add alchitry loader

2022-05-16 20:36:27 -07:00 · 2022-05-16 20:36:27 -07:00 · 30d9a2d7c8
commit 30d9a2d7c8
parent 0226d314ec
27 changed files with 5579 additions and 0 deletions
--- a/alchitry-loader/LICENSE.txt
+++ b/alchitry-loader/LICENSE.txt
@ -0,0 +1,21 @@
+MIT License
+
+Copyright (c) 2019 alchitry
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.
--- a/alchitry-loader/au_loader.bin
+++ b/alchitry-loader/au_loader.bin
--- a/alchitry-loader/lib/linux/libftd2xx.a
+++ b/alchitry-loader/lib/linux/libftd2xx.a
--- a/alchitry-loader/lib/macos/libftd2xx.a
+++ b/alchitry-loader/lib/macos/libftd2xx.a
--- a/alchitry-loader/lib/windows/ftbusui.dll
+++ b/alchitry-loader/lib/windows/ftbusui.dll
--- a/alchitry-loader/lib/windows/ftcserco.dll
+++ b/alchitry-loader/lib/windows/ftcserco.dll
--- a/alchitry-loader/lib/windows/ftd2xx.dll
+++ b/alchitry-loader/lib/windows/ftd2xx.dll
--- a/alchitry-loader/lib/windows/ftd2xx.lib
+++ b/alchitry-loader/lib/windows/ftd2xx.lib
--- a/alchitry-loader/lib/windows/ftdibus.sys
+++ b/alchitry-loader/lib/windows/ftdibus.sys
--- a/alchitry-loader/lib/windows/ftlang.dll
+++ b/alchitry-loader/lib/windows/ftlang.dll
--- a/alchitry-loader/lib/windows/ftser2k.sys
+++ b/alchitry-loader/lib/windows/ftser2k.sys
--- a/alchitry-loader/lib/windows/ftserui2.dll
+++ b/alchitry-loader/lib/windows/ftserui2.dll
--- a/alchitry-loader/makefile
+++ b/alchitry-loader/makefile
@ -0,0 +1,24 @@
+sources = $(wildcard src/*.cpp)
+objects = $(sources:.cpp=.o)
+static_libs = lib/macos/libftd2xx.a
+libs = -lpthread
+
+CXXFLAGS = -std=c++11
+
+UNAME := $(shell uname)
+# Assume target is Mac OS if build host is Mac OS; any other host targets Linux
+ifeq ($(UNAME), Darwin)
+	libs += -lobjc -framework IOKit -framework CoreFoundation
+else
+	libs += -lrt
+endif
+
+all: loader
+
+loader: $(objects)
+	$(CXX) $(LDFLAGS) -o $@ $^ $(static_libs) $(libs)
+
+.PHONY: clean
+
+clean:
+	rm -rf loader $(objects)
--- a/alchitry-loader/src/Alchitry_Loader.cpp
+++ b/alchitry-loader/src/Alchitry_Loader.cpp
@ -0,0 +1,611 @@
+#include <iostream>
+#include <stdio.h>
+#include "ftd2xx.h"
+#include "jtag.h"
+#include "jtag_fsm.h"
+#include "loader.h"
+#include "spi.h"
+#include <unistd.h>
+#include <stack>
+#include <fstream>
+#include <streambuf>
+#include <sstream>
+#include <iomanip>
+#include <iterator>
+#include "loader.h"
+#include <chrono>
+#ifdef _WIN32
+#include "mingw.thread.h"
+#else
+#include <thread>
+#endif
+#include <cstring>
+#include "config_type.h"
+
+#define BOARD_ERROR -2
+#define BOARD_UNKNOWN -1
+#define BOARD_AU 0
+#define BOARD_CU 1
+
+using namespace std;
+using get_time = chrono::steady_clock;
+
+char ManufacturerBuf[32];
+char ManufacturerIdBuf[16];
+char DescriptionBuf[64];
+char SerialNumberBuf[16];
+
+string getErrorName(int error) {
+	switch (error) {
+	case FT_OK:
+		return "FT_OK";
+	case FT_INVALID_HANDLE:
+		return "FT_INVALID_HANDLE";
+	case FT_DEVICE_NOT_FOUND:
+		return "FT_DEVICE_NOT_FOUND";
+	case FT_DEVICE_NOT_OPENED:
+		return "FT_DEVICE_NOT_OPENED";
+	case FT_IO_ERROR:
+		return "FT_IO_ERROR";
+	case FT_INSUFFICIENT_RESOURCES:
+		return "FT_INSUFFICIENT_RESOURCES";
+	case FT_INVALID_PARAMETER:
+		return "FT_INVALID_PARAMETER";
+	case FT_INVALID_BAUD_RATE:
+		return "FT_INVALID_BAUD_RATE";
+
+	case FT_DEVICE_NOT_OPENED_FOR_ERASE:
+		return "FT_DEVICE_NOT_OPENED_FOR_ERASE";
+	case FT_DEVICE_NOT_OPENED_FOR_WRITE:
+		return "FT_DEVICE_NOT_OPENED_FOR_WRITE";
+	case FT_FAILED_TO_WRITE_DEVICE:
+		return "FT_FAILED_TO_WRITE_DEVICE";
+	case FT_EEPROM_READ_FAILED:
+		return "FT_EEPROM_READ_FAILED";
+	case FT_EEPROM_WRITE_FAILED:
+		return "FT_EEPROM_WRITE_FAILED";
+	case FT_EEPROM_ERASE_FAILED:
+		return "FT_EEPROM_ERASE_FAILED";
+	case FT_EEPROM_NOT_PRESENT:
+		return "FT_EEPROM_NOT_PRESENT";
+	case FT_EEPROM_NOT_PROGRAMMED:
+		return "FT_EEPROM_NOT_PROGRAMMED";
+	case FT_INVALID_ARGS:
+		return "FT_INVALID_ARGS";
+	case FT_NOT_SUPPORTED:
+		return "FT_NOT_SUPPORTED";
+	case FT_OTHER_ERROR:
+		return "FT_OTHER_ERROR";
+	case FT_DEVICE_LIST_NOT_READY:
+		return "FT_DEVICE_LIST_NOT_READY";
+	}
+	return "Unknown";
+}
+
+void write_to_file(string file, PFT_PROGRAM_DATA ftData) {
+	ofstream output_file(file, ios::binary);
+	CONFIG_DATA config;
+	ft_to_config(&config, ftData);
+	output_file.write((char*) &config, sizeof(CONFIG_DATA));
+	output_file.write(ManufacturerBuf, sizeof(ManufacturerBuf));
+	output_file.write(ManufacturerIdBuf, sizeof(ManufacturerIdBuf));
+	output_file.write(DescriptionBuf, sizeof(DescriptionBuf));
+	output_file.write(SerialNumberBuf, sizeof(SerialNumberBuf));
+	output_file.close();
+}
+
+bool read_from_file(string file, PFT_PROGRAM_DATA ftData) {
+	cout << "Reading " << file << endl;
+	try {
+		ifstream input_file(file, ios::in | ios::binary);
+		if (!input_file.is_open()) {
+			cerr << "Failed to open file " << file << endl;
+			return false;
+		}
+		CONFIG_DATA config;
+
+		input_file.read((char*) &config, sizeof(CONFIG_DATA));
+		config_to_ft(ftData, &config);
+		input_file.read(ManufacturerBuf, sizeof(ManufacturerBuf));
+		input_file.read(ManufacturerIdBuf, sizeof(ManufacturerIdBuf));
+		input_file.read(DescriptionBuf, sizeof(DescriptionBuf));
+		input_file.read(SerialNumberBuf, sizeof(SerialNumberBuf));
+		input_file.close();
+		ftData->Manufacturer = ManufacturerBuf;
+		ftData->ManufacturerId = ManufacturerIdBuf;
+		ftData->Description = DescriptionBuf;
+		ftData->SerialNumber = SerialNumberBuf;
+	} catch (...) {
+		cerr << "Failed to read file " << file << endl;
+		return false;
+	}
+	return true;
+}
+
+FT_STATUS read_from_device(FT_HANDLE ftHandle, PFT_PROGRAM_DATA ftData) {
+	ftData->Signature1 = 0x00000000;
+	ftData->Signature2 = 0xffffffff;
+	ftData->Version = 0x00000005;
+	ftData->Manufacturer = ManufacturerBuf;
+	ftData->ManufacturerId = ManufacturerIdBuf;
+	ftData->Description = DescriptionBuf;
+	ftData->SerialNumber = SerialNumberBuf;
+
+	return FT_EE_Read(ftHandle, ftData);
+}
+
+void print_info() {
+	cout << "Manufacture: " << ManufacturerBuf << endl;
+	cout << "ManufacturerId: " << ManufacturerIdBuf << endl;
+	cout << "Description: " << DescriptionBuf << endl;
+	cout << "SerialNumber: " << SerialNumberBuf << endl;
+}
+
+void erase(FT_HANDLE ftHandle) {
+	cout << "Erasing... ";
+	FT_STATUS ftStatus = FT_EraseEE(ftHandle);
+	if (ftStatus != FT_OK) // Did the command execute OK?
+			{
+		cerr << "Error in erasing device!" << endl;
+		FT_Close(ftHandle);
+		return;
+	}
+	cout << "Done." << endl;
+}
+
+bool programDevice(unsigned int devNumber, string file) {
+	FT_HANDLE ftHandle;
+
+	cout << "Opening device... ";
+	FT_STATUS ftStatus = FT_Open(devNumber, &ftHandle);
+	if (ftStatus != FT_OK) // Did the command execute OK?
+			{
+		printf("Error in opening device!\n");
+		return false; // Exit with error
+	}
+	cout << "Done." << endl;
+	FT_PROGRAM_DATA ftData;
+
+	cout << "Checking EEPROM... ";
+	ftStatus = read_from_device(ftHandle, &ftData);
+
+	if (ftStatus != FT_EEPROM_NOT_PROGRAMMED) { // device isn't blank
+		if (ftStatus == FT_OK) {
+			cout << "Not blank." << endl;
+			erase(ftHandle);
+		} else if (ftStatus == FT_EEPROM_NOT_PRESENT) {
+			cout << "Not present!" << endl;
+			FT_Close(ftHandle);
+			return false;
+		} else {
+			cout << getErrorName(ftStatus) << endl;
+			FT_Close(ftHandle);
+			return false;
+		}
+	} else {
+		cout << "Blank." << endl;
+	}
+
+	if (!read_from_file(file, &ftData)) {
+		FT_Close(ftHandle);
+		return false;
+	}
+
+	print_info();
+
+	cout << "Programming... ";
+	ftStatus = FT_EE_Program(ftHandle, &ftData);
+	if (ftStatus != FT_OK) // Did the command execute OK?
