..........
Load... was selected.
Documentation: http://wiki.cns.iu.edu/display/CISHELL/Data+Formats
Loaded: C:\Documents and Settings\dapolley\Desktop\sci2-win32.win32.x86\sampledata\scientometrics\sdb\RNAi\Medline_co-author_table_(nwb_format).csv
..........
Extract Co-Occurrence Network was selected.
Implementer(s): Timothy Kelley
Integrator(s): Timothy Kelley
Documentation: http://wiki.cns.iu.edu/display/CISHELL/Extract+Co-Occurrence+Network

Input Parameters:
Text Delimiter: |
Column Name: authors
..........
Network Analysis Toolkit (NAT) was selected.
Implementer(s): Timothy Kelley
Integrator(s): Timothy Kelley
Reference: Robert Sedgewick. Algorithms in Java, Third Edition, Part 5 - Graph Algorithms. Addison-Wesley, 2002. ISBN 0-201-31663-3. Section 19.8, pp.205
Documentation: http://wiki.cns.iu.edu/display/CISHELL/Network+Analysis+Toolkit+%28NAT%29
This graph claims to be undirected.

Nodes: 21578
Isolated nodes: 131
Node attributes present: label

Edges: 77739
No self loops were discovered.
No parallel edges were discovered.

Edge attributes:
	Did not detect any nonnumeric attributes.
	Numeric attributes:
				min	max	mean
		weight     	1	26	1.09408

	This network seems to be valued.

Average degree: 7.2054
This graph is not weakly connected.
There are 2376 weakly connected components. (131 isolates)
The largest connected component consists of 6446 nodes.
Did not calculate strong connectedness because this graph was not directed.

Density (disregarding weights): 0.0003
Additional Densities by Numeric Attribute

..........
Weak Component Clustering was selected.
Implementer(s): Russell Duhon
Integrator(s): Russell Duhon
Documentation: http://wiki.cns.iu.edu/display/CISHELL/Weak+Component+Clustering

Input Parameters:
Number of top clusters: 1
2245 clusters found, generating graphs for the top 1 clusters.
..........
GUESS was selected.
Author(s): Eytan Adar
Implementer(s): Eytan Adar (GUESS), Russell Duhon (resizeLinear, colorize fix)
Integrator(s): Russell Duhon
Reference: Adar, Eytan, "GUESS: A Language and Interface for Graph Exploration," CHI 2006 (http://graphexploration.cond.org/)
Documentation: http://wiki.cns.iu.edu/display/CISHELL/GUESS
ECHO is off.
Starting GUESS...
ECHO is off.
The initial layout for your visualization is random.  For a clearer visualization, please run a layout from the Layout menu.  (We recommend GEM.)
ECHO is off.
GUESS log file for this session can be found in C:\DOCUME~1\dapolley\LOCALS~1\Temp\CIShell-Session-5376564074739660248\StaticExecutableRunner-4096233777628998327\ALGORITHM\guesslog.txt
..........
Load... was selected.
Documentation: http://wiki.cns.iu.edu/display/CISHELL/Data+Formats
Loaded: C:\Documents and Settings\dapolley\Desktop\sci2-win32.win32.x86\sampledata\scientometrics\sdb\RNAi\USPTO_citation_table_(nwb_format).csv
..........
Extract Bipartite Network was selected.
Author(s): Timothy Kelley
Implementer(s): Timothy Kelley
Documentation: http://wiki.cns.iu.edu/display/CISHELL/Extract+Bipartite+Network

