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ARCitect Hands-on |
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Please install version v0.0.31 (or later) of the ARCitect: https://github.com/nfdi4plants/ARCitect/releases/latest
- Login to DataHUB (1)
- Select
git.nfdi4plants.orgas Host
- Create a New ARC (2)
- Select a location and name it TalinumPhotosynthesis
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💡 By default, your ARC's name will be used
- for the ARC folder on your machine
- to create your ARC in the DataHUB at
https://git.nfdi4plants.org/<YourUserName>/<YourARC>(see next steps) - as the identifier for your investigation
💡 Make sure that no ARC exists at https://git.nfdi4plants.org/<YourUserName>/<YourARC>. Otherwise you will sync to that ARC.
- you could also add the contacts directly via ORCID
by clicking "Add Study" and entering an identifier for your study
Use talinum_drought as an identifier
In the study panel you can add
- general metadata,
- people, and
- publications
- data process information
by clicking "Add Assay" and entering an identifier for your assay
Add two assays with rnaseq and metabolomics as an identifier
You can either
- link your new assay to an existing study in your ARC or
- create a new one
Link your assays to your talinum_drought study
In the assay panel you can define the assay's
- measurement type
- technology type, and
- technology platform
You can either
- directly write a new protocol within the ARCitect or
- import an existing one from your computer
In the file tree you can
- import dataset files or folders and
- protocols associated to that dataset.
💡 Import Dataset allows to import data from any location on your computer into the ARC.
💡 protocols and multiple datasets can directly be imported via ARCitect
The Explorer (6) button directly opens your ARC locally
You have to commit changes before you can upload to the DataHUB
If you are logged in, the Commit panel shows
- your DataHUB's Full Name and eMail
It allows you to
- track changes of the ARC with git
- add a commit message
- use different branches
From the sidebar, navigate to DataHUB Sync (8)
The DataHUB Sync panel allows you to
- sync the changes to the DataHUB: Push
- sync from the DataHUB: Pull, and
- change the Remote for the synchronization
- sign in to the DataHUB
- Check your projects
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👩💻 Initiated an ARC
📂 Structured and ...
... annotated experimental data
🌐 Shared with collaborators
🔥 Don't worry 😄
-
a "continuous quality control" (CQC) pipeline validates your ARC
-
This fails if one of the following metadata items is missing:
Investigation Identifier Investigation Title Investigation Description Investigation Person Last Name Investigation Person First Name Investigation Person Email Investigation Person Affiliation
If the pipeline has failed once, it is disabled by default
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To reactivate it and let the DataHUB validate your ARC again:
- navigate to CI/CD setting
<arc-url>/-/settings/ci_cd - expand "Auto DevOps"
- check box "Default to Auto DevOps pipeline"
- Save changes