+			{
+		cout << "ERROR: " << getErrorName(ftStatus) << endl;
+		FT_Close(ftHandle);
+		return false;
+	}
+	cout << "Done." << endl;
+
+	FT_Close(ftHandle);
+	return true;
+}
+
+string descriptionToName(string des) {
+	if (des == "Alchitry Cu A") {
+		return "Alchitry Cu";
+	} else if (des == "Alchitry Au A") {
+		return "Alchitry Au";
+	} else {
+		return "Unknown";
+	}
+}
+
+int desciptionToType(string des) {
+	if (des == "Alchitry Cu A") {
+		return BOARD_CU;
+	} else if (des == "Alchitry Au A") {
+		return BOARD_AU;
+	} else {
+		return BOARD_UNKNOWN;
+	}
+}
+
+void printDeviceList() {
+	FT_STATUS ftStatus;
+	FT_DEVICE_LIST_INFO_NODE *devInfo;
+	DWORD numDevs = 0;
+	// create the device information list
+	ftStatus = FT_CreateDeviceInfoList(&numDevs);
+	if (ftStatus != FT_OK) {
+		cerr << "Could not read device list!" << endl;
+		return;
+	}
+
+	if (numDevs > 0) {
+		cout << "Devices: " << endl;
+		// allocate storage for list based on numDevs
+		devInfo = (FT_DEVICE_LIST_INFO_NODE*) malloc(
+				sizeof(FT_DEVICE_LIST_INFO_NODE) * numDevs);
+		// get the device information list
+		ftStatus = FT_GetDeviceInfoList(devInfo, &numDevs);
+		if (ftStatus == FT_OK) {
+			for (unsigned int i = 0; i < numDevs; i++) {
+				cout << "  " << i << ": "
+						<< descriptionToName(devInfo[i].Description) << endl;
+			}
+		} else {
+			cerr << "Error getting device list!" << endl;
+		}
+		free(devInfo);
+	} else {
+		cout << "No devices found!" << endl;
+	}
+}
+
+int getDeviceType(unsigned int devNumber) {
+	FT_STATUS ftStatus;
+	FT_DEVICE_LIST_INFO_NODE *devInfo;
+	DWORD numDevs = 0;
+	int board = BOARD_ERROR;
+	// create the device information list
+	ftStatus = FT_CreateDeviceInfoList(&numDevs);
+	if (ftStatus != FT_OK) {
+		cerr << "Could not read device list!" << endl;
+		return BOARD_ERROR;
+	}
+
+	if (numDevs <= devNumber) {
+		cerr << "Invalid device number!" << endl;
+		return BOARD_ERROR;
+	}
+
+	// allocate storage for list based on numDevs
+	devInfo = (FT_DEVICE_LIST_INFO_NODE*) malloc(
+			sizeof(FT_DEVICE_LIST_INFO_NODE) * numDevs);
+	// get the device information list
+	ftStatus = FT_GetDeviceInfoList(devInfo, &numDevs);
+	if (ftStatus == FT_OK) {
+		string boardDescription = devInfo[devNumber].Description;
+		if (boardDescription == "Alchitry Cu A") {
+			board = BOARD_CU;
+		} else if (boardDescription == "Alchitry Au A") {
+			board = BOARD_AU;
+		} else {
+			board = BOARD_UNKNOWN;
+		}
+	} else {
+		cerr << "Error getting device list!" << endl;
+	}
+	free(devInfo);
+
+	return board;
+}
+
+int getFirstDeviceOfType(int board) {
+	FT_STATUS ftStatus;
+	FT_DEVICE_LIST_INFO_NODE *devInfo;
+	DWORD numDevs = 0;
+
+	// create the device information list
+	ftStatus = FT_CreateDeviceInfoList(&numDevs);
+	if (ftStatus != FT_OK) {
+		cerr << "Could not read device list!" << endl;
+		return -1;
+	}
+
+	if (numDevs < 1) {
+		cerr << "No devices found!" << endl;
+		return -1;
+	}
+
+	// allocate storage for list based on numDevs
+	devInfo = (FT_DEVICE_LIST_INFO_NODE*) malloc(
+			sizeof(FT_DEVICE_LIST_INFO_NODE) * numDevs);
+	// get the device information list
+	ftStatus = FT_GetDeviceInfoList(devInfo, &numDevs);
+
+	if (ftStatus == FT_OK) {
+		for (int devNumber = 0; devNumber < numDevs; devNumber++) {
+			string boardDescription = devInfo[devNumber].Description;
+			int type = desciptionToType(boardDescription);
+			if (type == board) {
+				free(devInfo);
+				return devNumber;
+			}
+		}
+	} else {
+		cerr << "Error getting device list!" << endl;
+	}
+	free(devInfo);
+	return -1;
+}
+
+bool readAndSaveFTDI(string file) {
+	FT_HANDLE ftHandle;
+
+	cout << "Opening device... ";
+	FT_STATUS ftStatus = FT_Open(0, &ftHandle);
+	if (ftStatus != FT_OK) // Did the command execute OK?
+			{
+		printf("Error in opening device!\n");
+		return false; // Exit with error
+	}
+	cout << "Done." << endl;
+	FT_PROGRAM_DATA ftData;
+
+	cout << "Checking EEPROM... ";
+	ftStatus = read_from_device(ftHandle, &ftData);
+
+	if (ftStatus != FT_OK) {
+		if (ftStatus == FT_EEPROM_NOT_PROGRAMMED) {
+			cout << "Blank." << endl;
+			return false;
+		} else if (ftStatus == FT_EEPROM_NOT_PRESENT) {
+			cout << "Not present!" << endl;
+			FT_Close(ftHandle);
+			return false;
+		} else {
+			cout << "Unknown error " << ftStatus << endl;
+			FT_Close(ftHandle);
+			return false;
+		}
+	} else { // eeprom not blank
+		cout << "Done." << endl;
+	}
+
+	cout << "Writing to file... ";
+
+	write_to_file(file, &ftData);
+
+	cout << "Done." << endl;
+
+	FT_Close(ftHandle);
+	return true;
+}
+
+void printUsage() {
+	cout << "Usage: \"loader arguments\"" << endl;
+	cout << endl;
+	cout << "Arguments:" << endl;
+	cout << "  -e : erase FPGA flash" << endl;
+	cout << "  -l : list detected boards" << endl;
+	cout << "  -h : print this help message" << endl;
+	cout << "  -f config.bin : write FPGA flash" << endl;
+	cout << "  -r config.bin : write FPGA RAM" << endl;
+	cout << "  -u config.data : write FTDI eeprom" << endl;
+	cout << "  -b n : select board \"n\" (defaults to 0)" << endl;
+	cout << "  -p loader.bin : Au bridge bin" << endl;
+	cout << "  -t TYPE : TYPE can be au or cu (defaults to au)" << endl;
+}
+
+int main(int argc, char *argv[]) {
+	if (argc < 2) {
+		printUsage();
+		return 1;
+	}
+
+	bool fpgaFlash = false;
+	bool fpgaRam = false;
+	bool eeprom = false;
+	string eepromConfig;
+	string fpgaBinFlash;
+	string fpgaBinRam;
+	bool erase = false;
+	bool list = false;
+	bool print = false;
+	int deviceNumber = -1;
+	bool bridgeProvided = false;
+	string auBridgeBin;
+	bool isAu = true;
+
+	for (int i = 1; i < argc;) {
+		string arg = argv[i];
+		if (arg == "-e") {
+			i++;
+			erase = true;
+		} else if (arg == "-l") {
+			i++;
+			list = true;
+		} else if (arg == "-h") {
+			i++;
+			print = true;
+		} else if (arg == "-f") {
+			if (argc <= i + 1) {
+				cerr << "Missing bin file!" << endl;
+				printUsage();
+				return 1;
+			}
+			fpgaFlash = true;
+			fpgaBinFlash = argv[i + 1];
+			i += 2;
+		} else if (arg == "-r") {
+			if (argc <= i + 1) {
+				cerr << "Missing bin file!" << endl;
+				printUsage();
+				return 1;
+			}
+			fpgaRam = true;
+			fpgaBinRam = argv[i + 1];
+			i += 2;
+		} else if (arg == "-u") {
+			if (argc <= i + 1) {
+				cerr << "Missing data file!" << endl;
+				printUsage();
+				return 1;
+			}
+			eeprom = true;
+			eepromConfig = argv[i + 1];
+			i += 2;
+		} else if (arg == "-b") {
+			if (argc <= i + 1) {
+				cerr << "Missing board number!" << endl;
+				printUsage();
+				return 1;
+			}
+			try {
+				deviceNumber = stoi(argv[i + 1]);
+			} catch (const std::invalid_argument& ia) {
+				cerr << argv[i + 1] << " is not a number!" << endl;
+				printUsage();
+				return 1;
+			}
+			if (deviceNumber < 0) {
+				cerr << "Device numbers can't be negative!" << endl;
+				printUsage();
+				return 1;
+			}
+			i += 2;
+		} else if (arg == "-p") {
+			if (argc <= i + 1) {
+				cerr << "Missing bin file!" << endl;
+				printUsage();
+				return 1;
+			}
+			bridgeProvided = true;
+			auBridgeBin = argv[i + 1];
+			i += 2;
+		} else if (arg == "-t") {
+			if (argc <= i + 1) {
+				cerr << "Missing board type!" << endl;
+				printUsage();
+				return 1;
+			}
+			if (strcmp(argv[i + 1], "au") == 0) {
+				isAu = true;
+			} else if (strcmp(argv[i + 1], "cu") == 0) {
+				isAu = false;
+			} else {
+				cerr << "Invalid board type: " << argv[i + 1] << endl;
+				printUsage();
+				return 1;
+			}
+			i += 2;
+
+		} else {
+			cerr << "Unknown argument " << arg << endl;
+			printUsage();
+			return 1;
+		}
+	}
+
+	if (print)
+		printUsage();
+
+	if (list)
+		printDeviceList();
+
+	if (deviceNumber < 0)
+		deviceNumber = getFirstDeviceOfType(isAu ? BOARD_AU : BOARD_CU);
+
+	if (deviceNumber < 0) {
+		cerr << "Couldn't find device!" << endl;
+		return 2;
+	}
+
+	cout << "Found " << (isAu ? "Au" : "Cu") << " as device " << deviceNumber
+			<< "." << endl;
+
+	if (eeprom)
+		programDevice(deviceNumber, eepromConfig);
+
+	if (erase || fpgaFlash || fpgaRam) {
+		int boardType = getDeviceType(deviceNumber);
+		if ((isAu && boardType != BOARD_AU)
+				|| (!isAu && boardType != BOARD_CU)) {
+			cerr << "Invalid board type detected!" << endl;
+			return 2;
+		}
+
+		if (boardType == BOARD_AU) {
+			if (bridgeProvided == false && (erase || fpgaFlash)) {
+				cerr << "No Au bridge bin provided!" << endl;
+				return 2;
+			}
+			Jtag jtag;
+			if (jtag.connect(deviceNumber) != FT_OK) {
+				cerr << "Failed to connect to JTAG!" << endl;
+				return 2;
+			}
+			if (jtag.initialize() == false) {
+				cerr << "Failed to initialize JTAG!" << endl;
+				return 2;
+			}
+			Loader loader(&jtag);
+
+			if (erase) {
+				if (!loader.eraseFlash(auBridgeBin)) {
+					cerr << "Failed to erase flash!" << endl;
+				} else {
+					cout << "Done." << endl;
+				}
+			}
+
+			if (fpgaFlash) {
+				if (!loader.writeBin(fpgaBinFlash, true, auBridgeBin)) {
+					cerr << "Failed to write FPGA flash!" << endl;
+				}
+			}
+
+			if (fpgaRam) {
+				if (!loader.writeBin(fpgaBinRam, false, "")) {
+					cerr << "Failed to write FPGA RAM!" << endl;
+				}
+			}
+
+			jtag.disconnect();
+		} else if (boardType == BOARD_CU) {
+			Spi spi;
+			if (spi.connect(deviceNumber) != FT_OK) {
+				cerr << "Failed to connect to SPI!" << endl;
+				return 2;
+			}
+			if (spi.initialize() == false) {
+				cerr << "Failed to initialize SPI!" << endl;
+				return 2;
+			}
+
+			if (erase) {
+				if (!spi.eraseFlash()) {
+					cerr << "Failed to erase flash!" << endl;
+				} else {
+					cout << "Done." << endl;
+				}
+			}
+
+			if (fpgaFlash) {
+				if (!spi.writeBin(fpgaBinFlash)) {
+					cerr << "Failed to write FPGA flash!" << endl;
+				}
+			}
+
+			if (fpgaRam) {
+				cerr << "Alchitry Cu doesn't support RAM only programming!"
