CBCB - Quick Reference

People
Mailing Lists
Phone Numbers

Umiacs Servers
CBCB Servers
CBCB Workstations
CBCB Condor Nodes
CBCB Mounts

Web Publishing
Web Links

Panda Databases

Software Locations
Shell Variables
Offsite Shell Variables
Dot Files


People
Name Number Room email machine
Allen, Jonathan 57444
 3120A BS jeallen [at] umiacs.umd.edu yucca
Angiuoli, Sam 57444
 3120A BS angiuoli [at] umiacs.umd.edu elm
Ayanbule, Kunmi 57269
 3120E BS ayanbule [at] umiacs.umd.edu mahogany
Bazinet, Adam 57408 3122 BS pknut777 [at] umiacs.umd.edu
Brinkley, Norma 55142 3101 BS nbrinkle [at] umiacs.umd.edu
Choi, Byoung-Hee 57405 3122 BS

Colwell, Rita 59550 3103 BS rcolwell [at] umiacs.umd.edu
Cross, Denise 55936 3120D BS dcross [at] umiacs.umd.edu maple
Cummings, Mike 59903 3125 BS mike [at] umiacs.umd.edu
Delcher, Art 59468 3107 BS adelcher [at] umiacs.umd.edu pine
Edwards, Nathan 59901 3119 BS nedwards [at] umiacs.umd.edu
Kingsford, Carl 57395 3120B BS carlk [at] umiacs.umd.edu dogwood
Kitchen Fax 301.314.1341 3116 BS

Mount, Steve 59904 3117 BS smount [at] umd.edu
Newlin, Jennifer 59905/51222 3115/2119 jnewlin [at] umiacs.umd.edu
Pertea, Ela 59762
 3109 BS mpertea [at] umiacs.umd.edu cedar
Pertea, Geo
BS gpertea [at] umiacs.umd.edu
Phillippy, Adam 57169 3120G BS amp [at] umiacs.umd.edu aspen
Pop, Mihai 57245 3120F BS mpop [at] umiacs.umd.edu hickory
Roberts, Mike 57444 3120A BS tri [at] umiacs.umd.edu chestnut
Salzberg, Steven 59611 3125 BS salzberg [at] umiacs.umd.edu poplar
Schatz, Mike 57169 3120G BS mschatz [at] umiacs.umd.edu fir
Sommer, Dan 57384 3120B BS dsommer [at] umiacs.umd.edu birch
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Mailing Lists
All CBCB
 cbcb-staff [at] umiacs.umd.edu
Assembly Group
 ifx [at] umiacs.umd.edu
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Phone Numbers
Voice Mail
 x55200
Telecommunications & Voice Mail
 x54400
Facilities (broken lights, flood)
 x52222
Room Temperature
 x53244
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Umiacs Servers
e-access.umiacs.umd.edu
 Mail forwarding
kiwi.umiacs.umd.edu
 Linux
strawberry.umiacs.umd.edu
 Linux
raysrv3.umiacs.umd.edu
 Solaris
fenris.cfar.umd.edu
 Solaris
mellum.cfar.umd.edu
 Solaris
odin.cfar.umd.edu
 Solaris
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CBCB Servers (umiacs.umd.edu cbcb.umd.edu)
magnolia
 Software Development
 iMac G4
 3120G
bayberry
 Computation
 Altus 1300 Server
 2x Opteron 200
 8 GB
 RHAS3
beech
 Computation Altus 1300 Server 2x Opteron 200 8 GB
 RHAS4
hemlock
 Computation Altus 1300 Server 2x Opteron 200
 8 GB
 RHAS3
torreya
 Computation Altus 1300 Server 2x Opteron 200
 8 GB
 RHAS3
larch
 Computation Altus 3400 Server
 4x Opteron 850
 32 GB
 RHAS3
privet
 Computation Altus 3400 Server
 4x Opteron 850
 32 GB
 RHAS4
sycamore
 Computation Altus 3400 Server
 4x Opteron 850
 32 GB
 RHAS4
swift
 Fileserver
 SunFire V240
 2x1.5 GHz Ultra SPARC IIIi
 3 GB
 Solaris 8
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CBCB Workstations (RHEL3 RHEL4 Mac Windows)
Name Location Model OS Processor RAM Hard Drive User
sweetgum
 3104G Biomolecular Sciences Bldg
 Dell Precision 670
 RHEL4
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Daniela Puiu
pine
 3105 Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Art Delcher
cedar
 3107 Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Ela Pertea
cyprus
 3115 Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Najib El-Sayed
oak
 3125 Biomolecular Sciences Bldg
 PowerMac G5
 Mac 10.4.6
 2x 2.0 GHz PowerPC G5
 2 GB
 150 GB SATA
 Steven Salzberg
poplar
 3125 Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Steven Salzberg
alder
 3120A Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 CBCB student
elm
 3120A Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Sam Anguioli
chestnut
 3120A Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Mike Roberts
yucca
 3120A Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Christopher Michael Hill
acacia
 3120A Biomolecular Sciences Bldg
 Dell Precision 670
 RHEL4
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 James White
basswood
 3120A Biomolecular Sciences Bldg
 Dell Precision 670
 RHEL4
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Bo Liu
neofir
 3120A Biomolecular Sciences Bldg
 Dell Precision 690n
 RHEL4
 2x 3.0 GHz Intel Xeon
 2 GB
 80 GB
Mike Schatz
yew
 3120A Biomolecular Sciences Bldg
 Dell Precision 670
 RHEL4
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Student
birch
 3120B Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Dan Sommers
dogwood
 3120B Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 2x 73 GB U320 10K
 Carl Kingsford
maple
 3120D Biomolecular Sciences Bldg
 iMac G5
 Mac 10.4.6
 2x 2.0 GHz PowerPC G5
 1 GB
 232.89 GB SATA
 Denise Cross
redwood
 3120D Biomolecular Sciences Bldg
 Dell Optiplex GX280
 WindowsXP
 1x 3.8 GHz Pentium 4
 512 GB
 n/a
 Denise Cross
evergreen
 3120E Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Geo Pertea
mahogany
 3120E Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Kunmi Ayanbule
hickory
 3120F Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Mihai Pop
aspen
 3120G Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Adam Phillippy
crabapple
 3120G Biomolecular Sciences Bldg
 Dell Precision 470
 RHEL3
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Elaine Nsoesie
fir
 3120G Biomolecular Sciences Bldg
 Dell Precision 490
 RHEL4
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Mike Schatz
magnolia
 3120G Biomolecular Sciences Bldg
 iMac G4
 Mac 10.4.1
 n/a
 n/a
 n/a
 all
cottonwood
 3120G Biomolecular Sciences Bldg
 Dell Precision 670
 RHEL4
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 Nicholas Jacobs
hackberry
 3120G Biomolecular Sciences Bldg
 Dell Precision 670
 RHEL4
 2x 3.0 GHz Intel Xeon
 2 GB
 73 GB U320 10K
 David Kelley
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CBCB Printers
ps296-3120a
 3120A
 Xerox Phaser 4500DX
cps296-3120H
 Printer Room
 Xerox Workcenter 35
cps296-3120Hb
 Printer Room
 Color HP Laserjet 4600N



