batchmode
documentclass[12pt,apalike,final,here]report
makeatletter
par setlengthtextheight21cm
setlengthoddsidemargin0.3cm
setlengthtopmargin-0.2cm
setlengthtextwidth15.2cm
par usepackagerotating
usepackagehtml
usepackageepsfig
usepackageapalike
usepackagelongtable
usepackagefancybox
usepackagefloat
par setcountertocdepth3
pagestylemyheadings
par begintex2html_deferredrenewedcommandbaselinestretch1.2endtex2html_deferred
par begintex2html_deferredprovidedcommandmat[1]mboxboldmath#1 endtex2html_deferred
newfontbgcmr10 scaledmagstep4
begintex2html_deferredprovidedcommandbigzerolsmashhboxbg 0endtex2html_deferred
begintex2html_deferredprovidedcommandbigzerousmashlower1.7exhboxbg 0endtex2html_deferred
begintex2html_deferredprovidedcommandmb[1]makebox[#1pt]endtex2html_deferred
begintex2html_deferredprovidedcommandsubt[1]_mboxtiny #1endtex2html_deferred
begintex2html_deferredprovidedcommandsupt[1]^mboxtiny #1endtex2html_deferred
begintex2html_deferredprovidedcommandHead[1] parindent 0pt bf #1 endtex2html_deferred
par newfontsttcmtt8
par titleDeepForest ver.1.0 Manual
par authorbf Satoshi OOta
vspace*2.3cm
small Department of Genetics
small School of Life Science
small The Graduate University
for Advanced Studies
par usepackage[dvips]color
pagecolor[gray].7
par makeatletter
count@=thecatcode`_ catcode`_=8
catcode`_=count@
makeatother
letmathon=
letmathoff=ifxAtBeginDocument undefined newedcommandAtBeginDocument[1]fi
newboxsizebox
setlengthhoffset0ptsetlengthvoffset0pt
addtolengthtextheightfootskipsetlengthfootskip0pt
addtolengthtextheighttopmarginsetlengthtopmargin0pt
addtolengthtextheightheadheightsetlengthheadheight0pt
addtolengthtextheightheadsepsetlengthheadsep0pt
setlengthtextwidth451pt
newwritelthtmlwrite
makeatletter
letrealnormalsize=normalsize
globaltopskip=2sp
letreal@float=float letrealend@float=end@float
letreal@dbflt=dbflt letend@dblfloat=end@float
letlargefloatcheck=relax
newedcommandlthtmlhboxmathAadjustnormalsize setboxsizebox=hboxbgroup
newedcommandlthtmlvboxmathAadjustnormalsize setboxsizebox=vboxbgroup
letifinner=iffalse
newedcommandlthtmlboxmathZnextnext currlist
boxnext egroup
newedcommandlthtmlmathtype[1]
newedcommandlthtmllogmathlthtmltypeout l2hSize
:lthtmlmathenv :thehtsizebox::thedpsizebox::thewdsizebox.preveqno
newedcommandlthtmlfigureA[1]letsavefreelistfreelist
lthtmlmathtype#1lthtmlvboxmathA
newedcommandlthtmlfigureZlthtmlboxmathZlthtmllogmathcopysizebox
globalletfreelistsavefreelist
newedcommandlthtmldisplayA[1]lthtmlmathtype#1lthtmlvboxmathA
newedcommandlthtmldisplayB[1]edefpreveqno (theequation)
lthtmldisplayA#1leteqnnumrelax
newedcommandlthtmldisplayZlthtmlboxmathZlthtmllogmathlthtmlsetmath
newedcommandlthtmlinlinemathA[1]lthtmlmathtype#1lthtmlhboxmathA vrule height1.5ex width0pt
newedcommandlthtmlinlineA[1]lthtmlmathtype#1lthtmlhboxmathA
newedcommandlthtmlinlineZegroupifdimdpsizebox>0pt
centerinlinemath filthtmllogmathhboxvrule width.1emvtopvbox kern.1emcopysizeboxifdimdpsizebox>0ptkern.1emelsekern.3ptfi
ifdimhsize>wdsizebox hrule depth1ptfi
newedcommandlthtmlinlinemathZegroupifdimdpsizebox>0pt
centerinlinemath filthtmllogmathlthtmlsetmath
par makeatletter tracingstats = 1
par begindocument
pagestyleemptythispagestyleempty
lthtmltypeout latex2htmlLength hsize=thehsize
lthtmltypeout latex2htmlLength vsize=thevsize
lthtmltypeout latex2htmlLength hoffset=thehoffset
lthtmltypeout latex2htmlLength voffset=thevoffset
lthtmltypeout latex2htmlLength topmargin=thetopmargin
lthtmltypeout latex2htmlLength topskip=thetopskip
lthtmltypeout latex2htmlLength headheight=theheadheight
lthtmltypeout latex2htmlLength headsep=theheadsep
lthtmltypeout latex2htmlLength parskip=theparskip
lthtmltypeout latex2htmlLength oddsidemargin=theoddsidemargin
makeatletter
if@twosidelthtmltypeout latex2htmlLength evensidemargin=theevensidemargin
