multisetup Working!

local tArgs = {...}

if #tArgs == 0 then
    error("please select blueprint file")
end

if not fs.exists(tArgs[1]) then
    error(tArgs[1].. " does not exists")
end

if not fs.exists("turtle") then
    shell.run("pastebin get 7mnsWVwz turtle")
end

rs.setOutput("left",false)
local function find(keyword)
    for i = 1,16 do
        local item = turtle.getItemDetail(i)
        if item and item.name:lower():find(keyword:lower()) then
            return i
        end
    end
end

function countBlocks(instructions)
    uniqueblocks={}
    for n = 1,#instructions do
        local blockID,data = unpack(instructions[n],4,5)
        found = false
        for j,w in ipairs(uniqueblocks) do

            if (w.blockID==blockID) and (w.data==data) then
                found = true
                w.amount = w.amount + 1
                break
            end
        end

        if found==false then
            uniqueblocks[#uniqueblocks+1] = {}
            uniqueblocks[#uniqueblocks].blockID = blockID
            uniqueblocks[#uniqueblocks].data = data
            uniqueblocks[#uniqueblocks].amount = 1
        end
    end
    return uniqueblocks
end

function printMaterials(uniqueblocks,slots)
    local w,h = term.getSize()
    local buffer = {}

    buffer[#buffer+1] = "Controls:"
    buffer[#buffer+1] = ""
    buffer[#buffer+1] = "use arrowkeys or scrollwheel to scroll"
    buffer[#buffer+1] = "press x to refuel"
    buffer[#buffer+1] = "press a when all materials are accounted for"
    buffer[#buffer+1] = ""

    for i,v in pairs(uniqueblocks) do
        --print(v.blockID,",",v.data,"=",v.amount)
        local t = slots[v.blockID][v.data]
        buffer[#buffer+1] = "- "..tostring(t[1])..","..tostring(t[2])
        buffer[#buffer+1] = "    "..tostring(v.amount)
        if v.amount > 64 then
            buffer[#buffer] = buffer[#buffer] .. " ("..tostring(math.ceil(v.amount/64)).." stacks)"
        end
    end

    buffer[#buffer+1] = ""
    if reference.wrench then
        buffer[#buffer+1] = "make sure I have a wrench"
    else
        buffer[#buffer+1] = "no wrench required"
    end

    local function display(buffer,n)
        shell.run("clr")
        local a = 1
        for i = n,#buffer do
            term.setCursorPos(1,a)
            --term.clearLine()
            term.write(buffer[i])
            a = a + 1
        end
    end

    local n = 1
    display(buffer,n)
    while true do
        local event = {os.pullEvent()}
        if event[1] == "mouse_scroll" then
            if event[2] == 1 and n < #buffer then
                n = n + 1
                display(buffer,n)
            elseif event[2] == -1 and n > 1 then
                n = n - 1
                display(buffer,n)
            end
        end
        if event[2] == "x" then
            shell.run("refuel 64")
            buffer[#buffer+1] = "fuel: "..tostring(turtle.getFuelLevel())
            display(buffer,n)
        end
        if event[2] == "a" then
            shell.run("clr")
            break
        end
    end
end


function files2disk()
    local files = {"refill","setup","textutilsFIX","time","turtle"}

    for _,v in pairs(files) do
        if fs.exists(v) and fs.exists("disk/"..tostring(v)) == false then
            shell.run("copy "..tostring(v).." disk")
        end
    end
end

function transferBlueprint(nTurtle)