CBCB Condor Nodes
flicker00 - flicker03
 Submit nodes
wren00 - wren59
 Worker nodes
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CBCB Mounts
/fs/szdevel
 swift:/export/devel
 150 GB
/fs/szscratch
 swift:/export/scratch
 39 GB
/fs/sztmpscratch
 swift:/export/tmpscratch
 887 GB
/fs/szasmg
 swift:/export/work/asmg1
 839 GB
/fs/szasmg2
 swift:/export/work/asmg2
 839 GB
/fs/szdata
 swift:/export/work/data
 700 GB
/fs/szgenefinding
 swift:/export/work/genefinding
 420 GB
/fs/szhsarpa
 swift:/export/work/hsarpa
 400 GB
/fs/sz-user-supported
 swift:/export/software
 20 GB
/fs/wrenhomes
 swift:/export/wrenhomes
 45 GB
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Web Publishing
http://www.cbcb.umd.edu/~username
 /fs/www/users/username
http://www.umiacs.umd.edu/~username
 /fs/www/users/username
http://www.cbcb.umd.edu/
 /fs/www-cbcb/html (from kiwi)
/fs/www-cbcb/htdocs/template/stub.shtml
 Current Template
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Web Links
exchange mail
 https://franklin.pc.umiacs.umd.edu/exchange
imap mail
 http://webmail.umiacs.umd.edu/
intranet
 https://intranet.umiacs.umd.edu
wireless
 http://noc.net.umd.edu/MAM.html
vpn
 https://intranet.umiacs.umd.edu/intranetfaq/index.jsp?id=169
IT Help
 staff@umiacs.umd.edu
Safari
 safari.oreilly.com
Recent WGA CVS
 http://www.cbcb.umd.edu/~mschatz/cvs.shtml
Recent CA CVS
 http://www.cbcb.umd.edu/~mschatz/ca.shtml
UMD Helpdesk
 http://www.helpdesk.umd.edu
Printing Guide
 https://intranet.umiacs.umd.edu/intranetfaq/view.jsp?id=43
Unix Account Registration
 https://intranet.umiacs.umd.edu/intranet/accountRequest/form.htm
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Panda Databases (/fs/sz/data/panda)
AllGroup (everything)
BacterialGroup
c_elegans
EukGroup
FungalGroup
h_sapiens
MammalGroup
NoTrypLeishGroup
ParasiticGroup
PlantGroup
ViralGroup
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Software Locations
Platform independent Binaries
 /fs/sz-user-supported/common/bin
Linux i686 Binaries
 /fs/sz-user-supported/Linux-i686/bin
Linux x86_64 (Opteron)
 /fs/sz-user-supported/Linux-x86_64/bin
Common Files (Not executable)
 /fs/sz-user-supported/share
UMIACS Maintained Packages
 /opt/stow
UMIACS Maintainted Compiled Packages
 /usr/local/stow
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Shell Variables
CVSROOT
 /fs/szdevel/src/cvsroot
PATH
 /fs/sz-user-supported/`uname`-`uname -m`/bin:/fs/sz-user-supported/common/bin:${PATH}
LD_LIBRARY_PATH
 /fs/sz-user-supported/`uname`-`uname -m`/lib
PERLLIB
 /fs/sz-user-supported/`uname`-`uname -m`/lib:/fs/sz-user-supported/common/lib
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Offsite Shell Variables (for accessing CVS from a non-UMIACS computer)
CVSROOT
 :ext:username@bayberry.umiacs.umd.edu:/fs/szdevel/src/cvsroot
CVS_RSH
 ssh
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AMOS CVS commands
CVS_RSH
 export CVS_RSH=ssh
Checkout (Project member)
 cvs -z3 -d:ext:username@amos.cvs.sourceforge.net:/cvsroot/amos co -P AMOS
Checkout (Anonymous)
 cvs -z3 -d:pserver:anonymous@amos.cvs.sourceforge.net:/cvsroot/amos co -P AMOS
CVS Documentation
 http://sourceforge.net/cvs/?group_id=134326
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Dot Files
It is recommended you include the predefined dotfiles

