List the content of an HDF5 file.
Lists the content of an HDF5 file.
h5ls (file,
recursive = TRUE,
all = FALSE,
datasetinfo = TRUE,
index_type = h5default("H5_INDEX"),
order = h5default("H5_ITER"),
s3 = FALSE,
s3credentials = NULL,
native = FALSE)
h5dump (file,
recursive = TRUE,
load = TRUE,
all = FALSE,
index_type = h5default("H5_INDEX"),
order = h5default("H5_ITER"),
s3 = FALSE,
s3credentials = NULL,
...,
native = FALSE)file |
The filename (character) of the file in which the dataset will be located. For advanced programmers it is possible to provide an object of class |
recursive |
If TRUE, the content of the whole group hierarchy is listed. If FALSE, Only the content of the main group is shown. If a positive integer is provided this indicates the maximum level of the hierarchy that is shown. |
all |
If TRUE, a longer list of information on each entry is provided. |
datasetinfo |
If FALSE, datatype and dimensionality information is not provided. This can speed up the content listing for large files. |
index_type |
See |
order |
See |
load |
If TRUE the datasets are read in, not only the header information. Note, that this can cause memory problems for very large files. In this case choose |
s3 |
Logical value indicating whether the file argument should be treated as a URL to an Amazon S3 bucket, rather than a local file path. |
s3credentials |
A list of length three, providing the credentials for accessing files in a private Amazon S3 bucket. |
native |
An object of class |
.
... |
Arguments passed to |
h5ls lists the content of an HDF5 file including group structure and datasets. It returns the content as a data.frame. You can use h5dump(file="myfile.h5", load=FALSE) to obtain the dataset information in a hierarchical list structure. Usually the datasets are loaded individually with h5read, but you have the possibility to load the complete content of an HDF5 file with h5dump
h5ls returns a data.frame with the file content.
h5dump returns a hierarchical list structure representing the HDF5 group hierarchy. It either returns the datasets within the list structure (load=TRUE) or it returns a data.frame for each datset with the dataset header information load=FALSE.
Bernd Fischer, Mike L. Smith
h5createFile("ex_ls_dump.h5")
# create groups
h5createGroup("ex_ls_dump.h5","foo")
h5createGroup("ex_ls_dump.h5","foo/foobaa")
# write a matrix
B = array(seq(0.1,2.0,by=0.1),dim=c(5,2,2))
attr(B, "scale") <- "liter"
h5write(B, "ex_ls_dump.h5","foo/B")
# list content of hdf5 file
h5ls("ex_ls_dump.h5",all=TRUE)
h5dump("ex_ls_dump.h5")
# list content of an hdf5 file in a public S3 bucket
h5ls(file = "https://rhdf5-public.s3.eu-central-1.amazonaws.com/h5ex_t_array.h5", s3 = TRUE)
h5dump(file = "https://rhdf5-public.s3.eu-central-1.amazonaws.com/h5ex_t_array.h5", s3 = TRUE)Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.