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Robert J. Gifford edited this page Nov 20, 2024 · 7 revisions

If you have not done so already, install the GLUE software framework by following the installation instructions on the GLUE web site:

Download the Lentivirus-GLUE repository, navigate into the top-level directory, and start the GLUE command line interpreter.

At the GLUE command prompt, run the 'buildLentivirusProject.glue' file as follows:

GLUE Version 1.1.107
Copyright (C) 2015-2020 The University of Glasgow
This program comes with ABSOLUTELY NO WARRANTY. This is free software, and you
are welcome to redistribute it under certain conditions. For details see
GNU Affero General Public License v3: http://www.gnu.org/licenses/

Mode path: /
GLUE> run file buildCoreProject.glue

This will build the base or 'core' project, which contains a minimal set of feature definitions, clade categories, reference sequences, and alignments.

Lentivirus GLUE

Overview & Installation

  1. Home
  2. Background
  3. Requirements
  4. Docker Installation
  5. Native Installation
  6. Usage Overview

Lentivirus Core Project

  1. Overview
  2. Schema Extensions
  3. Core Project Data

SRLV Extension

  1. Background
  2. Project Data
  3. Genotyping Tools

EIAV Extension

  1. Background
  2. Project Data
  3. Genotyping Tools

Primate Extension

  1. Background
  2. Project Data

FIV Extension

  1. Background
  2. Project Data

Bovine Extension

  1. Background

ERV Extension

  1. Background
  2. Schema Extensions
  3. ERV Project Data

The GLUE Framework

User Guide

  1. Project Data Model
  2. Schema Extensions
  3. Modules
  4. Alignments
  5. Variations
  6. Scripting Layer
  7. Freemarker Templates

Command Reference

  1. Command Mode Reference
  2. Mode Non-Specific Commands
  3. Module Type Reference
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