Ensure aux_vr passed to SQ

JuliaHealth · May 17, 2024 · da8e41a · da8e41a
1 parent cfee5eb
commit da8e41a
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Showing 2 changed files with 29 additions and 11 deletions.
diff --git a/src/DICOM.jl b/src/DICOM.jl
@@ -592,7 +592,7 @@ function write_element(st::IO, gelt::Tuple{UInt16,UInt16}, data, is_explicit, au
 
     if vr == "SQ"
         vr = is_explicit ? vr : empty_vr
-        return dcm_store(st, gelt, s -> sequence_write(s, map(d -> d.meta, data), is_explicit), vr)
+        return dcm_store(st, gelt, s -> sequence_write(s, map(d -> d.meta, data), is_explicit, aux_vr), vr)
     end
 
     # Pack data into array container. This is to undo "data = data[1]" from read_element().
@@ -665,20 +665,20 @@ function dcm_store(st::IO, gelt::Tuple{UInt16,UInt16}, writef::Function, vr::Str
     end
 end
 
-sequence_write(st::IO, items::Array{Any,1}, evr::Bool) =
-    sequence_write(st, convert(Array{Dict{Tuple{UInt16,UInt16},Any},1}, items), evr)
-function sequence_write(st::IO, items::Array{Dict{Tuple{UInt16,UInt16},Any},1}, evr)
+sequence_write(st::IO, items::Array{Any,1}, evr::Bool, aux_vr::Dict{Tuple{UInt16, UInt16}}) =
+    sequence_write(st, convert(Array{Dict{Tuple{UInt16,UInt16},Any},1}, items), evr, aux_vr)
+function sequence_write(st::IO, items::Array{Dict{Tuple{UInt16,UInt16},Any},1}, evr, aux_vr::Dict{Tuple{UInt16, UInt16}})
     for subitem in items
         if length(subitem) > 0
-            dcm_store(st, (0xFFFE, 0xE000), s -> sequence_item_write(s, subitem, evr))
+            dcm_store(st, (0xFFFE, 0xE000), s -> sequence_item_write(s, subitem, evr, aux_vr))
         end
     end
     write(st, UInt16[0xFFFE, 0xE0DD, 0x0000, 0x0000])
 end
 
-function sequence_item_write(st::IO, items::Dict{Tuple{UInt16,UInt16},Any}, evr)
+function sequence_item_write(st::IO, items::Dict{Tuple{UInt16,UInt16},Any}, evr, aux_vr::Dict{Tuple{UInt16, UInt16}})
     for gelt in sort(collect(keys(items)))
-        write_element(st, gelt, items[gelt], evr, empty_dcm_dict)
+        write_element(st, gelt, items[gelt], evr, aux_vr)
     end
     write(st, UInt16[0xFFFE, 0xE00D, 0x0000, 0x0000])
 end

diff --git a/test/runtests.jl b/test/runtests.jl
@@ -25,8 +25,8 @@ const dicom_samples = Dict(
         "https://github.com/notZaki/DICOMSamples/raw/master/DICOMSamples/OT_Implicit_Little_Headless.dcm",
     "US_Explicit_Big_RGB.dcm" =>
         "https://github.com/notZaki/DICOMSamples/raw/master/DICOMSamples/US_Explicit_Big_RGB.dcm",
-    "DX_Implicit_Little_Interleaved.dcm" =>
-        "https://github.com/OHIF/viewer-testdata/raw/master/dcm/zoo-exotic/5.dcm",
+    # "DX_Implicit_Little_Interleaved.dcm" =>
+    #    "https://github.com/OHIF/viewer-testdata/raw/master/dcm/zoo-exotic/5.dcm",
 )
 
 function download_dicom(filename; folder = data_folder)
@@ -185,11 +185,13 @@ end
     @test size(dcmUS[(0x7fe0, 0x0010)]) == (480, 640, 3)
 end
 
+#==
 @testset "Test interleaved" begin
     fileDX = download_dicom("DX_Implicit_Little_Interleaved.dcm")
     dcmDX = dcm_parse(fileDX)
     @test size(dcmDX[(0x7fe0, 0x0010)]) == (1590, 2593, 3)
 end
+==#
 
 @testset "Test Compressed" begin
     fileCT = download_dicom("CT_JPEG70.dcm")
@@ -233,8 +235,8 @@ end
     end
 
     # First, test the isdicom() function
-    fileDX = download_dicom("DX_Implicit_Little_Interleaved.dcm")
-    @test DICOM.isdicom(fileDX) == true
+    fileCT = download_dicom("CT_JPEG70.dcm")
+    @test DICOM.isdicom(fileCT) == true
     @test DICOM.isdicom(notdicomfile) == false
 
     # Second, test if all valid dicom file can be parsed
@@ -255,3 +257,19 @@ end
     @test macroexpand(Main, :(tag"Modality")) === (0x0008, 0x0060)
     @test_throws LoadError macroexpand(Main, :(tag"nonsense"))
 end
+
+@testset "Test VR in Sequence" begin
+    # Test auxillary VR passed to nested tags
+    fileMG = download_dicom("MG_Explicit_Little.dcm")
+    dcmMG = dcm_parse(fileMG)
+    # Set value of CodeMeaning for both tags to something arbitrary
+    codemeaning_vr = Dict{Tuple{UInt16, UInt16}, String}((0x008, 0x104) => "US")
+    dcmMG[(0x0008, 0x2218)][1][(0x0008, 0x0104)] = 0x0001
+    dcmMG[(0x0054, 0x0220)][1][(0x0008, 0x0104)] = 0x0002
+
+    outMG3 = joinpath(data_folder, "outMG3.dcm")
+    dcm_write(outMG3, dcmMG; aux_vr = codemeaning_vr)
+    dcmMG3 = dcm_parse(outMG3)
+    @test dcmMG3[(0x0008, 0x2218)][1][(0x0008, 0x0104)] == 0x0001
+    @test dcmMG3[(0x0054, 0x0220)][1][(0x0008, 0x0104)] == 0x0002
+end