How to open sub-directory of HDF5 file in Julia?

raman_kumar · May 31, 2024, 12:20pm

I want to open sub-directory of HDF5 file in Julia?

For example- how can i open "Coordinates" folder using HDF5.jl?

stevengj · May 31, 2024, 2:25pm

A “subdirectory” is called a “group” in HDF5. See the HDF5 documentation on opening groups.

raman_kumar · May 31, 2024, 2:56pm

What should i type in terminal to open that group?

mkitti · May 31, 2024, 3:17pm

Coordinates is not a group. That is an attribute. See either attrs or attributes.

raman_kumar · May 31, 2024, 3:22pm

What attribute contains? How to open it?

mkitti · May 31, 2024, 3:27pm

julia> data = h5open("data.h5", "r")
🗂️ HDF5.File: (read-only) data.h5
└─ 🏷️ Coordinates

julia> attrs(data)
AttributeDict of HDF5.Group: / (file: data.h5) with 1 attribute:
  "Coordinates" => [12, 75]

julia> attrs(data)["Coordinates"]
2-element Vector{Int64}:
 12
 75

Or with attributes:

julia> attributes(data)
🗂️ Attributes of HDF5.File: (read-only) data.h5
└─ 🏷️ Coordinates

julia> attributes(data)["Coordinates"]
🏷️ HDF5.Attribute: Coordinates

julia> attributes(data)["Coordinates"][]
2-element Vector{Int64}:
 12
 75

julia> read(attributes(data)["Coordinates"])
2-element Vector{Int64}:
 12
 75