Workflows

These workflows are associated with Ocean's variables study

To use these workflows in Galaxy you can either click the links to download the workflows, or you can right-click and copy the link to the workflow which can be used in the Galaxy form to import workflows.

Ocean's variables 2.0
Marie Jossé

Last updated Aug 9, 2024

Launch in Tutorial Mode
License: CC-BY-4.0
Tests: ✅ Results: Not yet automated

Download Galaxy Workflow.ga Galaxy Australia Galaxy Europe Galaxy France Galaxy Main Import to another server (≥23.0+ only!) 
flowchart TD
  0["ℹ️ Input Parameter\nWorflow fully interactive"];
  style 0 fill:#ded,stroke:#393,stroke-width:4px;
  1["ℹ️ Input Dataset\nEutrophication_Med_profiles_2022_unrestricted_SNAPSHOT_2023-10-24T16-39-44.zip"];
  style 1 stroke:#2c3143,stroke-width:4px;
  2["ℹ️ Input Parameter\nWorkflow semi automatic"];
  style 2 fill:#ded,stroke:#393,stroke-width:4px;
  3["ℹ️ Input Dataset\ngebco_30sec_8.nc"];
  style 3 stroke:#2c3143,stroke-width:4px;
  4["Ocean Data View"];
  1 -->|output| 4;
  5["Interactive DIVAnd jupyterlab"];
  4 -->|outputs_netcdf| 5;
  0 -->|output| 5;
  6["DIVAnd create a climatology"];
  3 -->|output| 6;
  4 -->|outputs_netcdf| 6;
  2 -->|output| 6;
  59963282-87bf-4432-a777-8a9b61dea03c["Output\nWater_body_Phosphate_Mediterranean.nc"];
  6 --> 59963282-87bf-4432-a777-8a9b61dea03c;
  style 59963282-87bf-4432-a777-8a9b61dea03c stroke:#2c3143,stroke-width:4px;
  7["ODV visualisation interactive"];
  5 -->|output_netcdf| 7;
  dc8316a4-e57c-476b-b885-bbe4fb84d8c7["Output\nOcean variables visualisation interactive"];
  7 --> dc8316a4-e57c-476b-b885-bbe4fb84d8c7;
  style dc8316a4-e57c-476b-b885-bbe4fb84d8c7 stroke:#2c3143,stroke-width:4px;
  8["ODV visualisation"];
  6 -->|output_netcdf| 8;
  7b072253-5bf9-434f-b06a-70b375ddaa03["Output\nOcean variables visualisation"];
  8 --> 7b072253-5bf9-434f-b06a-70b375ddaa03;
  style 7b072253-5bf9-434f-b06a-70b375ddaa03 stroke:#2c3143,stroke-width:4px;

Importing into Galaxy

Below are the instructions for importing these workflows directly into your Galaxy server of choice to start using them!
Hands-on: Importing a workflow
  • Click on Workflow on the top menu bar of Galaxy. You will see a list of all your workflows.
  • Click on Import at the top-right of the screen
  • Provide your workflow
    • Option 1: Paste the URL of the workflow into the box labelled “Archived Workflow URL”
    • Option 2: Upload the workflow file in the box labelled “Archived Workflow File”
  • Click the Import workflow button

Below is a short video demonstrating how to import a workflow from GitHub using this procedure:

Video: Importing a workflow from URL