diff --git a/.gitattributes b/.gitattributes index ad75c8274ab90b853d07f16325b99bd001a0f3ca..12d3f95e43730b5756009dbb7e75752fd39bc734 100644 --- a/.gitattributes +++ b/.gitattributes @@ -248,3 +248,7 @@ try-it/ct/torso-task-pack/cases/c-a05/series/s01/chunks/0080-0000-0000.hu16 filt try-it/ct/torso-task-pack/cases/c-a05/series/s01/chunks/0096-0000-0000.hu16 filter=lfs diff=lfs merge=lfs -text try-it/ct/torso-task-pack/cases/c-a05/series/s01/chunks/0112-0000-0000.hu16 filter=lfs diff=lfs merge=lfs -text try-it/ct/torso-task-pack/cases/c-a05/series/s01/chunks/0128-0000-0000.hu16 filter=lfs diff=lfs merge=lfs -text +try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-normal-xyz/c/0/0/0/0 filter=lfs diff=lfs merge=lfs -text +try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-strength/c/0/0/0 filter=lfs diff=lfs merge=lfs -text +try-it/us/synthetic-abdomen-v1/arrays.zarr/scatter-strength/c/0/0/0 filter=lfs diff=lfs merge=lfs -text +try-it/us/synthetic-abdomen-v1/arrays.zarr/skin-sdf-mm/c/0/0/0 filter=lfs diff=lfs merge=lfs -text diff --git a/try-it/mr/vfemale50-v1/dataset/contrast-profiles/truefisp-localizer-3t-v5.json b/try-it/mr/vfemale50-v1/dataset/contrast-profiles/truefisp-localizer-3t-v5.json new file mode 100644 index 0000000000000000000000000000000000000000..f2d49255d6b90b5eb2193ee4eef2e0075a80bbe9 --- /dev/null +++ b/try-it/mr/vfemale50-v1/dataset/contrast-profiles/truefisp-localizer-3t-v5.json @@ -0,0 +1,22 @@ +{ + "clinical_validation": false, + "contrast_inputs": [ + "PD", + "T1", + "T2", + "TR", + "TE", + "flip_angle" + ], + "display_gamma": 1.0, + "displayed_cardiac_phases": 1, + "field_strength_t": 3.0, + "flip_angle_deg": 50.0, + "gating": "none", + "profile_id": "truefisp-localizer-3t-v5", + "research_only": true, + "schema_version": "contrast-profile-v3", + "sequence_family": "balanced_ssfp_truefisp_family_localizer", + "te_ms": 1.5, + "tr_ms": 3.0 +} diff --git a/try-it/mr/vfemale50-v1/dataset/editor-bounds-v5-selected.json b/try-it/mr/vfemale50-v1/dataset/editor-bounds-v5-selected.json new file mode 100644 index 0000000000000000000000000000000000000000..95820ef65d8dbd4d7eb703b8e92f356f5b02c55c --- /dev/null +++ b/try-it/mr/vfemale50-v1/dataset/editor-bounds-v5-selected.json @@ -0,0 +1,88 @@ +{ + "bounds_are_clinical": false, + "coordinate_space": "workflow-v3 crop-relative ZYX millimetres", + "count": { + "maximum": 20, + "minimum": 6, + "step": 1 + }, + "coverage_mm": { + "maximum": 140.0, + "minimum": 40.0, + "step": 1.0 + }, + "coverage_policy": "Scalar bounds are UI bounds. Every requested plane corner including half thickness is checked against source support; source coverage is authoritative.", + "fov_phase_mm": { + "maximum": 320.0, + "minimum": 220.0, + "step": 2.0 + }, + "fov_read_mm": { + "maximum": 340.0, + "minimum": 220.0, + "step": 2.0 + }, + "fov_read_reconciliation": { + "affected_series": [ + "localizer_2ch", + "localizer_4ch", + "cine_2ch", + "cine_4ch" + ], + "alternatives_rejected": "Re-prescribing the four long-axis series inside 320 mm would change shipped geometry and break comparability with the accepted v3 and v4 bundles. Leaving the mismatch documented would leave the editor unable to reproduce four of its own previews.", + "current_maximum_mm": 340.0, + "grid_check": "340.0 = 220.0 + 60 * 2.0, so the new maximum is on the declared step", + "laptop_action_required": "The editor must re-read these bounds; the schema_version changed deliberately so a cached copy of the v3 bounds cannot be mistaken for the current ones.", + "measured_violation": "fov_read_mm 340.0 on exactly those four series and on no others; fov_phase_mm 312.0 and slice_thickness_mm 6.0 were already inside their bounds", + "previous_maximum_mm": 320.0, + "resolution": "raised fov_read_mm.maximum from 320.0 to 340.0" + }, + "gap_mm": { + "definition": "spacing-thickness", + "maximum": 6.0, + "minimum": -6.0 + }, + "out_of_coverage_error": "OUT_OF_RESLICE_COVERAGE", + "research_only": true, + "rotation_deg": { + "maximum": 15.0, + "minimum": -15.0, + "step": 0.5 + }, + "schema_version": "minimal-vf-editor-bounds-v5-selected", + "source_support_zyx_mm": [ + [ + -119.9817491558854, + -115.9339814631361, + -98.30456657640491 + ], + [ + 406.0182508441146, + 414.0660185368639, + 389.6954334235951 + ] + ], + "spacing_mm": { + "maximum": 10.0, + "minimum": 4.0, + "step": 0.5 + }, + "supersedes": "minimal-vf-editor-bounds-v3", + "thickness_mm": { + "maximum": 10.0, + "minimum": 4.0, + "step": 0.5 + }, + "translation_zyx_mm": { + "maximum": [ + 20.0, + 20.0, + 20.0 + ], + "minimum": [ + -20.0, + -20.0, + -20.0 + ] + } +} diff --git a/try-it/mr/vfemale50-v1/dataset/manifest.json b/try-it/mr/vfemale50-v1/dataset/manifest.json new file mode 100644 index 0000000000000000000000000000000000000000..044a5cebede09788f97624b737fa7e47f7e0094c --- /dev/null +++ b/try-it/mr/vfemale50-v1/dataset/manifest.json @@ -0,0 +1,49 @@ +{ + "case_count": 3, + "cases": [ + { + "case_id": "vfemale50_identity", + "case_json_sha256": "2df5802e4b7e41acfe3c4a8d4929912c18ee97727e093d84e2f1f093c17578e4", + "display_shift_xy_px": [ + 0, + 0 + ], + "raster_count": 48, + "relative_path": "cases/vfemale50_identity" + }, + { + "case_id": "vfemale50_shift_left", + "case_json_sha256": "b8273046d68029a6bd33b0537b7fc9d0bc81e4bc4b3284493feca399bedf27f9", + "display_shift_xy_px": [ + -24, + 0 + ], + "raster_count": 48, + "relative_path": "cases/vfemale50_shift_left" + }, + { + "case_id": "vfemale50_shift_right", + "case_json_sha256": "c5b0ed82dd57e8b18a37a8559b02b39262bb1f6ef6e2e19851ebfedce38b64fb", + "display_shift_xy_px": [ + 24, + 0 + ], + "raster_count": 48, + "relative_path": "cases/vfemale50_shift_right" + } + ], + "contrast_profile_paths": { + "bssfp-cine-3t-v5": "contrast-profiles/bssfp-cine-3t-v5.json", + "truefisp-localizer-3t-v5": "contrast-profiles/truefisp-localizer-3t-v5.json" + }, + "editor_bounds_path": "editor-bounds-v5-selected.json", + "image_dimensions_px": [ + 256, + 256 + ], + "patient_data": false, + "per_case_raster_count": 48, + "research_only": true, + "schema_version": "xcat-minimal-vf-contrast-workflow-dataset-v3", + "workflow_path": "workflow/minimal-ventricular-function-v3.json" +} diff --git a/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-000.bin.gz b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-000.bin.gz new file mode 100644 index 0000000000000000000000000000000000000000..aaa4974cea985bb58448f3388d508349a43bff6b --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-000.bin.gz @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:53e5ace78e85d636076f60368792bdcffd3971b79af586620658f481cf1d8bc3 +size 527989 diff --git a/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-000.json b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-000.json new file mode 100644 index 0000000000000000000000000000000000000000..040e8bad6c17694c48acb70617163bbb696db715 --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-000.json @@ -0,0 +1,80 @@ +{ + "acquisition_sampling": { + "in_plane_fwhm_mm": 2.2, + "in_plane_psf": "separable_gaussian", + "mode": "acquisition", + "psf_boundary": "zero_fill", + "psf_truncation_sigmas": 3.0, + "slice_profile": "rect", + "slice_quadrature": "midpoint", + "slice_samples": 5 + }, + "axis_order": [ + "Z", + "Y", + "X" + ], + "binary_path": "cine-bssfp-3t-v5-selected-phase-000.bin.gz", + "binary_sha256": "53e5ace78e85d636076f60368792bdcffd3971b79af586620658f481cf1d8bc3", + "collection": false, + "compressed_byte_count": 527989, + "dtype": "uint16", + "endianness": "little", + "origin_zyx_mm": [ + 0.0, + 0.0, + 0.0 + ], + "patient_data": false, + "physical_intensity": { + "display_gamma": 1.0, + "display_window": [ + 0.0, + 0.21577951702492393 + ], + "offset": 0.0, + "quantity": "ideal_bssfp_m0_fraction", + "scale": 3.2925843751418926e-06 + }, + "research_only": true, + "schema_version": "reslice-source-v3", + "shape": [ + 263, + 265, + 244 + ], + "source_id": "cine-bssfp-3t-v5-selected-phase-000", + "spacing_zyx_mm": [ + 2.0, + 2.0, + 2.0 + ], + "uncompressed_byte_count": 34011160, + "uncompressed_sha256": "3659296affa1394a65b7aadae146ce906e2b71b2f1a8daf1d733203dedc3819b", + "volume_index_zyx_to_crop_relative_zyx_mm_affine_4x4": [ + [ + 2.0, + 0.0, + 0.0, + 0.0 + ], + [ + 0.0, + 2.0, + 0.0, + 0.0 + ], + [ + 0.0, + 0.0, + 2.0, + 0.0 + ], + [ + 0.0, + 0.0, + 0.0, + 1.0 + ] + ] +} diff --git a/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-001.bin.gz b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-001.bin.gz new file mode 100644 index 0000000000000000000000000000000000000000..51d7ee699af64bd0e932676f0cdea8d9149c4bc4 --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-001.bin.gz @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:1a636f8eafaf2cb678f5c4595e2252bd27f333e91b4041d91edaf3103211c55f +size 527929 diff --git a/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-001.json b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-001.json new file mode 100644 index 0000000000000000000000000000000000000000..349fb7e2312186e66a26da8c3d9c8261da9510c8 --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-001.json @@ -0,0 +1,80 @@ +{ + "acquisition_sampling": { + "in_plane_fwhm_mm": 2.2, + "in_plane_psf": "separable_gaussian", + "mode": "acquisition", + "psf_boundary": "zero_fill", + "psf_truncation_sigmas": 3.0, + "slice_profile": "rect", + "slice_quadrature": "midpoint", + "slice_samples": 5 + }, + "axis_order": [ + "Z", + "Y", + "X" + ], + "binary_path": "cine-bssfp-3t-v5-selected-phase-001.bin.gz", + "binary_sha256": "1a636f8eafaf2cb678f5c4595e2252bd27f333e91b4041d91edaf3103211c55f", + "collection": false, + "compressed_byte_count": 527929, + "dtype": "uint16", + "endianness": "little", + "origin_zyx_mm": [ + 0.0, + 0.0, + 0.0 + ], + "patient_data": false, + "physical_intensity": { + "display_gamma": 1.0, + "display_window": [ + 0.0, + 0.21577951702492393 + ], + "offset": 0.0, + "quantity": "ideal_bssfp_m0_fraction", + "scale": 3.2925843751418926e-06 + }, + "research_only": true, + "schema_version": "reslice-source-v3", + "shape": [ + 263, + 265, + 244 + ], + "source_id": "cine-bssfp-3t-v5-selected-phase-001", + "spacing_zyx_mm": [ + 2.0, + 2.0, + 2.0 + ], + "uncompressed_byte_count": 34011160, + "uncompressed_sha256": "1b3723a8f67ccda26c1229357709a0b5018655c2dc6b698a86d30e243d04e30b", + "volume_index_zyx_to_crop_relative_zyx_mm_affine_4x4": [ + [ + 2.0, + 0.0, + 0.0, + 0.0 + ], + [ + 0.0, + 2.0, + 0.0, + 0.0 + ], + [ + 0.0, + 0.0, + 2.0, + 0.0 + ], + [ + 0.0, + 0.0, + 0.0, + 1.0 + ] + ] +} diff --git a/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-002.bin.gz b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-002.bin.gz new file mode 100644 index 0000000000000000000000000000000000000000..63353c2d76aa57720d8ae1f744e30b08d0f68479 --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-002.bin.gz @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:9e1be564b42e621a027696ad981d4ee7bc0395972f5990b3e10c185d71f98d0b +size 528562 diff --git a/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-002.json b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-002.json new file mode 100644 index 0000000000000000000000000000000000000000..4582ad01dfe498b8b1084eeba0e989d08569bb9e --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-002.json @@ -0,0 +1,80 @@ +{ + "acquisition_sampling": { + "in_plane_fwhm_mm": 2.2, + "in_plane_psf": "separable_gaussian", + "mode": "acquisition", + "psf_boundary": "zero_fill", + "psf_truncation_sigmas": 3.0, + "slice_profile": "rect", + "slice_quadrature": "midpoint", + "slice_samples": 5 + }, + "axis_order": [ + "Z", + "Y", + "X" + ], + "binary_path": "cine-bssfp-3t-v5-selected-phase-002.bin.gz", + "binary_sha256": "9e1be564b42e621a027696ad981d4ee7bc0395972f5990b3e10c185d71f98d0b", + "collection": false, + "compressed_byte_count": 528562, + "dtype": "uint16", + "endianness": "little", + "origin_zyx_mm": [ + 0.0, + 0.0, + 0.0 + ], + "patient_data": false, + "physical_intensity": { + "display_gamma": 1.0, + "display_window": [ + 0.0, + 0.21577951702492393 + ], + "offset": 0.0, + "quantity": "ideal_bssfp_m0_fraction", + "scale": 3.2925843751418926e-06 + }, + "research_only": true, + "schema_version": "reslice-source-v3", + "shape": [ + 263, + 265, + 244 + ], + "source_id": "cine-bssfp-3t-v5-selected-phase-002", + "spacing_zyx_mm": [ + 2.0, + 2.0, + 2.0 + ], + "uncompressed_byte_count": 34011160, + "uncompressed_sha256": "bbfc333545df30babf7c6fc2c61143bcfe9a4875ee7e2bdb5b1d369e9feef6bc", + "volume_index_zyx_to_crop_relative_zyx_mm_affine_4x4": [ + [ + 2.0, + 0.0, + 0.0, + 0.0 + ], + [ + 0.0, + 2.0, + 0.0, + 0.0 + ], + [ + 0.0, + 0.0, + 2.0, + 0.0 + ], + [ + 0.0, + 0.0, + 0.0, + 1.0 + ] + ] +} diff --git a/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-003.bin.gz b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-003.bin.gz new file mode 100644 index 0000000000000000000000000000000000000000..05a5f273f04e4ebf59ef46fe47322a7c1565922b --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-003.bin.gz @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:399614409afe9794de62969f9994e316c4c17a0f83c191a4d7b263f914c034de +size 528432 diff --git a/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-003.json b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-003.json new file mode 100644 index 0000000000000000000000000000000000000000..09f2123ee8154f3aee30224ea3198abaf7813a78 --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-003.json @@ -0,0 +1,80 @@ +{ + "acquisition_sampling": { + "in_plane_fwhm_mm": 2.2, + "in_plane_psf": "separable_gaussian", + "mode": "acquisition", + "psf_boundary": "zero_fill", + "psf_truncation_sigmas": 3.0, + "slice_profile": "rect", + "slice_quadrature": "midpoint", + "slice_samples": 5 + }, + "axis_order": [ + "Z", + "Y", + "X" + ], + "binary_path": "cine-bssfp-3t-v5-selected-phase-003.bin.gz", + "binary_sha256": "399614409afe9794de62969f9994e316c4c17a0f83c191a4d7b263f914c034de", + "collection": false, + "compressed_byte_count": 528432, + "dtype": "uint16", + "endianness": "little", + "origin_zyx_mm": [ + 0.0, + 0.0, + 0.0 + ], + "patient_data": false, + "physical_intensity": { + "display_gamma": 1.0, + "display_window": [ + 0.0, + 0.21577951702492393 + ], + "offset": 0.0, + "quantity": "ideal_bssfp_m0_fraction", + "scale": 3.2925843751418926e-06 + }, + "research_only": true, + "schema_version": "reslice-source-v3", + "shape": [ + 263, + 265, + 244 + ], + "source_id": "cine-bssfp-3t-v5-selected-phase-003", + "spacing_zyx_mm": [ + 2.0, + 2.0, + 2.0 + ], + "uncompressed_byte_count": 34011160, + "uncompressed_sha256": "a5b1449f2b4567ef64ea240cdf7f216904c823e078a0515ec593d25c2463d7bd", + "volume_index_zyx_to_crop_relative_zyx_mm_affine_4x4": [ + [ + 2.0, + 0.0, + 0.0, + 0.0 + ], + [ + 0.0, + 2.0, + 0.0, + 0.0 + ], + [ + 0.0, + 0.0, + 2.0, + 0.0 + ], + [ + 0.0, + 0.0, + 0.0, + 1.0 + ] + ] +} diff --git a/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-004.bin.gz b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-004.bin.gz new file mode 100644 index 0000000000000000000000000000000000000000..ef60f3dfba289db33c6bac9e13b902fe1a42cbfa --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-004.bin.gz @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:d90ac01692d05cd70c176a4b028217986f260b68c24f87cd668857299806137f +size 528513 diff --git a/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-004.json b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-004.json new file mode 100644 index 0000000000000000000000000000000000000000..fbce0f817b3f7c28d46ce733f1257d76ba12e0e8 --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected-phase-004.json @@ -0,0 +1,80 @@ +{ + "acquisition_sampling": { + "in_plane_fwhm_mm": 2.2, + "in_plane_psf": "separable_gaussian", + "mode": "acquisition", + "psf_boundary": "zero_fill", + "psf_truncation_sigmas": 3.0, + "slice_profile": "rect", + "slice_quadrature": "midpoint", + "slice_samples": 5 + }, + "axis_order": [ + "Z", + "Y", + "X" + ], + "binary_path": "cine-bssfp-3t-v5-selected-phase-004.bin.gz", + "binary_sha256": "d90ac01692d05cd70c176a4b028217986f260b68c24f87cd668857299806137f", + "collection": false, + "compressed_byte_count": 528513, + "dtype": "uint16", + "endianness": "little", + "origin_zyx_mm": [ + 0.0, + 0.0, + 0.0 + ], + "patient_data": false, + "physical_intensity": { + "display_gamma": 1.0, + "display_window": [ + 0.0, + 0.21577951702492393 + ], + "offset": 0.0, + "quantity": "ideal_bssfp_m0_fraction", + "scale": 3.2925843751418926e-06 + }, + "research_only": true, + "schema_version": "reslice-source-v3", + "shape": [ + 263, + 265, + 244 + ], + "source_id": "cine-bssfp-3t-v5-selected-phase-004", + "spacing_zyx_mm": [ + 2.0, + 2.0, + 2.0 + ], + "uncompressed_byte_count": 34011160, + "uncompressed_sha256": "980b2daef1d62a56f39b6cf60b4244778c1012a39acab4e29066d9dc490b86de", + "volume_index_zyx_to_crop_relative_zyx_mm_affine_4x4": [ + [ + 2.0, + 0.0, + 0.0, + 0.0 + ], + [ + 0.0, + 2.0, + 0.0, + 0.0 + ], + [ + 0.0, + 0.0, + 2.0, + 0.0 + ], + [ + 0.0, + 0.0, + 0.0, + 1.0 + ] + ] +} diff --git a/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected.json b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected.json new file mode 100644 index 0000000000000000000000000000000000000000..1e5d3dadc31c9aca062ff033a71935549115c0f7 --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/cine-bssfp-3t-v5-selected.json @@ -0,0 +1,53 @@ +{ + "acquisition_sampling": { + "in_plane_fwhm_mm": 2.2, + "in_plane_psf": "separable_gaussian", + "mode": "acquisition", + "psf_boundary": "zero_fill", + "psf_truncation_sigmas": 3.0, + "slice_profile": "rect", + "slice_quadrature": "midpoint", + "slice_samples": 5 + }, + "collection": true, + "cyclic_interpolation": "linear", + "displayed_phase_count": 20, + "ed_source_phase": 0, + "es_source_phase": 2, + "phase_count": 5, + "phase_records": [ + { + "contrast_source_id": "cine-bssfp-3t-v5-selected-phase-000", + "normalized_cardiac_phase": 0.0, + "phase_index": 0, + "physiologic_marker": null + }, + { + "contrast_source_id": "cine-bssfp-3t-v5-selected-phase-001", + "normalized_cardiac_phase": 0.2, + "phase_index": 1, + "physiologic_marker": null + }, + { + "contrast_source_id": "cine-bssfp-3t-v5-selected-phase-002", + "normalized_cardiac_phase": 0.4, + "phase_index": 2, + "physiologic_marker": null + }, + { + "contrast_source_id": "cine-bssfp-3t-v5-selected-phase-003", + "normalized_cardiac_phase": 0.6, + "phase_index": 3, + "physiologic_marker": null + }, + { + "contrast_source_id": "cine-bssfp-3t-v5-selected-phase-004", + "normalized_cardiac_phase": 0.8, + "phase_index": 4, + "physiologic_marker": null + } + ], + "research_only": true, + "schema_version": "reslice-source-v3", + "source_id": "cine-bssfp-3t-v5-selected" +} diff --git a/try-it/mr/vfemale50-v1/source-volumes/static-pd-v1.bin.gz b/try-it/mr/vfemale50-v1/source-volumes/static-pd-v1.bin.gz new file mode 100644 index 0000000000000000000000000000000000000000..8acbdae2bb8d3d147e54fe10def2bec9820c969c --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/static-pd-v1.bin.gz @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:7b8ea39228e98f5457398239dc1e63a42646af5459625265b8f8f6dd8755bd47 +size 525208 diff --git a/try-it/mr/vfemale50-v1/source-volumes/static-pd-v1.json b/try-it/mr/vfemale50-v1/source-volumes/static-pd-v1.json new file mode 100644 index 0000000000000000000000000000000000000000..3988c139c221a98411d1f2f8664a8257ee43376a --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/static-pd-v1.json @@ -0,0 +1,80 @@ +{ + "acquisition_sampling": { + "in_plane_fwhm_mm": 2.2, + "in_plane_psf": "separable_gaussian", + "mode": "acquisition", + "psf_boundary": "zero_fill", + "psf_truncation_sigmas": 3.0, + "slice_profile": "rect", + "slice_quadrature": "midpoint", + "slice_samples": 5 + }, + "axis_order": [ + "Z", + "Y", + "X" + ], + "binary_path": "static-pd-v1.bin.gz", + "binary_sha256": "7b8ea39228e98f5457398239dc1e63a42646af5459625265b8f8f6dd8755bd47", + "collection": false, + "compressed_byte_count": 525208, + "dtype": "uint16", + "endianness": "little", + "origin_zyx_mm": [ + 0.0, + 0.0, + 0.0 + ], + "patient_data": false, + "physical_intensity": { + "display_gamma": 1.0, + "display_window": [ + 0.0, + 100.0 + ], + "offset": 0.0, + "quantity": "proton_density_percent", + "scale": 0.01 + }, + "research_only": true, + "schema_version": "reslice-source-v3", + "shape": [ + 263, + 265, + 244 + ], + "source_id": "static-pd-v1", + "spacing_zyx_mm": [ + 2.0, + 2.0, + 2.0 + ], + "uncompressed_byte_count": 34011160, + "uncompressed_sha256": "fc9b381d1eb5ce1ae1e862d62c65cdf874d0647060c5879ba6bfb735c86d659a", + "volume_index_zyx_to_crop_relative_zyx_mm_affine_4x4": [ + [ + 2.0, + 0.0, + 0.0, + 0.0 + ], + [ + 0.0, + 2.0, + 0.0, + 0.0 + ], + [ + 0.0, + 0.0, + 2.0, + 0.0 + ], + [ + 0.0, + 0.0, + 0.0, + 1.0 + ] + ] +} diff --git a/try-it/mr/vfemale50-v1/source-volumes/static-t1-v1.bin.gz b/try-it/mr/vfemale50-v1/source-volumes/static-t1-v1.bin.gz new file mode 100644 index 0000000000000000000000000000000000000000..f77e264e7b7f7573d7f759194f3f78063456e903 --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/static-t1-v1.bin.gz @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:2e3535baaf83c2659473aeb76dd118d83064c1d2c88262a7942a62021013d88e +size 524601 diff --git a/try-it/mr/vfemale50-v1/source-volumes/static-t1-v1.json b/try-it/mr/vfemale50-v1/source-volumes/static-t1-v1.json new file mode 100644 index 0000000000000000000000000000000000000000..567df5c32561d8f27d93bbe8b576b4d314127483 --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/static-t1-v1.json @@ -0,0 +1,80 @@ +{ + "acquisition_sampling": { + "in_plane_fwhm_mm": 2.2, + "in_plane_psf": "separable_gaussian", + "mode": "acquisition", + "psf_boundary": "zero_fill", + "psf_truncation_sigmas": 3.0, + "slice_profile": "rect", + "slice_quadrature": "midpoint", + "slice_samples": 5 + }, + "axis_order": [ + "Z", + "Y", + "X" + ], + "binary_path": "static-t1-v1.bin.gz", + "binary_sha256": "2e3535baaf83c2659473aeb76dd118d83064c1d2c88262a7942a62021013d88e", + "collection": false, + "compressed_byte_count": 524601, + "dtype": "uint16", + "endianness": "little", + "origin_zyx_mm": [ + 0.0, + 0.0, + 0.0 + ], + "patient_data": false, + "physical_intensity": { + "display_gamma": 1.0, + "display_window": [ + 0.0, + 3000.0 + ], + "offset": 0.0, + "quantity": "longitudinal_relaxation_ms", + "scale": 0.1 + }, + "research_only": true, + "schema_version": "reslice-source-v3", + "shape": [ + 263, + 265, + 244 + ], + "source_id": "static-t1-v1", + "spacing_zyx_mm": [ + 2.0, + 2.0, + 2.0 + ], + "uncompressed_byte_count": 34011160, + "uncompressed_sha256": "af94f3f98ba9da03759505f96724a20c34ba5f9bad9b179302baddeb46104815", + "volume_index_zyx_to_crop_relative_zyx_mm_affine_4x4": [ + [ + 2.0, + 0.0, + 0.0, + 0.0 + ], + [ + 0.0, + 2.0, + 0.0, + 0.0 + ], + [ + 0.0, + 0.0, + 2.0, + 0.0 + ], + [ + 0.0, + 0.0, + 0.0, + 1.0 + ] + ] +} diff --git a/try-it/mr/vfemale50-v1/source-volumes/static-t2-v1.bin.gz b/try-it/mr/vfemale50-v1/source-volumes/static-t2-v1.bin.gz new file mode 100644 index 0000000000000000000000000000000000000000..f6df29de732fa08246cdeb3922d64363967fe84d --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/static-t2-v1.bin.gz @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:8526edeacf0cbe77e34a650a0f61c2c2dd8d9081fcaa30c7c128625f041e4d7f +size 515998 diff --git a/try-it/mr/vfemale50-v1/source-volumes/static-t2-v1.json b/try-it/mr/vfemale50-v1/source-volumes/static-t2-v1.json new file mode 100644 index 0000000000000000000000000000000000000000..8103473f0f5451211cc1def417c1ce27dbc11a76 --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/static-t2-v1.json @@ -0,0 +1,80 @@ +{ + "acquisition_sampling": { + "in_plane_fwhm_mm": 2.2, + "in_plane_psf": "separable_gaussian", + "mode": "acquisition", + "psf_boundary": "zero_fill", + "psf_truncation_sigmas": 3.0, + "slice_profile": "rect", + "slice_quadrature": "midpoint", + "slice_samples": 5 + }, + "axis_order": [ + "Z", + "Y", + "X" + ], + "binary_path": "static-t2-v1.bin.gz", + "binary_sha256": "8526edeacf0cbe77e34a650a0f61c2c2dd8d9081fcaa30c7c128625f041e4d7f", + "collection": false, + "compressed_byte_count": 515998, + "dtype": "uint16", + "endianness": "little", + "origin_zyx_mm": [ + 0.0, + 0.0, + 0.0 + ], + "patient_data": false, + "physical_intensity": { + "display_gamma": 1.0, + "display_window": [ + 0.0, + 500.0 + ], + "offset": 0.0, + "quantity": "transverse_relaxation_ms", + "scale": 0.01 + }, + "research_only": true, + "schema_version": "reslice-source-v3", + "shape": [ + 263, + 265, + 244 + ], + "source_id": "static-t2-v1", + "spacing_zyx_mm": [ + 2.0, + 2.0, + 2.0 + ], + "uncompressed_byte_count": 34011160, + "uncompressed_sha256": "83ea06f2b18dabf8995d3ffc567a893d5565ff1692b3d471c7dec8aa9c18c30a", + "volume_index_zyx_to_crop_relative_zyx_mm_affine_4x4": [ + [ + 2.0, + 0.0, + 0.0, + 0.0 + ], + [ + 0.0, + 2.0, + 0.0, + 0.0 + ], + [ + 0.0, + 0.0, + 2.0, + 0.0 + ], + [ + 0.0, + 0.0, + 0.0, + 1.0 + ] + ] +} diff --git a/try-it/mr/vfemale50-v1/source-volumes/static-truefisp-3t-v5-selected.bin.gz b/try-it/mr/vfemale50-v1/source-volumes/static-truefisp-3t-v5-selected.bin.gz new file mode 100644 index 0000000000000000000000000000000000000000..75cf67eb02414a0160dfad56dd2422c9182ae2f9 --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/static-truefisp-3t-v5-selected.bin.gz @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:377122451b9d484bf8c0f1a6a88be47e7b5bed035d15715b5109f52edda5f042 +size 528062 diff --git a/try-it/mr/vfemale50-v1/source-volumes/static-truefisp-3t-v5-selected.json b/try-it/mr/vfemale50-v1/source-volumes/static-truefisp-3t-v5-selected.json new file mode 100644 index 0000000000000000000000000000000000000000..8a8f5d5c32b9b6c15b8eddd2be2f7ce111ac07bb --- /dev/null +++ b/try-it/mr/vfemale50-v1/source-volumes/static-truefisp-3t-v5-selected.json @@ -0,0 +1,80 @@ +{ + "acquisition_sampling": { + "in_plane_fwhm_mm": 2.2, + "in_plane_psf": "separable_gaussian", + "mode": "acquisition", + "psf_boundary": "zero_fill", + "psf_truncation_sigmas": 3.0, + "slice_profile": "rect", + "slice_quadrature": "midpoint", + "slice_samples": 5 + }, + "axis_order": [ + "Z", + "Y", + "X" + ], + "binary_path": "static-truefisp-3t-v5-selected.bin.gz", + "binary_sha256": "377122451b9d484bf8c0f1a6a88be47e7b5bed035d15715b5109f52edda5f042", + "collection": false, + "compressed_byte_count": 528062, + "dtype": "uint16", + "endianness": "little", + "origin_zyx_mm": [ + 0.0, + 0.0, + 0.0 + ], + "patient_data": false, + "physical_intensity": { + "display_gamma": 1.0, + "display_window": [ + 0.0, + 0.23215191925742953 + ], + "offset": 0.0, + "quantity": "ideal_bssfp_m0_fraction", + "scale": 3.542411219309217e-06 + }, + "research_only": true, + "schema_version": "reslice-source-v3", + "shape": [ + 263, + 265, + 244 + ], + "source_id": "static-truefisp-3t-v5-selected", + "spacing_zyx_mm": [ + 2.0, + 2.0, + 2.0 + ], + "uncompressed_byte_count": 34011160, + "uncompressed_sha256": "d23bbe438b4e645a7816878fc48af0bd897360fd420fe1ae8d3ed1cfe24d8095", + "volume_index_zyx_to_crop_relative_zyx_mm_affine_4x4": [ + [ + 2.0, + 0.0, + 0.0, + 0.0 + ], + [ + 0.0, + 2.0, + 0.0, + 0.0 + ], + [ + 0.0, + 0.0, + 2.0, + 0.0 + ], + [ + 0.0, + 0.0, + 0.0, + 1.0 + ] + ] +} diff --git a/try-it/mr/vfemale50-v1/subject-extension.json b/try-it/mr/vfemale50-v1/subject-extension.json new file mode 100644 index 0000000000000000000000000000000000000000..42737f6c4c61faa17a84e27dfb2de1b655a4b389 --- /dev/null +++ b/try-it/mr/vfemale50-v1/subject-extension.json @@ -0,0 +1,17 @@ +{ + "bundle": { + "aggregate_sha256": "aa97e748f56089ea785494c8302b7c2890c752a0f148c2fafb9b9bb013a71073", + "cine_source_sidecar": "source-volumes/cine-bssfp-3t-v5-selected.json", + "file_count": 186, + "manifest_sha256": "91c5520e7f9e45823790434f44d2d7720304cdf4cc94885d82f1fd7b0e7edead", + "schema_version": "laptop-minimal-vf-workflow-v5-selected", + "static_source_sidecar": "source-volumes/static-truefisp-3t-v5-selected.json", + "workflow_path": "workflow/minimal-ventricular-function-v3.json" + }, + "display_name": "Synthetic vfemale50 (XCAT)", + "license_scope": "authorized-local-use-only", + "patient_data": false, + "research_only": true, + "schema_version": "biri-subject-extension-v1", + "subject_id": "vfemale50" +} diff --git a/try-it/mr/vfemale50-v1/workflow/minimal-ventricular-function-v3.json b/try-it/mr/vfemale50-v1/workflow/minimal-ventricular-function-v3.json new file mode 100644 index 0000000000000000000000000000000000000000..5f29a6c2cff6307bbf0a494f4c37e3b3eef51eb8 --- /dev/null +++ b/try-it/mr/vfemale50-v1/workflow/minimal-ventricular-function-v3.json @@ -0,0 +1,637 @@ +{ + "display_label": "Synthetic Minimal Ventricular Function \u00b7 contrast-aware v3", + "golden_prescription_source": "dataset case context; canonical orientation repaired", + "initial_queue": [ + { + "allowed_in_add_sequence_menu": true, + "display_id": "localizer_3plane", + "instance_id": "initial-localizer_3plane", + "queue_index": 0, + "queue_item_kind": "sequence", + "template_id": "localizer_3plane" + }, + { + "allowed_in_add_sequence_menu": true, + "display_id": "scout_sag", + "instance_id": "initial-scout_sag", + "queue_index": 1, + "queue_item_kind": "sequence", + "template_id": "scout_sag" + }, + { + "allowed_in_add_sequence_menu": true, + "display_id": "scout_tra", + "instance_id": "initial-scout_tra", + "queue_index": 2, + "queue_item_kind": "sequence", + "template_id": "scout_tra" + }, + { + "allowed_in_add_sequence_menu": true, + "display_id": "scout_cor", + "instance_id": "initial-scout_cor", + "queue_index": 3, + "queue_item_kind": "sequence", + "template_id": "scout_cor" + }, + { + "allowed_in_add_sequence_menu": true, + "display_id": "localizer_2ch", + "instance_id": "initial-localizer_2ch", + "queue_index": 4, + "queue_item_kind": "sequence", + "template_id": "localizer_2ch" + }, + { + "allowed_in_add_sequence_menu": true, + "display_id": "localizer_4ch", + "instance_id": "initial-localizer_4ch", + "queue_index": 5, + "queue_item_kind": "sequence", + "template_id": "localizer_4ch" + }, + { + "allowed_in_add_sequence_menu": true, + "display_id": "localizer_sax", + "instance_id": "initial-localizer_sax", + "queue_index": 6, + "queue_item_kind": "sequence", + "template_id": "localizer_sax" + }, + { + "allowed_in_add_sequence_menu": true, + "display_id": "aorta_long_axis", + "instance_id": "initial-aorta_long_axis", + "queue_index": 7, + "queue_item_kind": "sequence", + "template_id": "aorta_long_axis" + }, + { + "allowed_in_add_sequence_menu": true, + "display_id": "aorta_pc", + "instance_id": "initial-aorta_pc", + "queue_index": 8, + "queue_item_kind": "sequence", + "template_id": "aorta_pc" + }, + { + "allowed_in_add_sequence_menu": true, + "display_id": "cine_2ch", + "instance_id": "initial-cine_2ch", + "queue_index": 9, + "queue_item_kind": "sequence", + "template_id": "cine_2ch" + }, + { + "allowed_in_add_sequence_menu": true, + "display_id": "cine_4ch", + "instance_id": "initial-cine_4ch", + "queue_index": 10, + "queue_item_kind": "sequence", + "template_id": "cine_4ch" + }, + { + "allowed_in_add_sequence_menu": true, + "copied_from_instance_id": null, + "display_id": "cine_sax", + "dynamic_ordinal": 1, + "instance_id": "initial-cine_sax", + "queue_index": 11, + "queue_item_kind": "sequence", + "template_id": "cine_sax" + }, + { + "allowed_in_add_sequence_menu": false, + "display_id": "review_complete", + "instance_id": "initial-review_complete", + "queue_index": 12, + "queue_item_kind": "review", + "template_id": null + } + ], + "patient_data": false, + "prescription_template_ids": [ + "aorta_long_axis", + "aorta_pc", + "localizer_2ch", + "localizer_3plane", + "localizer_4ch", + "localizer_sax", + "scout_cor", + "scout_sag", + "scout_tra" + ], + "profile_paths": { + "bssfp-cine-3t-v5": "dataset/contrast-profiles/bssfp-cine-3t-v5.json", + "truefisp-localizer-3t-v5": "dataset/contrast-profiles/truefisp-localizer-3t-v5.json" + }, + "research_only": true, + "scanner_or_device_control": false, + "schema_version": "minimal-ventricular-function-workflow-v3", + "sequence_templates": [ + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "truefisp-localizer-3t-v5", + "default_parameter_preset": { + "fov_mm": [ + 280.0, + 280.0 + ], + "slice_thickness_mm": 6.0 + }, + "display_label": "3-plane TrueFISP localizer", + "expected_counts": { + "spatial_slices": 3, + "temporal_frames": 1 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": false, + "produced_output_role": "localizer_3plane", + "required_references": [], + "sequence_kind": "localizer", + "simulated_duration_s": 6.0, + "template_id": "localizer_3plane" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "truefisp-localizer-3t-v5", + "default_parameter_preset": { + "fov_mm": [ + 280.0, + 280.0 + ], + "slice_thickness_mm": 6.0 + }, + "display_label": "Sagittal scout", + "expected_counts": { + "spatial_slices": 15, + "temporal_frames": 1 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": false, + "produced_output_role": "sagittal_scout", + "required_references": [ + { + "compatible_output_roles": [ + "localizer_3plane" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "scout_stack", + "simulated_duration_s": 15.0, + "template_id": "scout_sag" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "truefisp-localizer-3t-v5", + "default_parameter_preset": { + "fov_mm": [ + 280.0, + 280.0 + ], + "slice_thickness_mm": 6.0 + }, + "display_label": "Transverse scout", + "expected_counts": { + "spatial_slices": 15, + "temporal_frames": 1 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": false, + "produced_output_role": "transverse_scout", + "required_references": [ + { + "compatible_output_roles": [ + "localizer_3plane" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "scout_stack", + "simulated_duration_s": 15.0, + "template_id": "scout_tra" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "truefisp-localizer-3t-v5", + "default_parameter_preset": { + "fov_mm": [ + 280.0, + 280.0 + ], + "slice_thickness_mm": 6.0 + }, + "display_label": "Coronal scout", + "expected_counts": { + "spatial_slices": 15, + "temporal_frames": 1 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": false, + "produced_output_role": "coronal_scout", + "required_references": [ + { + "compatible_output_roles": [ + "localizer_3plane" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "scout_stack", + "simulated_duration_s": 15.0, + "template_id": "scout_cor" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "truefisp-localizer-3t-v5", + "default_parameter_preset": { + "fov_mm": [ + 340.0, + 312.0 + ], + "slice_thickness_mm": 6.0 + }, + "display_label": "2CH positioning + acquisition", + "expected_counts": { + "spatial_slices": 1, + "temporal_frames": 1 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": true, + "produced_output_role": "acquired_2ch_localizer", + "required_references": [ + { + "compatible_output_roles": [ + "sagittal_scout" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + }, + { + "compatible_output_roles": [ + "transverse_scout" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + }, + { + "compatible_output_roles": [ + "coronal_scout" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "combined_positioning_acquisition", + "simulated_duration_s": 4.0, + "template_id": "localizer_2ch" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "truefisp-localizer-3t-v5", + "default_parameter_preset": { + "fov_mm": [ + 340.0, + 312.0 + ], + "slice_thickness_mm": 6.0 + }, + "display_label": "4CH positioning + acquisition", + "expected_counts": { + "spatial_slices": 1, + "temporal_frames": 1 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": true, + "produced_output_role": "acquired_4ch_localizer", + "required_references": [ + { + "compatible_output_roles": [ + "acquired_2ch_localizer" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + }, + { + "compatible_output_roles": [ + "sagittal_scout" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + }, + { + "compatible_output_roles": [ + "coronal_scout" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "combined_positioning_acquisition", + "simulated_duration_s": 4.0, + "template_id": "localizer_4ch" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "truefisp-localizer-3t-v5", + "default_parameter_preset": { + "fov_mm": [ + 300.0, + 300.0 + ], + "slice_spacing_mm": 6.0, + "slice_thickness_mm": 6.0 + }, + "display_label": "SAX positioning + acquisition", + "expected_counts": { + "spatial_slices": 15, + "temporal_frames": 1 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": true, + "produced_output_role": "acquired_sax_localizer", + "required_references": [ + { + "compatible_output_roles": [ + "acquired_2ch_localizer" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + }, + { + "compatible_output_roles": [ + "acquired_4ch_localizer" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + }, + { + "compatible_output_roles": [ + "coronal_scout" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "combined_positioning_acquisition", + "simulated_duration_s": 18.0, + "template_id": "localizer_sax" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "truefisp-localizer-3t-v5", + "default_parameter_preset": { + "fov_mm": [ + 260.0, + 220.0 + ], + "slice_thickness_mm": 6.0 + }, + "display_label": "Aortic long-axis localizer", + "expected_counts": { + "spatial_slices": 1, + "temporal_frames": 1 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": true, + "produced_output_role": "acquired_aorta_long_axis", + "required_references": [ + { + "compatible_output_roles": [ + "acquired_sax_localizer" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "combined_positioning_acquisition", + "simulated_duration_s": 6.0, + "template_id": "aorta_long_axis" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "truefisp-localizer-3t-v5", + "default_parameter_preset": { + "fov_mm": [ + 120.0, + 120.0 + ], + "slice_thickness_mm": 6.0 + }, + "display_label": "Ascending-aortic PC plane", + "expected_counts": { + "spatial_slices": 1, + "temporal_frames": 1 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": true, + "produced_output_role": "acquired_aorta_pc", + "required_references": [ + { + "compatible_output_roles": [ + "acquired_aorta_long_axis" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "combined_positioning_acquisition", + "simulated_duration_s": 8.0, + "template_id": "aorta_pc" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "bssfp-cine-3t-v5", + "default_parameter_preset": { + "cardiac_phases": 20, + "fov_mm": [ + 340.0, + 312.0 + ] + }, + "display_label": "2CH cine \u00b7 20 phases", + "expected_counts": { + "spatial_slices": 1, + "temporal_frames": 20 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": false, + "produced_output_role": "cine_2ch", + "required_references": [ + { + "compatible_output_roles": [ + "acquired_2ch_localizer" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "cine", + "simulated_duration_s": 12.0, + "template_id": "cine_2ch" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "bssfp-cine-3t-v5", + "default_parameter_preset": { + "cardiac_phases": 20, + "fov_mm": [ + 340.0, + 312.0 + ] + }, + "display_label": "4CH cine \u00b7 20 phases", + "expected_counts": { + "spatial_slices": 1, + "temporal_frames": 20 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": false, + "produced_output_role": "cine_4ch", + "required_references": [ + { + "compatible_output_roles": [ + "acquired_4ch_localizer" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "cine", + "simulated_duration_s": 12.0, + "template_id": "cine_4ch" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "bssfp-cine-3t-v5", + "default_parameter_preset": { + "cardiac_phases": 20, + "fov_mm": [ + 300.0, + 300.0 + ] + }, + "display_label": "SAX cine \u00b7 1 slice \u00d7 20 phases", + "expected_counts": { + "spatial_slices": 1, + "temporal_frames": 20 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": false, + "produced_output_role": "cine_sax", + "required_references": [ + { + "compatible_output_roles": [ + "acquired_sax_localizer" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "cine", + "simulated_duration_s": 12.0, + "template_id": "cine_sax" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "bssfp-cine-3t-v5", + "default_parameter_preset": { + "fov_mm": [ + 300.0, + 300.0 + ], + "num_t2preps": 3, + "slice_thickness_mm": 8.0, + "t2prep_times_ms": [ + 0.0, + 25.0, + 55.0 + ] + }, + "display_label": "T2 map \u00b7 T2-prepared bSSFP", + "expected_counts": { + "spatial_slices": 1, + "temporal_frames": 4 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": false, + "produced_output_role": "t2_map", + "required_references": [ + { + "compatible_output_roles": [ + "acquired_sax_localizer" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "mapping", + "simulated_duration_s": 9.0, + "template_id": "t2_map" + }, + { + "allowed_in_add_sequence_menu": true, + "contrast_profile_id": "bssfp-cine-3t-v5", + "default_parameter_preset": { + "fov_mm": [ + 300.0, + 300.0 + ], + "num_ir": 2, + "slice_thickness_mm": 8.0, + "ti_times_ms": [ + 110.0, + 190.0 + ] + }, + "display_label": "T1 map \u00b7 MOLLI 5(3)3", + "expected_counts": { + "spatial_slices": 1, + "temporal_frames": 9 + }, + "expected_image_dimensions_px": [ + 256, + 256 + ], + "positioning_required": false, + "produced_output_role": "t1_map_molli", + "required_references": [ + { + "compatible_output_roles": [ + "acquired_sax_localizer" + ], + "resolution_strategy": "latest_compatible_completed_output_role" + } + ], + "sequence_kind": "mapping", + "simulated_duration_s": 11.0, + "template_id": "t1_map_molli" + } + ], + "workflow_id": "minimal-ventricular-function-v3" +} diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/attenuation-db-cm-mhz/c/0/0/0 b/try-it/us/synthetic-abdomen-v1/arrays.zarr/attenuation-db-cm-mhz/c/0/0/0 new file mode 100644 index 0000000000000000000000000000000000000000..856a90f0dc79db28c46e7b71236ff1c797fda550 Binary files /dev/null and b/try-it/us/synthetic-abdomen-v1/arrays.zarr/attenuation-db-cm-mhz/c/0/0/0 differ diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/attenuation-db-cm-mhz/zarr.json b/try-it/us/synthetic-abdomen-v1/arrays.zarr/attenuation-db-cm-mhz/zarr.json new file mode 100644 index 0000000000000000000000000000000000000000..718d1b3b6aae47a7ac4efe8237ad6243ba6b7084 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/attenuation-db-cm-mhz/zarr.json @@ -0,0 +1 @@ +{"attributes":{"biri_decoder":"zarr-v3-bytes-gzip-v1","chunk_traversal_order":"lexicographic"},"chunk_grid":{"configuration":{"chunk_shape":[96,128,128]},"name":"regular"},"chunk_key_encoding":{"configuration":{"separator":"/"},"name":"default"},"codecs":[{"configuration":{"endian":"little"},"name":"bytes"},{"configuration":{"level":1},"name":"gzip"}],"data_type":"float32","fill_value":0,"node_type":"array","shape":[96,128,128],"zarr_format":3} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-normal-xyz/c/0/0/0/0 b/try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-normal-xyz/c/0/0/0/0 new file mode 100644 index 0000000000000000000000000000000000000000..6c980832647bf5dc1c89bdce4defc1fa7f7630ba --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-normal-xyz/c/0/0/0/0 @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:f2c38e1eb1ea86c0a1fda1f5d02a6400cb1f448cb87bfe4c0acd74d5fd82a966 +size 351156 diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-normal-xyz/zarr.json b/try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-normal-xyz/zarr.json new file mode 100644 index 0000000000000000000000000000000000000000..916fe9c10d16d8c9ca32995dc6d158756138f6ba --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-normal-xyz/zarr.json @@ -0,0 +1 @@ +{"attributes":{"biri_decoder":"zarr-v3-bytes-gzip-v1","chunk_traversal_order":"lexicographic"},"chunk_grid":{"configuration":{"chunk_shape":[96,128,128,3]},"name":"regular"},"chunk_key_encoding":{"configuration":{"separator":"/"},"name":"default"},"codecs":[{"configuration":{"endian":"little"},"name":"bytes"},{"configuration":{"level":1},"name":"gzip"}],"data_type":"float32","fill_value":0,"node_type":"array","shape":[96,128,128,3],"zarr_format":3} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-strength/c/0/0/0 b/try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-strength/c/0/0/0 new file mode 100644 index 0000000000000000000000000000000000000000..7f224208c4c59e52496a0acc278891e4454fe443 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-strength/c/0/0/0 @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:7fe0f2062db725e4f3a1dd524bddabafc5310e5f9f7de68bf99afe629b651751 +size 162183 diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-strength/zarr.json b/try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-strength/zarr.json new file mode 100644 index 0000000000000000000000000000000000000000..718d1b3b6aae47a7ac4efe8237ad6243ba6b7084 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/boundary-strength/zarr.json @@ -0,0 +1 @@ +{"attributes":{"biri_decoder":"zarr-v3-bytes-gzip-v1","chunk_traversal_order":"lexicographic"},"chunk_grid":{"configuration":{"chunk_shape":[96,128,128]},"name":"regular"},"chunk_key_encoding":{"configuration":{"separator":"/"},"name":"default"},"codecs":[{"configuration":{"endian":"little"},"name":"bytes"},{"configuration":{"level":1},"name":"gzip"}],"data_type":"float32","fill_value":0,"node_type":"array","shape":[96,128,128],"zarr_format":3} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/density-kgm3/c/0/0/0 b/try-it/us/synthetic-abdomen-v1/arrays.zarr/density-kgm3/c/0/0/0 new file mode 100644 index 0000000000000000000000000000000000000000..d85944256267770b3591ee30ba629dd5b4509ab0 Binary files /dev/null and b/try-it/us/synthetic-abdomen-v1/arrays.zarr/density-kgm3/c/0/0/0 differ diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/density-kgm3/zarr.json b/try-it/us/synthetic-abdomen-v1/arrays.zarr/density-kgm3/zarr.json new file mode 100644 index 0000000000000000000000000000000000000000..718d1b3b6aae47a7ac4efe8237ad6243ba6b7084 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/density-kgm3/zarr.json @@ -0,0 +1 @@ +{"attributes":{"biri_decoder":"zarr-v3-bytes-gzip-v1","chunk_traversal_order":"lexicographic"},"chunk_grid":{"configuration":{"chunk_shape":[96,128,128]},"name":"regular"},"chunk_key_encoding":{"configuration":{"separator":"/"},"name":"default"},"codecs":[{"configuration":{"endian":"little"},"name":"bytes"},{"configuration":{"level":1},"name":"gzip"}],"data_type":"float32","fill_value":0,"node_type":"array","shape":[96,128,128],"zarr_format":3} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/labels/c/0/0/0 b/try-it/us/synthetic-abdomen-v1/arrays.zarr/labels/c/0/0/0 new file mode 100644 index 0000000000000000000000000000000000000000..d6cc6e4f89e6555be8cea47f7105e530151434d5 Binary files /dev/null and b/try-it/us/synthetic-abdomen-v1/arrays.zarr/labels/c/0/0/0 differ diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/labels/zarr.json b/try-it/us/synthetic-abdomen-v1/arrays.zarr/labels/zarr.json new file mode 100644 index 0000000000000000000000000000000000000000..af2f24faa86754829c418c8960656aa29ec5d22f --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/labels/zarr.json @@ -0,0 +1 @@ +{"attributes":{"biri_decoder":"zarr-v3-bytes-gzip-v1","chunk_traversal_order":"lexicographic"},"chunk_grid":{"configuration":{"chunk_shape":[96,128,128]},"name":"regular"},"chunk_key_encoding":{"configuration":{"separator":"/"},"name":"default"},"codecs":[{"configuration":{"endian":"little"},"name":"bytes"},{"configuration":{"level":1},"name":"gzip"}],"data_type":"uint16","fill_value":0,"node_type":"array","shape":[96,128,128],"zarr_format":3} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/scatter-strength/c/0/0/0 b/try-it/us/synthetic-abdomen-v1/arrays.zarr/scatter-strength/c/0/0/0 new file mode 100644 index 0000000000000000000000000000000000000000..43cf88e97399115b732f8a92545edddb9a99b0e7 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/scatter-strength/c/0/0/0 @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:d6093db80f87ee28adaa5b3904692abecdb3f9b74ec567627f025063ed313243 +size 5506484 diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/scatter-strength/zarr.json b/try-it/us/synthetic-abdomen-v1/arrays.zarr/scatter-strength/zarr.json new file mode 100644 index 0000000000000000000000000000000000000000..718d1b3b6aae47a7ac4efe8237ad6243ba6b7084 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/scatter-strength/zarr.json @@ -0,0 +1 @@ +{"attributes":{"biri_decoder":"zarr-v3-bytes-gzip-v1","chunk_traversal_order":"lexicographic"},"chunk_grid":{"configuration":{"chunk_shape":[96,128,128]},"name":"regular"},"chunk_key_encoding":{"configuration":{"separator":"/"},"name":"default"},"codecs":[{"configuration":{"endian":"little"},"name":"bytes"},{"configuration":{"level":1},"name":"gzip"}],"data_type":"float32","fill_value":0,"node_type":"array","shape":[96,128,128],"zarr_format":3} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/skin-sdf-mm/c/0/0/0 b/try-it/us/synthetic-abdomen-v1/arrays.zarr/skin-sdf-mm/c/0/0/0 new file mode 100644 index 0000000000000000000000000000000000000000..593789b2600621fe7b6b4e47901b87946a38a9a3 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/skin-sdf-mm/c/0/0/0 @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:67f380f1aa0e4ab9ec463e02ed22dc10f621894070390b0b8cd37b75126b3ed4 +size 3185021 diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/skin-sdf-mm/zarr.json b/try-it/us/synthetic-abdomen-v1/arrays.zarr/skin-sdf-mm/zarr.json new file mode 100644 index 0000000000000000000000000000000000000000..718d1b3b6aae47a7ac4efe8237ad6243ba6b7084 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/skin-sdf-mm/zarr.json @@ -0,0 +1 @@ +{"attributes":{"biri_decoder":"zarr-v3-bytes-gzip-v1","chunk_traversal_order":"lexicographic"},"chunk_grid":{"configuration":{"chunk_shape":[96,128,128]},"name":"regular"},"chunk_key_encoding":{"configuration":{"separator":"/"},"name":"default"},"codecs":[{"configuration":{"endian":"little"},"name":"bytes"},{"configuration":{"level":1},"name":"gzip"}],"data_type":"float32","fill_value":0,"node_type":"array","shape":[96,128,128],"zarr_format":3} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/sound-speed-mps/c/0/0/0 b/try-it/us/synthetic-abdomen-v1/arrays.zarr/sound-speed-mps/c/0/0/0 new file mode 100644 index 0000000000000000000000000000000000000000..063b0c6f061f7382f8456e83d601686a5dcefa9e Binary files /dev/null and b/try-it/us/synthetic-abdomen-v1/arrays.zarr/sound-speed-mps/c/0/0/0 differ diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/sound-speed-mps/zarr.json b/try-it/us/synthetic-abdomen-v1/arrays.zarr/sound-speed-mps/zarr.json new file mode 100644 index 0000000000000000000000000000000000000000..718d1b3b6aae47a7ac4efe8237ad6243ba6b7084 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/sound-speed-mps/zarr.json @@ -0,0 +1 @@ +{"attributes":{"biri_decoder":"zarr-v3-bytes-gzip-v1","chunk_traversal_order":"lexicographic"},"chunk_grid":{"configuration":{"chunk_shape":[96,128,128]},"name":"regular"},"chunk_key_encoding":{"configuration":{"separator":"/"},"name":"default"},"codecs":[{"configuration":{"endian":"little"},"name":"bytes"},{"configuration":{"level":1},"name":"gzip"}],"data_type":"float32","fill_value":0,"node_type":"array","shape":[96,128,128],"zarr_format":3} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/arrays.zarr/zarr.json b/try-it/us/synthetic-abdomen-v1/arrays.zarr/zarr.json new file mode 100644 index 0000000000000000000000000000000000000000..0bf470ccdf9a631594690c73bc4426776ea16cfb --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/arrays.zarr/zarr.json @@ -0,0 +1 @@ +{"attributes":{},"node_type":"group","zarr_format":3} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/bundle-manifest.json b/try-it/us/synthetic-abdomen-v1/bundle-manifest.json new file mode 100644 index 0000000000000000000000000000000000000000..ee48a30d8ee6eb120a9f7ed04e0b558edf3c53a6 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/bundle-manifest.json @@ -0,0 +1 @@ +{"bundle_id":"sha256:f860c39c695af6180a4eb9c56762e9d87ea7d748ecff1fefd528a6f8d7218500","contract_lock_sha256":"sha256:b8792be881c76e73bd943be0a902aeb4752d5d08ea2cdfbd2c88d631666a9f0a","entries":[{"media_type":"application/vnd.biri.array-chunk","path":"arrays.zarr/attenuation-db-cm-mhz/c/0/0/0","sha256":"sha256:08bc15b6989566741bb8314fe7167c4b24702c2fbf53f538712ccdf6e7b4f124","size":95800},{"media_type":"application/vnd.zarr+json","path":"arrays.zarr/attenuation-db-cm-mhz/zarr.json","sha256":"sha256:24b4d3018f7349e8f5f00fc64c8a2b774693a5e65d0200b54a952495cb43b61f","size":448},{"media_type":"application/vnd.biri.array-chunk","path":"arrays.zarr/boundary-normal-xyz/c/0/0/0/0","sha256":"sha256:f2c38e1eb1ea86c0a1fda1f5d02a6400cb1f448cb87bfe4c0acd74d5fd82a966","size":351156},{"media_type":"application/vnd.zarr+json","path":"arrays.zarr/boundary-normal-xyz/zarr.json","sha256":"sha256:282b7f16af14f4027f6df510cdae6456aa6a49cf5372ddc91f247f5f29aa0f11","size":452},{"media_type":"application/vnd.biri.array-chunk","path":"arrays.zarr/boundary-strength/c/0/0/0","sha256":"sha256:7fe0f2062db725e4f3a1dd524bddabafc5310e5f9f7de68bf99afe629b651751","size":162183},{"media_type":"application/vnd.zarr+json","path":"arrays.zarr/boundary-strength/zarr.json","sha256":"sha256:24b4d3018f7349e8f5f00fc64c8a2b774693a5e65d0200b54a952495cb43b61f","size":448},{"media_type":"application/vnd.biri.array-chunk","path":"arrays.zarr/density-kgm3/c/0/0/0","sha256":"sha256:9d1f5036540222221af4fd133b84a0521a2ff45de6dfe8573a85fd1a26851eae","size":92089},{"media_type":"application/vnd.zarr+json","path":"arrays.zarr/density-kgm3/zarr.json","sha256":"sha256:24b4d3018f7349e8f5f00fc64c8a2b774693a5e65d0200b54a952495cb43b61f","size":448},{"media_type":"application/vnd.biri.array-chunk","path":"arrays.zarr/labels/c/0/0/0","sha256":"sha256:dccd52e6166be31f71027b962cdc5272b3146800cca7c869717b52ef4b47e98a","size":67393},{"media_type":"application/vnd.zarr+json","path":"arrays.zarr/labels