[LON-CAPA-cvs] cvs: modules /gerd/harvesting problem_taxonomy.pl seq_taxonomy.pl taxonomy.dat
www
www at source.lon-capa.org
Tue Sep 13 15:45:04 EDT 2011
www Tue Sep 13 19:45:04 2011 EDT
Modified files:
/modules/gerd/harvesting problem_taxonomy.pl seq_taxonomy.pl
taxonomy.dat
Log:
Probably about as far as one gets from using the sequences
-------------- next part --------------
Index: modules/gerd/harvesting/problem_taxonomy.pl
diff -u modules/gerd/harvesting/problem_taxonomy.pl:1.2 modules/gerd/harvesting/problem_taxonomy.pl:1.3
--- modules/gerd/harvesting/problem_taxonomy.pl:1.2 Sat Sep 10 03:19:01 2011
+++ modules/gerd/harvesting/problem_taxonomy.pl Tue Sep 13 19:45:04 2011
@@ -1,5 +1,7 @@
use strict;
+# Read the sequence taxonomy
+
my %st=();
open(IN,'seq_taxonomy.dat');
while (my $line=<IN>) {
@@ -20,43 +22,44 @@
}
close(IN);
-# Debug/learning only
-my @urlkey=();
-
-open(IN,'resource.dat');
-while (my $line=<IN>) {
- my @entries=split(/\t/,$line);
- $entries[4]=~s/^\/res\/\w+\/\w+\///;
- $entries[4]=~s/\.\w+$//;
- my %poskeys=();
- foreach my $poskey (split(/[^A-Za-z]+/,$entries[4])) {
- if (length($poskey)>3) {
- $poskeys{lc($poskey)}=1;
- }
- }
- $urlkey[$entries[0]]=join(',',keys(%poskeys));
-
-}
-close(IN);
-
-
-my @keywords=();
-
-my $keystr='';
-my ($id,$key)=(1,'');
-open(IN,'keywords.dat');
-while (my $line=<IN>) {
- my $oid=$id;
- chomp($line);
- ($id,$key)=split(/\t/,$line);
- if ($id!=$oid) {
- $keystr=~s/^\,//;
- $keywords[$oid]=$keystr;
- $keystr=$urlkey[$id];
- }
- $keystr.=','.lc($key);
-}
-close(IN);
+#my @urlkey=();
+#my @url=();
+#
+#open(IN,'resource.dat');
+#while (my $line=<IN>) {
+# my @entries=split(/\t/,$line);
+# $url[$entries[0]]=$entries[4];
+# $entries[4]=~s/^\/res\/\w+\/\w+\///;
+# $entries[4]=~s/\.\w+$//;
+# my %poskeys=();
+# foreach my $poskey (split(/[^A-Za-z]+/,$entries[4])) {
+# if (length($poskey)>3) {
+# $poskeys{lc($poskey)}=1;
+# }
+# }
+# $urlkey[$entries[0]]=join(',',keys(%poskeys));
+#
+#}
+#close(IN);
+
+
+#my @keywords=();
+#
+#my $keystr='';
+#my ($id,$key)=(1,'');
+#open(IN,'keywords.dat');
+#while (my $line=<IN>) {
+# my $oid=$id;
+# chomp($line);
+# ($id,$key)=split(/\t/,$line);
+# if ($id!=$oid) {
+# $keystr=~s/^\,//;
+# $keywords[$oid]=$keystr;
+# $keystr=$urlkey[$id];
+# }
+# $keystr.=','.lc($key);
+#}
+#close(IN);
for (my $i=0; $i<=$#taxo; $i++) {
my %taxh=();
@@ -73,5 +76,8 @@
}
$taxout=~s/^\,//;
print $i."\t".$taxout."\n";
- if ($j>1) { print "KEYS: $i $keywords[$i]\n"; }
+# if (($j>1) || ($j==0)) {
+# print "KEYS: $i $keywords[$i]\n";
+# print "URL: $i $url[$i]\n";
+# }
}
Index: modules/gerd/harvesting/seq_taxonomy.pl
diff -u modules/gerd/harvesting/seq_taxonomy.pl:1.5 modules/gerd/harvesting/seq_taxonomy.pl:1.6
--- modules/gerd/harvesting/seq_taxonomy.pl:1.5 Tue Sep 13 13:47:47 2011
+++ modules/gerd/harvesting/seq_taxonomy.pl Tue Sep 13 19:45:04 2011
@@ -19,9 +19,9 @@
}
$catidx{$cat}=$i;
# Debug
- print ">-----$cats[$i]\n";
- print "is: $iss[$i]\n";
- print "is not: $isnots[$i]\n";
+# print ">-----$cats[$i]\n";
+# print "is: $iss[$i]\n";
+# print "is not: $isnots[$i]\n";
#
$i++;
}
@@ -33,7 +33,7 @@
chomp($line);
my ($seq,$subs,$keys)=split(/\t/,$line);
- print "-------$subs $keys\n";
+# print "-------$subs $keys\n";
my %keysw=();
foreach my $keyc (split(/\,/,$keys)) {
Index: modules/gerd/harvesting/taxonomy.dat
