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Repository ena_upload
Name: ena_upload
Owner: iuc
Synopsis: Submits experimental data and respective metadata to the European Nucleotide Archive (ENA).
The program submits experimental data and respective metadata to the European Nucleotide Archive (ENA). 
The metadata should be provided in separate tables corresponding to ENA objects STUDY, SAMPLE, EXPERIMENT and RUN
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/ena_upload
Type: unrestricted
Revision: 10:480d9e9d156b
This revision can be installed: True
Times cloned / installed: 659

Repository README files - may contain important installation or license information

ENA-upload-cli wrapper

Galaxy wrapper of the ena-upload-cli. Templates that can be used in as input for the metadata can be found here

This tool is shipped in a ready to use Galaxy container found here.

Setting up credentials on Galaxy

The admin of the server can set up global credentials through a file with the format:

username: webin_id
password: webin_password

The path to this file must be exported as an environment variable called $GALAXY_ENA_SECRETS

Alternatively, the admin can enable users to set their own credentials for this tool. To enable it, make sure the file config/user_preferences_extra_conf.yml has the following section:

ena_webin_account:
    description: Your ENA Webin account details
    inputs:
        - name: webin_id
          label: ENA Webin ID
          type: text
          required: False
        - name: password
          label: Password
          type:  password
          required: False

Contents of this repository

Name Description Version Minimum Galaxy Version
0.6.3+galaxy0 21.05

Categories
Data Export - Tools for exporting data to various destinations