Input Parameters:
First column: cited_patents
Text Delimiter: |
Second column: citing_patent
..........
Node Indegree was selected.
Implementer(s): Timothy Kelley
Integrator(s): Timothy Kelley
Documentation: http://wiki.cns.iu.edu/display/CISHELL/Node+Indegree
..........
GUESS was selected.
Author(s): Eytan Adar
Implementer(s): Eytan Adar (GUESS), Russell Duhon (resizeLinear, colorize fix)
Integrator(s): Russell Duhon
Reference: Adar, Eytan, "GUESS: A Language and Interface for Graph Exploration," CHI 2006 (http://graphexploration.cond.org/)
Documentation: http://wiki.cns.iu.edu/display/CISHELL/GUESS
ECHO is off.
Starting GUESS...
ECHO is off.
The initial layout for your visualization is random.  For a clearer visualization, please run a layout from the Layout menu.  (We recommend GEM.)
ECHO is off.
GUESS log file for this session can be found in C:\DOCUME~1\dapolley\LOCALS~1\Temp\CIShell-Session-5376564074739660248\StaticExecutableRunner-8222897923982835196\ALGORITHM\guesslog.txt
..........
Load... was selected.
Documentation: http://wiki.cns.iu.edu/display/CISHELL/Data+Formats
Loaded: C:\Documents and Settings\dapolley\Desktop\Medline_master_table.csv
Load... was selected.
Documentation: http://wiki.cns.iu.edu/display/CISHELL/Data+Formats
Loaded: C:\Documents and Settings\dapolley\Desktop\Medline_master_table.csv
..........
Lowercase, Tokenize, Stem, and Stopword Text was selected.
Implementer(s): Apache Lucene project
Integrator(s): Russell Duhon
Documentation: http://wiki.cns.iu.edu/display/CISHELL/Lowercase%2C+Tokenize%2C+Stem%2C+and+Stopword+Text

Input Parameters:
ml_journal_info_nlmuniqueid: false
ml_journal_info_cn: false
Stopword List: C:/Documents and Settings/dapolley/Desktop/sci2-win32.win32.x86/configuration/stopwords.txt
status: false
published_month: false
volume: false
affiliation: false
abstract: true
New Separator: |
issue: false
pubmodel: false
article_title: false
medline_pagination: false
issn: false
owner: false
ml_journal_info_medline_ta: false
..........
Burst Detection was selected.
Author(s): Jon Kleinberg
Implementer(s): Jon Kleinberg, Chin Hua
Integrator(s): Chin Hua
Reference: J. Kleinberg. Bursty and Hierarchical Structure in Streams. Proc. 8th ACM SIGKDD Intl. Conf. on Knowledge Discovery and Data Mining, 2002.
Documentation: http://wiki.cns.iu.edu/display/CISHELL/Burst+Detection

