SBGrid-Wiki.md
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This site provides information on how to install, use, and get help with your SBGrid software installation. Here you can also find information about SBGrid services. Please let us know if you have questions.
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### Recent Wiki Posts
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+- [2023.05.04 - Installation Manager version 2.9.5](client_downloads)
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- [2023.04.17 - Installation Manager version 2.9.4 release candidate](client_downloads)
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- [2023.03.30 - Installation Manager version 2.9.3 release candidate](client_downloads)
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- [2022.08.12 - CryoEM Benchmarks](recommended)
client_downloads.md
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- [SBGrid Installation Manager - Downloads](#sbgrid-installation-manager---downloads)
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- [Requirements](#requirements)
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- - [SBGrid Installation Manager for MacOS and Linux, v2.6.17](#sbgrid-installation-manager-for-macos-and-linux-v2617)
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- - [SBGrid Command-line Installation Manager for MacOS and Linux, v2.6.17](#sbgrid-command-line-installation-manager-for-macos-and-linux-v2617)
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- - [SBGrid CLI prerelease version](#sbgrid-cli-prerelease-version)
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+ - [SBGrid Installation Manager for MacOS and Linux, v2.9.5](#sbgrid-installation-manager-for-macos-and-linux-v295)
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+ - [SBGrid Command-line Installation Manager for MacOS and Linux, v2.9.5](#sbgrid-command-line-installation-manager-for-macos-and-linux-v295)
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<!-- /TOC -->
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The SBGrid installation manager requires an account. Set up an account by
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registering here : [SBGrid registration](https://sbgrid.org/registration/register/)
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-### SBGrid Installation Manager for MacOS and Linux, v2.6.17
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+### SBGrid Installation Manager for MacOS and Linux, v2.9.5
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-- [Linux : SBGrid-installation-manager-2.6.17.AppImage ](https://sbgrid.org/downloads/2.6.17/SBGrid-installation-manager-2.6.17.AppImage)
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+- [Linux : SBGrid-installation-manager-2.9.5.AppImage ](https://sbgrid.org/downloads/2.9.5/SBGrid-installation-manager-2.9.5.AppImage)
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-- [macOS : SBGrid-installation-manager-2.6.17.dmg ](https://sbgrid.org/downloads/2.6.17/SBGrid-installation-manager-2.6.17.dmg)
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+- [macOS : SBGrid-installation-manager-2.9.5.dmg ](https://sbgrid.org/downloads/2.9.5/SBGrid-installation-manager-2.9.5.dmg)
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See [this page](client_usage) for usage info.
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-### SBGrid Command-line Installation Manager for MacOS and Linux, v2.6.17
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+### SBGrid Command-line Installation Manager for MacOS and Linux, v2.9.5
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-- [Linux : sbgrid-cli_2.6.17-linux.tar.gz ](https://sbgrid.org/downloads/2.6.17/sbgrid-cli_2.6.17-linux.tar.gz)
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+- [Linux : sbgrid-cli_2.9.5-linux.tar.gz ](https://sbgrid.org/downloads/2.9.5/sbgrid-cli_2.9.5-linux.tar.gz)
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-- [macOS : sbgrid-cli_2.6.17-macos.tar.gz ](https://sbgrid.org/downloads/2.6.17/sbgrid-cli_2.6.17-macos.tar.gz)
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+- [macOS : sbgrid-cli_2.9.5-macos.tar.gz ](https://sbgrid.org/downloads/2.9.5/sbgrid-cli_2.9.5-macos.tar.gz)
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You can download this tar.gz file from the Terminal. Run this command:
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-For Linux
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+For Linux
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```
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-curl -k -LO https://sbgrid.org/downloads/2.6.17/sbgrid-cli_2.6.17-linux.tar.gz
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+curl -k -LO https://sbgrid.org/downloads/2.9.5/sbgrid-cli_2.9.5-linux.tar.gz
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```
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For macOS
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```
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-curl -k -LO https://sbgrid.org/downloads/2.6.17/sbgrid-cli_2.6.17-macos.tar.gz
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+curl -k -LO https://sbgrid.org/downloads/2.9.5/sbgrid-cli_2.9.5-macos.tar.gz
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```
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This will prevent the need to [remove the com.apple.quarantine attribute.](https://sbgrid.org//wiki/sbgrid-cli#installation)
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For usage info, continue to [this page](cli_v2).
