[LON-CAPA-cvs] cvs: modules /gerd/harvesting seq_taxonomy.pl taxonomy.dat
www
www at source.lon-capa.org
Fri Sep 9 20:45:00 EDT 2011
www Sat Sep 10 00:45:00 2011 EDT
Modified files:
/modules/gerd/harvesting seq_taxonomy.pl taxonomy.dat
Log:
Work on taxonomy
-------------- next part --------------
Index: modules/gerd/harvesting/seq_taxonomy.pl
diff -u modules/gerd/harvesting/seq_taxonomy.pl:1.1 modules/gerd/harvesting/seq_taxonomy.pl:1.2
--- modules/gerd/harvesting/seq_taxonomy.pl:1.1 Fri Sep 9 02:44:17 2011
+++ modules/gerd/harvesting/seq_taxonomy.pl Sat Sep 10 00:45:00 2011
@@ -18,7 +18,6 @@
$isnots[$i]=$isnots[$catidx{$equiv}];
}
$catidx{$cat}=$i;
- print $i." ".$cat."\n";
$i++;
}
close(IN);
@@ -29,15 +28,16 @@
chomp($line);
my ($seq,$subs,$keys)=split(/\t/,$line);
- print "-------$subs $keys\n";
+# print "-------$subs $keys\n";
my %keysw=();
foreach my $keyc (split(/\,/,$keys)) {
my ($key,$cnt)=split(/\:/,$keyc);
$keysw{$key}=$cnt;
}
- my %successes=();
+ my $winners='';
foreach my $subc (split(/\,/,$subs)) {
+ my %successes=();
my ($sub,$cnt)=split(/\:/,$subc);
for (my $i=0;$i<=$#cats;$i++) {
if ($cats[$i]=~/^$sub\:/) {
@@ -53,17 +53,19 @@
}
}
}
- }
- my $max=0;
- my $winner='';
- foreach my $suc (keys(%successes)) {
- if ($successes{$suc}>$max) {
- $max=$successes{$suc};
- $winner=$suc;
+ my $max=0;
+ my $winner='';
+ foreach my $suc (keys(%successes)) {
+ if ($successes{$suc}>$max) {
+ $max=$successes{$suc};
+ $winner=$suc;
+ }
}
+ if ($winner) { $winners.=','.$winner; }
}
- print "Winner: $winner\n";
- $j++;
- if ($j>200) {last;}
+ $winners=~s/^\,//;
+ print $seq."\t".$winners."\n";
+# $j++;
+# if ($j>500) {last;}
}
close(IN);
Index: modules/gerd/harvesting/taxonomy.dat
diff -u modules/gerd/harvesting/taxonomy.dat:1.1 modules/gerd/harvesting/taxonomy.dat:1.2
--- modules/gerd/harvesting/taxonomy.dat:1.1 Fri Sep 9 02:44:17 2011
+++ modules/gerd/harvesting/taxonomy.dat Sat Sep 10 00:45:00 2011
@@ -1,37 +1,55 @@
physics:introduction:mathematics vector,vectors,derivative,integral energy,momentum,force,wave
physics:introduction:units unit,measurement,system energy,momentum
-physics:mechanics:linearkinematics speed,velocity,acceleration,distance,displacement,position angular,angle,force,work,atom,quantum,momentum,inertia
-physics:mechanics:rotationalkinematics angular,speed,velocity,acceleration,angle work,force,torque,atom,quantum
-physics:mechanics:lineardynamics force,acceleration,mass,newton torque,angle,angular,charge,magnetic,atom,quantum,work
-physics:mechanics:rotationaldynamics torque,angular,acceleration,inertia atom,quantum,momentum
+physics:mechanics:linearkinematics speed,velocity,acceleration,distance,displacement,position angular,angle,force,forces,friction,work,atom,quantum,momentum,inertia
+physics:mechanics:rotationalkinematics angular,speed,velocity,acceleration,angle,angles,degree,degrees,radians,displacement work,force,torque,atom,quantum
+physics:mechanics:lineardynamics force,forces,free,diagram,acceleration,mass,newton torque,angle,angular,charge,magnetic,atom,quantum,work
+physics:mechanics:rotationaldynamics torque,angular,acceleration,inertia,moment atom,quantum,momentum
physics:mechanics:linearmomentum momentum,velocity,mass,collision,collisions,elastic,inelastic angular,atom,quantum
-physics:mechanics:angularmomentum momentum,velocity,angular,inertia atom,quantum
+physics:mechanics:angularmomentum momentum,velocity,angular,inertia,moment,torque atom,quantum
physics:mechanics:energy energy,force,distance,work,potential,kinetic,gravitational,gravity entropy,charge,atom,quantum,electric
physics:mechanics:oscillation period,frequency,resonance,amplitude,harmonic,spring wavelength,current
-physics:mechanics:wave period,frequency,wavelength,speed sound,doppler
+physics:mechanics:wave period,frequency,wavelength,speed,node,antinode,nodes sound,doppler
physics:mechanics:sound sound,frequency,wavelength,speed,doppler,pressure,air,hear,water,longitudinal magnetic,electric,field
-physics:thermodynamics energy,work,pressure,temperature,gas,ideal,entropy,gas,volume
-physics:electromagnetism:electrostatics electric,charge,coulomb,coulombs,field magnet,capacitor
+physics:thermodynamics:temperature temperature,kelvin,celsius,fahrenheit
+physics:thermodynamics:states phase,temperature,liquid,gas,solid,presssure,triple,melt,melting,evaporate,evaporation
+physics:thermodynamics:gaslaws energy,work,pressure,temperature,gas,ideal,entropy,gas,volume
+physics:electromagnetism:electrostatics electric,charge,coulomb,coulombs,field,charged,charges magnet,capacitor
physics:electromagnetism:potentials voltage,potential,field current,ampere,amperes
physics:electromagnetism:capacitance capacitance,capacitor,charge,plate,farad
-physics:electromagnetism:magnetism magnetic,current,ampere,amperes,field,magnet,solenoid wave,quantum
+physics:electromagnetism:magnetism magnetic,current,ampere,amperes,field,magnet,solenoid,force wave,quantum
