SharedListVector::SharedListVector(ifstream& f) : DataVector(), maxRank(0), numBins(0), numSeqs(0) {
try {
groupmap = NULL; countTable = NULL;
//set up groupmap for later.
if (m->groupMode == "group") {
groupmap = new GroupMap(m->getGroupFile());
groupmap->readMap();
}else {
countTable = new CountTable();
countTable->readTable(m->getCountTableFile(), true, false);
}
int hold;
//are we at the beginning of the file??
if (m->saveNextLabel == "") {
f >> label;
//is this a shared file that has headers
if (label == "label") {
//gets "numOtus"
f >> label; m->gobble(f);
//eat rest of line
label = m->getline(f); m->gobble(f);
//parse labels to save
istringstream iStringStream(label);
m->listBinLabelsInFile.clear();
while(!iStringStream.eof()){
if (m->control_pressed) { break; }
string temp;
iStringStream >> temp; m->gobble(iStringStream);
m->listBinLabelsInFile.push_back(temp);
}
f >> label >> hold;
}else {
//read in first row
f >> hold;
//make binlabels because we don't have any
string snumBins = toString(hold);
m->listBinLabelsInFile.clear();
for (int i = 0; i < hold; i++) {
//if there is a bin label use it otherwise make one
string binLabel = "Otu";
string sbinNumber = toString(i+1);
if (sbinNumber.length() < snumBins.length()) {
int diff = snumBins.length() - sbinNumber.length();
for (int h = 0; h < diff; h++) { binLabel += "0"; }
}
binLabel += sbinNumber;
m->listBinLabelsInFile.push_back(binLabel);
}
}
m->saveNextLabel = label;
}else {
//reads a shared file
SharedRAbundVector::SharedRAbundVector(ifstream& f) : DataVector(), maxRank(0), numBins(0), numSeqs(0) {
try {
m->clearAllGroups();
vector<string> allGroups;
int num, inputData, count;
count = 0;
string holdLabel, nextLabel, groupN;
individual newguy;
for (int i = 0; i < lookup.size(); i++) { delete lookup[i]; lookup[i] = NULL; } lookup.clear();
//are we at the beginning of the file??
if (m->saveNextLabel == "") {
f >> label;
//is this a shared file that has headers
if (label == "label") {
//gets "group"
f >> label; m->gobble(f);
//gets "numOtus"
f >> label; m->gobble(f);
//eat rest of line
label = m->getline(f); m->gobble(f);
//parse labels to save
istringstream iStringStream(label);
m->sharedBinLabelsInFile.clear();
while(!iStringStream.eof()){
if (m->control_pressed) { break; }
string temp;
iStringStream >> temp; m->gobble(iStringStream);
m->sharedBinLabelsInFile.push_back(temp);
}
f >> label >> groupN >> num;
}else {
//read in first row since you know there is at least 1 group.
f >> groupN >> num;
//make binlabels because we don't have any
string snumBins = toString(num);
m->sharedBinLabelsInFile.clear();
for (int i = 0; i < num; i++) {
//if there is a bin label use it otherwise make one
string binLabel = "Otu";
string sbinNumber = toString(i+1);
if (sbinNumber.length() < snumBins.length()) {
int diff = snumBins.length() - sbinNumber.length();
for (int h = 0; h < diff; h++) { binLabel += "0"; }
}
binLabel += sbinNumber;
m->sharedBinLabelsInFile.push_back(binLabel);
}
}
}else {
//reads a shared file
SharedRAbundFloatVector::SharedRAbundFloatVector(ifstream& f) : DataVector(), maxRank(0.0), numBins(0), numSeqs(0.0) {
try {
m->clearAllGroups();
vector<string> allGroups;
int num, count;
float inputData;
count = 0;
string holdLabel, nextLabel, groupN;
individualFloat newguy;
for (int i = 0; i < lookup.size(); i++) { delete lookup[i]; lookup[i] = NULL; }
lookup.clear();
//are we at the beginning of the file??
if (m->saveNextLabel == "") {
f >> label;
//is this a shared file that has headers
if (label == "label") {
//gets "group"
f >> label; m->gobble(f);
//gets "numOtus"
f >> label; m->gobble(f);
//eat rest of line
label = m->getline(f); m->gobble(f);
//parse labels to save
istringstream iStringStream(label);
m->binLabelsInFile.clear();
while(!iStringStream.eof()){
if (m->control_pressed) { break; }
string temp;
iStringStream >> temp; m->gobble(iStringStream);
m->binLabelsInFile.push_back(temp);
}
f >> label;
}
}else { label = m->saveNextLabel; }
SharedOrderVector::SharedOrderVector(ifstream& f) : DataVector() { //reads in a shared file
try {
maxRank = 0; numBins = 0; numSeqs = 0;
groupmap = new GroupMap();
int num, inputData, count;
count = 0; numSeqs = 0;
string holdLabel, nextLabel, groupN;
individual newguy;
//read in first row since you know there is at least 1 group.
