Compress h5mu
Compress a MuData file.
Info
ID: compress_h5mu
Namespace: compression
Links
Example commands
You can run the pipeline using nextflow run
.
View help
You can use --help
as a parameter to get an overview of the possible parameters.
nextflow run openpipelines-bio/openpipeline \
-r 1.0.2 -latest \
-main-script target/nextflow/compression/compress_h5mu/main.nf \
--help
Run command
Example of params.yaml
# Arguments
input: # please fill in - example: "sample_path"
# output: "$id.$key.output.output"
compression: "gzip"
# Nextflow input-output arguments
publish_dir: # please fill in - example: "output/"
# param_list: "my_params.yaml"
nextflow run openpipelines-bio/openpipeline \
-r 1.0.2 -latest \
-profile docker \
-main-script target/nextflow/compression/compress_h5mu/main.nf \
-params-file params.yaml
Note
Replace -profile docker
with -profile podman
or -profile singularity
depending on the desired backend.
Argument group
Arguments
Name | Description | Attributes |
---|---|---|
--input |
Path to the input .h5mu. | file , required, example: "sample_path" |
--output |
location of output file. | file , required |
--compression |
Compression type. | string , default: "gzip" |