ACCESS Software Discovery

Centos7 GUI development with Agisoft's photoscan preinstalled and configuredRelated Jetstream resources:

• View in source catalog: https://use.jetstream-cloud.org/application/images/789
• Access source catalog: https://use.jetstream-cloud.org/application/images/search
• Quick Start Guide: https://wiki.jetstream-cloud.org/Quick+Start+Guide
• Introduction Workshop: https://cvw.cac.cornell.edu/jetstream/

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis. You write a high level configuration file specifying your inputs and analysis parameters. This input drives a parallel run that handles distributed execution, idempotent processing restarts and safe transactional steps. bcbio provides a shared community resource that handles the data processing component of sequencing analysis, providing researchers with more time to focus on the downstream biology.Related Jetstream resources:

• View in source catalog: https://use.jetstream-cloud.org/application/images/722
• Access source catalog: https://use.jetstream-cloud.org/application/images/search
• Quick Start Guide: https://wiki.jetstream-cloud.org/Quick+Start+Guide
• Introduction Workshop: https://cvw.cac.cornell.edu/jetstream/

updates Bioc packages and includes HSOS infrastructure of Dec 2017Related Jetstream resources:

• View in source catalog: https://use.jetstream-cloud.org/application/images/669
• Access source catalog: https://use.jetstream-cloud.org/application/images/search
• Quick Start Guide: https://wiki.jetstream-cloud.org/Quick+Start+Guide
• Introduction Workshop: https://cvw.cac.cornell.edu/jetstream/

Anaconda python 3.6, OpenMMRelated Jetstream resources:

• View in source catalog: https://use.jetstream-cloud.org/application/images/663
• Access source catalog: https://use.jetstream-cloud.org/application/images/search
• Quick Start Guide: https://wiki.jetstream-cloud.org/Quick+Start+Guide
• Introduction Workshop: https://cvw.cac.cornell.edu/jetstream/

Adding infrastructure to support running hdf server.Related Jetstream resources:

• View in source catalog: https://use.jetstream-cloud.org/application/images/588
• Access source catalog: https://use.jetstream-cloud.org/application/images/search
• Quick Start Guide: https://wiki.jetstream-cloud.org/Quick+Start+Guide
• Introduction Workshop: https://cvw.cac.cornell.edu/jetstream/

Includes sufficient infrastructure to run rhdf5client + HSOSRelated Jetstream resources:

• View in source catalog: https://use.jetstream-cloud.org/application/images/579
• Access source catalog: https://use.jetstream-cloud.org/application/images/search
• Quick Start Guide: https://wiki.jetstream-cloud.org/Quick+Start+Guide
• Introduction Workshop: https://cvw.cac.cornell.edu/jetstream/

Includes sufficient infrastructure to run rhdf5clientRelated Jetstream resources:

• View in source catalog: https://use.jetstream-cloud.org/application/images/508
• Access source catalog: https://use.jetstream-cloud.org/application/images/search
• Quick Start Guide: https://wiki.jetstream-cloud.org/Quick+Start+Guide
• Introduction Workshop: https://cvw.cac.cornell.edu/jetstream/

Globus Toolkit GridFTP Services

• Vendor Software URL: http://toolkit.globus.org/toolkit/data/gridftp/

XSEDE Information Services (IS)

• Vendor Software URL: https://info.xsede.org/

Kerberos is a network authentication protocol. It is designed to provide strong authentication for client/server applications by using secret-key cryptography. A free implementation of this protocol is available from the Massachusetts Institute of Technology. Kerberos is available in many commercial products as well.

• Vendor Software URL: https://web.mit.edu/kerberos/

MyProxy is open source software for managing X.509 Public Key Infrastructure (PKI) security credentials (certificates and private keys). MyProxy combines an online credential repository with an online certificate authority to allow users to securely obtain credentials when and where needed. Users run myproxy-logon to authenticate and obtain credentials, including trusted CA certificates and Certificate Revocation Lists (CRLs).

Storing credentials in a MyProxy repository allows users to easily obtain RFC 3820 proxy credentials, without worrying about managing private key and certificate files. They can use MyProxy to delegate credentials to services acting on their behalf (like a grid portal) by storing credentials in the MyProxy repository and sending the MyProxy passphrase to the service. They can also use MyProxy to renew their credentials, so, for example, long-running jobs don't fail because of expired credentials. A professionally managed MyProxy server can provide a more secure storage location for private keys than typical end-user systems. MyProxy can be configured to encrypt all private keys in the repository with user-chosen passphrases, with server-enforced policies for passphrase quality. By using a proxy credential delegation protocol, MyProxy allows users to obtain proxy credentials when needed without ever transferring private keys over the network.