+						<< endl;
+				return 1;
+			}
+		} else {
+			cerr << "Unknown board type!" << endl;
+			return 2;
+		}
+	}
+
+	return 0;
+}
+
--- a/alchitry-loader/src/WinTypes.h
+++ b/alchitry-loader/src/WinTypes.h
@ -0,0 +1,154 @@
+#ifndef __WINDOWS_TYPES__
+#define __WINDOWS_TYPES__
+
+#define WINAPI
+
+typedef unsigned int            DWORD;
+typedef unsigned int            ULONG;
+typedef unsigned short            USHORT;
+typedef unsigned short            SHORT;
+typedef unsigned char            UCHAR;
+typedef unsigned short            WORD;
+typedef unsigned short            WCHAR;
+typedef unsigned char            BYTE;
+typedef BYTE                    *LPBYTE;
+typedef unsigned int            BOOL;
+typedef unsigned char            BOOLEAN;
+typedef unsigned char            CHAR;
+typedef BOOL                    *LPBOOL;
+typedef UCHAR                    *PUCHAR;
+typedef const char                *LPCSTR;
+typedef char                    *PCHAR;
+typedef void                    *PVOID;
+typedef void                    *HANDLE;
+typedef unsigned int            LONG;
+typedef int                        INT;
+typedef unsigned int            UINT;
+typedef char                    *LPSTR;
+typedef char                    *LPTSTR;
+typedef const char                *LPCTSTR;
+typedef DWORD                    *LPDWORD;
+typedef WORD                    *LPWORD;
+typedef ULONG                    *PULONG;
+typedef LONG                    *LPLONG;
+typedef PVOID                    LPVOID;
+typedef void                    VOID;
+typedef USHORT                  *PUSHORT;
+typedef unsigned long long int    ULONGLONG;
+
+typedef struct _OVERLAPPED {
+    DWORD Internal;
+    DWORD InternalHigh;
+    union {
+        struct{
+            DWORD Offset;
+            DWORD OffsetHigh;
+        };
+        PVOID  Pointer;
+    };
+    HANDLE hEvent;
+} OVERLAPPED, *LPOVERLAPPED;
+
+typedef struct _SECURITY_ATTRIBUTES {
+    DWORD nLength;
+    LPVOID lpSecurityDescriptor;
+    BOOL bInheritHandle;
+} SECURITY_ATTRIBUTES , *LPSECURITY_ATTRIBUTES;
+
+#include <pthread.h>
+// Substitute for HANDLE returned by Windows CreateEvent API.
+// FT_SetEventNotification expects parameter 3 to be the address
+// of one of these structures.
+typedef struct _EVENT_HANDLE
+{
+    pthread_cond_t  eCondVar;
+    pthread_mutex_t eMutex;
+    int             iVar;
+} EVENT_HANDLE;
+
+typedef struct timeval SYSTEMTIME;
+typedef struct timeval FILETIME;
+
+// WaitForSingleObject return values.
+#define WAIT_ABANDONED      0x00000080L
+#define WAIT_OBJECT_0       0x00000000L
+#define WAIT_TIMEOUT        0x00000102L
+#define WAIT_FAILED         0xFFFFFFFF
+// Special value for WaitForSingleObject dwMilliseconds parameter
+#define INFINITE            0xFFFFFFFF  // Infinite timeout
+
+#ifndef TRUE
+#define TRUE    1
+#endif
+#ifndef FALSE
+#define FALSE    0
+#endif
+#ifndef CONST
+#define CONST const
+#endif
+//
+// Modem Status Flags
+//
+#define MS_CTS_ON           ((DWORD)0x0010)
+#define MS_DSR_ON           ((DWORD)0x0020)
+#define MS_RING_ON          ((DWORD)0x0040)
+#define MS_RLSD_ON          ((DWORD)0x0080)
+
+//
+// Error Flags
+//
+#define CE_RXOVER           0x0001  // Receive Queue overflow
+#define CE_OVERRUN          0x0002  // Receive Overrun Error
+#define CE_RXPARITY         0x0004  // Receive Parity Error
+#define CE_FRAME            0x0008  // Receive Framing error
+#define CE_BREAK            0x0010  // Break Detected
+#define CE_TXFULL           0x0100  // TX Queue is full
+#define CE_PTO              0x0200  // LPTx Timeout
+#define CE_IOE              0x0400  // LPTx I/O Error
+#define CE_DNS              0x0800  // LPTx Device not selected
+#define CE_OOP              0x1000  // LPTx Out-Of-Paper
+#define CE_MODE             0x8000  // Requested mode unsupported
+
+//
+// Events
+//
+#define EV_RXCHAR           0x0001  // Any Character received
+#define EV_RXFLAG           0x0002  // Received certain character
+#define EV_TXEMPTY          0x0004  // Transmit Queue Empty
+#define EV_CTS              0x0008  // CTS changed state
+#define EV_DSR              0x0010  // DSR changed state
+#define EV_RLSD             0x0020  // RLSD changed state
+#define EV_BREAK            0x0040  // BREAK received
+#define EV_ERR              0x0080  // Line status error occurred
+#define EV_RING             0x0100  // Ring signal detected
+#define EV_PERR             0x0200  // Printer error occured
+#define EV_RX80FULL         0x0400  // Receive buffer is 80 percent full
+#define EV_EVENT1           0x0800  // Provider specific event 1
+#define EV_EVENT2           0x1000  // Provider specific event 2
+
+//
+// Escape Functions
+//
+#define SETXOFF             1       // Simulate XOFF received
+#define SETXON              2       // Simulate XON received
+#define SETRTS              3       // Set RTS high
+#define CLRRTS              4       // Set RTS low
+#define SETDTR              5       // Set DTR high
+#define CLRDTR              6       // Set DTR low
+#define RESETDEV            7       // Reset device if possible
+#define SETBREAK            8       // Set the device break line.
+#define CLRBREAK            9       // Clear the device break line.
+
+//
+// PURGE function flags.
+//
+#define PURGE_TXABORT       0x0001  // Kill the pending/current writes to the comm port.
+#define PURGE_RXABORT       0x0002  // Kill the pending/current reads to the comm port.
+#define PURGE_TXCLEAR       0x0004  // Kill the transmit queue if there.
+#define PURGE_RXCLEAR       0x0008  // Kill the typeahead buffer if there.
+
+#ifndef INVALID_HANDLE_VALUE
+#define INVALID_HANDLE_VALUE 0xFFFFFFFF
+#endif
+
+#endif /* __WINDOWS_TYPES__ */
--- a/alchitry-loader/src/config_type.cpp
+++ b/alchitry-loader/src/config_type.cpp
@ -0,0 +1,272 @@
+/*
+ * config_type.cpp
+ *
+ *  Created on: Feb 11, 2019
+ *      Author: justin
+ */
+
+#include "config_type.h"
+#ifdef _WIN32
+#include <windows.h>
+#else
+#include "WinTypes.h"
+#endif
+#include "ftd2xx.h"
+
+void ft_to_config(CONFIG_DATA* dest, PFT_PROGRAM_DATA src) {
+	dest->Signature1 = src->Signature1;
+	dest->Signature2 = src->Signature2;
+	dest->Version = src->Version;
+	dest->VendorId = src->VendorId;
+	dest->ProductId = src->ProductId;
+	dest->MaxPower = src->MaxPower;
+	dest->PnP = src->PnP;
+	dest->SelfPowered = src->SelfPowered;
+	dest->RemoteWakeup = src->RemoteWakeup;
+	dest->Rev4 = src->Rev4;
+	dest->IsoIn = src->IsoIn;
+	dest->IsoOut = src->IsoOut;
+	dest->PullDownEnable = src->PullDownEnable;
+	dest->SerNumEnable = src->SerNumEnable;
+	dest->USBVersionEnable = src->USBVersionEnable;
+	dest->USBVersion = src->USBVersion;
+	dest->Rev5 = src->Rev5;
+	dest->IsoInA = src->IsoInA;
+	dest->IsoInB = src->IsoInB;
+	dest->IsoOutA = src->IsoOutA;
+	dest->IsoOutB = src->IsoOutB;
+	dest->PullDownEnable5 = src->PullDownEnable5;
+	dest->SerNumEnable5 = src->SerNumEnable5;
+	dest->USBVersionEnable5 = src->USBVersionEnable5;
+	dest->USBVersion5 = src->USBVersion5;
+	dest->AIsHighCurrent = src->AIsHighCurrent;
+	dest->BIsHighCurrent = src->BIsHighCurrent;
+	dest->IFAIsFifo = src->IFAIsFifo;
+	dest->IFAIsFifoTar = src->IFAIsFifoTar;
+	dest->IFAIsFastSer = src->IFAIsFastSer;
+	dest->AIsVCP = src->AIsVCP;
+	dest->IFBIsFifo = src->IFBIsFifo;
+	dest->IFBIsFifoTar = src->IFBIsFifoTar;
+	dest->IFBIsFastSer = src->IFBIsFastSer;
+	dest->BIsVCP = src->BIsVCP;
+	dest->UseExtOsc = src->UseExtOsc;
+	dest->HighDriveIOs = src->HighDriveIOs;
+	dest->EndpointSize = src->EndpointSize;
+	dest->PullDownEnableR = src->PullDownEnableR;
+	dest->SerNumEnableR = src->SerNumEnableR;
+	dest->InvertTXD = src->InvertTXD;
+	dest->InvertRXD = src->InvertRXD;
+	dest->InvertRTS = src->InvertRTS;
+	dest->InvertCTS = src->InvertCTS;
+	dest->InvertDTR = src->InvertDTR;
+	dest->InvertDSR = src->InvertDSR;
+	dest->InvertDCD = src->InvertDCD;
+	dest->InvertRI = src->InvertRI;
+	dest->Cbus0 = src->Cbus0;
+	dest->Cbus1 = src->Cbus1;
+	dest->Cbus2 = src->Cbus2;
+	dest->Cbus3 = src->Cbus3;
+	dest->Cbus4 = src->Cbus4;
+	dest->RIsD2XX = src->RIsD2XX;
