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Add .dcm files #370

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merged 4 commits into from
Jun 5, 2024
Merged

Add .dcm files #370

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9406ee7
Add .dcm files
jochalek Feb 4, 2023
ee85e16
Merge branch 'JuliaIO:master' into master
jochalek Aug 16, 2023
fa0c467
Merge branch 'JuliaIO:master' into master
jochalek Feb 20, 2024
4f8ba65
Merge branch 'master' into master
ViralBShah Jun 4, 2024
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10 changes: 10 additions & 0 deletions src/registry.jl
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Original file line number Diff line number Diff line change
Expand Up @@ -392,6 +392,16 @@ add_format(format"OMETIFF", detect_ometiff, [".tif", ".tiff"], [:OMETIFF => UUID
skipmagic(io, ::typeof(detect_ometiff)) = seek(io, 4)
skipmagic(io, ::typeof(detect_noometiff)) = seek(io, 4)

# DICOM: DICOM files should begin with a 128-bytes (which are ignored) followed by the string DICM
const dicommagic = UInt8['D', 'I', 'C', 'M']
function detectdicom(io)
len = getlength(io)
len < 132 && return false
magic = Vector{UInt8}(read(io, 132)[end-3:end])
magic == dicommagic
end
add_format(format"DCM", detectdicom, [".dcm"], [:ImageMagick => UUID("6218d12a-5da1-5696-b52f-db25d2ecc6d1")])

# HDF5: the complication is that the magic bytes may start at
# 0, 512, 1024, 2048, or any multiple of 2 thereafter
const h5magic = [0x89,0x48,0x44,0x46,0x0d,0x0a,0x1a,0x0a]
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Binary file added test/files/CT_JPEG70.dcm
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4 changes: 4 additions & 0 deletions test/loadsave.jl
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Expand Up @@ -14,6 +14,7 @@ module TestLoadSave2
import FileIO: File, @format_str
fileio_load(file::File{format"HDF5"}) = "HDF5"
fileio_load(file::File{format"BIB"}) = "BIB"
fileio_load(file::File{format"DCM"}) = "DCM"
end

@testset "FakeIO" begin
Expand All @@ -34,6 +35,7 @@ end
add_loader(format"JLD", TestLoadSave)
add_loader(format"GZIP", TestLoadSave)
add_loader(format"BIB", TestLoadSave2)
add_loader(format"DCM", TestLoadSave2)

@test load(joinpath(fp,"file1.pbm")) == "PBMText"
@test load(joinpath(fp,"file2.pbm")) == "PBMBinary"
Expand All @@ -53,6 +55,8 @@ end
@test load(joinpath(fp,"file.csv.gz")) == "GZIP"
# Bibliography file saved with .bib extension
@test load(joinpath(fp,"file.bib")) == "BIB"
# DICOM file saved with .dcm extension
@test load(joinpath(fp,"CT_JPEG70.dcm")) == "DCM"
@test_throws Exception load("missing.fmt")
end
finally
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5 changes: 5 additions & 0 deletions test/query.jl
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Expand Up @@ -516,6 +516,11 @@ let file_dir = joinpath(@__DIR__, "files"), file_path = Path(file_dir)
q = query(joinpath(file_dir, "file.bib"))
@test typeof(q) <: File{format"BIB"}
end

@testset "DICOM detection" begin
q = query(joinpath(file_dir, "CT_JPEG70.dcm"))
@test typeof(q) <: File{format"DCM"}
end
end

@testset "Query from IOBuffer" begin
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