October 4, 2011 Arellano Theater. Tony Dalrymple Mike McCarty Scott Zeger.

Faculty Technology WorkshopOctober 4, 2011Arellano Theater

Introduction to Workshop

Tony DalrympleMike McCartyScott Zeger

Research Computing

Mark RobbinsPhysics and Astronomy

Homewood High Performance Cluster (HHPC)

Goals: Provide resources for large computational and data intensive projects on Homewood Campus – enable faculty to do more by pooling resources

Centralize resources to improve efficiency→ special purpose air conditioned rooms and systems administration

Increase competitiveness for new grants and faculty

Info: http://www.idies.jhu.edu/hpc.aspx or https://hhpc.idies.jhu.edu/wiki/index.php/Main_Page

Management committee (appointed by Deans): Burns, Dalrymple, Falk, Garcia-Moreno, Haines, Mittal, Robbins


Partnership between faculty and Deans Faculty: Purchase standardized compute nodes

Pay node fee to cover average rack/power/cable costsAllow Deans to allocate 10% of compute powerMinimum buy-in 8 nodes, < 1 user per node

Deans: Purchase head nodes and infiniband switchSystems administrator who provides basic service - operating system, compilers, queuing software

10% Deans’ share available to Homewood faculty, particularly for temporary spikes in compute needs, initial phase of new computational initiatives, new hires, users “kicking the tires” before buying in



HHPCv1 -Turned on December 2008 171 compute nodes, 8 cores, 16GB eachHHPCv2 – Being built 174 compute nodes – 12 cores, 48GB each Capable of expansion to 600 nodesHoused in newly renovated Bloomberg 156 Power and cooling for 750kW of equipment

Other initiatives being built in Bloomberg 156:100 TFlop Graphics Processor Laboratory – MRI for

researchers in Modeling Complex Systems IGERTDatascope – 5 PetaByte facility for rapid processing

of large datasets



Shared Computing Clusters, Clouds, and REDCapTheresa Caruso, IT

Shared Compute Cluster

What is it?› Specialized workload management system

for compute-intensive jobs› Includes job queuing, scheduling policy,

priority, resource management, match-making

› Serial or Parallel jobs run simultaneously› Efficiently harness idle compute power into

single usable resource pool

Midrange Technical Support Team

The Phoenix Project

A Shared Compute Cluster

Infrastructure What components make up the SCC?

› Management Nodes 2 x HP Proliant DL380 G4 (Intel)

› Compute Nodes 14 x HP Proliant DL 380 G4 (Intel) 6 x HP Proliant DL 385 (AMD)

› Storage Sun Storedge 6920 SAN (8TB Raw)

2 x 500GB volumes shared via NFS

› RedHat 5.6 64-bit & Condor 7.6.1› Theoretical Benchmarks?

MIPS = 316200 GFLOPS = 77.2

Midrange Technical Support Team

Cloud & Virtualization Services

Evolution from virtual infrastructure and shared storage to a full service private cloud

Working with researchers and distributed IT groups to increase service levels and accessibility of IT@JH computing services

Working with Educause, Internet2 and like-minded insitutions to build a foundation for community cloud solutions

Working with industry vendors to reduce complexity & cost while increasing maturity level & adoption of innovative technologies

Johns Hopkins Cloud Offerings

Storage Infrastructure

The Johns Hopkins Biostatistics Center (JHBC) offers REDCap (Research Electronic Data Capture) a secure web-based application that supports data capture and management for research studies. We offer training, support and development services to support your REDCap project from start to finish.

Advantages of using REDCap for your research studies:

SecureEasy to useFastRobustCommitment to qualityFlexibleData entryData export

REDCap is supported by the REDCap Consortium which is comprised of 273 active institutional partners from CTSA, GCRC, RCMI and other institutions. It is currently in production use or development build-status for more than 22,130 studies with over 31,350 end-users spanning numerous research focus areas across the consortium. The REDCap software is primarily developed at Vanderbilt University and is provided free of charge to institutional consortium members. JHU became a consortium member in April 2009 through the efforts of JHBC.