+	dest->PullDownEnable7 = src->PullDownEnable7;
+	dest->SerNumEnable7 = src->SerNumEnable7;
+	dest->ALSlowSlew = src->ALSlowSlew;
+	dest->ALSchmittInput = src->ALSchmittInput;
+	dest->ALDriveCurrent = src->ALDriveCurrent;
+	dest->AHSlowSlew = src->AHSlowSlew;
+	dest->AHSchmittInput = src->AHSchmittInput;
+	dest->AHDriveCurrent = src->AHDriveCurrent;
+	dest->BLSlowSlew = src->BLSlowSlew;
+	dest->BLSchmittInput = src->BLSchmittInput;
+	dest->BLDriveCurrent = src->BLDriveCurrent;
+	dest->BHSlowSlew = src->BHSlowSlew;
+	dest->BHSchmittInput = src->BHSchmittInput;
+	dest->BHDriveCurrent = src->BHDriveCurrent;
+	dest->IFAIsFifo7 = src->IFAIsFifo7;
+	dest->IFAIsFifoTar7 = src->IFAIsFifoTar7;
+	dest->IFAIsFastSer7 = src->IFAIsFastSer7;
+	dest->AIsVCP7 = src->AIsVCP7;
+	dest->IFBIsFifo7 = src->IFBIsFifo7;
+	dest->IFBIsFifoTar7 = src->IFBIsFifoTar7;
+	dest->IFBIsFastSer7 = src->IFBIsFastSer7;
+	dest->BIsVCP7 = src->BIsVCP7;
+	dest->PowerSaveEnable = src->PowerSaveEnable;
+	dest->PullDownEnable8 = src->PullDownEnable8;
+	dest->SerNumEnable8 = src->SerNumEnable8;
+	dest->ASlowSlew = src->ASlowSlew;
+	dest->ASchmittInput = src->ASchmittInput;
+	dest->ADriveCurrent = src->ADriveCurrent;
+	dest->BSlowSlew = src->BSlowSlew;
+	dest->BSchmittInput = src->BSchmittInput;
+	dest->BDriveCurrent = src->BDriveCurrent;
+	dest->CSlowSlew = src->CSlowSlew;
+	dest->CSchmittInput = src->CSchmittInput;
+	dest->CDriveCurrent = src->CDriveCurrent;
+	dest->DSlowSlew = src->DSlowSlew;
+	dest->DSchmittInput = src->DSchmittInput;
+	dest->DDriveCurrent = src->DDriveCurrent;
+	dest->ARIIsTXDEN = src->ARIIsTXDEN;
+	dest->BRIIsTXDEN = src->BRIIsTXDEN;
+	dest->CRIIsTXDEN = src->CRIIsTXDEN;
+	dest->DRIIsTXDEN = src->DRIIsTXDEN;
+	dest->AIsVCP8 = src->AIsVCP8;
+	dest->BIsVCP8 = src->BIsVCP8;
+	dest->CIsVCP8 = src->CIsVCP8;
+	dest->DIsVCP8 = src->DIsVCP8;
+	dest->PullDownEnableH = src->PullDownEnableH;
+	dest->SerNumEnableH = src->SerNumEnableH;
+	dest->ACSlowSlewH = src->ACSlowSlewH;
+	dest->ACSchmittInputH = src->ACSchmittInputH;
+	dest->ACDriveCurrentH = src->ACDriveCurrentH;
+	dest->ADSlowSlewH = src->ADSlowSlewH;
+	dest->ADSchmittInputH = src->ADSchmittInputH;
+	dest->ADDriveCurrentH = src->ADDriveCurrentH;
+	dest->Cbus0H = src->Cbus0H;
+	dest->Cbus1H = src->Cbus1H;
+	dest->Cbus2H = src->Cbus2H;
+	dest->Cbus3H = src->Cbus3H;
+	dest->Cbus4H = src->Cbus4H;
+	dest->Cbus5H = src->Cbus5H;
+	dest->Cbus6H = src->Cbus6H;
+	dest->Cbus7H = src->Cbus7H;
+	dest->Cbus8H = src->Cbus8H;
+	dest->Cbus9H = src->Cbus9H;
+	dest->IsFifoH = src->IsFifoH;
+	dest->IsFifoTarH = src->IsFifoTarH;
+	dest->IsFastSerH = src->IsFastSerH;
+	dest->IsFT1248H = src->IsFT1248H;
+	dest->FT1248CpolH = src->FT1248CpolH;
+	dest->FT1248LsbH = src->FT1248LsbH;
+	dest->FT1248FlowControlH = src->FT1248FlowControlH;
+	dest->IsVCPH = src->IsVCPH;
+	dest->PowerSaveEnableH = src->PowerSaveEnableH;
+}
+
+void config_to_ft(PFT_PROGRAM_DATA dest, CONFIG_DATA* src) {
+	dest->Signature1 = src->Signature1;
+	dest->Signature2 = src->Signature2;
+	dest->Version = src->Version;
+	dest->VendorId = src->VendorId;
+	dest->ProductId = src->ProductId;
+	dest->MaxPower = src->MaxPower;
+	dest->PnP = src->PnP;
+	dest->SelfPowered = src->SelfPowered;
+	dest->RemoteWakeup = src->RemoteWakeup;
+	dest->Rev4 = src->Rev4;
+	dest->IsoIn = src->IsoIn;
+	dest->IsoOut = src->IsoOut;
+	dest->PullDownEnable = src->PullDownEnable;
+	dest->SerNumEnable = src->SerNumEnable;
+	dest->USBVersionEnable = src->USBVersionEnable;
+	dest->USBVersion = src->USBVersion;
+	dest->Rev5 = src->Rev5;
+	dest->IsoInA = src->IsoInA;
+	dest->IsoInB = src->IsoInB;
+	dest->IsoOutA = src->IsoOutA;
+	dest->IsoOutB = src->IsoOutB;
+	dest->PullDownEnable5 = src->PullDownEnable5;
+	dest->SerNumEnable5 = src->SerNumEnable5;
+	dest->USBVersionEnable5 = src->USBVersionEnable5;
+	dest->USBVersion5 = src->USBVersion5;
+	dest->AIsHighCurrent = src->AIsHighCurrent;
+	dest->BIsHighCurrent = src->BIsHighCurrent;
+	dest->IFAIsFifo = src->IFAIsFifo;
+	dest->IFAIsFifoTar = src->IFAIsFifoTar;
+	dest->IFAIsFastSer = src->IFAIsFastSer;
+	dest->AIsVCP = src->AIsVCP;
+	dest->IFBIsFifo = src->IFBIsFifo;
+	dest->IFBIsFifoTar = src->IFBIsFifoTar;
+	dest->IFBIsFastSer = src->IFBIsFastSer;
+	dest->BIsVCP = src->BIsVCP;
+	dest->UseExtOsc = src->UseExtOsc;
+	dest->HighDriveIOs = src->HighDriveIOs;
+	dest->EndpointSize = src->EndpointSize;
+	dest->PullDownEnableR = src->PullDownEnableR;
+	dest->SerNumEnableR = src->SerNumEnableR;
+	dest->InvertTXD = src->InvertTXD;
+	dest->InvertRXD = src->InvertRXD;
+	dest->InvertRTS = src->InvertRTS;
+	dest->InvertCTS = src->InvertCTS;
+	dest->InvertDTR = src->InvertDTR;
+	dest->InvertDSR = src->InvertDSR;
+	dest->InvertDCD = src->InvertDCD;
+	dest->InvertRI = src->InvertRI;
+	dest->Cbus0 = src->Cbus0;
+	dest->Cbus1 = src->Cbus1;
+	dest->Cbus2 = src->Cbus2;
+	dest->Cbus3 = src->Cbus3;
+	dest->Cbus4 = src->Cbus4;
+	dest->RIsD2XX = src->RIsD2XX;
+	dest->PullDownEnable7 = src->PullDownEnable7;
+	dest->SerNumEnable7 = src->SerNumEnable7;
+	dest->ALSlowSlew = src->ALSlowSlew;
+	dest->ALSchmittInput = src->ALSchmittInput;
+	dest->ALDriveCurrent = src->ALDriveCurrent;
+	dest->AHSlowSlew = src->AHSlowSlew;
+	dest->AHSchmittInput = src->AHSchmittInput;
+	dest->AHDriveCurrent = src->AHDriveCurrent;
+	dest->BLSlowSlew = src->BLSlowSlew;
+	dest->BLSchmittInput = src->BLSchmittInput;
+	dest->BLDriveCurrent = src->BLDriveCurrent;
+	dest->BHSlowSlew = src->BHSlowSlew;
+	dest->BHSchmittInput = src->BHSchmittInput;
+	dest->BHDriveCurrent = src->BHDriveCurrent;
+	dest->IFAIsFifo7 = src->IFAIsFifo7;
+	dest->IFAIsFifoTar7 = src->IFAIsFifoTar7;
+	dest->IFAIsFastSer7 = src->IFAIsFastSer7;
+	dest->AIsVCP7 = src->AIsVCP7;
+	dest->IFBIsFifo7 = src->IFBIsFifo7;
+	dest->IFBIsFifoTar7 = src->IFBIsFifoTar7;
+	dest->IFBIsFastSer7 = src->IFBIsFastSer7;
+	dest->BIsVCP7 = src->BIsVCP7;
+	dest->PowerSaveEnable = src->PowerSaveEnable;
+	dest->PullDownEnable8 = src->PullDownEnable8;
+	dest->SerNumEnable8 = src->SerNumEnable8;
+	dest->ASlowSlew = src->ASlowSlew;
+	dest->ASchmittInput = src->ASchmittInput;
+	dest->ADriveCurrent = src->ADriveCurrent;
+	dest->BSlowSlew = src->BSlowSlew;
+	dest->BSchmittInput = src->BSchmittInput;
+	dest->BDriveCurrent = src->BDriveCurrent;
+	dest->CSlowSlew = src->CSlowSlew;
+	dest->CSchmittInput = src->CSchmittInput;
+	dest->CDriveCurrent = src->CDriveCurrent;
+	dest->DSlowSlew = src->DSlowSlew;
+	dest->DSchmittInput = src->DSchmittInput;
+	dest->DDriveCurrent = src->DDriveCurrent;
+	dest->ARIIsTXDEN = src->ARIIsTXDEN;
+	dest->BRIIsTXDEN = src->BRIIsTXDEN;
+	dest->CRIIsTXDEN = src->CRIIsTXDEN;
+	dest->DRIIsTXDEN = src->DRIIsTXDEN;
+	dest->AIsVCP8 = src->AIsVCP8;
+	dest->BIsVCP8 = src->BIsVCP8;
+	dest->CIsVCP8 = src->CIsVCP8;
+	dest->DIsVCP8 = src->DIsVCP8;
+	dest->PullDownEnableH = src->PullDownEnableH;
+	dest->SerNumEnableH = src->SerNumEnableH;
+	dest->ACSlowSlewH = src->ACSlowSlewH;
+	dest->ACSchmittInputH = src->ACSchmittInputH;
+	dest->ACDriveCurrentH = src->ACDriveCurrentH;
+	dest->ADSlowSlewH = src->ADSlowSlewH;
+	dest->ADSchmittInputH = src->ADSchmittInputH;
+	dest->ADDriveCurrentH = src->ADDriveCurrentH;
+	dest->Cbus0H = src->Cbus0H;
+	dest->Cbus1H = src->Cbus1H;
+	dest->Cbus2H = src->Cbus2H;
+	dest->Cbus3H = src->Cbus3H;
+	dest->Cbus4H = src->Cbus4H;
+	dest->Cbus5H = src->Cbus5H;
+	dest->Cbus6H = src->Cbus6H;
+	dest->Cbus7H = src->Cbus7H;
+	dest->Cbus8H = src->Cbus8H;
+	dest->Cbus9H = src->Cbus9H;
+	dest->IsFifoH = src->IsFifoH;
+	dest->IsFifoTarH = src->IsFifoTarH;
+	dest->IsFastSerH = src->IsFastSerH;
+	dest->IsFT1248H = src->IsFT1248H;
+	dest->FT1248CpolH = src->FT1248CpolH;
+	dest->FT1248LsbH = src->FT1248LsbH;
+	dest->FT1248FlowControlH = src->FT1248FlowControlH;
+	dest->IsVCPH = src->IsVCPH;
+	dest->PowerSaveEnableH = src->PowerSaveEnableH;
+}
--- a/alchitry-loader/src/config_type.h
+++ b/alchitry-loader/src/config_type.h
@ -0,0 +1,177 @@
+/*
+ * config_def.h
+ *
+ *  Created on: Feb 11, 2019
+ *      Author: justin
+ */
+
+#ifndef CONFIG_TYPE_H_
+#define CONFIG_TYPE_H_
+
+#ifdef _WIN32
+#include <windows.h>
+#else
+#include "WinTypes.h"
+#endif
+#include "ftd2xx.h"