Input Parameters:
Date Column: date_cr_year
Burst Length Unit: Years
Gamma: 1.0
Text Separator: |
Burst Length: 1
Ignore Input With Empty Text: true
Density Scaling: 2.0
Document Column: No document column.
Date Format: yyyy
Text Column: abstract
Bursting States: 1
3 starts: 1978 ends: 1998
2 starts: 1979 ends: 1995
5 starts: 1979 ends: 2001
helix starts: 1988 ends: 2003
e starts: 1981 ends: 2000
c starts: 1995 ends: 2001
j starts: 1978 ends: 1996
ortholog starts: 2001 ends: 2002
analysi starts: 1993 ends: 1997
determin starts: 1984 ends: 2000
doubl starts: 1986 ends: 2004
22 starts: 2001 ends: 2002
23 starts: 2000 ends: 2003
25 starts: 2002 ends: 2003
21 starts: 2001 ends: 2003
20 starts: 2003 ends: 2003
10 starts: 1984 ends: 1996
80 starts: 2005 ends: 2005
sequenc starts: 1978 ends: 1999
elegan starts: 1999 ends: 2003
stem starts: 1983 ends: 2001
lamin starts: 2002 ends: 2004
ds starts: 1990 ends: 2003
bp starts: 1988 ends: 2004
ce starts: 1999 ends: 2002
nt starts: 1988 ends: 2003
mitosi starts: 1999 ends: 2002
l1 starts: 1986 ends: 2001
separ starts: 1979 ends: 2000
va starts: 1978 ends: 1999
eukaryot starts: 2002 ends: 2003
isol starts: 1995 ends: 2001
s2 starts: 2002 ends: 2003
germlin starts: 1999 ends: 2002
ribosom starts: 1990 ends: 2000
produc starts: 1995 ends: 2001
adult starts: 2000 ends: 2002
posttranscript starts: 1990 ends: 2003
number starts: 1984 ends: 2000
repressor starts: 1986 ends: 1996
stage starts: 1998 ends: 2001
extract starts: 1978 ends: 2002
code starts: 1978 ends: 1998
copi starts: 1986 ends: 2000
spermatogenesi starts: 2000 ends: 2002
coli starts: 1981 ends: 2001
coil starts: 2001 ends: 2004
spectrometri starts: 2008 ends: 
trigger starts: 2001 ends: 2002
interferon starts: 1989 ends: 1996
prophas starts: 1999 ends: 2003
dissect starts: 2003 ends: 2004
initi starts: 1985 ends: 2003
vivo starts: 1991 ends: 1996
titer starts: 2007 ends: 
mrnas starts: 1981 ends: 2003
hybrid starts: 1981 ends: 2002
kinas starts: 1985 ends: 1998
adenovirus starts: 1978 ends: 1999
2002 starts: 2003 ends: 2005
product starts: 1983 ends: 1999
presenc starts: 1991 ends: 1999
tribolium starts: 2008 ends: 
21-nucleotid starts: 2001 ends: 2003
upstream starts: 1987 ends: 2003
pbr322 starts: 1981 ends: 1999
embryo starts: 1999 ends: 2002
castaneum starts: 2008 ends: 
indic starts: 1991 ends: 2000
particip starts: 1993 ends: 2002
encod starts: 1978 ends: 2001
progeni starts: 1999 ends: 2003
prepar starts: 1978 ends: 1986
homologu starts: 2001 ends: 2002
hepg2 starts: 2006 ends: 2006
germ starts: 2000 ends: 2002
weight starts: 1983 ends: 1995
cleavag starts: 1991 ends: 2001
beetl starts: 2008 ends: 
appear starts: 1978 ends: 2002
meiotic starts: 1999 ends: 2002
virus starts: 1978 ends: 1996
rnas starts: 1980 ends: 1998
rnas starts: 2002 ends: 2002
smaller starts: 1981 ends: 2000
anim starts: 1999 ends: 2002
pcnb starts: 1993 ends: 2002
larval starts: 1998 ends: 2001
truncat starts: 1989 ends: 1996
organ starts: 1999 ends: 2002
degrad starts: 2000 ends: 2003
apic starts: 1992 ends: 2000
hypoderm starts: 1999 ends: 2001
replic starts: 1986 ends: 1999
cole1 starts: 1986 ends: 2000
part starts: 2007 ends: 
pair starts: 1980 ends: 2003
concentr starts: 1986 ends: 2000
report starts: 2000 ends: 2001
primer starts: 1986 ends: 2000
specifi starts: 1995 ends: 2000
duplex starts: 2001 ends: 2003
approxim starts: 1978 ends: 2002
male starts: 1999 ends: 2002
resembl starts: 1999 ends: 2003
eif-2 starts: 1985 ends: 1993
similar starts: 1992 ends: 2001
trypanosoma starts: 2003 ends: 2003
correspond starts: 1979 ends: 2002
quell starts: 2000 ends: 2002
disrupt starts: 1992 ends: 2002