For users that don't already have PKI credentials, the MyProxy Certificate Authority (CA) provides a convenient method for obtaining them. The MyProxy CA issues short-lived session credentials to authenticated users. The repository and CA functionality can be combined in one service or can be used separately.

MyProxy provides a set of flexible authentication and authorization mechanisms for controlling access to credentials. Server-wide policies allow the MyProxy administrator to control how credentials may be used. Per-credential policies provide additional controls for credential owners. MyProxy supports multiple authentication mechanisms, including passphrase, certificate, Kerberos, OAuth, SAML, OpenID, Pubcookie, VOMS, PAM, LDAP, RADIUS, SASL, Moonshot, and One Time Passwords (OTP).

• Vendor Software URL: http://grid.ncsa.illinois.edu/myproxy/oauth/

Molecular mechanical force fields for the simulation of biomolecules and package of molecular simulation programs

• Vendor Software URL: http://ambermd.org/#code

Globus Data Sharing Service

• Vendor Software URL: https://www.globus.org/data-sharing

This is a Web app that allows anyone to explore their Globus identity information. It is intended to be deployed on a public Web server so that one can connect to it using a Web browser, login, see the data that Globus's Auth API provides to the app, and logout. The purpose of the app is to show Web developers what the identity information returned from the Auth API looks like so that they can then write their own apps that use the Auth API.

• Vendor Software URL: https://github.com/lliming/globus-id-explorer

The Cornell Virtual WorkshopSM learning platform is designed to enhance the computational science skills of researchers, accelerate the adoption of new and emerging technologies, and broaden the participation of underrepresented groups in science and engineering.

• Vendor Software URL: https://cvw.cac.cornell.edu

Network service deployment of the Singularity Container Registry

• Vendor Software URL: https://singularity-hub.org

Deploy performance-optimized AI/HPC software containers, pre-trained AI models, and Jupyter Notebooks that accelerate AI developments and HPC workloads on any GPU-powered on-prem, cloud, and edge systems.

• Vendor Software URL: https://ngc.nvidia.com/catalog/all

The Grid Community Toolkit (GCT) is an open-source fork by the Grid Community Forum of the venerable Globus Toolkit created by the Globus Alliance. The GCT was created in response to the end-of-support of the Globus Toolkit in January 2018.

• Vendor Software URL: https://gridcf.org/gct-docs/

Portal for finding University of Illinois campus wide technology resources & training

• Vendor Software URL: https://researchit.illinois.edu

Most academic and research success stories involve a considerable amount of collaboration. COmanage helps you streamline and manage your identity-oriented requirements so your faculty can concentrate on research, your students can concentrate on learning, and your staff can concentrate on getting things done.

• Vendor Software URL: https://incommon.org/software/comanage/

Creates a Globus endpoint on your laptop or other personal computer and allows you to transfer and share files, even if you don't have administrative privileges on your machine. Globus Connect Personal is available for Mac OS X, Windows, and Linux operating systems.

• Vendor Software URL: https://www.globus.org/globus-connect-personal

XSEDE's Resource Description Repository web application

• Service Access URL: https://rdr.xsede.org/
• Service Documentation: https://rdr.xsede.org/UserGuide.pdf
• Vendor Software URL: https://rdr.xsede.org/UserGuide.pdf
• Vendor URL: https://www.xsede.org/

OSG login node

• Service Access URL: submit-1.osg.xsede.org:22
• Vendor Software URL: http://grid.ncsa.illinois.edu/ssh/
• Vendor URL: http://www.ncsa.illinois.edu

Tool that enables developers and service operators to see Globus Auth API OIDC and OAuth2 application visible data for authenticated users.

• Service Access URL: https://info.xsede.org/globus-id-explorer/
• Vendor Software URL: https://github.com/lliming/globus-id-explorer
• Vendor URL: http://www.globus.org/

Some XSEDE Service Providers (SPs) offer mass storage systems. These systems provide orders of magnitude more data storage than personal or (most) academic departmental storage systems and are intended to facilitate high-end scientific computing and data analysis activities. These mass storage systems are nearly always accessible via the command-line interface offered by the SP's computation resources. Some SPs also offer other interfaces to their mass storage systems (e.g., GridFTP, Globus, and similar network interfaces).

• Service Documentation: https://portal.xsede.org/web/xup/data-management