+
+typedef struct config_data {
+
+		DWORD Signature1;			// Header - must be 0x00000000
+		DWORD Signature2;			// Header - must be 0xffffffff
+		DWORD Version;				// Header - FT_PROGRAM_DATA version
+		//			0 = original
+		//			1 = FT2232 extensions
+		//			2 = FT232R extensions
+		//			3 = FT2232H extensions
+		//			4 = FT4232H extensions
+		//			5 = FT232H extensions
+
+		WORD VendorId;				// 0x0403
+		WORD ProductId;				// 0x6001
+		WORD MaxPower;				// 0 < MaxPower <= 500
+		WORD PnP;					// 0 = disabled, 1 = enabled
+		WORD SelfPowered;			// 0 = bus powered, 1 = self powered
+		WORD RemoteWakeup;			// 0 = not capable, 1 = capable
+		//
+		// Rev4 (FT232B) extensions
+		//
+		UCHAR Rev4;					// non-zero if Rev4 chip, zero otherwise
+		UCHAR IsoIn;				// non-zero if in endpoint is isochronous
+		UCHAR IsoOut;				// non-zero if out endpoint is isochronous
+		UCHAR PullDownEnable;		// non-zero if pull down enabled
+		UCHAR SerNumEnable;			// non-zero if serial number to be used
+		UCHAR USBVersionEnable;		// non-zero if chip uses USBVersion
+		WORD USBVersion;			// BCD (0x0200 => USB2)
+		//
+		// Rev 5 (FT2232) extensions
+		//
+		UCHAR Rev5;					// non-zero if Rev5 chip, zero otherwise
+		UCHAR IsoInA;				// non-zero if in endpoint is isochronous
+		UCHAR IsoInB;				// non-zero if in endpoint is isochronous
+		UCHAR IsoOutA;				// non-zero if out endpoint is isochronous
+		UCHAR IsoOutB;				// non-zero if out endpoint is isochronous
+		UCHAR PullDownEnable5;		// non-zero if pull down enabled
+		UCHAR SerNumEnable5;		// non-zero if serial number to be used
+		UCHAR USBVersionEnable5;	// non-zero if chip uses USBVersion
+		WORD USBVersion5;			// BCD (0x0200 => USB2)
+		UCHAR AIsHighCurrent;		// non-zero if interface is high current
+		UCHAR BIsHighCurrent;		// non-zero if interface is high current
+		UCHAR IFAIsFifo;			// non-zero if interface is 245 FIFO
+		UCHAR IFAIsFifoTar;			// non-zero if interface is 245 FIFO CPU target
+		UCHAR IFAIsFastSer;			// non-zero if interface is Fast serial
+		UCHAR AIsVCP;				// non-zero if interface is to use VCP drivers
+		UCHAR IFBIsFifo;			// non-zero if interface is 245 FIFO
+		UCHAR IFBIsFifoTar;			// non-zero if interface is 245 FIFO CPU target
+		UCHAR IFBIsFastSer;			// non-zero if interface is Fast serial
+		UCHAR BIsVCP;				// non-zero if interface is to use VCP drivers
+		//
+		// Rev 6 (FT232R) extensions
+		//
+		UCHAR UseExtOsc;			// Use External Oscillator
+		UCHAR HighDriveIOs;			// High Drive I/Os
+		UCHAR EndpointSize;			// Endpoint size
+		UCHAR PullDownEnableR;		// non-zero if pull down enabled
+		UCHAR SerNumEnableR;		// non-zero if serial number to be used
+		UCHAR InvertTXD;			// non-zero if invert TXD
+		UCHAR InvertRXD;			// non-zero if invert RXD
+		UCHAR InvertRTS;			// non-zero if invert RTS
+		UCHAR InvertCTS;			// non-zero if invert CTS
+		UCHAR InvertDTR;			// non-zero if invert DTR
+		UCHAR InvertDSR;			// non-zero if invert DSR
+		UCHAR InvertDCD;			// non-zero if invert DCD
+		UCHAR InvertRI;				// non-zero if invert RI
+		UCHAR Cbus0;				// Cbus Mux control
+		UCHAR Cbus1;				// Cbus Mux control
+		UCHAR Cbus2;				// Cbus Mux control
+		UCHAR Cbus3;				// Cbus Mux control
+		UCHAR Cbus4;				// Cbus Mux control
+		UCHAR RIsD2XX;				// non-zero if using D2XX driver
+		//
+		// Rev 7 (FT2232H) Extensions
+		//
+		UCHAR PullDownEnable7;		// non-zero if pull down enabled
+		UCHAR SerNumEnable7;		// non-zero if serial number to be used
+		UCHAR ALSlowSlew;			// non-zero if AL pins have slow slew
+		UCHAR ALSchmittInput;		// non-zero if AL pins are Schmitt input
+		UCHAR ALDriveCurrent;		// valid values are 4mA, 8mA, 12mA, 16mA
+		UCHAR AHSlowSlew;			// non-zero if AH pins have slow slew
+		UCHAR AHSchmittInput;		// non-zero if AH pins are Schmitt input
+		UCHAR AHDriveCurrent;		// valid values are 4mA, 8mA, 12mA, 16mA
+		UCHAR BLSlowSlew;			// non-zero if BL pins have slow slew
+		UCHAR BLSchmittInput;		// non-zero if BL pins are Schmitt input
+		UCHAR BLDriveCurrent;		// valid values are 4mA, 8mA, 12mA, 16mA
+		UCHAR BHSlowSlew;			// non-zero if BH pins have slow slew
+		UCHAR BHSchmittInput;		// non-zero if BH pins are Schmitt input
+		UCHAR BHDriveCurrent;		// valid values are 4mA, 8mA, 12mA, 16mA
+		UCHAR IFAIsFifo7;			// non-zero if interface is 245 FIFO
+		UCHAR IFAIsFifoTar7;		// non-zero if interface is 245 FIFO CPU target
+		UCHAR IFAIsFastSer7;		// non-zero if interface is Fast serial
+		UCHAR AIsVCP7;				// non-zero if interface is to use VCP drivers
+		UCHAR IFBIsFifo7;			// non-zero if interface is 245 FIFO
+		UCHAR IFBIsFifoTar7;		// non-zero if interface is 245 FIFO CPU target
+		UCHAR IFBIsFastSer7;		// non-zero if interface is Fast serial
+		UCHAR BIsVCP7;				// non-zero if interface is to use VCP drivers
+		UCHAR PowerSaveEnable;		// non-zero if using BCBUS7 to save power for self-powered designs
+		//
+		// Rev 8 (FT4232H) Extensions
+		//
+		UCHAR PullDownEnable8;		// non-zero if pull down enabled
+		UCHAR SerNumEnable8;		// non-zero if serial number to be used
+		UCHAR ASlowSlew;			// non-zero if A pins have slow slew
+		UCHAR ASchmittInput;		// non-zero if A pins are Schmitt input
+		UCHAR ADriveCurrent;		// valid values are 4mA, 8mA, 12mA, 16mA
+		UCHAR BSlowSlew;			// non-zero if B pins have slow slew
+		UCHAR BSchmittInput;		// non-zero if B pins are Schmitt input
+		UCHAR BDriveCurrent;		// valid values are 4mA, 8mA, 12mA, 16mA
+		UCHAR CSlowSlew;			// non-zero if C pins have slow slew
+		UCHAR CSchmittInput;		// non-zero if C pins are Schmitt input
+		UCHAR CDriveCurrent;		// valid values are 4mA, 8mA, 12mA, 16mA
+		UCHAR DSlowSlew;			// non-zero if D pins have slow slew
+		UCHAR DSchmittInput;		// non-zero if D pins are Schmitt input
+		UCHAR DDriveCurrent;		// valid values are 4mA, 8mA, 12mA, 16mA
+		UCHAR ARIIsTXDEN;			// non-zero if port A uses RI as RS485 TXDEN
+		UCHAR BRIIsTXDEN;			// non-zero if port B uses RI as RS485 TXDEN
+		UCHAR CRIIsTXDEN;			// non-zero if port C uses RI as RS485 TXDEN
+		UCHAR DRIIsTXDEN;			// non-zero if port D uses RI as RS485 TXDEN
+		UCHAR AIsVCP8;				// non-zero if interface is to use VCP drivers
+		UCHAR BIsVCP8;				// non-zero if interface is to use VCP drivers
+		UCHAR CIsVCP8;				// non-zero if interface is to use VCP drivers
+		UCHAR DIsVCP8;				// non-zero if interface is to use VCP drivers
+		//
+		// Rev 9 (FT232H) Extensions
+		//
+		UCHAR PullDownEnableH;		// non-zero if pull down enabled
+		UCHAR SerNumEnableH;		// non-zero if serial number to be used
+		UCHAR ACSlowSlewH;			// non-zero if AC pins have slow slew
+		UCHAR ACSchmittInputH;		// non-zero if AC pins are Schmitt input
+		UCHAR ACDriveCurrentH;		// valid values are 4mA, 8mA, 12mA, 16mA
+		UCHAR ADSlowSlewH;			// non-zero if AD pins have slow slew
+		UCHAR ADSchmittInputH;		// non-zero if AD pins are Schmitt input
+		UCHAR ADDriveCurrentH;		// valid values are 4mA, 8mA, 12mA, 16mA
+		UCHAR Cbus0H;				// Cbus Mux control
+		UCHAR Cbus1H;				// Cbus Mux control
+		UCHAR Cbus2H;				// Cbus Mux control
+		UCHAR Cbus3H;				// Cbus Mux control
+		UCHAR Cbus4H;				// Cbus Mux control
+		UCHAR Cbus5H;				// Cbus Mux control
+		UCHAR Cbus6H;				// Cbus Mux control
+		UCHAR Cbus7H;				// Cbus Mux control
+		UCHAR Cbus8H;				// Cbus Mux control
+		UCHAR Cbus9H;				// Cbus Mux control
+		UCHAR IsFifoH;				// non-zero if interface is 245 FIFO
+		UCHAR IsFifoTarH;			// non-zero if interface is 245 FIFO CPU target
+		UCHAR IsFastSerH;			// non-zero if interface is Fast serial
+		UCHAR IsFT1248H;			// non-zero if interface is FT1248
+		UCHAR FT1248CpolH;			// FT1248 clock polarity - clock idle high (1) or clock idle low (0)
+		UCHAR FT1248LsbH;			// FT1248 data is LSB (1) or MSB (0)
+		UCHAR FT1248FlowControlH;	// FT1248 flow control enable
+		UCHAR IsVCPH;				// non-zero if interface is to use VCP drivers
+		UCHAR PowerSaveEnableH;		// non-zero if using ACBUS7 to save power for self-powered designs
+
+	} CONFIG_DATA;
+
+	void ft_to_config(CONFIG_DATA*, PFT_PROGRAM_DATA);
+	void config_to_ft(PFT_PROGRAM_DATA, CONFIG_DATA*);
+