/zarr.json","sha256":"sha256:8873e6d5579919368fee279075ff3071a56227e490f1481fa2342ac9b883fbb9","size":447},{"media_type":"application/vnd.biri.array-chunk","path":"arrays.zarr/scatter-strength/c/0/0/0","sha256":"sha256:d6093db80f87ee28adaa5b3904692abecdb3f9b74ec567627f025063ed313243","size":5506484},{"media_type":"application/vnd.zarr+json","path":"arrays.zarr/scatter-strength/zarr.json","sha256":"sha256:24b4d3018f7349e8f5f00fc64c8a2b774693a5e65d0200b54a952495cb43b61f","size":448},{"media_type":"application/vnd.biri.array-chunk","path":"arrays.zarr/skin-sdf-mm/c/0/0/0","sha256":"sha256:67f380f1aa0e4ab9ec463e02ed22dc10f621894070390b0b8cd37b75126b3ed4","size":3185021},{"media_type":"application/vnd.zarr+json","path":"arrays.zarr/skin-sdf-mm/zarr.json","sha256":"sha256:24b4d3018f7349e8f5f00fc64c8a2b774693a5e65d0200b54a952495cb43b61f","size":448},{"media_type":"application/vnd.biri.array-chunk","path":"arrays.zarr/sound-speed-mps/c/0/0/0","sha256":"sha256:c578ff9190449b20dd4408fec048ded8140ad3dedd78f7b0da22ab7afcd8dc6f","size":83561},{"media_type":"application/vnd.zarr+json","path":"arrays.zarr/sound-speed-mps/zarr.json","sha256":"sha256:24b4d3018f7349e8f5f00fc64c8a2b774693a5e65d0200b54a952495cb43b61f","size":448},{"media_type":"application/vnd.zarr+json","path":"arrays.zarr/zarr.json","sha256":"sha256:b33e0e3539a2030048256bcfdea2e9a36a544685cabeb62fc4c598acddce7f95","size":53},{"media_type":"application/json","path":"fields/attenuation_db_cm_mhz.json","sha256":"sha256:9154bdcf69a80c5ac85db031a7433575d9c671f8afb34a62d3424199c7efa3dd","size":637},{"media_type":"application/json","path":"fields/boundary_normal_xyz.json","sha256":"sha256:401f32835e9e17fbd1d895dea16034ea1298ede6d331e0ea70accd6e57e9327b","size":632},{"media_type":"application/json","path":"fields/boundary_strength.json","sha256":"sha256:f99e384d166874333048ec60c37c1d043bee8c1d691339cabf0b541183046ead","size":623},{"media_type":"application/json","path":"fields/density_kgm3.json","sha256":"sha256:aba0b9d9347c196bad9e6b745c0b80f19e530cf2b81b65fa024fc8865a5e026d","size":611},{"media_type":"application/json","path":"fields/labels.json","sha256":"sha256:5605260820ba6ea57a17b0787b7c7cfcc4b1e6ec197b393feeac9976dec4be5b","size":596},{"media_type":"application/json","path":"fields/scatter_strength.json","sha256":"sha256:f8200d5338289f242075b74640807e2a14cd506f225d0fbaa273ed2b63533a2b","size":621},{"media_type":"application/json","path":"fields/skin_sdf_mm.json","sha256":"sha256:095a1faae30a26219bd8526bf23bcecd8ee43dd0eca6284cf91a272b85bdfe2a","size":617},{"media_type":"application/json","path":"fields/sound_speed_mps.json","sha256":"sha256:ebea251d7c07f0b2a2440b83e1f8c9f954a185f5c8dd7ddd229f380f5f0f3964","size":616},{"media_type":"application/json","path":"probes/curvilinear-abdomen-v1.json","sha256":"sha256:dc29e56efc1629d0b7e1c5dc1553e53d49d64d52c8de138c293ea7f547515035","size":339},{"media_type":"application/json","path":"regions/right-flank-kidney.json","sha256":"sha256:1f9560a962369f9057937d8d4e65f9f1d87ececd081e1a6b4899777a26d8bdd3","size":2218},{"media_type":"application/json","path":"regions/ruq-liver.json","sha256":"sha256:6a979ae6b18865013ba4fec422ccd4264d37f887f6a5b75077628fabce387499","size":2051},{"media_type":"application/json","path":"scene.json","sha256":"sha256:0c71755bf1f2a05d2e575b5c52b7db2a02cd9b181a147415a85924d41f88c93b","size":871}],"scene_id":"synthetic-abdomen-v1","schema_version":"biri-us-bundle-v1"} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/fields/attenuation_db_cm_mhz.json b/try-it/us/synthetic-abdomen-v1/fields/attenuation_db_cm_mhz.json new file mode 100644 index 0000000000000000000000000000000000000000..3d7d8e2dde0e2995da52c666680e69088bc5f4de --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/fields/attenuation_db_cm_mhz.json @@ -0,0 +1 @@ +{"T_world_from_voxel_xyz":[[1.8,0,0,0],[0,1.8,0,0],[0,0,1.8,0],[0,0,0,1]],"asset_path":"arrays.zarr/attenuation-db-cm-mhz/c/0/0/0","compressed_sha256":"sha256:08bc15b6989566741bb8314fe7167c4b24702c2fbf53f538712ccdf6e7b4f124","compressed_size":95800,"dtype":"float32","endianness":"little","field_id":"attenuation_db_cm_mhz","interpolation":"linear","origin_convention":"voxel_center","outside_value":0.01,"quantity":"attenuation","schema_version":"biri-us-field-v1","shape_zyx":[96,128,128],"uncompressed_sha256":"sha256:24873d4c9f08e423e9a2af7fcbcb10534d856d4b2433d06a819084cceb6c0866","uncompressed_size":6291456,"units":"dB/(cm*MHz)"} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/fields/boundary_normal_xyz.json b/try-it/us/synthetic-abdomen-v1/fields/boundary_normal_xyz.json new file mode 100644 index 0000000000000000000000000000000000000000..4c84a390cb108f1d000ac86952680fc03cfc50f8 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/fields/boundary_normal_xyz.json @@ -0,0 +1 @@ +{"T_world_from_voxel_xyz":[[1.8,0,0,0],[0,1.8,0,0],[0,0,1.8,0],[0,0,0,1]],"asset_path":"arrays.zarr/boundary-normal-xyz/c/0/0/0/0","compressed_sha256":"sha256:f2c38e1eb1ea86c0a1fda1f5d02a6400cb1f448cb87bfe4c0acd74d5fd82a966","compressed_size":351156,"dtype":"float32","endianness":"little","field_id":"boundary_normal_xyz","interpolation":"linear","origin_convention":"voxel_center","outside_value":0,"quantity":"boundary_normal_xyz","schema_version":"biri-us-field-v1","shape_zyx":[96,128,128],"uncompressed_sha256":"sha256:48fa9988bb31a466faa7ea70ae63b920193731de3972ab5a35e665c1ba2afa3c","uncompressed_size":18874368,"units":"1"} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/fields/boundary_strength.json b/try-it/us/synthetic-abdomen-v1/fields/boundary_strength.json new file mode 100644 index 0000000000000000000000000000000000000000..8e3da13102d10473233e7cdecf3d0d2220e75a75 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/fields/boundary_strength.json @@ -0,0 +1 @@ +{"T_world_from_voxel_xyz":[[1.8,0,0,0],[0,1.8,0,0],[0,0,1.8,0],[0,0,0,1]],"asset_path":"arrays.zarr/boundary-strength/c/0/0/0","compressed_sha256":"sha256:7fe0f2062db725e4f3a1dd524bddabafc5310e5f9f7de68bf99afe629b651751","compressed_size":162183,"dtype":"float32","endianness":"little","field_id":"boundary_strength","interpolation":"linear","origin_convention":"voxel_center","outside_value":0,"quantity":"boundary_strength","schema_version":"biri-us-field-v1","shape_zyx":[96,128,128],"uncompressed_sha256":"sha256:540c9daac13ed69e30731fbc94597fb35595d96878265429c2c92f43a2e3779f","uncompressed_size":6291456,"units":"1"} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/fields/density_kgm3.json b/try-it/us/synthetic-abdomen-v1/fields/density_kgm3.json new file mode 100644 index 0000000000000000000000000000000000000000..4ce5206caf7df8df6f086c9d365046f8d68e3b4f --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/fields/density_kgm3.json @@ -0,0 +1 @@ +{"T_world_from_voxel_xyz":[[1.8,0,0,0],[0,1.8,0,0],[0,0,1.8,0],[0,0,0,1]],"asset_path":"arrays.zarr/density-kgm3/c/0/0/0","compressed_sha256":"sha256:9d1f5036540222221af4fd133b84a0521a2ff45de6dfe8573a85fd1a26851eae","compressed_size":92089,"dtype":"float32","endianness":"little","field_id":"density_kgm3","interpolation":"linear","origin_convention":"voxel_center","outside_value":1.225,"quantity":"density","schema_version":"biri-us-field-v1","shape_zyx":[96,128,128],"uncompressed_sha256":"sha256:90c4f147b4e393cb193ac4bcc19764be5c808caf6250b404d9db407c096c0f85","uncompressed_size":6291456,"units":"kg/m^3"} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/fields/labels.json b/try-it/us/synthetic-abdomen-v1/fields/labels.json new file mode 100644 index 0000000000000000000000000000000000000000..ddd398e05ac58b40af495f3374e414be60ea4de4 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/fields/labels.json @@ -0,0 +1 @@ +{"T_world_from_voxel_xyz":[[1.8,0,0,0],[0,1.8,0,0],[0,0,1.8,0],[0,0,0,1]],"asset_path":"arrays.zarr/labels/c/0/0/0","compressed_sha256":"sha256:dccd52e6166be31f71027b962cdc5272b3146800cca7c869717b52ef4b47e98a","compressed_size":67393,"dtype":"uint16","endianness":"little","field_id":"labels","interpolation":"nearest","origin_convention":"voxel_center","outside_value":0,"quantity":"anatomy_label","schema_version":"biri-us-field-v1","shape_zyx":[96,128,128],"uncompressed_sha256":"sha256:78c01a3654db341ac45c3f5d29ec439b3d1a2dcd6bab9c17820e0b1c7d518ffc","uncompressed_size":3145728,"units":"1"} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/fields/scatter_strength.json b/try-it/us/synthetic-abdomen-v1/fields/scatter_strength.json new file mode 100644 index 0000000000000000000000000000000000000000..3a2976cc79b147ebeb9b1ae9a21973e442fb3a07 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/fields/scatter_strength.json @@ -0,0 +1 @@ +{"T_world_from_voxel_xyz":[[1.8,0,0,0],[0,1.8,0,0],[0,0,1.8,0],[0,0,0,1]],"asset_path":"arrays.zarr/scatter-strength/c/0/0/0","compressed_sha256":"sha256:d6093db80f87ee28adaa5b3904692abecdb3f9b74ec567627f025063ed313243","compressed_size":5506484,"dtype":"float32","endianness":"little","field_id":"scatter_strength","interpolation":"linear","origin_convention":"voxel_center","outside_value":0,"quantity":"scatter_strength","schema_version":"biri-us-field-v1","shape_zyx":[96,128,128],"uncompressed_sha256":"sha256:5c314d3c139c81a27343f4af884a60aa6f6c7f1212f5cca8f233fb2de6dcf6eb","uncompressed_size":6291456,"units":"1"} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/fields/skin_sdf_mm.json