub-tokyoSkyra04/anat/sub-tokyoSkyra04_T1w.nii.gz sub-tokyoSkyra05/anat/sub-tokyoSkyra05_T1w.nii.gz sub-tokyoSkyra06/anat/sub-tokyoSkyra06_T1w.nii.gz sub-tokyoSkyra07/anat/sub-tokyoSkyra07_T1w.nii.gz sub-ubc01/anat/sub-ubc01_T1w.nii.gz sub-ubc02/anat/sub-ubc02_T1w.nii.gz sub-ubc03/anat/sub-ubc03_T1w.nii.gz sub-ubc04/anat/sub-ubc04_T1w.nii.gz sub-ubc05/anat/sub-ubc05_T1w.nii.gz sub-ubc06/anat/sub-ubc06_T1w.nii.gz sub-ucdavis01/anat/sub-ucdavis01_T1w.nii.gz sub-ucdavis02/anat/sub-ucdavis02_T1w.nii.gz sub-ucdavis03/anat/sub-ucdavis03_T1w.nii.gz sub-ucdavis04/anat/sub-ucdavis04_T1w.nii.gz sub-ucdavis05/anat/sub-ucdavis05_T1w.nii.gz sub-ucdavis06/anat/sub-ucdavis06_T1w.nii.gz sub-ucdavis07/anat/sub-ucdavis07_T1w.nii.gz sub-ucl01/anat/sub-ucl01_T1w.nii.gz sub-ucl02/anat/sub-ucl02_T1w.nii.gz sub-ucl03/anat/sub-ucl03_T1w.nii.gz sub-ucl04/anat/sub-ucl04_T1w.nii.gz sub-ucl05/anat/sub-ucl05_T1w.nii.gz sub-ucl06/anat/sub-ucl06_T1w.nii.gz sub-unf01/anat/sub-unf01_T1w.nii.gz sub-unf02/anat/sub-unf02_T1w.nii.gz sub-unf03/anat/sub-unf03_T1w.nii.gz sub-unf04/anat/sub-unf04_T1w.nii.gz sub-unf05/anat/sub-unf05_T1w.nii.gz sub-unf06/anat/sub-unf06_T1w.nii.gz sub-unf07/anat/sub-unf07_T1w.nii.gz sub-vallHebron01/anat/sub-vallHebron01_T1w.nii.gz sub-vallHebron02/anat/sub-vallHebron02_T1w.nii.gz sub-vallHebron03/anat/sub-vallHebron03_T1w.nii.gz sub-vallHebron04/anat/sub-vallHebron04_T1w.nii.gz sub-vallHebron05/anat/sub-vallHebron05_T1w.nii.gz sub-vallHebron06/anat/sub-vallHebron06_T1w.nii.gz sub-vallHebron07/anat/sub-vallHebron07_T1w.nii.gz sub-vuiisAchieva01/anat/sub-vuiisAchieva01_T1w.nii.gz sub-vuiisAchieva02/anat/sub-vuiisAchieva02_T1w.nii.gz sub-vuiisAchieva03/anat/sub-vuiisAchieva03_T1w.nii.gz sub-vuiisAchieva04/anat/sub-vuiisAchieva04_T1w.nii.gz sub-vuiisAchieva05/anat/sub-vuiisAchieva05_T1w.nii.gz sub-vuiisAchieva06/anat/sub-vuiisAchieva06_T1w.nii.gz sub-vuiisIngenia01/anat/sub-vuiisIngenia01_T1w.nii.gz sub-vuiisIngenia02/anat/sub-vuiisIngenia02_T1w.nii.gz sub-vuiisIngenia03/anat/sub-vuiisIngenia03_T1w.nii.gz sub-vuiisIngenia04/anat/sub-vuiisIngenia04_T1w.nii.gz sub-vuiisIngenia05/anat/sub-vuiisIngenia05_T1w.nii.gz sub-vuiisIngenia06/anat/sub-vuiisIngenia06_T1w.nii.gz ```

And acq-b0 is in a funny situation; a bunch of the existing subjects encode that piece of information in the subject name itself, which isn't a solution:

``` u108545@joplin:~/data-multi-subject$ ls */*/*b0*.nii.gz | grep -v acq | grep b0 sub-brnoUhb01/anat/sub-brnoUhb01_T1w.nii.gz sub-brnoUhb01/anat/sub-brnoUhb01_T2star.nii.gz sub-brnoUhb01/anat/sub-brnoUhb01_T2w.nii.gz sub-brnoUhb01/dwi/sub-brnoUhb01_dwi.nii.gz sub-brnoUhb02/anat/sub-brnoUhb02_T1w.nii.gz sub-brnoUhb02/anat/sub-brnoUhb02_T2star.nii.gz sub-brnoUhb02/anat/sub-brnoUhb02_T2w.nii.gz