+#endif /* CONFIG_TYPE_H_ */
--- a/alchitry-loader/src/ftd2xx.h
+++ b/alchitry-loader/src/ftd2xx.h
--- a/alchitry-loader/src/jtag.cpp
+++ b/alchitry-loader/src/jtag.cpp
@ -0,0 +1,781 @@
+/*
+ * jtag.cpp
+ *
+ *  Created on: May 24, 2017
+ *      Author: justin
+ */
+
+#include "jtag.h"
+#include <unistd.h>
+#include <iostream>
+#include <iomanip>
+#include <string>
+#include <sstream>
+#ifdef _WIN32
+#include "mingw.thread.h"
+#else
+#include <thread>
+#endif
+
+#include <chrono>
+
+using namespace std;
+
+Jtag::Jtag() {
+	ftHandle = 0;
+	active = false;
+}
+
+FT_STATUS Jtag::connect(unsigned int devNumber) {
+	return FT_Open(devNumber, &ftHandle);
+}
+
+FT_STATUS Jtag::disconnect() {
+	active = false;
+	return FT_Close(ftHandle);
+}
+
+bool Jtag::initialize() {
+	BYTE byInputBuffer[1024]; // Buffer to hold data read from the FT2232H
+	DWORD dwNumBytesToRead = 0; // Number of bytes available to read in the driver's input buffer
+	DWORD dwNumBytesRead = 0; // Count of actual bytes read - used with FT_Read
+	FT_STATUS ftStatus;
+	ftStatus = FT_ResetDevice(ftHandle);
+	//Reset USB device
+	//Purge USB receive buffer first by reading out all old data from FT2232H receive buffer
+	ftStatus |= FT_GetQueueStatus(ftHandle, &dwNumBytesToRead);	// Get the number of bytes in the FT2232H receive buffer
+	if ((ftStatus == FT_OK) && (dwNumBytesToRead > 0))
+		FT_Read(ftHandle, &byInputBuffer, dwNumBytesToRead, &dwNumBytesRead);//Read out the data from FT2232H receive buffer
+	ftStatus |= FT_SetUSBParameters(ftHandle, 65536, 65535);//Set USB request transfer sizes to 64K
+	ftStatus |= FT_SetChars(ftHandle, false, 0, false, 0); //Disable event and error characters
+	ftStatus |= FT_SetTimeouts(ftHandle, 0, 5000); //Sets the read and write timeouts in milliseconds
+	ftStatus |= FT_SetLatencyTimer(ftHandle, 16); //Set the latency timer (default is 16mS)
+	ftStatus |= FT_SetBitMode(ftHandle, 0x0, 0x00);	        //Reset controller
+	ftStatus |= FT_SetBitMode(ftHandle, 0x0, 0x02);	        //Enable MPSSE mode
+
+	if (ftStatus != FT_OK) {
+		cerr << "Failed to set initial configuration!" << endl;
+		return false;
+	}
+
+	std::this_thread::sleep_for(std::chrono::milliseconds(100)); // Wait for all the USB stuff to complete and work
+
+	if (!sync_mpsse()) {
+		cerr << "Failed to sync with MPSSE!" << endl;
+		return false;
+	}
+
+	if (!config_jtag()) {
+		cerr << "Failed to set JTAG configuration!" << endl;
+		return false;
+	}
+
+	active = true;
+
+	return true;
+}
+
+bool Jtag::sync_mpsse() {
+	BYTE byOutputBuffer[8]; // Buffer to hold MPSSE commands and data to be sent to the FT2232H
+	BYTE byInputBuffer[8]; // Buffer to hold data read from the FT2232H
+	DWORD dwCount = 0; // General loop index
+	DWORD dwNumBytesToSend = 0; // Index to the output buffer
+	DWORD dwNumBytesSent = 0; // Count of actual bytes sent - used with FT_Write
+	DWORD dwNumBytesToRead = 0; // Number of bytes available to read in the driver's input buffer
+	DWORD dwNumBytesRead = 0; // Count of actual bytes read - used with FT_Read
+	FT_STATUS ftStatus;
+
+	byOutputBuffer[dwNumBytesToSend++] = 0xAA;	//'\xAA';
+	//Add bogus command ‘xAA’ to the queue
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	if (ftStatus != FT_OK)
+		cerr << "Failed to send bad command" << endl;
+	// Send off the BAD commands
+	dwNumBytesToSend = 0; // Reset output buffer pointer
+	do {
+		ftStatus = FT_GetQueueStatus(ftHandle, &dwNumBytesToRead);
+		if (ftStatus != FT_OK)
+			cerr << "Failed to get queue status " << ftStatus << endl;
+		// Get the number of bytes in the device input buffer
+	} while ((dwNumBytesToRead == 0) && (ftStatus == FT_OK));
+	if (dwNumBytesRead > 8) {
+		cerr << "Input buffer too small in sync_mpsse()!" << endl;
+		return false;
+	}
+	//or Timeout
+	bool bCommandEchod = false;
+	ftStatus = FT_Read(ftHandle, &byInputBuffer, dwNumBytesToRead,
+			&dwNumBytesRead);
+
+	if (ftStatus != FT_OK)
+		cerr << "Failed to read data" << endl;
+
+	//Read out the data from input buffer
+	for (dwCount = 0; dwCount < dwNumBytesRead - 1; dwCount++)
+	//Check if Bad command and echo command received
+			{
+		if ((byInputBuffer[dwCount] == 0xFA)
+				&& (byInputBuffer[dwCount + 1] == 0xAA)) {
+			bCommandEchod = true;
+			break;
+		}
+	}
+
+	return bCommandEchod;
+}
+
+bool Jtag::config_jtag() {
+	FT_STATUS ftStatus;
+	BYTE byOutputBuffer[64]; // Buffer to hold MPSSE commands and data to be sent to the FT2232H
+	DWORD dwNumBytesToSend = 0; // Index to the output buffer
+	DWORD dwNumBytesSent = 0; // Count of actual bytes sent - used with FT_Write
+	DWORD dwClockDivisor = 0x05DB; // Value of clock divisor, SCL Frequency = 60/((1+0x05DB)*2) (MHz) = 20khz
+	// -----------------------------------------------------------
+	// Configure the MPSSE settings for JTAG
+	// Multiple commands can be sent to the MPSSE with one FT_Write
+	// -----------------------------------------------------------
+	dwNumBytesToSend = 0; // Start with a fresh index
+	// Set up the Hi-Speed specific commands for the FTx232H
+	byOutputBuffer[dwNumBytesToSend++] = 0x8A;
+	// Use 60MHz master clock (disable divide by 5)
+	byOutputBuffer[dwNumBytesToSend++] = 0x97;
+	// Turn off adaptive clocking (may be needed for ARM)
+	byOutputBuffer[dwNumBytesToSend++] = 0x8D;
+	// Disable three-phase clocking
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	// Send off the HS-specific commands
+
+	if (ftStatus != FT_OK)
+		return false;
+
+	dwNumBytesToSend = 0; // Reset output buffer pointer
+	// Set initial states of the MPSSE interface - low byte, both pin directions and output values
+	// Pin name Signal Direction Config Initial State Config
+	// ADBUS0 TCK output 1 low 0
+	// ADBUS1 TDI output 1 low 0
+	// ADBUS2 TDO input 0 0
+	// ADBUS3 TMS output 1 high 1
+	// ADBUS4 GPIOL0 input 0 0
+	// ADBUS5 GPIOL1 input 0 0
+	// ADBUS6 GPIOL2 input 0 0
+	// ADBUS7 GPIOL3 input 0 0
+	byOutputBuffer[dwNumBytesToSend++] = 0x80;
+	// Set data bits low-byte of MPSSE port
+	byOutputBuffer[dwNumBytesToSend++] = 0x08;
+	// Initial state config above
+	byOutputBuffer[dwNumBytesToSend++] = 0x0B;
+	// Direction config above
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	// Send off the low GPIO config commands
+
+	if (ftStatus != FT_OK)
+		return false;
+
+	dwNumBytesToSend = 0; // Reset output buffer pointer
+	// Set initial states of the MPSSE interface - high byte, both pin directions and output values
+	// Pin name Signal Direction Config Initial State Config
+	// ACBUS0 GPIOH0 input 0 0
+	// ACBUS1 GPIOH1 input 0 0
+	// ACBUS2 GPIOH2 input 0 0
+	// ACBUS3 GPIOH3 input 0 0
+	// ACBUS4 GPIOH4 input 0 0
+	// ACBUS5 GPIOH5 input 0 0
+	// ACBUS6 GPIOH6 input 0 0
+	// ACBUS7 GPIOH7 input 0 0
+	byOutputBuffer[dwNumBytesToSend++] = 0x82;
+	// Set data bits low-byte of MPSSE port
+	byOutputBuffer[dwNumBytesToSend++] = 0x00;
+	// Initial state config above
+	byOutputBuffer[dwNumBytesToSend++] = 0x00;
+	// Direction config above
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	// Send off the high GPIO config commands
+
+	if (ftStatus != FT_OK)
+		return false;
+
+	dwNumBytesToSend = 0; // Reset output buffer pointer
+	// Set TCK frequency
+	// TCK = 60MHz /((1 + [(1 +0xValueH*256) OR 0xValueL])*2)
+	byOutputBuffer[dwNumBytesToSend++] = 0x86;
+	//Command to set clock divisor
+	byOutputBuffer[dwNumBytesToSend++] = dwClockDivisor & 0xFF;
+	//Set 0xValueL of clock divisor
+	byOutputBuffer[dwNumBytesToSend++] = (dwClockDivisor >> 8) & 0xFF;
+	//Set 0xValueH of clock divisor
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	// Send off the clock divisor commands
+
+	if (ftStatus != FT_OK)
+		return false;
+
+	dwNumBytesToSend = 0; // Reset output buffer pointer
+	// Disable internal loop-back
+	byOutputBuffer[dwNumBytesToSend++] = 0x85;
+	// Disable loopback
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	// Send off the loopback command
+
+	if (ftStatus != FT_OK)
+		return false;
+
+	return true;
+}
+
+bool Jtag::setFreq(double freq) {
+	if (!active) {
+		cerr
+				<< "Jtag must be connected and initialized before calling setFreq()!"
