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package ml;
import java.io.File;
import java.util.ArrayList;
import java.util.Arrays;
import fileIO.ByteFile;
import shared.LineParser2;
import shared.Parse;
import shared.Tools;
import structures.FloatList;
import structures.IntList;
public class CellNetParser {
static CellNet parse(String fname, boolean nullOnFailure) {
if(nullOnFailure && !new File(fname).exists()) {return null;}
CellNetParser cnp=new CellNetParser(fname);
return cnp.net;
}
public static CellNet load(String fname) {return load(fname, true);}
public static CellNet load(String fname, boolean nullOnFailure) {
return parse(fname, nullOnFailure);
}
private CellNetParser(String fname_){
this(ByteFile.toLines(fname_));
fname=fname_;
}
private CellNetParser(ArrayList<byte[]> lines_){
lines=lines_;
parseHeader();
CellNet.DENSE=dense;
net=new CellNet(dims, seed, density, density1, edgeBlockSize, commands);
net.epochsTrained=epochs;
net.samplesTrained=samples;
// net.annealSeed=annealSeed;
net.setCutoff(cutoff);
assert(layers==net.layers);
posFirstEdge=pos;
if(dense) {
parseEdgesDense();
}else {
parseEdgesSparse();
}
net.makeWeightMatrices();
}
public void parseHeader() {
//TODO: This should really use LineParser instead.
while(pos<lines.size()) {
byte[] line=lines.get(pos);
if(line.length<1){
//ignore
}else if(Tools.startsWith(line, "#")){//header
if(Tools.startsWith(line, "##ctf") || Tools.startsWith(line, "#ctf")){
cutoff=parseFloat(line);
}else if(Tools.startsWith(line, "##")){
//Comment; ignore
}else if(Tools.startsWith(line, "#version")){
version=parseInt(line);
}else if(Tools.startsWith(line, "#layers")){
layers=parseInt(line);
}else if(Tools.startsWith(line, "#seed")){
seed=parseLong(line);
}else if(Tools.startsWith(line, "#annealseed")){
// annealSeed=parseLong(line);
}else if(Tools.startsWith(line, "#density1")){
density1=parseFloat(line);
}else if(Tools.startsWith(line, "#density")){
density=parseFloat(line);
}else if(Tools.startsWith(line, "#blocksize")){
edgeBlockSize=parseInt(line);
// }else if(Tools.startsWith(line, "#edgecount")){
// edges=parseInt(line);
}else if(Tools.startsWith(line, "#epochs")){
epochs=parseLong(line);
}else if(Tools.startsWith(line, "#samples")){
samples=parseLong(line);
}else if(Tools.startsWith(line, "#concise")){
concise=true;
}else if(Tools.startsWith(line, "#dense")){
dense=true;
}else if(Tools.startsWith(line, "#sparse")){
dense=false;
}else if(Tools.startsWith(line, "#dims")){
dims=parseIntArray(line, delimiter, true);
assert(layers==dims.length) : layers+", "+Arrays.toString(dims);
}else if(Tools.startsWith(line, "#CL")){
commands.add(new String(line));
}else if(Tools.startsWith(line, "#edges")){
if(line.length>7) {edges=parseInt(line);}
}else if(Tools.startsWith(line, "#")){
assert(false) : "\nUnexpected header line: '"+new String(line)+"'"
+ "\nComments should start with ##\n";
}
}else{
break; //A cell or edge
}
pos++;
}
// assert(false) : pos+", "+new String(lines.get(pos));
}
private void parseEdgesDense() {
assert(concise);
pos=posFirstEdge;
long numEdges=0;
int numCells=(int) shared.Vector.sum(dims);
LineParser2 lp=new LineParser2(delimiter);
FloatList weights=new FloatList();
while(pos<lines.size()) {
byte[] line=lines.get(pos);
if(line.length<1){
//ignore
}else if(Tools.startsWith(line, "##")){
//ignore
}else if(Tools.startsWith(line, 'C') || Tools.startsWith(line, 'W')){
lp.set(line);
lp.setBounds(0, 0);
int cid=lp.parseInt();
// assert(false) : cid;
String s=lp.parseString();
int type=Tools.find(s, Function.TYPES);
assert(type>=0) : type+", "+s+"\n'"+new String(line)+"'";
Cell c=net.list.get(cid);
c.function=Function.getFunction(type);
assert(c.function.type()==type);
c.setBias(lp.parseFloat(), true);
weights.clear();
while(lp.hasMore()) {
weights.add(lp.parseFloat());
}
c.weights=weights.toArray();
c.deltas=new float[c.weights.length];
assert(c.weights.length==c.id()-c.lpos-c.prevLayerStart) : new String(line)+"\n"+
