User Documentation

Welcome to L7 Informatics' Enterprise Science Platform (L7|ESP)! Explore this User Documentation to become familiar with L7|ESP. If you have any questions or encounter any issues, please reach out to L7 Informatics via phone (888-461-5227), email (support@l7informatics.com), ZenDesk, or Slack.

• 1. Introduction to L7|ESP
  • 1.1. L7|ESP Terms
  • 1.2. Provenance System
    • 1.2.1. Data Provenance
    • 1.2.2. Entity Lineage
  • 1.3. Versioning System
• 2. Installation Guide
  • 2.1. L7|ESP Quick Installation
  • 2.2. L7|ESP Directories
    • 2.2.1. Directory Hierarchy
    • 2.2.2. Data Directories
    • 2.2.3. Server Directories
• 3. L7|Master Guide
  • 3.1. User Interface (UI)
  • 3.2. Manage Data
    • 3.2.1. Manage Entity Classes
    • 3.2.2. Manage Entity Types
    • 3.2.3. Manage Container Types
    • 3.2.4. Manage Item Types
    • 3.2.5. Manage Service Types
    • 3.2.6. Manage Vendors
    • 3.2.7. Manage Customers
  • 3.3. Manage Processes
    • 3.3.1. Manage Protocols
    • 3.3.2. Flex View Designer
    • 3.3.3. Protocol Actions
    • 3.3.4. Manage Workflows
    • 3.3.5. Manage Workflow Chains
    • 3.3.6. Manage Param Groups
    • 3.3.7. Manage Signature Flows
    • 3.3.8. Create New Signature Flows
    • 3.3.9. Manage Dynamic Execution Plans
    • 3.3.10. Create New Dynamic Execution Plan
  • 3.4. Manage Extensions
    • 3.4.1. Manage Applets
    • 3.4.2. Manage Doclets
  • 3.5. Manage Tasks and Pipelines
    • 3.5.1. Monitor
    • 3.5.2. List View
    • 3.5.3. Cards View
    • 3.5.4. STDOUT and STDERR
    • 3.5.5. Task Library
    • 3.5.6. Pipeline Library
    • 3.5.7. Connect Tasks to Build Pipeline
    • 3.5.8. Reports
    • 3.5.9. Report Elements
    • 3.5.10. Create Hello World Pipeline
    • 3.5.11. Edit Hello World Pipeline
• 4. IAM (Identity & Access Management)
  • 4.1. Manage Workgroups and Personnel
    • 4.1.1. Manage Users
    • 4.1.2. Manage Roles
    • 4.1.3. Manage Workgroups
  • 4.2. IAM Permissions
    • 4.2.1. Analysis-related permissions
    • 4.2.2. L7|Master-related permissions
    • 4.2.3. IAM-related permissions
    • 4.2.4. Ingest-related permissions
    • 4.2.5. Inventory and Billing-related permissions
    • 4.2.6. LIMS-related permissions
    • 4.2.7. L7|Hub
    • 4.2.8. Configuration
    • 4.2.9. Manufacturing Execution System
    • 4.2.10. Notebooks
• 5. Manage Content
  • 5.1. Auto-Generated Sequence IDs
    • 5.1.1. Create Auto-Generated Sequence IDs for Entities
    • 5.1.2. Create Auto-Generated Sequence Names for Experiments
  • 5.2. Ontology Feature
  • 5.3. Banners
  • 5.4. Data References
  • 5.5. Testing
  • 5.6. Custom JavaScript
  • 5.7. Complexity of Custom (Python) Expressions
  • 5.8. Pipelines vs. Invokables
• 6. Using Expressions in L7|ESP
  • 6.1. L7|ESP Expression Language
  • 6.2. Expression API
    • 6.2.1. BioBuilds API
    • 6.2.2. Config API
    • 6.2.3. File API
    • 6.2.4. Illumina API
    • 6.2.5. LIMS API
    • 6.2.6. Param Group API
    • 6.2.7. Resource API
    • 6.2.8. Entity API
    • 6.2.9. User API
    • 6.2.10. Location API
    • 6.2.11. Inventory API
    • 6.2.12. Project API
  • 6.3. Expression Language Restrictions
• 7. Extending L7|ESP
  • 7.1. Server Side Extensions
  • 7.2. Custom Expression Functions
    • 7.2.1. Custom Queries
    • 7.2.2. Custom Endpoints