elselthtmltypeout latex2htmlLength evensidemargin=theoddsidemarginfi
makeatother
newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline1961
1,2,mathinner cdotp cdotp cdotp ,20
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par setcountertocdepth3
setcounterchapter-1
stepcounterchapter
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beginfigure
begincenter
epsfxsize=15.0cm
epsffiledeepforest_struct.epsendcenter
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lthtmlfigureZ
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par stepcountersubsection
stepcountersubsection
newpageclearpage
lthtmldisplayAdisplaymath179
begindisplaymathpredicate(argument,cdots) :- guard | body,
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lthtmldisplayZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmldisplayAdisplaymath182
begindisplaymathpredicate(argument,cdots) :- body,
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lthtmldisplayZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline679
leftarrow
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmldisplayAdisplaymath189
begindisplaymathforall o A([],o,o)
enddisplaymath
lthtmldisplayZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmldisplayAdisplaymath192
begindisplaymathforall m,i_1,i_2,o A(i_1,i_2,o) rightarrow A([m|i_1],i_2,[m|o])
enddisplaymath
lthtmldisplayZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmldisplayAdisplaymath202
begindisplaymathforall l neg A([1,2],[3,4,5],l) rightarrow A([m|i_1],i_2,[m|o])
enddisplaymath
lthtmldisplayZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline711
forall l neg
A([1,2],[3,4,5],l)
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline715
exists l
A([1,2],[3,4,5],l)
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par stepcountersubsection
stepcountersubsubsection
stepcountersubsubsection
stepcountersubsubsection
stepcountersection
newpageclearpage
lthtmldisplayAdisplaymath737
begindisplaymathfbox
enddisplaymath
lthtmldisplayZ
hfilllthtmlcheckvsize clearpage
par stepcountersubsection
stepcountersubsection
newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline739
Ai = sums=1n pis Ls(i) Ls(j)
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline741
Bi = sumsi=1n pisi
Lsi(i) sumsj=1n pisj Lsj(j)
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline743
pis
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline753
1 leq x leq n
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par stepcountersubsection
stepcountersection
newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline325
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmldisplayAdisplaymath328
begindisplaymathl_s_k^(k) = [sum_s_i P_s_k s_i(v_i) l_s_i^(i)][ sum_s_j P_s_k s_j(v_j) l_s_j^(j)],
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lthtmldisplayZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
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beginfigure
begincenter
epsfxsize=10.0cm
epsffile09.epsendcenter
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lthtmlfigureZ
hfilllthtmlcheckvsize clearpage
par stepcountersection
newpageclearpage
lthtmlfigureAtable365
begintable
par begincenter
shadowbox
beginminipage15cm
begintex2html_preformbegintex2html_preform
["TROC","MEL","MRL","MHC","ACT"]. % Names of genes
[
%Troponin C (Definition of topology)
[0,"Vck","At"],
%Myosin essential light chain (Definition of topology)
[0,"Us",[["Vs","Vn"],"Vck"]],
%Myosin regulatory light chain (Definition of topology)
[0,["Vck","Us"],[["Vs","Vn"],"An"]],
%Myosin heavy chain (Definition of topology)
[0,["Vck","At"],[["Vs","Vn"],"An"]],
%Actin (1) (Definition of topology)
[0,"Ut",["Vs","Vck"]],
%Actin (2) (Definition of topology)
[0,"Un",[["An","At"],"Vn"]]
].
