Computational Resource Guide
for the Mount Sinai School of Medicine, CUNY
Compiled by the Basic Sciences Computer Committee
Edited by Mihaly Mezei
E-mail address:
mezei@msvax.mssm.edu
Department of Physiology and Biophysics
Last updated on June 8, 1997
Content
INTRUDUCTION
This document is intended to be used as a source
for information on Mount Sinai's computational assets.
With the advances in computer networking, sharing of
information as well as resources became fairly easy.
This guide is intended to facilitate such exchanges.
It is expected that the information contained herein is
continually changing, thus we plan to update it frequently.
Also, we are aware that the compilation of such guide is a task
involving a vicious cycle: we would need a guide to find out what
to list. For this reason, we don't expect this guide to be complete.
To reduce omissions we would like to enlist the help of all our
readers: please, let us know of anything that we omitted or that
has been changed.
To contribute or to suggest changes, contact Mihaly Mezei (Ext. 85475 or
Mihaly.Mezei@mssm.edu).
Biomathematical Sciences
- Hardware:
- VAX/VMS 4300
- Silicon Graphics Indigo
- Silicon Graphics Personal Iris
- Sun Sparc2
- all available to Mount Sinai reserachers;
- HP 9000 - 1
- HP model 735 GRX
- Macintoshes, various IBM PC's, terminals (DEC) - all available to Mount Sinai
researchers.
- Software:
- Statistical packages:
- SAS-PC
- SPSS/X
- BMDP
- CIS database (Cumulative Index to Statistics)
- Other research-related packages:
- Mathematica on Sparc2
- GCG 7.1 on VAX/VMS,
- PDB on VAX/VMS,
- Ncar on SGI Indigo 2
- Quanta/Charmm on SGI Indigo 2
- Tex/LaTex on VAX/VMS.
- System-related:
- Novell LAN (Netware 3.11)
- PMDF e-mail on VAX/VMS
- Pathway on VAX/VMS (TCP/IP software)
- Major programming languages on all systems (except on IBM compatibles and
Macintoshes);
All are available to Mount Sinai researchers.
Brookdale Center for Molecular Biology
- Hardware:
- HP 9000/735 (48 MB RAM, 2.5 GB Storage)
- Accounts are available on this machine for compute-intensive
tasks, subject to the constraint that research in the laboratory
has priority.
- Software:
- GNU and other public domain tools; Complete mit X11R5 source (built);
Fishberg Research Center for Neurobiology
- Hardware:
- DECstation 3000
- DECstation 5000/240
- DECstation 5000/133
- Digital tape drive (TK50)
- 4mm tape drive (TLZ04)
- CD ROM (RRD40)
- read only optical disk drive
- Various Mac's
- laserprinters from Plus's to Quadras.
- Microtech 8Gb DDS2 Tape Drive,
- FWB 1.6Gb HammerDrive Hard Disk
- Microtek MSF-300Z Color/Gray Scanner
- Software:
- DEC: ULTRIX for RISC v4.1
- OSF/MOTIF v1.1.3
- XMEDIA v 1.1
- FUSE v1.2
- PHIGS v2.3B
- AVS v4.0
- C++ COMPILER v1.2A.
- OBJECT MASTER FOR MACINTOSH v2.1,
- SMALLTALK AGENT v1.1 for MAC (Quasar Knowledge Sys.),
- QuickMail v2.5.1 for MAC (CE Software, Inc.),
- Timbuktu Pro v1.0 for MAC (Farallon Computing),
- Macintosh Software:
- Word
- Canvas
- Pagemaker
- Statview
- Persuasion
Human Genetics
- Hardware:
- Macintosh Computers - 41
- Sun SparcStation 20 - 1
- IBM Compatible PCs - 6
- Apple LaserWriters - 10
- HP LaserJet Printers- 2
- CD Rom Writer/Jaz Drive
- Zip & Jaz Drives
- Montage Slide Maker
- HP Scanner
- Nikon Slide Scanner
- Software:
- MacVector
- Assembly Lign
- AutoAssembler
- GeneScan
- GenoTyper
- Oligo 5
- Word
- Excel
- Powerpoint
- Canvas
- Photoshop
- EndNote
- CricketGraph
- Acrobat
- FileMaker Pro
- ClarisDraw
- Powerpoint
General Clinical Research Center
- Hardware:
- MicroVax 3100-90 (VMS)
- PC's
- Macintoshes - all available to Mount Sinai Researchers.
- Software:
- GCG Systat
- EPInfo
- genetic research support
- Minuet (Telnet + ftp + Gopher + ..., client on PC)
- major programing languages on the MicroVax.
Microbiology
- Hardware:
- PC's
- MAC's - All free-standing
- Software:
- WordPerfect
- Designer
- Harvard Graphics
- Paradox
- Grant Manager
- Excel
- Procomm
- QuattroPro
- Photoshop
- Norton
Neoplastic Diseases
- Hardware:
- MacIntosh computer network with Apple CD-ROM
- Software:
- AppleShare 3.0 Fileserver
- Quickmail E-Mail
Physiology and Biophysics
- Hardware:
- SGI Power Challenge multipocessor servers
- SGI O200 multipocessor servers
- Terra 2000 parallel computer
- SGI 4D/35,Indigo, Indy O2, Octane (graphics workstations)
- IBM RS6000/550 (risc workstation)
- DECstation 5000/25 (risc workstation)
- MacIntosh network
- PCs
- Apple laserprinters,
- HP pen plotter
- Agfa document scanner.
- CD-ROM readers
- 8mm tape reader
- 4mm tape reader
- Tektronix Phaser color printer
- Slidememaker - makes photograps of the content of an SGI workstation
Most servers and graphics worstations belong to the Molecular Modeling or
Mathematics Core and as such they are available to Mount Sinai researchers.
The O200 cluster belongs to a Consortium of NIH investigators.
- Software:
- Interactive molecular modeling programs (several including protein homology
modeling):
- Insight
- Quanta
- Sybyl
- Macromodel
- Grasp
- Midas
- Rasmol
- Molecular dynamics/Monte Carlo molecular modeling programs (most interfaced
by the graphics programs above):
- Charmm
- Amber
- Gromos
- Batchmin
- Discover
- MMC
- Moil
- Molecular property related programs:
- Iditis
- Delphi
- Qpack
- Polyrate
- Mepsi
- Curves & Pcurves
- Dials & windows
- Simloc
- Ldp, Hb.
- Simulaid
- Electronic structure calculation programs:
- Gaussian-xx
- Gamess
- Molcas
- Mopac
For more information on these programs consult the
Users' Guide for the Molecular
Modeling Core.
See also the list for the Department of Mathematical Biology for
additional software on the Mathematical Core machine.
- MacIntosh software:
- Photoshop
- MacVector
- Canvas
- WordPerfect
- Word
Psychiatry
- Hardware:
- DECstation 5000/25
- DEC alpha 300's
- Macintoshes
- PC's
- X terminal
- Software:
- Ingred DBMS
- SPSS
- Picsure (graphics package)
- PV Wave (graphics package)
- MachTen
- PedDraw (pedigree drawing program for Mac),
- Pathworks
- Soft PC
Last modified: 02/04/1998 (MM)