//are we at the beginning of the file??
if (m->saveNextLabel == "") {
f >> label;
//is this a shared file that has headers
if (label == "label") {
//gets "group"
f >> label; m->gobble(f);
//gets "numOtus"
f >> label; m->gobble(f);
//eat rest of line
label = m->getline(f); m->gobble(f);
//parse labels to save
istringstream iStringStream(label);
m->sharedBinLabelsInFile.clear();
while(!iStringStream.eof()){
if (m->control_pressed) { break; }
string temp;
iStringStream >> temp; m->gobble(iStringStream);
m->sharedBinLabelsInFile.push_back(temp);
}
f >> label;
}
}else { label = m->saveNextLabel; }
void NoeudThor::traitementDeLaTrame(Trame &t, Client<NoeudThor> *noeudSource)
{
if (noeudSource == noeudSecureNodeListProvider){
switch (t.getTTL()) {
case -2:
{
cout << "On a recu la liste d'ip:portd'écoute des autres clients" << std::endl;
list<pair <string, int> > ipPortEveryBody;
std::istringstream iStringStream(t.getCommande());
boost::archive::text_iarchive iTextArchive(iStringStream);
iTextArchive >> ipPortEveryBody;
bool found;
for(pair <string, int> trucl : ipPortEveryBody){
found=false;
for (auto it = toutlemonde.begin(); it != toutlemonde.end() && found!=true; it++){
if ((*it)->getIpStr() == trucl.first && (*it)->getPort() == trucl.second){
cout << "nous somme déjà connectés à ce client (" << trucl.first << ":" << trucl.second << ")" << std::endl;
found = true;
}
}
if (found == false){
cout << "On était pas connecté donc on se connecte" << std::endl;
auto cli = new Client<NoeudThor>(this, io_service);
tcp::endpoint endpoint(boost::asio::ip::address::from_string(trucl.first), trucl.second);
cli->getSocket().connect(endpoint);
cli->startRead();
toutlemonde.push_front(cli);
}
cout << "IT : " << trucl.first << std::endl;
cout << "Port : " << trucl.second << std::endl;
}
cout << "Enregistrement des différents noeuds effectué" << std::endl;
break;
}
case -3:
{
cout << "On a recu le nombre de Noeuds du réseau" << std::endl;
int nombre;
sscanf(t.getCommande().c_str(), "%d", &nombre);
cout << "Il y a " << nombre << "noeuds sur le réseau." << std::endl;
break;
}
case -4:
{
cout << "On a recu nos voisins" << std::endl;
list<pair <string, int> > ipPortVoisins;
std::istringstream iStringStream(t.getCommande());
boost::archive::text_iarchive iTextArchive(iStringStream);
iTextArchive >> ipPortVoisins;
bool next=false;
for(pair <string, int> trucl : ipPortVoisins){
for (auto it = toutlemonde.begin(); it != toutlemonde.end(); it++){
if ((*it)->getIpStr() == trucl.first && (*it)->getPort() == trucl.second){
if (next == false){
this->previous=(*it);
next = true;
}
else {
this->next=(*it);
}
}
}
}
cout << "Enregistrement des voisins effectué" << std::endl;
break;
}
default:
{
break;
}
}
}
else if(noeudSource == noeudServeurCentral){
SharedListVector::SharedListVector(ifstream& f, vector<string>& userGroups, string& previousLabel, string& labelTag) : DataVector(), maxRank(0), numBins(0), numSeqs(0) {
try {
Utils util;
groups = userGroups; fillGroups = true;
if (groups.size() > 0) { fillGroups = false; }
CurrentFile* current = CurrentFile::getInstance();
groupMode = current->getGroupMode();
groupmap = NULL; countTable = NULL;
//set up groupmap for later.