bash:
. /fs/sz-user-supported/share/dotfiles/bashrc.cbcb

tcsh:
source /fs/sz-user-supported/share/dotfiles/tcshrc.cbcb


#-- bashrc start
export PATH=/fs/sz-user-supported/common/bin:$PATH
export PATH=/fs/sz-user-supported/`uname`-`uname -m`/bin:$PATH
export PATH=/fs/wrenhomes/amp/bin:$PATH

export PERLLIB=/fs/sz-user-supported/common/lib:$PERLLIB
export PERLLIB=/fs/sz-user-supported/`uname`-`uname -m`/lib:$PERLLIB

export LD_LIBRARY_PATH=/fs/sz-user-supported/`uname`-`uname -m`/lib:$LD_LIBRARY_PATH

export CVSROOT=/fs/szdevel/src/cvsroot
export BLASTMAT=/fs/sz-user-supported/Linux-i686/packages/wu-blast/matrix

#For SYBASE
export SYBASE=/opt/sybase-client
export SYBASE_OCS=${SYBASE}/OCS-12_5
export PATH=${SYBASE_OCS}/bin:$PATH
export LD_LIBRARY_PATH=${SYBASE}/OCS-12_5/lib:$LD_LIBRARY_PATH
export DSQUERY=SYBASESRV
export PERLLIB=${PERLLIB}:/opt/sybase-client/perl/lib/perl5/site_perl/5.8.0/i386-linux-thread-multi
#-- bashrc end



#-- cshrc start
if (! $?PATH) setenv PATH
if (! $?PERLLIB) setenv PERLLIB
if (! $?LD_LIBRARY_PATH) setenv LD_LIBRARY_PATH

setenv PATH /fs/sz-user-supported/common/bin:$PATH
setenv PATH /fs/sz-user-supported/`uname`-`uname -m`/bin:$PATH
setenv PATH /fs/wrenhomes/amp/bin:$PATH

setenv PERLLIB /fs/sz-user-supported/common/lib:$PERLLIB
setenv PERLLIB /fs/sz-user-supported/`uname`-`uname -m`/lib:$PERLLIB

setenv LD_LIBRARY_PATH /fs/sz-user-supported/`uname`-`uname -m`/lib:$LD_LIBRARY_PATH

setenv CVSROOT /fs/szdevel/src/cvsroot

setenv BLASTMAT /fs/sz-user-supported/Linux-i686/packages/wu-blast/matrix
## For SYBASE
setenv SYBASE /opt/sybase-client
setenv SYBASE_OCS $SYBASE/OCS-12_5
setenv PATH $SYBASE_OCS/bin:$PATH
setenv LD_LIBRARY_PATH $SYBASE/OCS-12_5/lib:$LD_LIBRARY_PATH
setenv DSQUERY SYBASESRV

setenv PERLLIB ${PERLLIB}:/opt/sybase-client/perl/lib/perl5/site_perl/5.8.0/i386-linux-thread-multi
#-- cshrc end

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