+				<< endl;
+		return false;
+	}
+	FT_STATUS ftStatus;
+	BYTE byOutputBuffer[8]; // Buffer to hold MPSSE commands and data to be sent to the FT2232H
+	DWORD dwNumBytesToSend = 0; // Index to the output buffer
+	DWORD dwNumBytesSent = 0; // Count of actual bytes sent - used with FT_Write
+	DWORD dwClockDivisor; // Value of clock divisor, SCL Frequency = 60/((1+clkDiv)*2) (MHz)
+
+	dwClockDivisor = 30.0 / (freq / 1000000.0) - 1.0;
+
+	// Set TCK frequency
+	// TCK = 60MHz /((1 + [(1 +0xValueH*256) OR 0xValueL])*2)
+	byOutputBuffer[dwNumBytesToSend++] = 0x86;
+	//Command to set clock divisor
+	byOutputBuffer[dwNumBytesToSend++] = dwClockDivisor & 0xFF;
+	//Set 0xValueL of clock divisor
+	byOutputBuffer[dwNumBytesToSend++] = (dwClockDivisor >> 8) & 0xFF;
+	//Set 0xValueH of clock divisor
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	// Send off the clock divisor commands
+
+	if (ftStatus != FT_OK)
+		return false;
+	return true;
+}
+
+bool Jtag::navigateToState(Jtag_fsm::State init, Jtag_fsm::State dest) {
+	FT_STATUS ftStatus;
+	BYTE byOutputBuffer[3]; // Buffer to hold MPSSE commands and data to be sent to the FT2232H
+	DWORD dwNumBytesSent = 0; // Count of actual bytes sent - used with FT_Write
+
+	Jtag_fsm::Transistions transistions = Jtag_fsm::getTransitions(init, dest);
+
+	if (transistions.moves > 0) {
+		if (transistions.moves < 8) {
+			byOutputBuffer[0] = 0x4B;
+			byOutputBuffer[1] = transistions.moves - 1;
+			byOutputBuffer[2] = 0x7f & transistions.tms;
+			ftStatus = FT_Write(ftHandle, byOutputBuffer, 3, &dwNumBytesSent);
+			if (ftStatus != FT_OK)
+				return false;
+		} else {
+			cout << "Transition of 8 moves!" << endl;
+			byOutputBuffer[0] = 0x4B;
+			byOutputBuffer[1] = 6;
+			byOutputBuffer[2] = 0x7f & transistions.tms;
+			ftStatus = FT_Write(ftHandle, byOutputBuffer, 3, &dwNumBytesSent);
+			if (ftStatus != FT_OK)
+				return false;
+			byOutputBuffer[0] = 0x4B;
+			byOutputBuffer[1] = transistions.moves - 8;
+			byOutputBuffer[2] = 0x7f & (transistions.tms >> 7);
+			ftStatus = FT_Write(ftHandle, byOutputBuffer, 3, &dwNumBytesSent);
+			if (ftStatus != FT_OK)
+				return false;
+		}
+	}
+	return true;
+}
+
+bool Jtag::shiftData(unsigned int bitCount, string tdi, string tdo,
+		string mask) {
+	FT_STATUS ftStatus;
+	unsigned int reqBytes = bitCount / 8 + (bitCount % 8 > 0);
+	BYTE *byOutputBuffer = new BYTE[reqBytes + 3];
+	BYTE *tdoBuffer = new BYTE[reqBytes + 3];
+	BYTE *byInputBuffer = new BYTE[reqBytes + 6];
+	DWORD dwNumBytesSent = 0;
+	DWORD dwNumBytesToRead = 0;
+	DWORD dwNumBytesRead = 0;
+	DWORD tdoBytes = 0;
+
+	unsigned int reqHex = bitCount / 4 + (bitCount % 4 > 0);
+
+	if (tdi.length() < reqHex)
+		return false;
+	bool read = tdo != "";
+	if (read) {
+		if (tdo.length() < reqHex) {
+			delete byOutputBuffer;
+			delete tdoBuffer;
+			delete byInputBuffer;
+			return false;
+		}
+		if (mask != "" && mask.length() < reqHex) {
+			delete byOutputBuffer;
+			delete tdoBuffer;
+			delete byInputBuffer;
+			return false;
+		}
+	}
+
+	if (!flush())
+		return false;
+
+	if (bitCount < 9) {
+		int data = stoi(tdi, 0, 16);
+		byOutputBuffer[0] = read ? 0x3B : 0x1B;
+		byOutputBuffer[1] = bitCount - 2;
+		byOutputBuffer[2] = data & 0xff;
+		ftStatus = FT_Write(ftHandle, byOutputBuffer, 3, &dwNumBytesSent);
+		if (ftStatus != FT_OK) {
+			delete byOutputBuffer;
+			delete tdoBuffer;
+			delete byInputBuffer;
+			return false;
+		}
+
+		BYTE lastBit = (data >> ((bitCount - 1) % 8)) & 0x01;
+
+		byOutputBuffer[0] = read ? 0x6E : 0x4E;
+		byOutputBuffer[1] = 0x00;
+		byOutputBuffer[2] = 0x03 | (lastBit << 7);
+		ftStatus = FT_Write(ftHandle, byOutputBuffer, 3, &dwNumBytesSent);
+		if (ftStatus != FT_OK) {
+			delete byOutputBuffer;
+			delete tdoBuffer;
+			delete byInputBuffer;
+			return false;
+		}
+
+		if (read) {
+			do {
+				ftStatus = FT_GetQueueStatus(ftHandle, &dwNumBytesToRead);
+				// Get the number of bytes in the device input buffer
+			} while ((dwNumBytesToRead == 0) && (ftStatus == FT_OK));
+			//or Timeout
+			ftStatus = FT_Read(ftHandle, byInputBuffer, dwNumBytesToRead,
+					&dwNumBytesRead);
+			if (ftStatus != FT_OK) {
+				delete byOutputBuffer;
+				delete tdoBuffer;
+				delete byInputBuffer;
+				return false;
+			}
+
+			tdoBuffer[0] = byInputBuffer[0] >> (8 - (bitCount - 1));
+			tdoBuffer[0] |= byInputBuffer[1] >> (7 - (bitCount - 1));
+			tdoBytes = 1;
+		}
+	} else {
+		BYTE *tdiBytes = new BYTE[reqBytes + 1];
+		hexToByte(tdi, tdiBytes);
+
+		unsigned int fullBytes = (bitCount - 1) / 8;
+		unsigned int remBytes = fullBytes;
+		unsigned int offset = 0;
+
+		if (fullBytes > 65536 && read) {
+			cout << "Large transfers with reads may not work!" << endl;
+		}
+
+		while (remBytes > 0) {
+			unsigned int bct = remBytes > 65536 ? 65536 : remBytes;
+			byOutputBuffer[0] = read ? 0x39 : 0x19;
+			byOutputBuffer[1] = (bct - 1) & 0xff;
+			byOutputBuffer[2] = ((bct - 1) >> 8) & 0xff;
+
+			for (unsigned int i = 0; i < bct; i++) {
+				byOutputBuffer[3 + i] = tdiBytes[i + offset];
+			}
+
+			ftStatus = FT_Write(ftHandle, byOutputBuffer, 3 + bct,
+					&dwNumBytesSent);
+			if (ftStatus != FT_OK) {
+				delete byOutputBuffer;
+				delete tdoBuffer;
+				delete byInputBuffer;
+				delete tdiBytes;
+				return false;
+			}
+
+			remBytes -= bct;
+			offset += bct;
+		}
+
+		unsigned int partialBits = bitCount - 1 - (fullBytes * 8);
+
+		if (fullBytes * 8 + 1 != bitCount) {
+			byOutputBuffer[0] = read ? 0x3B : 0x1B;
+			byOutputBuffer[1] = partialBits - 1;
+			byOutputBuffer[2] = tdiBytes[reqBytes - 1] & 0xff;
+			ftStatus = FT_Write(ftHandle, byOutputBuffer, 3, &dwNumBytesSent);
+			if (ftStatus != FT_OK) {
+				delete byOutputBuffer;
+				delete tdoBuffer;
+				delete byInputBuffer;
+				delete tdiBytes;
+				return false;
+			}
+		}
+
+		BYTE lastBit = (tdiBytes[reqBytes - 1] >> ((bitCount - 1) % 8)) & 0x01;
+
+		byOutputBuffer[0] = read ? 0x6E : 0x4E;
+		byOutputBuffer[1] = 0x00;
+		byOutputBuffer[2] = 0x03 | (lastBit << 7);
+		ftStatus = FT_Write(ftHandle, byOutputBuffer, 3, &dwNumBytesSent);
+		if (ftStatus != FT_OK) {
+			delete byOutputBuffer;
+			delete tdoBuffer;
+			delete byInputBuffer;
+			delete tdiBytes;
+			return false;
+		}
+
+		if (read) {
+			DWORD bytesToRead = fullBytes
+					+ ((fullBytes * 8 + 1 != bitCount) ? 2 : 1);
+			do {
+				ftStatus = FT_GetQueueStatus(ftHandle, &dwNumBytesToRead);
+				// Get the number of bytes in the device input buffer
+			} while ((dwNumBytesToRead != bytesToRead) && (ftStatus == FT_OK));
+			//or Timeout
+			ftStatus = FT_Read(ftHandle, byInputBuffer, dwNumBytesToRead,
+					&dwNumBytesRead);
+			if (ftStatus != FT_OK) {
+				delete byOutputBuffer;
+				delete tdoBuffer;
+				delete byInputBuffer;
+				delete tdiBytes;
+				return false;
+			}
+
+			for (unsigned int i = 0; i < fullBytes; i++)
+				tdoBuffer[tdoBytes++] = byInputBuffer[i];
+
+			if (fullBytes * 8 + 1 != bitCount) {
+				tdoBuffer[tdoBytes] = byInputBuffer[tdoBytes]
+						>> (8 - partialBits);
+				tdoBuffer[tdoBytes++] |= byInputBuffer[dwNumBytesRead - 1]
+						>> (7 - partialBits);
+			} else {
+				tdoBuffer[tdoBytes++] = byInputBuffer[dwNumBytesRead - 1] >> 7;
+			}
+		}
+
+		delete tdiBytes;
+	}
+
+	if (read) {
+		//Read out the data from input buffer
+		std::stringstream ss;
+		for (int i = tdoBytes - 1; i >= 0; i--)
+			ss << setfill('0') << setw(2) << hex << (int) tdoBuffer[i];
+		string hexTdo = ss.str();
+		if (hexTdo.length() - 1 == mask.length())
+			hexTdo = hexTdo.substr(1, hexTdo.length() - 1);
+		if (!compareHexString(hexTdo, tdo, mask)) {
+			cerr << "TDO didn't match expected string. Got " << hexTdo
+					<< " expected " << tdo << " with mask " << mask << endl;
+
+			delete byOutputBuffer;
+			delete tdoBuffer;
+			delete byInputBuffer;
+			return false;
+
+		}
+	}
+
+	delete byOutputBuffer;
+	delete tdoBuffer;
+	delete byInputBuffer;
+	return true;
+}
+
+string Jtag::shiftData(unsigned int bitCount, string tdi) {
+	FT_STATUS ftStatus;
+	unsigned int reqBytes = bitCount / 8 + (bitCount % 8 > 0);
+	BYTE *byOutputBuffer = new BYTE[reqBytes + 3];
+	BYTE *tdoBuffer = new BYTE[reqBytes + 3];
+	BYTE *byInputBuffer = new BYTE[reqBytes + 6];
+	DWORD dwNumBytesSent = 0;