if (groupMode == "group") {
groupmap = new GroupMap(current->getGroupFile());
groupmap->readMap();
if (fillGroups) { groups = groupmap->getNamesOfGroups(); m->mothurOut("[ERROR]: requesting groups not present in files, aborting.\n"); fillGroups = false; }
else { if (!util.isSubset(groupmap->getNamesOfGroups(), groups)) { m->mothurOut("[ERROR]: requesting groups not present in files, aborting.\n"); m->setControl_pressed(true); } }
}else {
countTable = new CountTable();
countTable->readTable(current->getCountFile(), true, false);
if (fillGroups) { groups = countTable->getNamesOfGroups(); fillGroups = false; }
else { if (!util.isSubset(countTable->getNamesOfGroups(), groups)) { m->mothurOut("[ERROR]: requesting groups not present in files, aborting.\n"); m->setControl_pressed(true); } }
}
int hold;
//are we at the beginning of the file?? If yes, read or create headers
if (previousLabel == "") {
f >> label;
//is this a shared file that has headers
if (label == "label") {
//gets "numOtus"
f >> label; util.gobble(f);
//eat rest of line
label = util.getline(f); util.gobble(f);
//parse labels to save
istringstream iStringStream(label);
while(!iStringStream.eof()){
if (m->getControl_pressed()) { break; }
string temp;
iStringStream >> temp; util.gobble(iStringStream);
binLabels.push_back(temp);
}
if (binLabels.size() != 0) {
string binLabelTag = binLabels[0];
labelTag = "";
for (int i = 0; i < binLabelTag.length(); i++) { if (isalpha(binLabelTag[i])){ labelTag += binLabelTag[i]; } }
}
f >> label >> hold;
}else {
//read in first row
f >> hold;
//make binlabels because we don't have any
string snumBins = toString(hold);
if (labelTag == "") { labelTag = "Otu"; }
for (int i = 0; i < hold; i++) {
//if there is a bin label use it otherwise make one
string binLabel = labelTag;
string sbinNumber = toString(i+1);
if (sbinNumber.length() < snumBins.length()) {
int diff = snumBins.length() - sbinNumber.length();
for (int h = 0; h < diff; h++) { binLabel += "0"; }
}
binLabel += sbinNumber;
binLabels.push_back(binLabel);
}
}
}else { f >> label >> hold; }
void NoeudThor::traitementDeLaTrame(Trame &t, Client<NoeudThor> *noeudSource)
{
cout << "/********* Trame Recue" << std::endl <<
"TTL : " << t.getTTL() << std::endl <<
"Commande : " << t.getCommande() << std::endl <<
"*********/" << std::endl;
if (noeudSource == noeudSecureNodeListProvider){
switch (t.getTTL()) {
case -2:
{
cout << "On a recu la liste d'ip:portd'écoute des autres clients" << std::endl;
list<pair <string, int> > ipPortEveryBody;
std::istringstream iStringStream(t.getCommande());
boost::archive::text_iarchive iTextArchive(iStringStream);
iTextArchive >> ipPortEveryBody;
bool found;
for(pair <string, int> trucl : ipPortEveryBody){
found=false;
for (auto it = toutlemonde.begin(); it != toutlemonde.end() && found!=true; it++){
if ((*it)->getIpStr() == trucl.first && (*it)->getPort() == trucl.second){
cout << "Nous somme déjà connectés à ce client (" << trucl.first << ":" << trucl.second << ")" << std::endl;
found = true;
}
}
if (found == false){
cout << "Nous ne sommes pas connectés à un client, (" << trucl.first << ":" << trucl.second << ") on s'y connecte" << std::endl;
auto cli = new Client<NoeudThor>(this, io_service);
tcp::endpoint endpoint(boost::asio::ip::address::from_string(trucl.first), trucl.second);
cli->getSocket().connect(endpoint);
cli->startRead();
Trame t;
t.setTTL(-1);
t.setCommande(std::to_string(this->portecoute));
cli->send(t);
cli->setPort(trucl.second);
toutlemonde.push_front(cli);
cout << "Client ajouté à la liste : " << cli->getIpStr() << ":" << cli->getPort() << endl;
cout << "Taille de la liste : " << toutlemonde.size() << endl;
}
}
cout << "Enregistrement des différents noeuds effectué" << std::endl << std::endl;
askVoisins();
break;
}
case -3:
{
cout << "On a recu le nombre de Noeuds du réseau" << std::endl;
int nombre;
sscanf(t.getCommande().c_str(), "%d", &nombre);
cout << "Il y a " << nombre << "noeuds sur le réseau." << std::endl;
break;
}
case -4:
{
cout << "On a recu nos voisins (droite et gauche)" << std::endl;
list<pair <string, int> > ipPortVoisins;
std::istringstream iStringStream(t.getCommande());
boost::archive::text_iarchive iTextArchive(iStringStream);
iTextArchive >> ipPortVoisins;
const int SET_PREVIOUS=0;
const int SET_NEXT=1;
const int ALL_SET=2;
char whatToDo=SET_PREVIOUS;
for(pair <string, int> trucl : ipPortVoisins){
for (auto it = toutlemonde.begin(); it != toutlemonde.end(); it++){
if ((*it)->getIpStr() == trucl.first && (*it)->getPort() == trucl.second){
if (whatToDo == SET_PREVIOUS){
cout << "Previous pointe maintenant vers : " << (*it)->getIpStr() << ":" << (*it)->getPort() << endl;
this->previous=(*it);
whatToDo = SET_NEXT;
}
else {
cout << "Next pointe maintenant vers : " << (*it)->getIpStr() << ":" << (*it)->getPort() << endl;
this->next=(*it);
whatToDo = ALL_SET;
}
}
}
}
if (whatToDo != ALL_SET){
this->previous=NULL;
this->next=NULL;
}
cout << "Enregistrement des voisins effectué" << std::endl << std::endl;
break;
}
default:
{
break;
}
}
}
else if(noeudSource == noeudServeurCentral){
