rda-python-globus 1.0.17

Tools for managing Globus transfers supporting the NSF NCAR Geoscience Data Exchange (GDEX) project.

dsglobus

This application is a command-line tool for Globus data transfer and management of files archived in the NSF NCAR Research Data Archive.

Installation

Use the package manager pip to install rda_python_globus.

From within your Python virtual environment:

pip install rda-python-globus

After installation, the cli command dsglobus will be available in the /bin directory of your virtual environment.

Command-line usage

The dsglobus app is run with the following subcommands. Each supports a --help/-h option for details and examples on its usage:

dsglobus transfer --help
dsglobus get-task --help
dsglobus task-list --help
dsglobus cancel-task --help
dsglobus ls --help
dsglobus mkdir --help
dsglobus rename --help
dsglobus delete --help

Example usage

1. Transfer a single file from the NCAR RDA GLADE endpoint to the NCAR RDA Quasar endpoint:

$ dsglobus transfer \
    --source-endpoint rda-glade \
    --destination-endpoint rda-quasar \
    --source-file /data/d999009/file.txt \
    --destination-file /d999009/file.txt

2. Multiple files can be transferred with a single dsglobus transfer call by passing a JSON formatted list of files. To transfer a batch of files from a JSON file:

$ dsglobus transfer \
    --source-endpoint SOURCE_ENDPOINT \
    --destination-endpoint DESTINATION_ENDPOINT \
    --batch /path/to/batch.json

where the contents of batch.json is formatted with source_file/destination_file pairs as:

{
    "files": [
        {"source_file": "/data/d999009/file1.tar", "destination_file": "/d999009/file1.tar"},
        {"source_file": "/data/d999009/file2.tar", "destination_file": "/d999009/file2.tar"},
        {"source_file": "/data/d999009/file3.tar", "destination_file": "/d999009/file3.tar"}
    ]
}

Listing contents of a directory on a Globus endpoint

A listing of files on a Globus endpoint can be retrieved via the dsglobus ls command. This command supports filtering the results subject to the following rules:

• Filter patterns must start with --, ~, !, or !~. If none of these are given, = will be used
• = does exact matching
• ~ does regex matching, supporting globs (*)
• ! does inverse = matching
• !~ does inverse ~ matching
• ~*.txt matches all .txt files, for example

Examples:

$ dsglobus ls -ep <endpoint> -p <path> --filter '~*.txt'       # all txt files
$ dsglobus ls -ep <endpoint> -p <path> --filter '!~file1.*'    # not starting in "file1."
$ dsglobus ls -ep <endpoint> -p <path> --filter '~*ile3.tx*'   # anything with "ile3.tx"
$ dsglobus ls -ep <endpoint> -p <path> --filter '=file2.txt'   # only "file2.txt"
$ dsglobus ls -ep <endpoint> -p <path> --filter 'file2.txt'    # same as '=file2.txt'
$ dsglobus ls -ep <endpoint> -p <path> --filter '!=file2.txt'  # anything but "file2.txt"

Customizing and extending dsglobus

This app can be modified and adapted to be used on other Globus clients and endpoints with minimal effort. Simply update the client ID, token storage, endpoint IDs, endpoint aliases, and other configuration parameters in rda_globus_python/lib/config.py to adapt the app to your use case and specific needs.

Resources

This app is adapted from the fully featured Globus Command Line Interface (CLI) and uses the TransferClient class from the Globus SDK.

The full Globus Transfer documentation offers full details about the service and reference documentation for all of its supported methods and features.