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[ENH] Add "chunk" entity to MRI datatype #1586

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merged 7 commits into from
Sep 25, 2023
Merged

[ENH] Add "chunk" entity to MRI datatype #1586

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c0cec32
Add 'chunk' entity to MRI datatype
valosekj Aug 12, 2023
a11a872
Update wording of chunk entitty
valosekj Aug 26, 2023
d1e4f7c
Remove MRI paragraph from ChunkTransformationMatrix description
valosekj Aug 29, 2023
03c623b
Merge branch 'jv/add_chunk_entity_to_MRI_datatype' of github.com:valo…
valosekj Aug 29, 2023
901fe7f
Add chunk entity for fieldmaps
valosekj Sep 12, 2023
f6282cc
Add chunk entity for multiecho
valosekj Sep 12, 2023
6dc1e30
Merge branch 'master' into jv/add_chunk_entity_to_MRI_datatype
Remi-Gau Sep 25, 2023
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9 changes: 6 additions & 3 deletions src/schema/objects/entities.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -41,9 +41,12 @@ chunk:
name: chunk
display_name: Chunk
description: |
The `chunk-<index>` key/value pair is used to distinguish between different regions,
2D images or 3D volumes files,
of the same physical sample with different fields of view acquired in the same imaging experiment.
The `chunk-<index>` key/value pair is used to distinguish between images of
the same physical sample with different fields of view acquired in the same
imaging experiment.
This entity applies to collections of 2D images, 3D volumes or 4D volume series
(for example, diffusion weighted images), and may be used to indicate different
anatomical structures or regions of the same structure.
type: string
format: index
density:
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9 changes: 9 additions & 0 deletions src/schema/rules/files/raw/anat.yaml
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Expand Up @@ -29,6 +29,7 @@ nonparametric:
run: optional
echo: optional
part: optional
chunk: optional

parametric:
suffixes:
Expand Down Expand Up @@ -62,6 +63,7 @@ parametric:
ceagent: optional
reconstruction: optional
run: optional
chunk: optional

defacemask:
suffixes:
Expand All @@ -81,6 +83,7 @@ defacemask:
reconstruction: optional
run: optional
modality: optional
chunk: optional

multiecho:
suffixes:
Expand All @@ -102,6 +105,7 @@ multiecho:
run: optional
echo: required
part: optional
chunk: optional

multiflip:
suffixes:
Expand All @@ -123,6 +127,7 @@ multiflip:
echo: optional
flip: required
part: optional
chunk: optional

multiinversion:
suffixes:
Expand All @@ -143,6 +148,7 @@ multiinversion:
run: optional
inversion: required
part: optional
chunk: optional

mp2rage:
suffixes:
Expand All @@ -165,6 +171,7 @@ mp2rage:
flip: optional
inversion: required
part: optional
chunk: optional

vfamt:
suffixes:
Expand All @@ -188,6 +195,7 @@ vfamt:
flip: required
mtransfer: required
part: optional
chunk: optional

mtr:
suffixes:
Expand All @@ -208,3 +216,4 @@ mtr:
run: optional
mtransfer: required
part: optional
chunk: optional
2 changes: 2 additions & 0 deletions src/schema/rules/files/raw/dwi.yaml
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Expand Up @@ -18,6 +18,7 @@ dwi:
direction: optional
run: optional
part: optional
chunk: optional

sbref:
suffixes:
Expand All @@ -36,3 +37,4 @@ sbref:
direction: optional
run: optional
part: optional
chunk: optional
7 changes: 7 additions & 0 deletions src/schema/rules/files/raw/fmap.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -19,6 +19,7 @@ fieldmaps:
session: optional
acquisition: optional
run: optional
chunk: optional

pepolar:
suffixes:
Expand All @@ -37,6 +38,7 @@ pepolar:
ceagent: optional
direction: required
run: optional
chunk: optional

TB1DAM:
suffixes:
Expand All @@ -57,6 +59,7 @@ TB1DAM:
flip: required
inversion: optional
part: optional
chunk: optional

TB1EPI:
suffixes:
Expand All @@ -78,6 +81,7 @@ TB1EPI:
flip: required
inversion: optional
part: optional
chunk: optional

RFFieldMaps:
suffixes:
Expand All @@ -102,6 +106,7 @@ RFFieldMaps:
flip: optional
inversion: optional
part: optional
chunk: optional

TB1SRGE:
suffixes:
Expand All @@ -123,6 +128,7 @@ TB1SRGE:
flip: required
inversion: required
part: optional
chunk: optional

parametric:
suffixes:
Expand All @@ -141,3 +147,4 @@ parametric:
ceagent: optional
reconstruction: optional
run: optional
chunk: optional
2 changes: 2 additions & 0 deletions src/schema/rules/files/raw/func.yaml
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Expand Up @@ -21,6 +21,7 @@ func:
run: optional
echo: optional
part: optional
chunk: optional

phase:
suffixes:
Expand All @@ -41,3 +42,4 @@ phase:
direction: optional
run: optional
echo: optional
chunk: optional