sub-brnoUhb02/dwi/sub-brnoUhb02_dwi.nii.gz sub-brnoUhb03/anat/sub-brnoUhb03_T1w.nii.gz sub-brnoUhb03/anat/sub-brnoUhb03_T2star.nii.gz sub-brnoUhb03/anat/sub-brnoUhb03_T2w.nii.gz sub-brnoUhb03/dwi/sub-brnoUhb03_dwi.nii.gz sub-brnoUhb04/anat/sub-brnoUhb04_T1w.nii.gz sub-brnoUhb04/anat/sub-brnoUhb04_T2star.nii.gz sub-brnoUhb04/anat/sub-brnoUhb04_T2w.nii.gz sub-brnoUhb04/dwi/sub-brnoUhb04_dwi.nii.gz sub-brnoUhb05/anat/sub-brnoUhb05_T1w.nii.gz sub-brnoUhb05/anat/sub-brnoUhb05_T2star.nii.gz sub-brnoUhb05/anat/sub-brnoUhb05_T2w.nii.gz sub-brnoUhb05/dwi/sub-brnoUhb05_dwi.nii.gz sub-brnoUhb06/anat/sub-brnoUhb06_T1w.nii.gz sub-brnoUhb06/anat/sub-brnoUhb06_T2star.nii.gz sub-brnoUhb06/anat/sub-brnoUhb06_T2w.nii.gz sub-brnoUhb06/dwi/sub-brnoUhb06_dwi.nii.gz sub-brnoUhb07/anat/sub-brnoUhb07_T1w.nii.gz sub-brnoUhb07/anat/sub-brnoUhb07_T2star.nii.gz sub-brnoUhb07/anat/sub-brnoUhb07_T2w.nii.gz sub-brnoUhb07/dwi/sub-brnoUhb07_dwi.nii.gz sub-brnoUhb08/anat/sub-brnoUhb08_T1w.nii.gz sub-brnoUhb08/anat/sub-brnoUhb08_T2star.nii.gz sub-brnoUhb08/anat/sub-brnoUhb08_T2w.nii.gz sub-brnoUhb08/dwi/sub-brnoUhb08_dwi.nii.gz sub-cmrrb01/anat/sub-cmrrb01_T1w.nii.gz sub-cmrrb01/anat/sub-cmrrb01_T2star.nii.gz sub-cmrrb01/anat/sub-cmrrb01_T2w.nii.gz sub-cmrrb01/dwi/sub-cmrrb01_dwi.nii.gz sub-cmrrb02/anat/sub-cmrrb02_T1w.nii.gz sub-cmrrb02/anat/sub-cmrrb02_T2star.nii.gz sub-cmrrb02/anat/sub-cmrrb02_T2w.nii.gz sub-cmrrb02/dwi/sub-cmrrb02_dwi.nii.gz sub-cmrrb03/anat/sub-cmrrb03_T1w.nii.gz sub-cmrrb03/anat/sub-cmrrb03_T2star.nii.gz sub-cmrrb03/anat/sub-cmrrb03_T2w.nii.gz sub-cmrrb03/dwi/sub-cmrrb03_dwi.nii.gz sub-cmrrb04/anat/sub-cmrrb04_T1w.nii.gz sub-cmrrb04/anat/sub-cmrrb04_T2star.nii.gz sub-cmrrb04/anat/sub-cmrrb04_T2w.nii.gz sub-cmrrb04/dwi/sub-cmrrb04_dwi.nii.gz sub-cmrrb05/anat/sub-cmrrb05_T1w.nii.gz sub-cmrrb05/anat/sub-cmrrb05_T2star.nii.gz sub-cmrrb05/anat/sub-cmrrb05_T2w.nii.gz sub-cmrrb05/dwi/sub-cmrrb05_dwi.nii.gz sub-cmrrb06/anat/sub-cmrrb06_T1w.nii.gz sub-cmrrb06/anat/sub-cmrrb06_T2star.nii.gz sub-cmrrb06/anat/sub-cmrrb06_T2w.nii.gz sub-cmrrb06/dwi/sub-cmrrb06_dwi.nii.gz sub-cmrrb07/anat/sub-cmrrb07_T1w.nii.gz sub-cmrrb07/anat/sub-cmrrb07_T2star.nii.gz sub-cmrrb07/anat/sub-cmrrb07_T2w.nii.gz sub-cmrrb07/dwi/sub-cmrrb07_dwi.nii.gz sub-oxfordFmrib01/anat/sub-oxfordFmrib01_T1w.nii.gz sub-oxfordFmrib01/anat/sub-oxfordFmrib01_T2star.nii.gz sub-oxfordFmrib01/anat/sub-oxfordFmrib01_T2w.nii.gz sub-oxfordFmrib01/dwi/sub-oxfordFmrib01_dwi.nii.gz sub-oxfordFmrib02/anat/sub-oxfordFmrib02_T1w.nii.gz sub-oxfordFmrib02/anat/sub-oxfordFmrib02_T2star.nii.gz sub-oxfordFmrib02/anat/sub-oxfordFmrib02_T2w.nii.gz sub-oxfordFmrib02/dwi/sub-oxfordFmrib02_dwi.nii.gz sub-oxfordFmrib03/anat/sub-oxfordFmrib03_T1w.nii.gz sub-oxfordFmrib03/anat/sub-oxfordFmrib03_T2star.nii.gz