Mobile Workstation for image processing/analysis of 3D biomedical imaging data

keisie

New member
Hi all,

I'm a professional scientist in physiology, and a large part of my research fellowship project will involve processing/analysing large quantities of 3D multi-dimensional (i.e. time, colour) biomedical imaging data over the next 4 years. I'll be using mainly open source software like ImageJ, Vaa3D, VTK but also some commercial ones like MATLAB, Bitplane Imaris, Adobe Photoshop to handle Gigapixel image stacks of uncompressed 12bit TIFFs which can easily amount to upward of 50-100GB (or more!) per dataset. This kind of work typically needs large amounts of RAM and multi-core processors to process the images and perform quantitative analyses, not to mention a decent GPU is also required to render the final 3D reconstruction and generate animations of results.

I'm currently looking for a high spec laptop that will also double as a mobile workstation. While I realise a laptop will never really be as powerful as a desktop setup (without breaking the bank), I thought the spec below was a reasonable solution given my computing needs, ~2000GBP budget (give or take) and that I sometimes work from home or travel to conferences for weeks at a time.


I'd love to hear any feedback or suggestions anyone has for how to improve the spec or if you think there are any obvious mistakes? For example one reason I selected two M.2 PCie NVMe SSDs was so that I could RAID 0 them to get higher read/write speeds for handling my large datasets but is this even possible with the setup I have below? I'm not too concerned about having many TBs of storage, I'll likely have some external storage banks that I'll swap data on/off of as is needed. For the monitor situation I'm happy with the full HD 1080p and I'm thinking of picking up myself the new Sliden'Joy (http://www.slidenjoy.com/) to give myself two extra fold away 15" FHD monitors to give myself more screen real estate.


Anyways, big thanks in advance. Looking forward to hearing from you.

Kind Regards,
Keith


Chassis & Display
Octane Series: 15.6" Matte Full HD IPS LED Widescreen (1920x1080)
Processor (CPU)
Intel® Core™i7 Quad Core Processor i7-6700k (4.0GHz) 8MB Cache
Free Item
FREE Magix Media Bundle with select Desktop INTEL® CPUs!
Memory (RAM)
64GB HyperX IMPACT 2133MHz SODIMM DDR4 (4 x 16GB)
Graphics Card
NVIDIA® GeForce® GTX 980M - 8.0GB DDR5 Video RAM, DirectX® 12, G-SYNC
Memory - Hard Disk
1TB WD BLACK 2.5" WD10JPLX, SATA 6 Gb/s, 32MB CACHE (7200 rpm)
M.2 SSD Drive
512GB SAMSUNG SM951 M.2, PCIe NVMe (up to 2150MB/R, 1550MB/W)
2nd M.2 SSD Drive
512GB SAMSUNG SM951 M.2, PCIe NVMe (up to 2150MB/R, 1550MB/W)
Memory Card Reader
Integrated 6 in 1 Card Reader (SD /Mini SD/ SDHC / SDXC / MMC / RSMMC)
Thermal Paste
ARCTIC MX-4 EXTREME THERMAL CONDUCTIVITY COMPOUND (£9)
Sound Card
Intel 2 Channel High Definition Audio + MIC/Headphone Jack
Bluetooth & Wireless
GIGABIT LAN & KILLER™ WIRELESS-AC 1535 M.2 GAMING 802.11AC + BLUETOOTH 4.1
USB Options
4 x USB 3.0 PORTS (1 x POWERED) + 1 e-SATA/USB 3.0 PORT COMBINED
Battery
Octane Series 8 Cell Lithium Ion Battery (82WH)
Power Lead & Adaptor
1 x UK Power Lead & 330W AC Adaptor (GTX 980M only)
Keyboard Language
OCTANE SERIES BACKLIT UK KEYBOARD WITH NUMBER PAD
Operating System
NO OPERATING SYSTEM REQUIRED
Operating System Language
United Kingdom - English Language
Office Software
NO OFFICE SOFTWARE
Anti-Virus
NO ANTI-VIRUS SOFTWARE
Browser
Google Chrome™
Notebook Mouse
INTEGRATED 2 BUTTON TOUCHPAD MOUSE
Webcam
INTEGRATED 2.0 MP FULL HD WEBCAM
Warranty
3 Year Gold Warranty (2 Year Collect & Return, 2 Year Parts, 3 Year Labour) (£69)
Dead Pixel Guarantee
1 Year Dead Pixel Guarantee Inc. Labour & Carriage Costs (£19)
Insurance
1 Month Free Laptop Insurance inc. Accidental Damage & Theft
Delivery
STANDARD INSURED DELIVERY TO UK MAINLAND (MON-FRI)
Build Time
Standard Build - Approximately 5 to 7 working days
Quantity
1

Price: £2,128.00 including VAT and delivery.

Unique URL to re-configure: http://www.pcspecialist.co.uk/quotes/octaneII-15/ZY3EQbwtve/
 

Frank100

Rising Star
Hi,

Your build is very good and will provide lots of processing power both CPU and GPU. In terms of whether you can RAID 0 the two SSDs, if the motherboard has a chip that supports that then yes it will work. I have a workstation on my desk with 4 SSDs all operating as a single volume but they are connected to an enterprise grade RAID card and the disks are enterprise grade too. They do outperform single disks but how much improved performance you actually get in your scenario is difficult to say.

I don't know how long the wait is for Pascal Nvidia mobile GPUs but I can say having had a couple of founders 1080s to test since Friday that they are outperforming my 980ti SC cards by about 60% on mathematical calculations and drawing 25% less power at the same time. I think that is quite remarkable. I strongly suspect that your modelling software will likewise be much faster on the newest Nvidia chipset so it's a case of whether you can wait for the new mobile GPUs or not.

For reduced noise and heat, plus longer battery life you could change the 1TB WD Black for a 1TB Samsung SSD for not a huge amount of extra money. That longer battery time might be useful when commuting or in meetings.

A few thoughts to consider.

Good luck with this project. It sounds very interesting.

Frank100
 
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