    --[[local v = startLocations[nTurtle]
    assert(v)
    local ref = reference
    assert(ref)
    ref.starty = v.starty
    ref.startz = v.startz
    ref.finaly = v.finaly
    ref.finalz = v.finalz
    assert(ref.startx)
    assert(v.starty)
    assert(ref.finalx)
    assert(v.finaly)
    local ins = blueprint(ref.startx,v.starty,v.startz,ref.finalx,v.finaly,v.finalz)
    if tArgs[2] == "tsp" then
        ins = improveBlueprint(ins,ref.startx,ref.starty,ref.startz,ref.finalx,ref.finaly,ref.finalz)
    end
    local fname = saveBlueprint(ref,slots,ins,uniqueblocks,nTurtle)
    print(fname," saved")]]

    for i,v in pairs(fs.list(shell.dir())) do
        if v:find("["..tostring(nTurtle).."]") then
            shell.run("copy "..tostring(v).." disk")
            shell.run("rm "..tostring(v))
        end
    end
end

function setPosition(nTurtle,heightPos,widthPos,lengthPos,face)
    nTurtle = tostring(nTurtle)
    local h = fs.open("pos"..nTurtle,"w")
    h.writeLine("heightPos = "..tostring(heightPos)..";")
    h.writeLine("widthPos = "..tostring(widthPos)..";")
    h.writeLine("lengthPos = "..tostring(lengthPos)..";")
    h.writeLine("face = "..tostring(face)..";")
    h.close()
    shell.run("copy pos"..nTurtle.." disk")
end

function Main()
    shell.run("turtle reset")
    if turtle.getFuelLevel() < 200 then
        error("more fuel required")
    end

    shell.run(tArgs[1])

    print("Please put ...\n"..tonumber(reference.multiturtle).." turtles(any type),\n1 disk, and \n1 diskDrive in inventory\n")
    print("press any key to continue")
    os.pullEvent("char")
    for i = 2,reference.multiturtle do
        turtle.select(find("turtle"))
        local nTurtle = i
        goto(reference.startx,reference.starty+i-1,reference.startz-1)
        turn("south")
        turtle.place()
        turtle.select(find("peripheral"))
        goto(reference.startx+1,reference.starty+i-1,reference.startz-1)
        turn("south")
        turtle.place()
        turtle.select(find("computercraft:disk"))
        turtle.drop()
        --copyFiles(i)
        do
            files2disk()
            transferBlueprint(nTurtle)
            --setPosition(nTurtle,heightPos-1,widthPos,lengthPos-1,face)
            local disk = fs.open("disk/startup","w")
            disk.write([[
            local function disk2turtle(nTurtle)
                local files = {"refill","setup","textutilsFIX","time","turtle"}
                for i,v in pairs(fs.list("disk")) do
                    if v:find("["..tostring(nTurtle).."]") then
                        shell.run("copy disk/"..tostring(v).." "..tostring(v))
                        shell.run("rm disk/"..tostring(v))
                    end
                end
                for i,v in pairs(files) do
                    if fs.exists("disk/"..tostring(v)) then
                        shell.run("copy disk/"..tostring(v).." "..tostring(v))
                    end
                end
            end

            local function checkWrench()
                for i = 1,16 do
                    local item = turtle.getItemDetail(i)
                    if item then
                        local possible = item.name:lower()
                        print(possible)
                        if possible:find("wrench") or possible:find("hammer") then
                            return true
                        end
                    end
                end
                return false
            end

            function countBlocks(instructions)
                uniqueblocks={}
                for n = 1,#instructions do
                    local blockID,data = unpack(instructions[n],4,5)
                    found = false
                    for j,w in ipairs(uniqueblocks) do

                        if (w.blockID==blockID) and (w.data==data) then
                            found = true
                            w.amount = w.amount + 1
                            break
                        end
                    end

                    if found==false then
                        uniqueblocks[#uniqueblocks+1] = {}
                        uniqueblocks[#uniqueblocks].blockID = blockID
                        uniqueblocks[#uniqueblocks].data = data
                        uniqueblocks[#uniqueblocks].amount = 1
                    end
                end
                return uniqueblocks
            end

            function printMaterials(uniqueblocks,slots)
                local w,h = term.getSize()
                local buffer = {}

                buffer[#buffer+1] = "Controls:"
                buffer[#buffer+1] = ""
                buffer[#buffer+1] = "use arrowkeys or scrollwheel to scroll"
                buffer[#buffer+1] = "press x to refuel"
                buffer[#buffer+1] = "press a when all materials are accounted for"
                buffer[#buffer+1] = ""