c.weights.length+", "+c.layer+", "+c.id()+", "+c.lpos+", "+c.prevLayerStart+", "+
(c.id()-c.lpos-c.prevLayerStart);
}else {
assert(false) : new String(line);
}
pos++;
}
assert(CellNet.DENSE || net.check());
}
private void parseEdgesSparse() {
assert(concise);
pos=posFirstEdge;
long numEdges=0;
int numCells=(int) shared.Vector.sum(dims);
LineParser2 lp=new LineParser2(delimiter);
FloatList weights=new FloatList();
IntList inputs=new IntList();
while(pos<lines.size()) {
byte[] line=lines.get(pos);
if(line.length<1){
//ignore
}else if(Tools.startsWith(line, "##")){
//ignore
}else if(Tools.startsWith(line, 'C') || Tools.startsWith(line, 'W')){
lp.set(line);
lp.setBounds(0, 0);
int cid=lp.parseInt();
// assert(false) : cid;
String s=lp.parseString();
int type=Tools.find(s, Function.TYPES);
assert(type>=0) : type+", "+s+"\n'"+new String(line)+"'";
Cell c=net.list.get(cid);
assert(c.weights==null);
c.function=Function.getFunction(type);
assert(c.function.type()==type);
c.setBias(lp.parseFloat(), true);
weights.clear();
while(lp.hasMore()) {
weights.add(lp.parseFloat());
}
c.weights=weights.toArray();
c.deltas=new float[c.weights.length];
assert(c.inputs==null || c.inputs.length==c.weights.length) :
c.layer+", "+c.lpos+", "+c.inputs.length+", "+c.weights.length+"\n"+Arrays.toString(c.inputs);
}else if(Tools.startsWith(line, 'I')){
lp.set(line);
lp.setBounds(0, 0);
int cid=lp.parseInt();
Cell c=net.list.get(cid);
assert(c.inputs==null);
inputs.clear();
while(lp.hasMore()) {
inputs.add(lp.parseInt());
}
c.inputs=inputs.toArray();
// for(int i=0; i<c.inputs.length; i++) {c.inputs[i]-=c.prevLayerStart;}
assert(c.weights==null || c.inputs.length==c.weights.length);
}else if(Tools.startsWith(line, 'H')){
lp.set(line);
lp.setBounds(0, 0);
int cid=lp.parseInt();
Cell c=net.list.get(cid);
assert(c.inputs==null);
lp.advance();
c.inputs=CellNet.fromHex(line, lp.a());
assert(c.weights==null || c.inputs.length==c.weights.length);
}else {
assert(false) : new String(line);
}
pos++;
}
CellNet.makeOutputSets(net.net);
assert(net.check());
}
boolean hasMore(){
return pos<lines.size();
}
byte[] nextLine(){
if(pos>=lines.size()){return null;}
byte[] line=lines.get(pos);
pos++;
return line;
}
String fname;
final ArrayList<byte[]> lines;
private final CellNet net;
long seed;
// long annealSeed=-1;
float density=1f;
float density1=0f;
int edgeBlockSize=1;
int edges=0;//unused
long epochs=0;
long samples=0;
int version;
int layers=-1;
boolean concise=false;
boolean dense=true;
int[] dims;
int pos=0;
float cutoff=0.5f;
final int posFirstEdge;
ArrayList<String> commands=new ArrayList<String>();
public static final byte delimiter=' ';
/*--------------------------------------------------------------*/
/*---------------- Parsing ----------------*/
/*--------------------------------------------------------------*/
private static String parseString(byte[] line){
int idx=Tools.indexOf(line, delimiter);
String s=new String(line, idx+1, line.length-idx-1);
return s;
}
private static float parseFloat(byte[] line){
int idx=Tools.indexOf(line, delimiter);
return Parse.parseFloat(line, idx+1, line.length);
}
private static int parseInt(byte[] line){
int idx=Tools.indexOf(line, delimiter);
return Parse.parseInt(line, idx+1, line.length);
}
private static long parseLong(byte[] line){
int idx=Tools.indexOf(line, delimiter);
return Parse.parseLong(line, idx+1, line.length);
}
public static int[] parseIntArray(final byte[] line, final byte delimiter, boolean parseTitle){
int a=0, b=0;
IntList list=new IntList(3);
if(parseTitle) {
while(b<line.length && line[b]!=delimiter){b++;}
assert(b>a) : "Missing Title: "+new String(line);
b++;
a=b;
}
while(a<line.length) {
while(b<line.length && line[b]!=delimiter){b++;}
assert(b>a) : "Missing element "+list.size+": '"+new String(line)+"'";
int x=Parse.parseInt(line, a, b);
// assert(x>0) : new String(line);
list.add(x);
b++;
a=b;
}
return list.toArray();
}
}
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