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-
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-
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-### SBGrid CLI prerelease version
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-
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-This is the sbgrid-cli release candidate, 2.9.5. This version has many bug fixes and new features but has not been rigorously tested. We beleive it is ready for daily use but please report any bugs you find to bugs@sbgrid.org.
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-
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-- [Linux : sbgrid-cli_2.9.5-linux.tar.gz ](https://sbgrid.org/downloads/2.9.5/sbgrid-cli_2.9.5-linux.tar.gz)
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-
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-- [macOS : sbgrid-cli_2.9.5-macos.tar.gz ](https://sbgrid.org/downloads/2.9.5/sbgrid-cli_2.9.5-macos.tar.gz)
installation_overview.md
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## Installing the SBGrid software collection
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-The SBGrid Software Suite contains 440+ Scientific software applications for [Linux and OS X](operatingsystems).
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+The SBGrid Software Suite contains [500+ Scientific software applications](https://sbgrid.org/software/) for [Linux and OS X](operatingsystems).
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The software collection can be installed using either our graphical or command-line installation manager:
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- [SBGrid installation manager graphical interface](sbgrid-gui).
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[An SBGrid installation that includes the complete software collection for Linux and/or MacOS.](sbgrid-cli-admin)
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-One of the primary benefits of an SBGrid software installation is that it is a curated and actively managed software stack. New titles are added, obsolete versions are removed, and updates happen automatically. New software and bug fixes are only an email request away (bugs@sbgrid.org) without required system administration. While the installation configuration is flexible (CLI/GUI, title/versions, Linux/macOS, etc), this is the recommended mode of installation for most workstations and clusters, large labs, or shared departmental installations using network file storage for their program stack.
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+One of the primary benefit of an SBGrid software installation is that it is a curated and actively managed software stack. New titles are added, obsolete versions are removed, and updates happen automatically. New software and bug fixes are only an email request away (bugs@sbgrid.org) without required system administration. While the installation configuration is flexible (CLI/GUI, title/versions, Linux/macOS, etc), this is the recommended mode of installation for most workstations and clusters, large labs, or shared departmental installations using network file storage for their program stack.
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### Graphical installation for MacOS
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[A Graphical stand-alone installation manager for MacOS](client_install)
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The SBGrid CLI tool 'sbgrid-cli' allows users to choose the titles they wish to install using a command-line driven package manager. Applications can be installed and updated as convenient. Updates are released on a rolling basis and can be installed by the user as necessary. This program can be made [automatic](sbgrid-cli-admin) or used in manual mode.
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Member labs may use any/all of the installation types above for as many Computers as they require.
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managing_install.md
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Software installation and update are initiated from your local server at your site and downloaded from our servers.
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http is used to query our servers to check for update, and rsync is used to download the updates. Outbound HTTP, and RSYNC is necessary.
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-NOTE - for Linux and macOS, the `sbgrid-cli` utility can be used to install and manage an installation. This approach has a number of benefits over the script-based install and is available for Linux and macOS only. [See the sbgrid-cli recommened installation page for more information](sbgrid-cli-admin)
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+NOTE - for Linux and macOS, the `sbgrid-cli` utility should be used to install and manage an installation. This approach has a number of benefits over the script-based install below and is available for Linux and macOS only. [See the sbgrid-cli recommened installation page for more information](sbgrid-cli-admin)
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![NFS-based installation](images/site_diagram.png "NFS-based installation")
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| Branch | size |
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| ------------ | ------- |
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| i386-mac | ~500 Gb |
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-| x86_64-linux | ~1 Tb |
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+| x86_64-linux | ~1.4 Tb |
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| shared files | ~30 Gb |
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[Size breakdown of titles in a typical installation](size_graph)
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## Installation
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-A site installation is performed using the [sbgrid-admin](installation_admin) utility.
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+As state above, the `sbgrid-cli` utility should be used to install and manage an installation. This approach has a number of benefits over the script-based install. [See the sbgrid-cli recommened installation page for more information](sbgrid-cli-admin). A site installation can also be performed using the sbgrid-admin script : [sbgrid-admin](installation_admin) utility. This approach is currently supported but will be deprecated in the future.
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1. Create an 'sbgrid' user on the machine that will host your software installation. This should be a normal, unprivileged user account.
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2. Log in as this 'sbgrid' user.