Citation and Organizational Tool Comparison

Susan Payne Robin N SinnThe Sheridan Libraries

FEATURE COMPARISON

Refworks Endnote Endnote Web Zotero Papers2 Mendeley

Cost Free for JHU students, staff and faculty

Requires individual purchase by user, research group, or department through Hopkins Software Procurement and Renewal System (SPARS). Educational discounts available

Free to JHU students, staff, and faculty. Requires setting up a user account through ISI Web of Knowledge. EndNote Web complements EndNote on the desktop

Free, charges apply for optional file storage above 100MB

Purchase; student discount available.

Free for basic

Web-based Yes No Yes Yes No Yes

Import references from online databases

Yes. Import batches of search results from many databases

Yes. Import batches of search results from many databases.

Yes Yes. Use icon in browser's address bar to add citations individually or in groups. (Note: from PubMed, import articles one at a time using the PMID or DOI.)

Yes. Can search & import from many databases.

Yes. Aside from importing from library databases, Mendeley can also import Endnote, Papers and other bibliographic databases you may have created in other tools.

Store references online

Yes Yes Yes No No Yes

Share references with others

Yes: Multi-user

access Simultaneous

editing of an account

Offers read-only access of the same data

Refshare allows for sharing databases or folders to other researchers at JHU or any researcher with Internet access

Yes: Traveling

library within a word document

PDFs contained within a library .data subfolder for ease of sharing

Save as compressed file with data subfolder

Yes, share EndNote web account with other Endnote Web users

Database can be shared with owner setup and owner permission only

Yes: Papers

Livfe Via email

Yes

RefWorks Endnote Endnote Web Zotero Papers2 Mendeley

Share references with others

Yes: Multi-user

access Simultaneous

editing of an account

Offers read-only access of the same data

Refshare allows for sharing databases or folders to other researchers at JHU or any researcher with Internet access

Yes: Traveling

library within a word document

PDFs contained within a library .data subfolder for ease of sharing

Save as compressed file with data subfolder

Yes, share EndNote web account with other Endnote Web users

Database can be shared with owner setup and owner permission only

Yes: Papers

Livfe Via email

Yes

MS Word Integration

Yes Yes Yes Yes Yes. Yes

Custom bibliographic styles supported

Yes Yes Yes Yes No Yes

Use FindIt @ JHU full-text links

Yes Yes Yes No No Yes

Requires online connection

Can work offline, once online account is active.

No, only for importing and exporting references from online databases

Yes Yes For search functions.

No, desktop version can be used offline, but syncing the web version to the offline version requires a connection

Platform Web-based, OS independent

Mac, Windows Web-based, OS independent

Specific versions of Firefox

Mac Web-based, OS independent

Technology for Teaching

Resources in the CER

Brian ColeCandice DalrympleCER

Advancing Teaching Excellence at Hopkins

www.cer.jhu.edu / [email protected]

http://www.cer.jhu.edu/

ClickersCPS – In-Class Voting

Average 15-20 courses per semester / ~2,000 students

Can dramatically increase attendance and engagement

Can be used anonymously or graded

Fully integrated with Blackboard

Turnitin

www.turnitin.com

Web-Based Plagiarism Detection

Fully Integrated with Blackboard

Contract Renewed until 10/13, now includes PeerMark & GradeMark

Extremely easy to use

Maptool, Grant Help & MoreInteractive Mapping ToolBlackboard Training

Equipment Loans, Multimedia Lab, Personal Consultations, Group Trainings

Grants – Specifically Outreach and Assessment Sections

www.cer.jhu.edu / [email protected]

http://www.cer.jhu.edu/

Virtual Labs andTechnology Classrooms

Graham Bouton, IT

Academic Technology Facilities: Student Virtual Desktop Service

http://hw-virtuallab.jhu.edu

Overview of student virtual desktop service› Comparison to physical lab services

Planned availability & licensing› Homewood undergraduate students

Future plans› Related improvements to the Krieger Lab› “Anytime, Anywhere” access