green starts: 2003 ends: 2003
vitro starts: 1990 ends: 1996
choic starts: 2003 ends: 2005
evolutionarili starts: 2001 ends: 2003
correl starts: 1988 ends: 1998
subunit starts: 1985 ends: 1990
assay starts: 1984 ends: 1993
regress starts: 2007 ends: 
flow starts: 2008 ends: 
transcrib starts: 1979 ends: 2002
alpha starts: 1985 ends: 1996
polar starts: 2000 ends: 2002
real starts: 2008 ends: 
read starts: 1978 ends: 2002
repb starts: 1988 ends: 2002
repa starts: 1988 ends: 2002
prevent starts: 1987 ends: 1999
caenorhabd starts: 1999 ends: 2003
hermaphrodit starts: 1999 ends: 2003
oogenesi starts: 1999 ends: 2004
foci starts: 2005 ends: 2005
homolog starts: 1979 ends: 2002
oxid starts: 2008 ends: 
vertebr starts: 1999 ends: 2002
dsrna starts: 2000 ends: 2004
ad2 starts: 1981 ends: 1995
region starts: 1980 ends: 1996
21-nt starts: 2002 ends: 2002
act starts: 1997 ends: 2000
probabl starts: 1983 ends: 2003
mitot starts: 1999 ends: 2002
form starts: 1993 ends: 1996
transcript starts: 1978 ends: 1987
aggress starts: 2007 ends: 
rate starts: 1986 ends: 1998
amplif starts: 2005 ends: 2005
annot starts: 2008 ends: 
littl starts: 2008 ends: 
translat starts: 1981 ends: 2000
21-23 starts: 2000 ends: 2004
differ starts: 1979 ends: 1981
promot starts: 1986 ends: 1995
conserv starts: 2001 ends: 2001
fail starts: 1985 ends: 2001
member starts: 2001 ends: 2002
consist starts: 1988 ends: 2000
trna starts: 1981 ends: 2003
ident starts: 1978 ends: 2002
antisens starts: 1993 ends: 2003
frame starts: 1989 ends: 2002
structur starts: 1980 ends: 2000
cole1-typ starts: 1986 ends: 2002
termin starts: 1978 ends: 1999
residu starts: 1978 ends: 2001
kda starts: 1996 ends: 2003
fungi starts: 2000 ends: 2003
interphas starts: 1994 ends: 2003
putat starts: 1988 ends: 2000
synthes starts: 1978 ends: 1998
synthet starts: 2002 ends: 2002
ptgs starts: 2000 ends: 2003
type starts: 1979 ends: 1997
hit starts: 2008 ends: 
inject starts: 2000 ends: 2001
enrich starts: 2001 ends: 2002
loop starts: 1981 ends: 2001
brucei starts: 2003 ends: 2003
mut-7 starts: 1999 ends: 2003
iii starts: 1978 ends: 2001
delet starts: 1981 ends: 1996
cognat starts: 2000 ends: 2004
centrosom starts: 1999 ends: 2004
steril starts: 2000 ends: 2001
gonad starts: 2000 ends: 2003
distal starts: 1987 ends: 2002
contain starts: 1983 ends: 1998
secondari starts: 1978 ends: 1996
predict starts: 1978 ends: 2000
mortal starts: 2008 ends: 
end starts: 1980 ends: 1995
leader starts: 1981 ends: 1999
infect starts: 1978 ends: 1994
benefit starts: 2006 ends: 2006
overhang starts: 2001 ends: 2003
gfp starts: 1998 ends: 2001
close starts: 1979 ends: 1999
central starts: 1992 ends: 2000
fli starts: 1999 ends: 2001
mutat starts: 1992 ends: 2002
host starts: 1989 ends: 1999
dai starts: 1986 ends: 1996
orient starts: 1986 ends: 2000
bind starts: 1989 ends: 1998
defect starts: 1999 ends: 2002
lethal starts: 1999 ends: 2001
dna starts: 1979 ends: 1988
doe starts: 1994 ends: 2003
synthesi starts: 1979 ends: 1998
origin starts: 1987 ends: 2000
ref starts: 2002 ends: 2004
help starts: 2004 ends: 2004
element starts: 1987 ends: 1997
rom starts: 1986 ends: 1999
hela starts: 1983 ends: 1995
divis starts: 1998 ends: 2002
decay starts: 1991 ends: 2000
dsrnas starts: 2000 ends: 2004
head starts: 1999 ends: 2001
molecul starts: 1981 ends: 1998
postembryon starts: 1998 ends: 2003
purifi starts: 1979 ends: 1998
interact starts: 1989 ends: 1998
depend starts: 1989 ends: 1992
drosophila starts: 2000 ends: 2002
best starts: 2005 ends: 2005
domain starts: 1989 ends: 1996
polypeptid starts: 1984 ends: 1996
biochem starts: 2000 ends: 2002
