Champs blocs indicators

ecology-champs-blocs/main-workflow

Author(s)

Version
1
Last updated
Jan 4, 2023
License
None Specified, defaults to CC-BY-4.0
Tags
ecology

Features
Tutorial
Champs blocs indicators
Workflow Testing
Tests: ❌
Results: Not yet automated
FAIRness PURL
https://gxy.io/GTN:W00046
RO-Crate logo with flask Download Workflow RO-Crate Workflowhub cloud with gears logo View on WorkflowHub
Launch in Tutorial Mode
Download 
flowchart TD
  0["ℹ️ Input Dataset\nchampbloc_ivr_val.csv"];
  style 0 stroke:#2c3143,stroke-width:4px;
  1["ℹ️ Input Dataset\nchampbloc_ivr.csv"];
  style 1 stroke:#2c3143,stroke-width:4px;
  2["ℹ️ Input Dataset\nficheterrain_val.csv"];
  style 2 stroke:#2c3143,stroke-width:4px;
  3["ℹ️ Input Dataset\nficheterrain.csv"];
  style 3 stroke:#2c3143,stroke-width:4px;
  4["ℹ️ Input Dataset\nchampbloc_qecb_val.csv"];
  style 4 stroke:#2c3143,stroke-width:4px;
  5["ℹ️ Input Dataset\nchampbloc_qecb.csv"];
  style 5 stroke:#2c3143,stroke-width:4px;
  6["IVR"];
  3 -->|output| 6;
  2 -->|output| 6;
  0 -->|output| 6;
  1 -->|output| 6;
  7["QECB"];
  3 -->|output| 7;
  2 -->|output| 7;
  4 -->|output| 7;
  5 -->|output| 7;
  8["Champs blocs indicators"];
  7 -->|output_rds| 8;

Inputs

Input Label
Input dataset champbloc_ivr_val.csv
Input dataset champbloc_ivr.csv
Input dataset ficheterrain_val.csv
Input dataset ficheterrain.csv
Input dataset champbloc_qecb_val.csv
Input dataset champbloc_qecb.csv

Outputs

From Output Label
Input dataset champbloc_ivr_val.csv
Input dataset champbloc_ivr.csv
Input dataset ficheterrain_val.csv
Input dataset ficheterrain.csv
Input dataset champbloc_qecb_val.csv
Input dataset champbloc_qecb.csv
cb_ivr IVR
cb_qecb QECB
cb_eco Ecology Champs blocs indicators

Tools

Tool Links
cb_eco
cb_ivr
cb_qecb

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.

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

Version History

Version Commit Time Comments
1 0b6778b7f 2022-12-08 13:47:34 Add champ bloc tutorial

For Admins

Installing the workflow tools

wget https://training.galaxyproject.org/training-material/topics/ecology/tutorials/champs-blocs/workflows/main_workflow.ga -O workflow.ga
workflow-to-tools -w workflow.ga -o tools.yaml
shed-tools install -g GALAXY -a API_KEY -t tools.yaml
workflow-install -g GALAXY -a API_KEY -w workflow.ga --publish-workflows