admin_overrides.md
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-## Site Administrator Overrides
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+## Site Administrator Overrides
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SBGrid installations allow site-level software control for Administrators
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+- [Software Blacklist](#software-blacklist)
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+- [Administrator Software Version Overrides](#administrator-software-version-overrides)
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+- [Precedence](#precedence)
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+
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+
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### Software Blacklist
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Site administrators can prevent the shell initialization files from configuring software on a host by creating an empty file at
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capsules.md
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# SBGrid software environment
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+
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+- [Overview](#overview)
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+- [Getting started](#getting-started)
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+ - [sbcap - Example](#getting-started_sbcap-example)
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+- [Usage - Capsule Environment for SBGrid](#usage-capsule-environment-for-sbgrid)
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+ - [Overrides - managing versions :](#usage-capsule-environment-for-sbgrid_overrides-managing-versions)
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+ - [Managing Duplicate executables](#usage-capsule-environment-for-sbgrid_managing-duplicate-executables)
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+ - [EXAMPLES:](#usage-capsule-environment-for-sbgrid_examples)
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+
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## Overview
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SBGrid is has a new software environment which is significantly faster than the older 'monolithic' shell environment.
getting_started.md
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## Getting Started
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+- [Using the SBGrid software collection](#using-the-sbgrid-software-collection)
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+- [Making the shell configuration automatic](#making-the-shell-configuration-automatic)
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+- [Setting an alias](#setting-an-alias)
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+
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### Using the SBGrid software collection
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The SBGrid software collection can be found installed at **/programs**.
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All software in the SBGrid collection is run from the the command line in a terminal. Do set up the shell environment the terminal to run the programs, you will need to initialize the SBGrid environment.
installation_overview.md
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## Installing the SBGrid software collection
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+- [Installing the software](#installing-the--software)
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+- [Supported Operating Systems](#supported-operating-systems)
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+ - [Linux](#supported-operating-systems_linux)
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+ - [OS X Intel](#supported-operating-systems_os-x-intel)
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+ - [OS X PowerPC](#supported-operating-systems_os-x-powerpc)
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+ - [IRIX](#supported-operating-systems_irix)
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+
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+### Installing the software
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+
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The SBGrid Software Suite contains 300+ Scientific software applications for [Linux and OS X](operatingsystems).
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The software can be installed using one of 3 methods: