Friday, March 31, 2017

neutron scattering and HPC

F. Bao, math depart

HPC, neutro scattering

I(Q,omega), Q is the 3D neutron wave vector transfer
omega is the energy transfer between neutron and material sample.

I = S*R (convolution).

S is modeled scattering function, interest from material science.

Partition all parameters into several subvectors.

Model: silicon crystal structure with first to fourth nearest neighbor interactions

hierarchical parameter space

latin hypertube sampling

Eric Lingerfelt, Yawei Hui, CS
Richard Archibald, math
Oliveier Delaire, materials

Sunday, March 26, 2017

Sample videos, Developing YouTube video to enhance education and training in bioinformatics and genomics

Selected Bioinformatics Videos

Seletec Computing with R Videos
Other tutorial videos

Animation on herd immunity

Wednesday, March 22, 2017

Monday, March 20, 2017

*** Qin Fall 2017 course schedule

Fall 2018,
8/21 Mon, classes begin
October 2-13 (Monday-Friday)
October 16-17 (Monday-Tuesday)Fall Break - no classes 
December 4 (Monday)Last day of classes for Fall semester
December 5 (Tuesday)Reading Day
December 6-12 (Wednesday-Tuesday)Final Examinations

48263, 48778, 48779

*** Alzheimer's Disease NIH, data resources

Limited Competition for the Renewal of the National Cell Repository of Alzheimer's Disease (NCRAD) (U24)

  • The NIA Genetics of Alzheimer's Disease Data Storage Site (NIAGADS)
  • The NIA Genomic Center for Alzheimer's Disease (GCAD)
  • The National Cell Repository for Alzheimer's Disease (NCRAD)
  • The National Alzheimer's Coordinating Center (NACC)
  • The Database of Genotypes and Phenotypes (dbGaP)
  • The Alzheimer's Disease Genetics Consortium (ADGC)
  • The Alzheimer's Disease Centers (ADCs)
  • Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE)
  • The Alzheimer's Disease Neuroimaging Initiative (ADNI)
  • The National Alzheimer’s Project Act (NAPA) and the related milestones  
  • Information relevant to Alzheimer's Disease Related Dementias (ADRD)
  • Other websites designed to store and distribute data related to AD

Friday, March 17, 2017

Friday, March 10, 2017

GPU server

---------- Forwarded message ----------
From: Thinkmate <>
Date: 2017-02-13 1:54 GMT-05:00

ThinkmateToll Free: 1-800-371-1212
Fax: 781-688-2260
This product email has been sent from Thinkmate at the request of LD

GPX XT24-2460V4-10GPU

My System February 13th, 1:35 am EST

Configured Price: $35,656.00

Selection Summary
BareboneIntel C612 Chipset - Dual 1-Gigabit Ethernet - 4U GPU Server - 2000W (2+2) Redundant Power Supply
Processor2 x Eight-Core Intel Xeon Processor E5-2620 v4 2.10GHz 20MB Cache (85W)
Memory24 x 64GB PC4-19200 2400MHz DDR4 ECC Registered Load-Reduced DIMM
Boot DriveNo SATA Disk on Module for boot
Hard Drive2 x 2.0TB SATA 6.0Gb/s 7200RPM - 2.5" - Seagate Enterprise Capacity (512e)
Optical DriveNo Optical Drive Support
Video CardIntegrated Video (Included with Motherboard)
Co-Processors8 x PNY NVIDIA GeForce GTX 1070 Founders Edition 8GB GDDR5 (1xDVI, 1xHDMI, 3xDP)
Network CardIntel Ethernet Server Adapter I350-T2V2 Dual Port (2x RJ-45)
AccessoriesReplacement Chassis Top Cover (required for NVIDIA GeForce GTX graphics card support)
Power ProtectionAPC Smart-UPS 3000VA LCD 208V - 2U Rackmount
Operating SystemNo Operating System (Hardware Warranty Only, No Software Support)
Warranty3 Year Advanced Parts Replacement Warranty
Tech Specs
Memory TechnologyDDR4 ECC Reg
North BridgeIntel C612
Form Factor4U
Memory Slots24x 288-pin DIMM Sockets
GraphicsASPEED AST2400 BMC
EthernetDual Gigabit Ethernet Ports with Intel i350
Power2000W Redundant Power Supplies with PMBus
External Bays24x 2.5" Hard drive bays
Expansion Slots11x PCI-E 3.0 x16 (FH, FL) slots
1x PCI-E 3.0 x8 (in x16) slots
Single Root Complex
Back Panel4x USB 3.0 ports
2x RJ45 Gigabit Ethernet LAN ports
1x RJ45 Dedicated IPMI LAN port
1x VGA Connector
Dimensions (WxHxD)17.2" (437mm) x 7.0" (178mm) x 29" (737mm)
SATA 6Gbps AHCI ControllerIntel C612
SATA 6Gbps AHCI Ports6
SATA 6Gbps SCU ControllersSATA
SATA 6Gbps SCU Ports4
Product LineXeon E5-2600 v4
SocketLGA2011-v3 Socket
Clock Speed2.10 GHz
QuickPath Interconnect8.0 GT/s
Smart Cache20MB
Cores/Threads8C / 16T
Intel Virtualization TechnologyYes
Intel Hyper-ThreadingYes
TechnologyDDR4 Load-Reduced
Type288-pin LRDIMM
Capacity24 x 64 GB
Speed2400 MHz
Error CheckingECC
Signal ProcessingRegistered
Hard Drive
Storage Capacity2 x 2.0TB
Interface6.0Gb/s Serial ATA
Rotational Speed7200RPM
Memory Capacity8 GB
ProcessorGeForce GTX 1070 (GP104)
Core Clock Speed1506 MHz (1683 MHz Boost Clock)
Multi-GPU TechnologyNVIDIA SLI Ready
DisplayPort Output3x DisplayPort 1.4
DVI Output1x Dual-Link DVI
HDMI Output1x HDMI 2.0b
Network Card
Transmission Speed1-Gbps Ethernet
Port InterfaceRJ-45
Host InterfacePCI Express 2.1 x4
Cable MediumCopper
VT for Directed I/O (VT-d)No
Product Page:
Thinkmate's Homepage:
All prices subject to change.

Friday, March 3, 2017

github customized domain name setup

applejack:_s hqin$ dig

; <<>> DiG 9.8.3-P1 <<>>
;; global options: +cmd
;; Got answer:
;; ->>HEADER<<- opcode: QUERY, status: NOERROR, id: 12824
;; flags: qr rd ra; QUERY: 1, ANSWER: 2, AUTHORITY: 4, ADDITIONAL: 4

; IN A