                for i,v in pairs(uniqueblocks) do
                    --print(v.blockID,",",v.data,"=",v.amount)
                    local t = slots[v.blockID][v.data]
                    buffer[#buffer+1] = "- "..tostring(t[1])..","..tostring(t[2])
                    buffer[#buffer+1] = "    "..tostring(v.amount)
                    if v.amount > 64 then
                        buffer[#buffer] = buffer[#buffer] .. " ("..tostring(math.ceil(v.amount/64)).." stacks)"
                    end
                end

                buffer[#buffer+1] = ""
                if reference.wrench then
                    buffer[#buffer+1] = "make sure I have a wrench"
                else
                    buffer[#buffer+1] = "no wrench required"
                end

                local function display(buffer,n)
                    shell.run("clr")
                    local a = 1
                    for i = n,#buffer do
                        term.setCursorPos(1,a)
                        --term.clearLine()
                        term.write(buffer[i])
                        a = a + 1
                    end
                end

                local n = 1
                display(buffer,n)
                while true do
                    local event = {os.pullEvent()}
                    if event[1] == "mouse_scroll" then
                        if event[2] == 1 and n < #buffer then
                            n = n + 1
                            display(buffer,n)
                        elseif event[2] == -1 and n > 1 then
                            n = n - 1
                            display(buffer,n)
                        end
                    end
                    if event[2] == "x" then
                        shell.run("refuel 64")
                        buffer[#buffer+1] = "fuel: "..tostring(turtle.getFuelLevel())
                        display(buffer,n)
                    end
                    if event[2] == "a" then
                        local ready = true
                        if turtle.getFuelLevel() < 200 then
                            buffer[#buffer+1] = "needs more fuel to start"
                            ready = false
                        end
                        if not checkWrench() then
                            buffer[#buffer+1] = "needs a wrench"
                            ready = false
                        end
                        if ready then
                            buffer[#buffer+1] = "ready to go!, waiting on rs signal"
                        end
                        display(buffer,n)
                    end
                    if event[1] == "redstone" then
                        shell.run("clr")
                        break
                    end
                end
            end
            disk2turtle(]]..nTurtle..[[)
            shell.run("turtle ]]..tostring(heightPos-1).." "..tostring(widthPos).." "..tostring(lengthPos+1).." "..tostring(face)..[[")


            rs.setOutput("back",true)
            sleep(5)
            rs.setOutput("back",false)
            local filename
            for _,v in pairs(fs.list(shell.dir())) do
                if v:find("blueprint") then
                    filename = v
                    shell.run(v)
                end
            end
            updateVar(filename,"reference.returnx",]]..tostring(heightPos-1)..[[)
            updateVar(filename,"reference.returny",]]..tostring(widthPos)..[[)
            updateVar(filename,"reference.returnz",]]..tostring(lengthPos)..[[)

            local ublocks = countBlocks(instructions)
            printMaterials(ublocks,slots)

            --send pulse through turtles to start
            --turtles only start if all are ready

            shell.run("setup "..filename)
            rs.setOutput("left",true)
            shell.run("startup")
            ]])
            disk.close()
        end

        goto(reference.startx,reference.starty+i-1,reference.startz-1)
        turn("south")
        peripheral.call("front","turnOn")
        os.pullEvent("redstone")
        goto(reference.startx+1,reference.starty+i-1,reference.startz-1)
        turn("south")
        turtle.suck()
        turtle.dig()
    end
    goto(reference.startx,reference.starty,reference.startz-1)
    turn("south")
    goto(reference.startx,reference.starty,reference.startz)
end

function start()
    shell.run(tArgs[1])
    --fuelcheck
    --materialscheck
    shell.run("setup "..tArgs[1])
    rs.setOutput("left",false)
    rs.setOutput("left",true)
    shell.run("startup")
end

Main()
local ublocks = countBlocks(instructions)
printMaterials(ublocks,slots)
print("type \"start\" when all turtles are ready")
local s = read()
if s == "start" then
    start()
end