b/try-it/us/synthetic-abdomen-v1/fields/skin_sdf_mm.json new file mode 100644 index 0000000000000000000000000000000000000000..514d4d22c94b5767e1a20ff196567c63c0f68078 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/fields/skin_sdf_mm.json @@ -0,0 +1 @@ +{"T_world_from_voxel_xyz":[[1.8,0,0,0],[0,1.8,0,0],[0,0,1.8,0],[0,0,0,1]],"asset_path":"arrays.zarr/skin-sdf-mm/c/0/0/0","compressed_sha256":"sha256:67f380f1aa0e4ab9ec463e02ed22dc10f621894070390b0b8cd37b75126b3ed4","compressed_size":3185021,"dtype":"float32","endianness":"little","field_id":"skin_sdf_mm","interpolation":"linear","origin_convention":"voxel_center","outside_value":1000000,"quantity":"signed_distance","schema_version":"biri-us-field-v1","shape_zyx":[96,128,128],"uncompressed_sha256":"sha256:63f05f23e516305e2a3afafff3a1026ce1971788f1a66f8d690b622fdb49af39","uncompressed_size":6291456,"units":"mm"} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/fields/sound_speed_mps.json b/try-it/us/synthetic-abdomen-v1/fields/sound_speed_mps.json new file mode 100644 index 0000000000000000000000000000000000000000..c9e98834b724f0fb1ada30fae0e68908a8cce825 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/fields/sound_speed_mps.json @@ -0,0 +1 @@ +{"T_world_from_voxel_xyz":[[1.8,0,0,0],[0,1.8,0,0],[0,0,1.8,0],[0,0,0,1]],"asset_path":"arrays.zarr/sound-speed-mps/c/0/0/0","compressed_sha256":"sha256:c578ff9190449b20dd4408fec048ded8140ad3dedd78f7b0da22ab7afcd8dc6f","compressed_size":83561,"dtype":"float32","endianness":"little","field_id":"sound_speed_mps","interpolation":"linear","origin_convention":"voxel_center","outside_value":343,"quantity":"sound_speed","schema_version":"biri-us-field-v1","shape_zyx":[96,128,128],"uncompressed_sha256":"sha256:ed323efe9a4adfe85f511b70f45224962c3244867fde7ec43514bcc01ecd02f6","uncompressed_size":6291456,"units":"m/s"} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/probes/curvilinear-abdomen-v1.json b/try-it/us/synthetic-abdomen-v1/probes/curvilinear-abdomen-v1.json new file mode 100644 index 0000000000000000000000000000000000000000..b5cf1f586d984f2b7ece7103a27ce4c0e46993a5 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/probes/curvilinear-abdomen-v1.json @@ -0,0 +1 @@ +{"convex_radius_mm":60,"depth_sample_count":512,"line_count":192,"output_columns":512,"output_rows":512,"probe_frame_id":"probe_aperture","probe_profile_id":"curvilinear-abdomen-v1","schema_version":"biri-us-probe-profile-v1","sector_angle_degrees":70,"supported_center_frequency_mhz":[2.5,3.5,5],"supported_depth_mm":[80,100,120,140,160]} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/regions/right-flank-kidney.json b/try-it/us/synthetic-abdomen-v1/regions/right-flank-kidney.json new file mode 100644 index 0000000000000000000000000000000000000000..1a6e17fce47cf1f39205a0e9b528fd5ff90943f5 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/regions/right-flank-kidney.json @@ -0,0 +1 @@ +{"aim_direction_xyz":[-0.815931726774386,-0.5367971886673589,-0.21471887546694354],"contact_patch_normal_offset_mm":[3.4924905073130503,2.8525879507651553,2.415000936074648,2.1690718518802896,2.103259546798654,2.225545217457693,2.5193972825072706,2.991310258046724,3.6344507528701797,2.541002750513144,1.9112622383981943,1.4763439886155538,1.22813778615091,1.1614551009843126,1.2765470976592042,1.56214455422014,2.022332511958666,2.6519921013968997,1.887236969836522,1.2620924569200724,0.8298490631277673,0.5786052764160559,0.5126718109822832,0.6141771186958067,0.8916590537992306,1.3334402501350269,1.9466921054990962,1.5180099608260207,0.8921264401287772,0.45570892794057727,0.20458195736864582,0.12594098440604284,0.22216615121578798,0.4854364974889904,0.9171849034610204,1.5123495272709988,1.4201500726048835,0.7903595817624591,0.3487700904952362,0.08424045122228563,0,0.0840077216271311,0.3370800251723267,0.7548448691377416,1.3351178871816956,1.5860076202079654,0.945032418880146,0.4931054065236822,0.22348690684884787,0.12317103875102475,0.1979568501119502,0.43656505952822044,0.8412475737277418,1.4076901482185349,2.010835684835911,1.3597793516819365,0.8929245028994046,0.6070041964994743,0.49872587708523497,0.5549648040905595,0.7828791151405312,1.1712609687238,1.7247057123458944,2.691047072818037,2.024065286212135,1.5439713288797066,1.2400625121081248,1.1162872852873988,1.159350021451246,1.370030122634489,1.7452993753249757,2.280099102470558,3.627014136116486,2.9401481226086617,2.4427772943745367,2.1226784909376875,1.977611631329637,2.0067438576952554,2.198795121104922,2.5585242375382222,3.0776159047381952],"contact_patch_samples":9,"contact_patch_span_mm":16,"inward_normal_xyz":[-0.6781333693698224,-0.6513959288651553,-0.340321138345877],"scan_region_id":"right-flank-kidney","schema_version":"biri-us-scan-region-v2","surface_center_xyz_mm":[193.8047192581286,166.9136310908741,107.08545243634964],"surface_radius_mm":36,"tangent_u_xyz":[-0.24543320760134393,-0.23575626780967918,0.9403092697591396],"tangent_v_xyz":[-0.6927464716284362,0.721181201950212,0],"target_anatomy_role":"kidney_cortex","target_landmark_xyz_mm":[183.6,160.20000000000002,104.4],"world_frame_id":"biri.anatomical_lps.v1"} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/regions/ruq-liver.json b/try-it/us/synthetic-abdomen-v1/regions/ruq-liver.json new file mode 100644 index 0000000000000000000000000000000000000000..2f1d10dadd99fba92a28be0285daa21be9143855 --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/regions/ruq-liver.json @@ -0,0 +1 @@ +{"aim_direction_xyz":[0.09950371902099875,0.995037190209989,0],"contact_patch_normal_offset_mm":[3.1917636687285267,2.673685149929952,2.308423843991477,2.09171368915122,2.019957477110438,2.0919616714236327,2.30617947189603,2.6593624790548347,3.151291129004676,2.275629061856307,1.7673125156434253,1.4106553330202587,1.2013468896620907,1.1357576152076945,1.210963017307222,1.4247552065644413,1.7790649509988725,2.271595626429189,1.6234206116059795,1.122566343517974,0.7722874615574256,0.5677770263864659,0.5066325406078249,0.585366791987326,0.8017697318573482,1.1543578901328146,1.6464932320523076,1.2331718924106099,0.7371317878132686,0.3903079792507924,0.18871371896238998,0.12900946923764423,0.2094196955440566,0.42739477526629344,0.7809989108354785,1.2709678056417033,1.0997573434142396,0.6050735195749439,0.2594397477223538,0.058863196754828095,0,0.08064869529334828,0.29916285548824817,0.6531137240235694,1.142363388207741,1.2331718924106099,0.7371317878132686,0.3903079792507924,0.18871371896238998,0.12900946923764423,0.2094196955440566,0.42739477526629344,0.7809989108354785,1.2709678056417033,1.6234206116059795,1.122566343517974,0.7722874615574256,0.5677770263864659,0.5066325406078249,0.585366791987326,0.8017697318573482,1.1543578901328146,1.6464932320523076,2.275629061856307,1.7673125156434253,1.4106553330202587,1.2013468896620907,1.1357576152076945,1.210963017307222,1.4247552065644413,1.7790649509988725,2.271595626429189,3.1917636687285267,2.673685149929952,2.308423843991477,2.09171368915122,2.019957477110438,2.0919616714236327,2.30617947189603,2.6593624790548347,3.151291129004676],"contact_patch_samples":9,"contact_patch_span_mm":16,"inward_normal_xyz":[0.37751172574525643,0.9260048039426352,0],"scan_region_id":"ruq-liver","schema_version":"biri-us-scan-region-v2","surface_center_xyz_mm":[70.2,39.6,86.4],"surface_radius_mm":43.2,"tangent_u_xyz":[0,0,1],"tangent_v_xyz":[0.9260048039426353,-0.3775117257452565,0],"target_anatomy_role":"liver","target_landmark_xyz_mm":[72,57.6,86.4],"world_frame_id":"biri.anatomical_lps.v1"} \ No newline at end of file diff --git a/try-it/us/synthetic-abdomen-v1/scene.json b/try-it/us/synthetic-abdomen-v1/scene.json new file mode 100644 index 0000000000000000000000000000000000000000..33a1a6ef9f90dc7eea4da99967b7423869d9c50a --- /dev/null +++ b/try-it/us/synthetic-abdomen-v1/scene.json @@ -0,0 +1 @@ +{"algorithm":"hybrid-renderer-v1","anatomy_profile":"abdomen-liver-right-kidney-v1","compatible_renderer_ids":["cpu-reference-v4","torch-cuda-v4"],"contact_surface_field_id":"skin_sdf_mm","probe_profile_ids":["curvilinear-abdomen-v1"],"render_abi":"biri-us-hybrid-renderer-v1","render_profile_ids":["b-mode-abdomen-v1"],"required_anatomy_roles":["body_skin","background_soft_tissue","liver","kidney_cortex","kidney_medulla","renal_sinus_pelvis","bone","air_lung","fluid_lumen"],"required_precompute_roles":["labels","sound_speed_mps","density_kgm3","attenuation_db_cm_mhz","scatter_strength","boundary_strength","boundary_normal_xyz","skin_sdf_mm"],"research_only":true,"scene_id":"synthetic-abdomen-v1","scene_seed":5,"schema_version":"biri-us-scene-v2","world_bounds_mm":{"maximum_xyz":[228.6,228.6,171],"minimum_xyz":[0,0,0]},"world_frame_id":"biri.anatomical_lps.v1"} \ No newline at end of file