    • 7.2.3. Custom Transition Strategies
    • 7.2.4. API Callbacks
    • 7.2.5. Data Source Loaders
    • 7.2.6. Registering server-side extensions
  • 7.3. User-interface extensions
    • 7.3.1. invokables.js
    • 7.3.2. renderers.js
    • 7.3.3. fas-overrides.js
• 8. Quick Start Guide
  • 8.1. Login
  • 8.2. Create Standard Protocol
  • 8.3. Create Task for Pipeline
  • 8.4. Create Registered File
  • 8.5. Create Pipeline
    • 8.5.1. Test Pipeline
  • 8.6. Create Pipeline Report
    • 8.6.1. Test Updated Pipeline
  • 8.7. Create Pipeline Protocol
  • 8.8. Create Workflow
  • 8.9. Create Project
  • 8.10. Create Experiment
  • 8.11. Create Worksheet and Add Entities
  • 8.12. Process Entities and Perform Data Entry
  • 8.13. Link Data between Protocols
  • 8.14. Test Updated Workflow
• 9. Apps Guide
  • 9.1. User Interface (UI)
    • 9.1.1. Tags
    • 9.1.2. Spreadsheet-Style Tables
    • 9.1.3. Notifications
    • 9.1.4. Canvas/Inspector Theme
    • 9.1.5. List Bars
    • 9.1.6. Column Management
    • 9.1.7. Tabs
    • 9.1.8. List View vs. Cards View
    • 9.1.9. Filters Panel
    • 9.1.10. Library
    • 9.1.11. Inspector Panel
    • 9.1.12. History
    • 9.1.13. Save Options
  • 9.2. Context Help
  • 9.3. Apps Tray
  • 9.4. Manage your Profile
  • 9.5. Home Menu
  • 9.6. L7|Master App
  • 9.7. IAM (Admin) App
  • 9.8. Dashboard App
    • 9.8.1. Dashboards Tab
    • 9.8.2. Reports Tab
  • 9.9. Entities App
    • 9.9.1. Create New Entity
    • 9.9.2. Entity Details Page
  • 9.10. Projects App
    • 9.10.1. Create Project
    • 9.10.2. Project Details Page
    • 9.10.3. Create Experiment
    • 9.10.4. Experiment Details Page
    • 9.10.5. Experiments Tab
  • 9.11. LIMS App
    • 9.11.1. Create Worksheet
    • 9.11.2. Add Entities to Worksheet
    • 9.11.3. Data Entry/Process Entities
  • 9.12. Analysis App
  • 9.13. Data App
    • 9.13.1. Upload File
    • 9.13.2. File Details Page
  • 9.14. Location App
    • 9.14.1. Create New Container
    • 9.14.2. Container Details Page
  • 9.15. Search App
  • 9.16. Inventory App
    • 9.16.1. Create New Item
    • 9.16.2. Item Details Page
  • 9.17. Applets App
  • 9.18. Ingest App
    • 9.18.1. Ingests Tab
    • 9.18.2. Templates Tab
    • 9.18.3. Create New Ingest
  • 9.19. I18N
    • 9.19.1. Export Panel
    • 9.19.2. Import Panel
  • 9.20. Knowledge Graph
  • 9.21. Manufacturing Execution System
    • 9.21.1. Create New Batch Record
    • 9.21.2. Electronic Batch Record
    • 9.21.3. Sample Plan
    • 9.21.4. Bill of Materials
    • 9.21.5. Specifications
    • 9.21.6. Quality Review
    • 9.21.7. Sign Off
    • 9.21.8. Reports
    • 9.21.9. Attachments
    • 9.21.10. History
  • 9.22. Configuration App
  • 9.23. L7|HUB
    • 9.23.1. HUB Library
    • 9.23.2. Installing Available Content
    • 9.23.3. Content Bundles
    • 9.23.4. Bundle Review Plans
    • 9.23.5. Collections
  • 9.24. Notebooks App
    • 9.24.1. My Entries
    • 9.24.2. Create New Entries
    • 9.24.3. My Entries
    • 9.24.4. Library
    • 9.24.5. Create New Library
    • 9.24.6. Templates
    • 9.24.7. Create New Template
    • 9.24.8. Edit Notebook Entry
    • 9.24.9. Review/Signing Notebook Entry
    • 9.24.10. Create/View PDF for Notebook Entry
• 10. Embedded Software Dependencies
  • 10.1. Backend
  • 10.2. Frontend
  • 10.3. System Libraries