Twitter challenge 2

#include <map>
#include <set>
#include <list>
#include <cmath>
#include <ctime>
#include <deque>
#include <queue>
#include <stack>
#include <string>
#include <bitset>
#include <cstdio>
#include <limits>
#include <vector>
#include <climits>
#include <cstring>
#include <cstdlib>
#include <fstream>
#include <numeric>
#include <sstream>
#include <iostream>
#include <algorithm>
#include <unordered_map>

using namespace std;

deque<char> simplify(deque<char> str)
{
    deque<char> temp;
    int count = 0;
    int skip = 0;
    string input;
    if (str[0] == '(')
    {
        for (int i = 0; i < str.size(); i++)
        {
            input += str[i];
        }
        input.insert(0, "/");
        input += "/";
        for (int i = 0; i < input.length(); i++)
        {
            if (input[i] == '(')
            {
                for (int j = i + 1; j < input.length(); j++)
                {
                    if (input[j] == ')' && skip == 0)
                    {
                        input.erase(input.begin() + i);
                        input.insert(i, to_string(count));
                        input.erase(input.begin() + j);
                        input.insert(j, to_string(count));
                        count++;
                        skip = 0;
                        j = input.length();
                    }
                    else if (input[j] == ')' && skip > 0) skip--;
                    else if (input[j] == '(') skip++;
                }
            }
        }
        count--;
        for (int j = 0; j < input.length(); j++)
        {
            if (isdigit(input[j]))
            {
                for (int k = j + 1; k < input.length(); k++)
                {
                    if (input[k] == input[j])
                    {
                        if (input[j - 1] == '/' && input[k + 1] == '/')
                        {
                            input.erase(input.begin() + k);
                            input.erase(input.begin() + j);
                            j--;
                        }
                        else if (isdigit(input[j + 1]) || isdigit(input[k - 1]))
                        {
                        }
                        else if (isalpha(input[j - 1]) || isalpha(input[k - 1]))
                        {
                            input.erase(input.begin() + k);
                            input.erase(input.begin() + j);
                            j--;
                        }
                        break;
                    }
                }
            }
        }
        input.erase(input.end() - 1);
        input.erase(input.begin());
        for (int i = 0; i < input.length(); i++)
        {
            temp.push_back(input[i]);
        }
        return temp;
    }
    else
    {
        return str;
    }
}

int main() {
    //Initialize & Declare Variables As Needed
    string input = " ";
    bool inputover = false;
    deque<char> str;
    deque<char> cmd;

    //Cycle until no more input
    while(!inputover)
    {
        //Get input
        getline(cin,input);

        //Prepare for next input
        cin.clear();

        //Check if end of input
        if(input.empty())
        {
            break;
        }

        //-----------------------------------------------------------
        //Start individual input code below here
        //-----------------------------------------------------------

        //Iterate though String
        while(input.length() > 0)
        {
            //Detect slash to indicate instruction
            if(input[0]=='/')
            {
                input.erase(input.begin());
                //Iterate through remaining string and split expression from Instruction
                while(input.length() > 0)
                {
                    cmd.push_back(input[0]);
                    input.erase(input.begin());
                }
            }
            else
            {
                str.push_back(input[0]);
                input.erase(input.begin());
            }
        }


        while(!cmd.empty())
        {

            if(cmd.front() == 'R')
            {
                stack<char> temp;
                while(!str.empty())
                {
                    if(str.front() == '(')
                    {
                        temp.push(')');
                    }
                    else if(str.front() == ')')
                    {
                        temp.push('(');
                    }
                    else
                    {
                        temp.push(str.front());
                    }
                    str.pop_front();
                }
                while(!temp.empty())
                {
                    str.push_back(temp.top());
                    temp.pop();
                }

            }
            if(cmd.front() =='S')
            {
                str = simplify(str);
            }
            cmd.pop_front();
        }

        //Display Expression
        //cout << "String" << endl;
        for (int i = 0; i < str.size(); i++)
        {
            cout << str[i];
        }
        cout << endl;

        /*
        //Display Instructions
        cout << "Command" << endl;
        for (int i = 0; i < cmd.size(); i++)
        {
            cout << cmd[i];
        }
        cout << endl;
        */



        str.clear();
        cmd.clear();
    }

    return 0;
}