sub-oxfordFmrib03/anat/sub-oxfordFmrib03_T2w.nii.gz sub-oxfordFmrib03/dwi/sub-oxfordFmrib03_dwi.nii.gz sub-oxfordFmrib04/anat/sub-oxfordFmrib04_T1w.nii.gz sub-oxfordFmrib04/anat/sub-oxfordFmrib04_T2star.nii.gz sub-oxfordFmrib04/anat/sub-oxfordFmrib04_T2w.nii.gz sub-oxfordFmrib04/dwi/sub-oxfordFmrib04_dwi.nii.gz sub-oxfordFmrib05/anat/sub-oxfordFmrib05_T1w.nii.gz sub-oxfordFmrib05/anat/sub-oxfordFmrib05_T2star.nii.gz sub-oxfordFmrib05/anat/sub-oxfordFmrib05_T2w.nii.gz sub-oxfordFmrib05/dwi/sub-oxfordFmrib05_dwi.nii.gz sub-oxfordFmrib06/anat/sub-oxfordFmrib06_T1w.nii.gz sub-oxfordFmrib06/anat/sub-oxfordFmrib06_T2star.nii.gz sub-oxfordFmrib06/anat/sub-oxfordFmrib06_T2w.nii.gz sub-oxfordFmrib06/dwi/sub-oxfordFmrib06_dwi.nii.gz sub-oxfordFmrib07/anat/sub-oxfordFmrib07_T1w.nii.gz sub-oxfordFmrib07/anat/sub-oxfordFmrib07_T2star.nii.gz sub-oxfordFmrib07/anat/sub-oxfordFmrib07_T2w.nii.gz sub-oxfordFmrib07/dwi/sub-oxfordFmrib07_dwi.nii.gz sub-oxfordFmrib08/anat/sub-oxfordFmrib08_T1w.nii.gz sub-oxfordFmrib08/anat/sub-oxfordFmrib08_T2star.nii.gz sub-oxfordFmrib08/anat/sub-oxfordFmrib08_T2w.nii.gz sub-oxfordFmrib08/dwi/sub-oxfordFmrib08_dwi.nii.gz sub-oxfordFmrib09/anat/sub-oxfordFmrib09_T1w.nii.gz sub-oxfordFmrib09/anat/sub-oxfordFmrib09_T2star.nii.gz sub-oxfordFmrib09/anat/sub-oxfordFmrib09_T2w.nii.gz sub-oxfordFmrib09/dwi/sub-oxfordFmrib09_dwi.nii.gz ```
kousu commented 2 years ago

Same issue, different dataset: https://github.com/neuropoly/data-management/issues/147

jcohenadad commented 2 years ago

We can get rid of acq-T1w by renaming those files to match how most files in this dataset tagged T1w do it, putting it into the final label: _T1w.nii.gz

no because this T1w file is intended for MTS computation (hence the "_MTS" intended for suffix)

jcohenadad commented 2 years ago

And acq-b0 is in a funny situation; a bunch of the existing subjects encode that piece of information in the subject name itself, which isn't a solution:

aouch-- that's quite ugly indeed. Probably a mistake

kousu commented 2 years ago

We can get rid of acq-T1w by renaming those files to match how most files in this dataset tagged T1w do it, putting it into the final label: _T1w.nii.gz

no because this T1w file is intended for MTS computation (hence the "_MTS" intended for suffix)

I don't have the background to understand this sentence. I'm sorry. But I can tell there's some conflict here because BIDS defines both _MTS and _T1w as suffixes:

https://github.com/bids-standard/bids-specification/blob/251f4400ee44ea5555d418dc12c852b5c3ef7aa0/src/schema/objects/suffixes.yaml#L95

https://github.com/bids-standard/bids-specification/blob/251f4400ee44ea5555d418dc12c852b5c3ef7aa0/src/schema/objects/suffixes.yaml#L232

and I don't think BIDS allows more than one suffix.