physics:electromagnetism:inductance magnetic,induction,inductance,coil,mutual,loop,emf
physics:electromagnetism:dccircuits current,battery,voltage,potential,voltage,resistor,resistance,ampere,resistor frequency,phase,resonance
physics:electromagnetism:accircuits current,voltage,frequency,resonance,phase,ac,oscillator,inductor,inductance,resistor,resistance,capacitor,capacitance pressure,sound,air,wave
-physics:electromagnetism:emwaves magnetic,electric,field,speed,wavelength,frequency,amplitude,color,pressure,radiation,intensity lens,interference,sound,air,emf
-physics:optics:mirrorslenses light,lens,mirror,lenses,mirrors,focal,concave,convex,virtual,ray,reflection,diffraction
-physics:optics:opticalinstruments telescope,microscope,glasses
-physics:optics:interference slit,pattern,diffraction,interference quantum
-physics:modern:relativity frame,relative,dilation,contraction,time,space,transform,light,observer,speed
-physics:modern:quantum spin,quantum,level,energy,atom,atoms,electron,electrons,wave,state,states,line isotope,nuclear,neutron,neutrons
+physics:electromagnetism:emwaves magnetic,electric,field,speed,wavelength,frequency,amplitude,color,pressure,radiation,intensity lens,interference,sound,air,emf,force,static
+physics:optics:mirrorslenses light,lens,mirror,lenses,mirrors,focal,concave,convex,virtual,ray,reflection,diffraction,focus,eye,magnifying,power,index,refraction,glass
+physics:optics:opticalinstruments telescope,microscope,glasses,eyepiece,magnification
+physics:optics:interference slit,pattern,diffraction,interference,grating,maxima,slits,minima quantum
+physics:modern:relativity frame,relative,dilation,contraction,time,space,transform,light,observer,speed,relativity,invariant,invariance,momentum,energy lens,lenses,diffraction,eye,focus,friction
+physics:modern:quantum spin,quantum,level,energy,atom,atoms,electron,electrons,wave,state,states,line isotope,nuclear,neutron,neutrons compound
physics:modern:nuclear nucleus,proton,neutron,decay,halflife,atoms,atomic,protons,neutrons,isotope,radioactive,beta,gamma,activity,nuclear,mass,radiation
-chemistry:atomsmolecules:nuclear physics:modern:nuclear
-chemistry:atomsmolecules:shell physics:modern:quantum
-chemistry:atomsmolecules:binding binding,covalent,bond,bonding,ionic
-chemistry:thermodynamics physics:thermodynamics
-chemistry:phases:transitions phase,temperature,liquid,gas,solid,molecule,pressure
-chemistry:phases:solid crystal,solid,structure,lattice
+chemistry:introduction:units unit,measurement,mass,fahrenheit,celsius,kelvin,joule,rounding,significant
+chemistry:introduction:states physics:thermodynamics:states
+chemistry:introduction:mixtures substance,matter,pure,mixture,mixtures,homogenous,heterogenous
+chemistry:introduction:compounds compound,compounds,element
+chemistry:introduction:periodictable elements,element,periodic,table,alkali,alkaline,metals,halogens,noble,transition
+chemistry:introduction:massconservation mass,conservation,reaction,reactions
+chemistry:introduction:energy exothermic,endothermic,energy,reaction,reactions,heat
+chemistry:matter:nuclear physics:modern:nuclear
+chemistry:matter:shell physics:modern:quantum
+chemistry:bonding:ionic bonding,bond,ions,ionic,compound,compounds
+chemistry:bonding:covalent bonding,bond,covalent,molecule,molecules,single,double,triple,coordinate,lewis
+chemistry:bonding:polarity bonding,bond,polar,polarity,nonpolar,electronegative,electronegativity
+chemistry:reactions:redox oxidized,reduced,redox,agent,reaction,oxidizing,reducing
+chemistry:reactions:energy heat,entropy,exothermic,endothermic,reaction,free,energy
+chemistry:reactions:rate rate,time,catalyst,concentration,size,reactant,temperature,activation
+chemistry:reactions:reversible equilibrium,reversible,keq,lechatelier,concentration,temperature
+chemistry:reactions:equations balance,balanced,equation,equations,stoichiometry,reactant,reactants,stoichiometric,balancing
+chemistry:matter:solutions saturated,unsaturated,supersaturated,solution,solutions,concentration,ppm,ppb,molarity,dilute
+chemistry:matter:colloidssuspensions suspension,colloid,colligative,osmosis,suspended,solution,dispersion,vapor,hypertonic
+chemistry:matter:acidsbases acid,base,acids,bases,arrhenius,hydrogen,ion,water,ph,neutralization
+chemistry:organic:introduction organic,carbon,hydrogen,oxygen
statistics:descriptive:means mean,standard,deviation,value,proability,number,measure,measurement,median,formula
+mathematics:numbers:fractions numerator,rational,fraction,fractions,denominator,simplification,simplify
mathematics:functions:trigonometric function,functions,cosine,sine,tangent,sin,cos,period,pi
mathematics:functions:exponential function,functions,exponent,exponential,power
mathematics:functions:logarithmic function,functions,logarithm,logarithmic,hyperbolic
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