[12]. % No. of sorted results to be shown
endtex2html_preformendtex2html_preform
endminipage
endcenterendtable
lthtmlfigureZ
hfilllthtmlcheckvsize clearpage
par stepcountersection
stepcountersubsection
stepcountersubsection
stepcountersection
stepcountersubsection
stepcountersubsection
newpageclearpage
lthtmldisplayAdisplaymath445
begindisplaymathd_ij = log (|l_i -l_j|+1),
enddisplaymath
lthtmldisplayZ
hfilllthtmlcheckvsize clearpage
par stepcountersubsection
newpageclearpage
lthtmldisplayAdisplaymath460
begindisplaymathd(a,b) = log(sum_i=1^20 (a_i - b_i)^2 + 1),
enddisplaymath
lthtmldisplayZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline815
sumi=120 (ai -
bi)2
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmlfigureAfigure479
beginfigure
begincenter
epsfysize=18.5cm
epsffilefd.epsendcenter
endfigure
lthtmlfigureZ
hfilllthtmlcheckvsize clearpage
par stepcountersection
stepcountersection
newpageclearpage
lthtmldisplayAdisplaymath503
begindisplaymathfracmbox(best sequential time)mbox(number of processors)
leq mbox(parallel time)
enddisplaymath
lthtmldisplayZ
hfilllthtmlcheckvsize clearpage
par stepcountersubsection
stepcountersubsection
newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline817
2.2times1020
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmldisplayAdisplaymath526
begindisplaymath1 times 3 times 5 times cdots times
(2n-5)=frac(2n-5)!(n-3)!2^n-3.
enddisplaymath
lthtmldisplayZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmlfigureAfigure534
beginfigure
begincenter
epsfxsize=12cm
epsffilesite.epsendcenter
endfigure
lthtmlfigureZ
hfilllthtmlcheckvsize clearpage
par stepcountersubsection
newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline827
1,2,cdots,20
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmlfigureAfigure552
beginfigure
begincenter
epsfxsize=13.5cm
epsffileefficient.epsendcenter
endfigure
lthtmlfigureZ
hfilllthtmlcheckvsize clearpage
par stepcountersubsection
newpageclearpage
lthtmlinlinemathAtex2html_wrap_inline839
epsilon
lthtmlinlinemathZ
hfilllthtmlcheckvsize clearpage
par stepcountersubsection
newpageclearpage
lthtmlfigureAfigure566
beginfigure
begincenter
epsfxsize=9.5cm
epsffilespeed.epsendcenter
endfigure
lthtmlfigureZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmlfigureAfigure575
beginfigure
begincenter
epsfxsize=12.0cm
epsffilemyod1_10.epsendcenter
endfigure
lthtmlfigureZ
hfilllthtmlcheckvsize clearpage
par stepcountersubsection
stepcountersubsubsection
stepcountersubsection
newpageclearpage
lthtmlfigureAfigure594
beginfigure
begincenter
epsffilemerger.epsendcenter
endfigure
lthtmlfigureZ
hfilllthtmlcheckvsize clearpage
par newpageclearpage
lthtmlfigureAfigure605
beginfigure
begincenter
epsffiletree_merger.epsendcenter
endfigure
lthtmlfigureZ
hfilllthtmlcheckvsize clearpage
par stepcountersection
par enddocument