Academic Technology Facilities: General Pool Classroom Technology

www.jhu.edu/classrooms

Overview of supported classrooms› General Pool vs. Departmental

Recent changes and upgrades› Gilman, Shaffer, Hodson, Dunning…

Future plans› Increased technology usage› Analog to Digital transition

Academic Technology Facilities:General Pool Classroom

Technology

Challenges› Scheduling/Usage› Reporting technical or operational

problems “Help” button and phone support

› Maintenance Q&A / Suggestions / Feedback

ISIS

Sam LivingstonAaron LyleIT

ISIS Self-Service for Faculty

Self-Service Proxy Dashboard

› Overview› Email Options› Section Information› Roster Downloads› Grade Import

https://test.isis.jhu.edu/asp/

ISIS Self-Service for Faculty

Grade Roster› Saving/Clearing Grades› Post to Registrars

This cannot be undone Admin Role

› How to grant Admin Role

Backup Resources

Steve SearsIT

Backup & Storage Options

Part of existing storage & virtualization service infrastructure

Evolving to an on-demand, self-service environment

Initial offerings for distributed IT groups and research areas › Self managed local storage & data center

backup › Self managed local storage & IT managed

backup› Data center primary storage and backup

Dropbox, Jshare and more…

Brian SchislerIT

• DropBox• JShare At-A-Glance• JShare DropBox Feature• WebDav Nav App

Overview

What is DropBox?

Your Life’s Work…Wherever You Are.

• 2GB of Storage Space – FREE!• Secure DropBox Web Site• Multi-Platform• Works Offline• Only Transfers

Changes

Your Files, Anywhere

• Invite Students & Colleagues Via Email

• See Other’s Changes Instantly• 1 Month History• Changes Can Be Undone & Files

Recovered• SSL and AES 256 Bit

Encryption

Simple & Secure Sharing

• Files On The Go• Supported on iPad,

iPhone, BlackBerry & Android

• Easily Edit Files on Mobile Devices

• Easy Uploads and Sharing

DropBox Mobile

• Basic – 2GB Free• Pro50 – 50GB $9.99/Month• Pro100 – 100GB $19.99/Month• Teams – 350+GB Contact Sales

Pricing

www.dropbox.com

• Secure File Access from Anywhere at Any Time

• 5GB Storage Space – FREE!• Share Files Inside and Outside Johns

Hopkins• Advanced Collaboration and

Document Management• Secure DropBox Feature

JShare

• Email Integration• Application Library Services• HIPAA and FERPA Compliant• Daily Back-Ups for Disaster Recovery• Secure DropBox Feature

Features

JShare DropBox

• Roles Based Permissions• Personalized Uploads• Once It’s There…It’s There

www.it.jhu.edu/jshare

WebDav Nav

• WebDav Client for iOS (iPad, iPhone and Ipod)• Open Documents in Other Applications• Save Email Attachments• Forward Downloaded Documents• Stream Video and Music• FREE!

NSF Requirements

Barbara PrallelSayeed ChoudhuryMSEL

[email protected] Site: http://dmp.data.jhu.edu/

mailto:[email protected]

Background NSF data management plan requirement is

enforcement of long-standing data sharing policy

In January 2011, the requirement went live – we had our first request for help in December 2010

Through work on NSF-funded Data Conservancy, built unique, initial infrastructure specifically configured for data

Two services:› NSF Data management plan development-July 2011› Implementation of data management plan-October

2011

NSF Data Management Plan (DMP) Development

Generally, a description of data, plans for sharing, retention and access strategy, standards, roles, target repositories, operational and archival data, etc.

Free, personalized consultation on DMP specific to your research and NSF Directorate

Work with you to develop an effective plan, which may be customizable for future proposals

Due to iterative process of DMP development and waves of proposals due on the same day, we ask for three weeks to help you (3 wks is not your total effort)

Even if proposal due date is imminent, we will help you to the best of our abilities

Implementation of Data Management Plan (DMP)

Development of detailed agreement , which builds upon 2-page DMP

Deposition of data into JHU Data Archive for 5 years (potential for extension). Benefits include:› Unique, persistent identifiers for citation,

sharing, interoperability, etc.› Data sharing requests handled by JHU DMS

(consistent with policy or research needs)› Compliance for JHU Data Policy

Post-award implementation of DMP is currently supported through budget line item of 2% of TDC

Collaboration Tools

What We Can Do

Kelly BystryIT

Collaboration Tools

Make it possible to:› Connect› Communicate› Coordinate› Compete

For the purpose of:› Information sharing› Information seeking› Innovation

Collaboration Tools

TodaymyJH • Email• JShare• Instant Messaging• Announcements• Calendars• Bookmarks• Apps

Collaboration Tools

Tomorrow

myJH • Collaboration

Network– Wikis– Blogs– Polls

• Individual Dashboard

Collaboration Tools

Tomorrow

myJH • Collaboration

Network– Wikis– Blogs– Polls

• Individual Dashboard

Sharing Information Beyond HomewoodSteven FrantzCharles GoldmanSean StanleyAcademic Technologies