diff -u modules/gerd/harvesting/taxonomy.dat:1.6 modules/gerd/harvesting/taxonomy.dat:1.7
--- modules/gerd/harvesting/taxonomy.dat:1.6 Tue Sep 13 13:47:47 2011
+++ modules/gerd/harvesting/taxonomy.dat Tue Sep 13 19:45:04 2011
@@ -4,10 +4,11 @@
physics:mechanics:rotationalkinematics rotation,turn,turning,angular,speed,velocity,acceleration,angle,angles,degree,degrees,radians,displacement,balance work,force,torque,atom,quantum
physics:mechanics:lineardynamics force,forces,free,diagram,acceleration,mass,newton,weight torque,angle,angular,charge,magnetic,atom,quantum,work
physics:mechanics:rotationaldynamics torque,angular,acceleration,inertia,moment,rolling,rotate,rotation,rotating,rotational,torques atom,quantum,momentum
+physics:mechanics:gravity gravity,gravitational,gravitation,universal,newton,mass,field
physics:mechanics:linearmomentum momentum,velocity,mass,collision,collisions,elastic,inelastic,impulse angular,atom,quantum,inertia,torque
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,oscillation,oscillations,vibration,vibrations wavelength,current
+physics:mechanics:oscillation period,frequency,resonance,amplitude,harmonic,spring,oscillation,oscillations,vibration,vibrations,hooke,hookes,elongation wavelength,current
physics:mechanics:solidsfluids archimedes,water,air,buoyant,buoyancy,float,floating,fluid,gas,liquid,bernoulli,floats,gravity,sink,sinks,sinking,flow,flows
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
@@ -26,7 +27,7 @@
physics:electromagnetism:emwaves emwave,emwaves,magnetic,electric,field,speed,wavelength,frequency,amplitude,color,spectrum,pressure,radiation,intensity,polarization,polarized lens,interference,sound,air,emf,force,static
physics:optics:mirrorslenses light,lens,mirror,lenses,mirrors,converging,focal,concave,convex,virtual,ray,reflection,diffraction,reflected,focus,eye,magnifying,power,incident,incidence,index,refraction,glass,inverted
physics:optics:opticalinstruments telescope,microscope,glasses,eyepiece,magnification,focus,light
-physics:optics:interference slit,pattern,diffraction,interference,grating,maxima,slits,minima quantum
+physics:optics:interference slit,pattern,diffraction,interference,grating,maxima,slits,minima,laser 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,black,body,bohr,heisenberg,atom,atoms,electron,electrons,wave,state,states,uncertainty,spectrum,line,photon,emission,absorption,emitted isotope,nuclear,neutron,neutrons,compound
physics:modern:nuclear nucleus,proton,neutron,decay,halflife,atoms,atomic,fission,fusion,decays,protons,neutrons,isotope,radioactive,beta,gamma,activity,nuclear,mass,radiation,activity,alpha
@@ -47,9 +48,10 @@
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:reactions:electrochem anode,cathode,galvanic,electrochemistry,anodic,potential,electrode
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:inorganic:acidsbases acid,base,acids,bases,arrhenius,hydrogen,ion,water,ph,neutralization
+chemistry:inorganic:acidsbases acid,base,acids,bases,arrhenius,hydrogen,ion,water,ph,neutralization,titration organic
chemistry:organic:introduction organic,carbon,hydrogen,oxygen
chemistry:organic:orbitals organic,orbital,orbitals,hybridization,bonding
chemistry:organic:alkanes organic,carbon,carbons,alkane,alkanes,alkyl
@@ -63,6 +65,7 @@
chemistry:organic:proteins organic,carbon,carbons,protein,proteins
