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| function define_packed(ty::DataType) | ||
| packed_offsets = cumsum([sizeof(x) for x in ty.types]) | ||
| sz = pop!(packed_offsets) | ||
| pushfirst!(packed_offsets, 0) | ||
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| @eval begin | ||
| function Base.read(io::IO, ::Type{$ty}) | ||
| bytes = read!(io, Array{UInt8}(undef, $sz...)) | ||
| hdr = $(Expr(:new, ty, [:(unsafe_load(convert(Ptr{$(ty.types[i])}, pointer(bytes)+$(packed_offsets[i])))) for i = 1:length(packed_offsets)]...,)) | ||
| if hdr.sizeof_hdr == ntoh(Int32(348)) | ||
| return byteswap(hdr), true | ||
| end | ||
| hdr, false | ||
| end | ||
| function Base.write(io::IO, x::$ty) | ||
| bytes = UInt8[] | ||
| for name in fieldnames($ty) | ||
| append!(bytes, reinterpret(UInt8, [getfield(x,name)])) | ||
| end | ||
| write(io, bytes) | ||
| $sz | ||
| end | ||
| end | ||
| nothing | ||
| end | ||
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| mutable struct NIfTI1Header | ||
| sizeof_hdr::Int32 | ||
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| data_type::NTuple{10,UInt8} | ||
| db_name::NTuple{18,UInt8} | ||
| extents::Int32 | ||
| session_error::Int16 | ||
| regular::Int8 | ||
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| dim_info::Int8 | ||
| dim::NTuple{8,Int16} | ||
| intent_p1::Float32 | ||
| intent_p2::Float32 | ||
| intent_p3::Float32 | ||
| intent_code::Int16 | ||
| datatype::Int16 | ||
| bitpix::Int16 | ||
| slice_start::Int16 | ||
| pixdim::NTuple{8,Float32} | ||
| vox_offset::Float32 | ||
| scl_slope::Float32 | ||
| scl_inter::Float32 | ||
| slice_end::Int16 | ||
| slice_code::Int8 | ||
| xyzt_units::Int8 | ||
| cal_max::Float32 | ||
| cal_min::Float32 | ||
| slice_duration::Float32 | ||
| toffset::Float32 | ||
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| glmax::Int32 | ||
| glmin::Int32 | ||
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| descrip::NTuple{80,UInt8} | ||
| aux_file::NTuple{24,UInt8} | ||
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| qform_code::Int16 | ||
| sform_code::Int16 | ||
| quatern_b::Float32 | ||
| quatern_c::Float32 | ||
| quatern_d::Float32 | ||
| qoffset_x::Float32 | ||
| qoffset_y::Float32 | ||
| qoffset_z::Float32 | ||
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| srow_x::NTuple{4,Float32} | ||
| srow_y::NTuple{4,Float32} | ||
| srow_z::NTuple{4,Float32} | ||
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| intent_name::NTuple{16,UInt8} | ||
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| magic::NTuple{4,UInt8} | ||
| end | ||
| define_packed(NIfTI1Header) | ||
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| # byteswapping | ||
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| function byteswap(hdr::NIfTI1Header) | ||
| for fn in fieldnames(typeof(hdr)) | ||
| val = getfield(hdr, fn) | ||
| if isa(val, Number) && sizeof(val) > 1 | ||
| setfield!(hdr, fn, ntoh(val)) | ||
| elseif isa(val, NTuple) && sizeof(eltype(val)) > 1 | ||
| setfield!(hdr, fn, map(ntoh, val)) | ||
| end | ||
| end | ||
| hdr | ||
| end | ||
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| """ | ||
| freqdim(x)::Int | ||
| Returns the frequency dimension. | ||
| """ | ||
| freqdim(x::NIfTI1Header) = Int(getfield(x, :dim_info) & 0x03) | ||
| freqdim(x) = freqdim(header(x)) | ||
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| """ | ||
| phasedim(x)::Int | ||
| Returns the phase dimension. | ||
| """ | ||
| phasedim(x::NIfTI1Header) = Int((getfield(x, :dim_info) >> 2) & 0x03) | ||
| phasedim(x) = phasedim(header(x)) | ||
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| """ | ||
| slicedim(x)::Int | ||
| Returns the slice dimension. | ||
| """ | ||
| slicedim(x::NIfTI1Header) = Int((getfield(x, :dim_info) >> 4) & 0x03) | ||
| slicedim(x) = slicedim(header(x)) | ||
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| """ | ||
| slice_start(x)::Int | ||
| Which slice corresponds to the first slice acquired during MRI acquisition (i.e. not padded slices). | ||
| """ | ||
| slice_start(x::NIfTI1Header) = Int(getfield(x, :slice_start)) + 1 | ||
| slice_start(x) = slice_start(header(x)) | ||
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| """ | ||
| slice_end(x)::Int | ||
| Which slice corresponds to the last slice acquired during MRI acquisition (i.e. not padded slices). | ||
| """ | ||
| slice_end(x::NIfTI1Header) = Int(getfield(x, :slice_end)) + 1 | ||
| slice_end(x) = slice_end(header(x)) | ||
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| """ | ||
| slice_duration(x) | ||
| Time to acquire one slice | ||
| """ | ||
| slice_duration(x::NIfTI1Header) = getfield(x, :slice_duration) | ||
| slice_duration(x) = slice_duration(header(x)) | ||
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