Collaboration Buzzwords Webcasting, Webinar, Live

Streaming VTC, Videoconference Lecture Capture Collaboration Space “Unified communication”

CONCEPTSHalf Duplex (one-way conversations)

Live StreamingPodcastingWebcastingLecture Capture

Full Duplex (two-way conversations)VTC/VideoconferenceCollaboration Environment

PRODUCTSAdobe ConnectSonic Foundry MediasiteWeb-ExGotomeetingH.323Microsoft LyncSkype, ichat, G-Talk

Products & Solutions

H.323 Videoconference Products (Polycom, Tandberg, Cisco)› Dedicated hardware appliances› Installed permanently› Quality Assurance (QA)› Standardized› Scalable

Collaboration Environments› Used for direct collaboration on documents, programming,

websites, presentations, etc.› Screen sharing, drop boxes, mouse and keyboard control› Video quality is less important than a stable connection and

common workspace› Adobe Connect, Web-Ex


Streaming, Podcasting, Webcasting, Webinar› One-way communication optimized› May or may not be live› Portability› Higher quality video and production› May or may not include feedback options via email/chat or

polls› Adobe Connect, Webex, Gotomeeting

Lecture Capture› Captures audio/video and presentation materials

(Powerpoint, etc)› May or may not stream live› Allows for finite control of access.› Mediasite


“Unified Communication”› Designed for ease-of-use. Combines

email/chat with video› May or may not include document sharing

or VOIP telephony› Augmented chat› Microsoft Lync

Choosing the “Right Fit”

What aspect of your collaboration is most important?

Who is your audience? Is this a single event or part of a series? What are your time/budget constraints? How flexible is your location? Do you require technical assistance during the

event or are you tech savvy?

Hardware and SoftwareBobby ByrdMelissa WisniewskiIT

Johns Hopkins Technology Store

it.jhu.edu/store

Brief history of the Technology Store› Mission, products offered, customer base

Benefits to purchasing from the store› Personal purchases› Departmental purchases› Discounts› Funding for student and faculty IT projects

Services provided› Student sales consultants› Authorized warranty support for Apple & Dell› Improved website and order/quote process

Q&A / Suggestions / Feedback

Software Licensing Information Center

Assure availability of authorized and legal software

Not a plethora of titles Useful software


Primarily Enterprise and/or Volume Licenses› Departmental purchases› Personal purchases

Can’t find the software you are looking for?


Website for SLIC – http://www.it.johnshopkins.edu/services/software/slic/

New Software Request

http://www.it.johnshopkins.edu/services/software/slic/

http://www.it.johnshopkins.edu/services/software/slic/

Key

Microsoft Enterprise CAL Suite

EnterpriseCALs

Servers

StandardCALs

Exchange Server Office SharePoint Server

Exchange Std CAL

(Messaging, Calendar, Contacts)

Office SharePoint Std CAL

(ECM, Portal, Search)

Exchange Ent CAL

(Archiving, Unified messaging, Compliance)

Office SharePoint Ent CAL(E-forms,

Spreadsheet publishing, Data

integration, FAST, Performance Point)

Office Communications

Server

OCS StandardOCS Enterprise

CALs(IM, Conferencing)

Enterprise CAL Suite component

Server consoles not included in CAL Suites

System CenterOperations Manager

Windows Server

Windows Rights Mgmt Services

CAL

System Center Configuration

Manager

Windows Server CAL

(Workload, File and Print, WSS, AD)

System Center

Configuration Manager

(Monitoring and Updates)

Forefront Security Suite: Client Security, Exchange Security, Online Protection for Exchange , SharePoint Security, Office Communication Server Security, Threat Management Gateway Online, Unified Access Gateway

Core CAL Suite component

System Center Client Suite

SQL CAL Plus Server

SQL Component added

Open Forum

Tony DalrympleMike McCarty

Slides will soon be available at: http://www.it.jhu.edu/events/workshop

October 4, 2011 Arellano Theater. Tony Dalrymple Mike McCarty Scott Zeger.

Documents

robbins slide

astronomy slide

shared compute cluster

management nodes

standardized compute

arellano theater slide

compute needs

deans faculty