biology:introduction:classification regio,domain,regnum,kingdom,phylum,division,classis,class,ordo,order,familia,family,genus,species
biology:introduction:evolution evolution,darwin,survival,mutation,mutations,genetic,gene,evolutionary,recombination,flow
+biology:cells:structure volume,function,structure,cell,area,cell,cells,radius,round,solid,spherical,surface,volume,membrane
biology:cells:organelles cell,cells,organelle,organelles,eukaryotic,cytoskeleton,prokaryotic,endoplasmic,reticulum,golgi,mitochondria,lysosome
biology:cells:respiration cell,cells,respiration,anaerobic,aerobic,cell,metabolism,metabolic,atp,adenosine,triphosphate,catabolic
biology:cells:photosynthesis cell,cells,photons,photosynthesis,chloroplast
@@ -70,15 +73,30 @@
biology:cells:dna dna,helix,nucleic,acid,base,guanine,cytosine,adenine,thymine
biology:cells:replitrans replication,transcription,translation,dna,rna,mrna,chromosomes,chromosome
biology:cells:regulation cell,cells,regulation,cycle,gene
+biology:cells:reactions enzyme,reaction,cell,enzymes,protein,proteins
+biology:anatomy:nervous brain,nerve,nerves,nervous,system
+biology:anatomy:muscular muscle,muscles,limb
+biology:anatomy:digestive stomach,food
+biology:anatomy:reproductive reproduction,reproductive,sex,sexual
+biology:anatomy:lymphatic lymph,lymphatic
+biology:anatomy:endocrine endocrine
+biology:anatomy:urinary urinary,urin
+biology:anatomy:cardiovascular heart,vessel,cardiovascular
+biology:anatomy:skeletal bone,bones
statistics:descriptive:means mean,standard,deviation,value,proability,number,measure,measurement,median,formula
-mathematics:numbers:fractions numerator,rational,fraction,fractions,denominator,simplification,simplify,bruch
+mathematics:numbers:classes rational,complex,irrational,integer,ganz,komplex,komplexe,zahlen,zahl,number,numbers,real
+mathematics:numbers:fractions numerator,rational,fraction,fractions,denominator,simplification,simplify,bruch,nenner
mathematics:functions:trigonometric function,functions,cosine,sine,tangent,sin,cos,period,pi,funktion,sinus,cosinus,tangens
mathematics:functions:exponential function,functions,exponent,exponential,power,exp,exponential
mathematics:functions:logarithmic function,functions,logarithm,logarithmic,hyperbolic,logarithmus
-mathematics:functions:extrema function,minimum,maximum,minima,maxima,extrema,local,global,derivative,ableitung
+mathematics:functions:extrema function,minimum,maximum,minima,maxima,extrema,local,global,derivative,ableitung,derivatives,relative,absolute
mathematics:calculus:extrema mathematics:functions:extrema
mathematics:calculus:series function,series,expansion,taylor,reihe
-mathematics:calculus:integrals integral,integrals,stammfunktion,integral,grenze,grenzen
+mathematics:calculus:integrals integral,integrals,stammfunktion,integral,grenze,grenzen,area,curve
+mathematics:calculus:derivatives derivative,derivatives,function,funktion,functions,ableitung,ableitungen,steigung,change,slope,convex,concave
+mathematics:calculus:fourier fourier,frequency,analysis
+mathematics:linalg:matrices matrix,matrices
+mathematics:linalg:vectors vector,vectors,length,perpendicular,scalar,product,angle,direction
geology:climatechange climate,weather,temperature,temperatures
geology:deformationmountains mountain,mountains,strain,stress,pressure,formation,deformation,elevation
geology:earthhistory earth,history
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