Fundamentals Research Data Management FAIR Data Principles Metadata Ontologies Data Sharing Data Publications Data Management Plan Version Control & Git Public Data Repositories Persistent Identifiers Implementation within DataPLANT Annotated Research Context User Journey ARC Commander QuickStart QuickStart (experts) Swate QuickStart Walk-through Best Practices For Data Annotation DataHUB DataPLAN ARC Commander Manual Setup Installing Dependencies Configure Git Installing the ARC Commander Windows MacOS Linux DataHUB Access Before we start Central Functions Initialize Clone Connect Synchronize Configure Branch ISA Metadata Functions ISA Metadata Investigation Study Assay Update Export Swate Manual Setup Installing Swate Browser Desktop, via installer (beta-stage) Desktop, manually (recommended) MacOS Organization-wide Core Features Annotation tables Building blocks Building Block Types Adding a Building Block Using Units with Building Blocks Filling cells with ontology terms Advanced Term Search Templates Contribute Templates File Picker Expert Features ISA-JSON Frequently Asked Questions Teaching Materials DataPLANT Overview Big Picture ARC structure ARC Demo

ARC Commander QuickStart (Expert Version)

last updated at 2023-01-27

⚠️ Before using this guide, please follow the Setup instructions in the ARC Commander manual


✅ You know how to use a command line or terminal
✅ You have created an ARC before
✅ The latest version of the ARC Commander is installed on your computer
✅ You have a DataPLANT account
✅ Your computer is linked to the DataHUB via personal access token

🚀 Voila! You are ready to follow these few steps to create a minimal ARC sharable via DataPLANT's DataHUB.

Replace the <variables> in the following code block with your information and execute it in your command line.

# Create and navigate to your ARC folder mkdir <path/to/YourARCFolder> cd <path/to/YourARCFolder> # Setup the ARC structure with one study and one assay arc init arc i create -i <YourInvestigationID> arc a add -s <YourStudyID> -a <YourAssayID> arc sync -f -r<YourUserName>/<YourARC> -m "initialize ARC structure"

💡 Make sure that no ARC exists at<YourUserName>/<YourARC>. Otherwise you will sync to that ARC.

💡 The last command will prompt an Error ERROR: GIT: fatal: repository '<YourUserName>/<YourARC>' not found (Windows) or ERROR: GIT: fatal: couldn't find remote ref main (macOS). Don't worry, the ARC is being created at that DataHUB during this step.

💡 You might need to repeat linking your computer to the DataHUB first via
arc remote accesstoken get -s

✏️ Edit this page