locat starts: 1978 ends: 1999
plk1 starts: 2006 ends: 2006
half starts: 1991 ends: 2001
interpret starts: 1981 ends: 2001
partial starts: 1983 ends: 1994
rde-1 starts: 1999 ends: 2002
oxygen starts: 2005 ends: 2005
condit starts: 1992 ends: 1998
let-7 starts: 2001 ends: 2002
generat starts: 2000 ends: 2001
known starts: 1995 ends: 2000
poli starts: 1981 ends: 1998
pseudoknot starts: 1994 ends: 2002
replicon starts: 1987 ends: 2001
complementari starts: 1981 ends: 2002
invertebr starts: 2000 ends: 2002
segment starts: 1981 ends: 2001
low starts: 1983 ends: 1991
rrna starts: 1981 ends: 2000
post starts: 2000 ends: 2001
storag starts: 2008 ends: 
map starts: 1980 ends: 2001
essenti starts: 2000 ends: 2001
polymeras starts: 1978 ends: 1998
mtt starts: 2008 ends: 
suggest starts: 1989 ends: 1998
soma starts: 1999 ends: 2002
call starts: 1994 ends: 2001
cosuppress starts: 2000 ends: 2003
embryogenesi starts: 1999 ends: 2002
embryon starts: 1999 ends: 2002
singl starts: 1986 ends: 2000
mobil starts: 1988 ends: 2000
squamous starts: 2008 ends: 
exist starts: 1981 ends: 1996
mutant starts: 1985 ends: 2000
associ starts: 1978 ends: 1987
phenomena starts: 1992 ends: 2004
strain starts: 1978 ends: 2002
strand starts: 1986 ends: 2003
place starts: 1981 ends: 2000
inhibitor starts: 1986 ends: 1998
requir starts: 2000 ends: 2001
pirna starts: 2007 ends: 
nematod starts: 1999 ends: 2003
phenotyp starts: 1999 ends: 2001
fragment starts: 1979 ends: 2001
nerv starts: 2007 ends: 
size starts: 1979 ends: 2000
worm starts: 2000 ends: 2002
destruct starts: 2001 ends: 2004
recogn starts: 1983 ends: 2002
helicas starts: 1998 ends: 2002
escherichia starts: 1983 ends: 2001
incompat starts: 1986 ends: 1999
late starts: 1981 ends: 2002
phosphoryl starts: 1985 ends: 1993
summari starts: 2008 ends: 
mammalian starts: 2002 ends: 2003
protozoa starts: 2001 ends: 2004
flour starts: 2008 ends: 
ribonucleas starts: 1996 ends: 2004
impli starts: 1989 ends: 1996
like starts: 2000 ends: 2001
amino starts: 1986 ends: 2002
abstract starts: 2008 ends: 
ribozym starts: 2003 ends: 2003
probe starts: 1987 ends: 2003
nucleas starts: 1988 ends: 2002
oocyt starts: 1999 ends: 2002
substitut starts: 1983 ends: 2001
site starts: 1978 ends: 1998
introduct starts: 1999 ends: 2004
speci starts: 1978 ends: 2000
sperm starts: 2000 ends: 2002
nucleotid starts: 1978 ends: 2003
occur starts: 1981 ends: 1998
movement starts: 2006 ends: 2006
excis starts: 2004 ends: 2004
vulva starts: 1998 ends: 2004
phenomenon starts: 2000 ends: 2003
character starts: 1985 ends: 1988
termini starts: 1979 ends: 2002
strong starts: 1989 ends: 1999
plasmid starts: 1984 ends: 2000
sens starts: 1991 ends: 2002
rnaii starts: 1978 ends: 2000
development starts: 1998 ends: 2000
guid starts: 1999 ends: 2001
rnase starts: 1986 ends: 2004
matern starts: 1999 ends: 2001
Saved: C:\Documents and Settings\dapolley\Desktop\Burst detection analysis (date_cr_year, abstract)# maximum burst level 1.csv
..........
Load... was selected.
Documentation: http://wiki.cns.iu.edu/display/CISHELL/Data+Formats
Loaded: C:\Documents and Settings\dapolley\Desktop\Burst detection analysis (date_cr_year, abstract)# maximum burst level 1.csv
..........
Temporal Bar Graph was selected.
Implementer(s): Patrick Phillips, David M. Coe
Integrator(s): Patrick Phillips

Input Parameters:
Start Date: Start
Scale Output?: true
Size By: Weight
Label: Word
Categeory: No Category Coloring
Query: 
Date Format: Month-Day-Year Date Format
End Date: End
Creating PostScript. May take a few moments...
Saved: C:\Documents and Settings\dapolley\Desktop\horizontal-line-graph7246048399092777436.eps