n5gest 0.3.9

CLI utilities for N5 files
n5gest-0.3.9 is not a library.


CLI utilities for working with N5 files.

Written in Rust using the Rust N5 crate.

$ cargo install n5gest
$ n5gest -h
n5gest 0.3.9
Andrew Champion <andrew.champion@gmail.com>
Utilities for N5 files.


    -h, --help       Prints help information
    -V, --version    Prints version information

    -t, --threads <threads>    Number of threads for parallel processing. By default, the number of CPU
 cores is used.

    bench-read         Benchmark reading an entire dataset.
    cast               Cast an existing dataset into a new dataset with a given data type.
    crop-blocks        Crop wrongly sized blocks to match dataset dimensions at the end of a given axis.
                       Delete blocks uniformly filled with a given value, such as empty blocks.
    export             Export a sequence of image files from a series of z-sections.
    help               Prints this message or the help of the given subcommand(s)
    import             Import a sequence of image files as a series of z-sections into a 3D N5 dataset.
    import-tiff        Import a single file TIFF stack as a series of z-sections into a 3D N5 dataset
    ls                 List all datasets under an N5 root.
    map                Run simple math expressions mapping values to new datasets. For example, to clip
                       values in a dataset: `map example.n5 dataset_in example.n5 dataset_out "min(128, x)"`
                       Note that this converts back and forth to `f64` for the calculation.
    map-fold           Run simple math expressions as folds over blocks. For example, to find the
                       maximum value in a positive dataset: `map-fold example.n5 dataset 0 "max(acc, x)"`
    recompress         Recompress an existing dataset into a new dataset with a given compression.
    slice-img          Export a 2D subslice of an ND dataset to an image file. For exporting sequences of
                       images see `export`
    stat               Retrieve metadata about the number of blocks that exists and their timestamps.
    validate-blocks    Report malformed blocks.


Licensed under either of

at your option.


Unless you explicitly state otherwise, any contribution intentionally submitted for inclusion in the work by you, as defined in the Apache-2.0 license, shall be dual licensed as above, without any additional terms or conditions.