I can disambiguate: the filename spec says that the only filenames with _MTS in them must also have _mt- in them. It's not optional:

            sub-<label>[_ses-<label>][_acq-<label>][_ce-<label>][_rec-<label>][_run-<index>][_echo-<index>]_flip-<index>_mt-<on|off>[_part-<mag|phase|real|imag>]_MTS.json
            sub-<label>[_ses-<label>][_acq-<label>][_ce-<label>][_rec-<label>][_run-<index>][_echo-<index>]_flip-<index>_mt-<on|off>[_part-<mag|phase|real|imag>]_MTS.nii[.gz]

so e.g. .sub-nottwil04_acq-T1w_MTS.nii.gz does not fit the template. Only the (currently: acq-MTon) mt-on and (currently: acq-MToff) mt-off files can have _MTS suffixes. That third file has to go somewhere else.

u108545@joplin:~/data-multi-subject$ ls -l ./sub-nottwil04/anat/*acq-*.nii.gz
-rw-r--r-- 2 u108545 domain users 1511577 Nov 15 19:06 ./sub-nottwil04/anat/sub-nottwil04_acq-MToff_MTS.nii.gz
-rw-r--r-- 2 u108545 domain users 1458987 Nov 15 19:06 ./sub-nottwil04/anat/sub-nottwil04_acq-MTon_MTS.nii.gz
-rw-r--r-- 2 u108545 domain users 1109815 Nov 15 19:06 ./sub-nottwil04/anat/sub-nottwil04_acq-T1w_MTS.nii.gz

Swapping the metadata around, e.g. to sub-nottwil04_acq-MTS_T1w.nii.gz, at least fits the template since acq is a relatively freeform field. But I'm not sure that makes any more sense, 'cuz I don't really have the MRI background to judge.

And acq-b0 is in a funny situation; a bunch of the existing subjects encode that piece of information in the subject name itself, which isn't a solution:

aouch-- that's quite ugly indeed. Probably a mistake

Nevermind about the subject IDs; some site IDs that we picked ("brnoUhb", "cmrrb", "oxfordFmrib") all happen to end in 'b'.

But as for acq-b0 itself, let's follow up here: https://github.com/spine-generic/data-multi-subject/issues/104

jcohenadad commented 2 years ago

I can disambiguate: the filename spec says that the only filenames with _MTS in them must also have _mt- in them. It's not optional:

indeed, so i think it would look like this:

sub-nottwil04_flip-1_mt-on_MTS.nii.gz
sub-nottwil04_flip-1_mt-off_MTS.nii.gz
sub-nottwil04_flip-2_mt-off_MTS.nii.gz

@kousu the "flip-2_mt-off" is in fact a T1w scan (because of the longer flip angle), hence the reason we called it T1w in the first place.

@agahkarakuzu can confirm

agahkarakuzu commented 2 years ago

Indeed @jcohenadad that's how MTS entities are organized.

https://github.com/bids-standard/bids-examples/tree/master/qmri_mtsat

kousu commented 2 years ago

Oh great, thanks for clearing that up. So then this is the migration I'm going to do:

for subject in $subjects; do
  (cd $subject/anat/
    git mv   $subject_acq-MTon_MTS.nii.gz    $subject_flip-1_mt-on_MTS.nii.gz
    git mv   $subject_acq-MToff_MTS.nii.gz   $subject_flip-1_mt-off_MTS.nii.gz
    git mv   $subject_acq-T1w_MTS.nii.gz     $subject_flip-2_mt-off_MTS.nii.gz
  )
done

I'll update #105 to match.

valosekj commented 1 year ago

@kousu I think that this issue and associated PR has been resolved by https://github.com/spine-generic/data-multi-subject/pull/135, right?

mguaypaq commented 1 year ago

As noted by @valosekj, this is already done.