Personal, Virtual Machines



By Chris Dwan

Nov. 15, 2006 | Virtualization has turned an important corner:  it is now a productivity tool for the individual user.  Over the past few years, products like VMWare have vastly simplified administration of traditional IT services.  Rolling out a new machine could be done by pushing a few buttons, rather than with a trip to the machine room.  In practice, this meant that system administrators can provide dedicated, special purpose systems with great ease.  In the past month, I’ve been using that same technology to be more productive on a day-to-day basis.

I recently installed the “Parallels” virtualization software on my MacBook Pro.   I encountered a thorny VPN client that was supported only under Windows.  I had been splitting my efforts between a time-wasting fight to get the client software on OS X, and a half-hearted attempt to find myself a cheap Windows laptop.  On a whim, I downloaded the free 30-day demo of Parallels, created an “image” of Windows XP, installed the OS, and the windows-only VPN client, and I was online through the “windows only” VPN that very day.  The ease of installation astounded me.  It was actually much simpler to create a virtual environment than it would have been to purchase and configure a physical device.

As I worked in my virtual VPN environment, I discovered another advantage:  I could isolate the effects of working within a VPN (slow network connection, no access to instant messenger or email) to a single window on my desktop.  Since my primary login environment was not running in the VPN cage, I was far more productive.  This is true for other software as well.  Since my investment in creating a new machine is relatively low, I have no problem installing buggy or potentially harmful software.  I now routinely create task-specific virtual machines, and delete them once I’m done with them.

A third advantage became obvious over time:  there are an increasing number of pitiful web interfaces that refuse to show content unless the viewer is using some particular browser.  We’ll set aside the fact that any web designer who deliberately limits the usability of their site should be fired.  My virtual Windows machine qualifies, through the network, as “real.”  This lets me access such sites with whatever client the developer happened to favor.

Windows Dressing
The ability to smoothly re-map physical devices (USB ports, disk drives, network interfaces) onto the virtual machine took me by surprise.  This came in handy while experimenting with a piece of pre-release hardware for accelerating BLAST.  Once again, the software was “Windows only.”  I was shocked at how simple it was to “plug in” a particular USB device to my virtual OS.  Similarly, when I create virtual Linux machines, I don’t bother to burn the installation DVD to physical media.  Instead, I just mount the ISO on the virtual machine.

Of course, there are down sides.  It’s critical to have lots of RAM and hard disk space.  The default VM image takes up 8GB.  I’ve also grown spoiled by working exclusively with free operating systems for the past few years.  Virtual hardware is free.  Licensed software is not.  Finally, there is the obvious fact that an emulated environment is never going to compare well with native OS performance.  Virtual machines won’t be good for video games any time soon.

For development of BioTeam’s cluster products, I’ve dedicated two virtual Linux machines, a portal and a compute node.  I suspect that Parallels even supports net-booting and similar protocols.  I now work on software for rapid cluster deployment without needing to travel to the machine room, get test hardware, or even be connected to the internet.  Testing out a cluster installer while in the internet-free zones of airplanes and trains is pretty compelling stuff.

E-mail Chris Dwan at cdawn@bioteam.net.

Subscribe to Bio-IT World  magazine.

Click here to login and leave a comment.  

0 Comments

Add Comment

Text Only 2000 character limit

Page 1 of 1



White Papers & Special Reports

sgi whp 2
Managing the Modern Genomics Data Flood
Sponsored by SGI

Managing and storing the perfect storm of multi-disciplined data pouring from next generation sequencers and other omics instruments is a central challenge in life sciences. Discover in this paper how the SGI ArcFiniti storage solution, optimized for unstructured genomics and life sciences data can: 

  • Reduce costs, proactively protect data integrity, and deliver the high performance I/O required for genomics data processing and analysis.  
  • Effectively manage capacities from 156TB to 1.4PB as a disk based, integrated hardware and software platform 


sgi - whp 1
Turning Genomics Data into Practical Insight
Sponsored by SGI

With worldwide sequencing capacity approaching 13 quadrillion DNA bases annually turning genomics data into knowledge is a true computational challenge. Read this paper and learn how the SGI UV coherent shared memory platform can:  

  • Speed results time while cost competitively tackling the most difficult computational problems across all omics disciplines. 
  • Push performance by scaling to extraordinary levels, up to 256 sockets (2,560 cores, 4,096 threads) per single system (one OS image). 

Provide support for up to 16TB of coherent shared memory in a single system image enabling extreme efficiency across a wide range of compute demands. 



accerlys-logo_2012_wh
New Complimentary Market Survey…
Collaborations and Communications Within Drug Discovery Research
Sponsored by Accelrys
This survey was conducted by the Cambridge Healthtech Media Group in January, 2012. It was sponsored by Accelrys related to their HEOS initiative to gather valid information around externalizing collaborative research while improving communications in the cloud. With 310 qualified industry respondents the survey findings reveal useful usage and trends patterns.  An insightful follow-on discussion and webinar related to this survey, and the HEOS by Scynexis SaaS portal is also available on the Bio-IT World website for complementary viewing.
 


Job Openings

tessella logo 
Scientific Software Engineer
Boston MA
$70,000 to $95,000
 

Tessella delivers software engineering and consulting services to leading pharmaceutical and biotech companies. We are recruiting Software Engineersto work with skilled bioinformaticians and scientists to identify business needs and recommend and develop technical solutions. Applicants require BS, MS or PhD in bioinformatics, biology or chemistry and 2+ years of software development in either: Java, C#, C++, C or VB.NET. 

Apply at http://jobs.tessella.com   

 

oxford nanopore logo 


 Early Access Collaborations Managers
Oxford Nanopore Technologies is developing a novel technology, GridIONTM for the direct, electronic analysis of DNA/RNA and other analytes.  As the system approaches the market, we are building a team of technically knowledgeable, highly motivated candidates with excellent customer service and facilitation skills to join our company as Collaboration Managers.  This is a unique opportunity to work with world-leading genomics customers throughout the early adoption phase of a new generation of DNA sequencing technology.. This is a facilitative, enabling role with responsibility for managing technology development collaborations with key customers at leading genomics institutions.  It will include long term management of the collaboration plan and milestones and associated meetings and documentation. Click here to find out more and apply   

Oxford Nanopore's GridION technology, VP, Sales and Marketing Oxford Nanopore Technologies is a fast-moving technology company that is developing a novel electronic molecular analysis technology. The technology is adaptable for the analysis of DNA/RNA, proteins, chemicals and other molecules.  It is therefore suitable for use in a variety of markets including scientific research and clinical applications.  As the technology approaches the market, Oxford Nanopore is seeking a visionary VP of sales and marketing to join the senior team.  The candidate will embrace the opportunities afforded by entering the market with a truly disruptive technology that has the potential to expand the number of users and the variety of applications in each target market.  This is a rare opportunity to influence the commercial strategy at an early phase of its commercial lifetime, in a well funded company.  Oxford Nanopore welcomes applications from candidates with a track record of high-level strategic commercial  leadership, who wish to apply a fresh approach to existing markets.  Experience in Life Sciences/DNA sequencing is central to this role, however we will consider your application if you have experience of disruptive technologies in other related industries.  We are particularly interested in candidates with strong expertise in the use of digital technologies for sales and marketing of scientific/technical products.  Click to  Apply  


 

For reprints and/or copyright permission, please contact  Tim McLucas, (781) 972-1342, tmclucas@healthtech.com .