+	DWORD dwNumBytesToRead = 0;
+	DWORD dwNumBytesRead = 0;
+	DWORD tdoBytes = 0;
+
+	unsigned int reqHex = bitCount / 4 + (bitCount % 4 > 0);
+
+	if (tdi.length() < reqHex)
+		return "";
+
+	if (!flush())
+		return "";
+
+	if (bitCount < 9) {
+		int data = stoi(tdi, 0, 16);
+		byOutputBuffer[0] = 0x3B;
+		byOutputBuffer[1] = bitCount - 2;
+		byOutputBuffer[2] = data & 0xff;
+		ftStatus = FT_Write(ftHandle, byOutputBuffer, 3, &dwNumBytesSent);
+		if (ftStatus != FT_OK) {
+			delete byOutputBuffer;
+			delete tdoBuffer;
+			delete byInputBuffer;
+			return "";
+		}
+
+		BYTE lastBit = (data >> ((bitCount - 1) % 8)) & 0x01;
+
+		byOutputBuffer[0] = 0x6E;
+		byOutputBuffer[1] = 0x00;
+		byOutputBuffer[2] = 0x03 | (lastBit << 7);
+		ftStatus = FT_Write(ftHandle, byOutputBuffer, 3, &dwNumBytesSent);
+		if (ftStatus != FT_OK) {
+			delete byOutputBuffer;
+			delete tdoBuffer;
+			delete byInputBuffer;
+			return "";
+		}
+
+		do {
+			ftStatus = FT_GetQueueStatus(ftHandle, &dwNumBytesToRead);
+			// Get the number of bytes in the device input buffer
+		} while ((dwNumBytesToRead == 0) && (ftStatus == FT_OK));
+		//or Timeout
+		ftStatus = FT_Read(ftHandle, byInputBuffer, dwNumBytesToRead,
+				&dwNumBytesRead);
+		if (ftStatus != FT_OK) {
+			delete byOutputBuffer;
+			delete tdoBuffer;
+			delete byInputBuffer;
+			return "";
+		}
+
+		tdoBuffer[0] = byInputBuffer[0] >> (8 - (bitCount - 1));
+		tdoBuffer[0] |= byInputBuffer[1] >> (7 - (bitCount - 1));
+		tdoBytes = 1;
+
+	} else {
+		BYTE *tdiBytes = new BYTE[reqBytes + 1];
+		hexToByte(tdi, tdiBytes);
+
+		unsigned int fullBytes = (bitCount - 1) / 8;
+		unsigned int remBytes = fullBytes;
+		unsigned int offset = 0;
+
+		if (fullBytes > 65536) {
+			cout << "Large transfers with reads may not work!" << endl;
+		}
+
+		while (remBytes > 0) {
+			unsigned int bct = remBytes > 65536 ? 65536 : remBytes;
+			byOutputBuffer[0] = 0x39;
+			byOutputBuffer[1] = (bct - 1) & 0xff;
+			byOutputBuffer[2] = ((bct - 1) >> 8) & 0xff;
+
+			for (unsigned int i = 0; i < bct; i++) {
+				byOutputBuffer[3 + i] = tdiBytes[i + offset];
+			}
+
+			ftStatus = FT_Write(ftHandle, byOutputBuffer, 3 + bct,
+					&dwNumBytesSent);
+			if (ftStatus != FT_OK) {
+				delete byOutputBuffer;
+				delete tdoBuffer;
+				delete byInputBuffer;
+				delete tdiBytes;
+				return "";
+			}
+
+			remBytes -= bct;
+			offset += bct;
+		}
+
+		unsigned int partialBits = bitCount - 1 - (fullBytes * 8);
+
+		if (fullBytes * 8 + 1 != bitCount) {
+			byOutputBuffer[0] = 0x3B;
+			byOutputBuffer[1] = partialBits - 1;
+			byOutputBuffer[2] = tdiBytes[reqBytes - 1] & 0xff;
+			ftStatus = FT_Write(ftHandle, byOutputBuffer, 3, &dwNumBytesSent);
+			if (ftStatus != FT_OK) {
+				delete byOutputBuffer;
+				delete tdoBuffer;
+				delete byInputBuffer;
+				delete tdiBytes;
+				return "";
+			}
+		}
+
+		BYTE lastBit = (tdiBytes[reqBytes - 1] >> ((bitCount - 1) % 8)) & 0x01;
+
+		byOutputBuffer[0] = 0x6E;
+		byOutputBuffer[1] = 0x00;
+		byOutputBuffer[2] = 0x03 | (lastBit << 7);
+		ftStatus = FT_Write(ftHandle, byOutputBuffer, 3, &dwNumBytesSent);
+		if (ftStatus != FT_OK) {
+			delete byOutputBuffer;
+			delete tdoBuffer;
+			delete byInputBuffer;
+			delete tdiBytes;
+			return "";
+		}
+
+		DWORD bytesToRead = fullBytes
+				+ ((fullBytes * 8 + 1 != bitCount) ? 2 : 1);
+		do {
+			ftStatus = FT_GetQueueStatus(ftHandle, &dwNumBytesToRead);
+			// Get the number of bytes in the device input buffer
+		} while ((dwNumBytesToRead != bytesToRead) && (ftStatus == FT_OK));
+		//or Timeout
+		ftStatus = FT_Read(ftHandle, byInputBuffer, dwNumBytesToRead,
+				&dwNumBytesRead);
+		if (ftStatus != FT_OK) {
+			delete byOutputBuffer;
+			delete tdoBuffer;
+			delete byInputBuffer;
+			delete tdiBytes;
+			return "";
+		}
+
+		for (unsigned int i = 0; i < fullBytes; i++)
+			tdoBuffer[tdoBytes++] = byInputBuffer[i];
+
+		if (fullBytes * 8 + 1 != bitCount) {
+			tdoBuffer[tdoBytes] = byInputBuffer[tdoBytes] >> (8 - partialBits);
+			tdoBuffer[tdoBytes++] |= byInputBuffer[dwNumBytesRead - 1]
+					>> (7 - partialBits);
+		} else {
+			tdoBuffer[tdoBytes++] = byInputBuffer[dwNumBytesRead - 1] >> 7;
+		}
+
+		delete tdiBytes;
+	}
+
+	//Read out the data from input buffer
+	std::stringstream ss;
+	for (int i = tdoBytes - 1; i >= 0; i--)
+		ss << setfill('0') << setw(2) << hex << (int) tdoBuffer[i];
+	string hexTdo = ss.str();
+	if (hexTdo.length() - 1 == tdi.length())
+		hexTdo = hexTdo.substr(1, hexTdo.length() - 1);
+
+	delete byOutputBuffer;
+	delete tdoBuffer;
+	delete byInputBuffer;
+	return hexTdo;
+}
+
+bool Jtag::sendClocks(unsigned long cycles) {
+	BYTE byOutputBuffer[3];
+	DWORD dwNumBytesSent;
+	FT_STATUS ftStatus;
+
+	if (cycles / 8 > 65536) {
+		if (!sendClocks(cycles - 65536 * 8))
+			return false;
+		cycles = 65536 * 8;
+	}
+
+	cycles /= 8;
+
+	byOutputBuffer[0] = 0x8F;
+	byOutputBuffer[1] = (cycles - 1) & 0xff;
+	byOutputBuffer[2] = ((cycles - 1) >> 8) & 0xff;
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, 3, &dwNumBytesSent);
+	if (ftStatus != FT_OK)
+		return false;
+
+	return true;
+}
+
+bool Jtag::compareHexString(string a, string b, string mask) {
+	unsigned int length = a.length();
+
+	if (length != b.length()) {
+		cout << "length mismatch!" << endl;
+		return false;
+	}
+
+	if (mask == "")
+		return a == b;
+
+	if (length != mask.length()) {
+		cout << "length and mask mismatch! " << length << " and "
+				<< mask.length() << " of strings " << a << " and " << mask
+				<< endl;
+		return false;
+	}
+
+	for (unsigned int i = 0; i < length / 2; i++) {
+		BYTE m = stoi(mask.substr(length - 2 - i * 2, 2), 0, 16);
+		BYTE pa = stoi(a.substr(length - 2 - i * 2, 2), 0, 16);
+		BYTE pb = stoi(b.substr(length - 2 - i * 2, 2), 0, 16);
+		if ((pa & m) != (pb & m)) {
+			cout << "Mismatch at " << i << endl;
+			return false;
+		}
+
+	}
+	if ((length & 1) != 0) {
+		BYTE m = stoi(mask.substr(0, 1), 0, 16);
+		BYTE pa = stoi(a.substr(0, 1), 0, 16);
+		BYTE pb = stoi(b.substr(0, 1), 0, 16);
+		if ((pa & m) != (pb & m)) {
+			cout << "Mismatch at last bit" << endl;
+			return false;
+		}
+	}
+
+	return true;
+}
+
+void Jtag::hexToByte(string hex, BYTE* out) {
+	int length = hex.length();
+	for (int i = 0; i < length / 2; i++) {
+		try {
+			out[i] = stoi(hex.substr(length - 2 - i * 2, 2), 0, 16);
+		} catch (exception& e) {
+			cerr << "Failed at " << i << " with length " << length << endl;
+			cerr.flush();
+			exit(2);
+		}
+	}
+	if ((length & 1) != 0)
+		try {
+			out[length / 2] = stoi(hex.substr(0, 1), 0, 16);
+		} catch (exception& e) {
+			cerr << "Failed to convert string " << hex.substr(0, 1)
+					<< " to an int!" << endl;
+			cerr.flush();
+			exit(2);
+		}
+}
+
+bool Jtag::flush() {
+	FT_STATUS ftStatus;
+	BYTE byInputBuffer[1024];
+	DWORD dwNumBytesToRead = 0;
+	DWORD dwNumBytesRead = 0;
+
+	ftStatus = FT_GetQueueStatus(ftHandle, &dwNumBytesToRead);
+	if (ftStatus != FT_OK)
+		return false;
+	if (dwNumBytesToRead == 0)
+		return true;
+
+//or Timeout
+	ftStatus = FT_Read(ftHandle, &byInputBuffer, dwNumBytesToRead,
+			&dwNumBytesRead);
+	if (ftStatus != FT_OK)
+		return false;
+	return true;
+}
--- a/alchitry-loader/src/jtag.h
+++ b/alchitry-loader/src/jtag.h
@ -0,0 +1,40 @@
+/*
+ * jtag.h
+ *
+ *  Created on: May 24, 2017
+ *      Author: justin
+ */
+
+#ifndef JTAG_H_
+#define JTAG_H_
+
+#include "ftd2xx.h"
+#include "jtag_fsm.h"
+#include <unistd.h>
+
+class Jtag {
+	FT_HANDLE ftHandle;
+	unsigned int uiDevIndex = 0xF; // The device in the list that is used
+	bool active;
+
+public:
+	Jtag();
+	FT_STATUS connect(unsigned int);
+	FT_STATUS disconnect();
+	bool initialize();
+	bool setFreq(double);
+	bool navigateToState(Jtag_fsm::State, Jtag_fsm::State);
+	bool shiftData(unsigned int, string, string, string);
+	string shiftData(unsigned int, string);
+	bool sendClocks(unsigned long);
+
+private:
+	bool sync_mpsse();
+	bool config_jtag();
+	static void hexToByte(string, BYTE*);
+	bool flush();
+	bool compareHexString(string, string, string);
+
+};
+
+#endif /* JTAG_H_ */
--- a/alchitry-loader/src/jtag_fsm.cpp
+++ b/alchitry-loader/src/jtag_fsm.cpp
@ -0,0 +1,119 @@
+/*
+ * jtag_fsm.cpp
+ *
+ *  Created on: May 24, 2017
+ *      Author: justin
+ */
+
+#include "jtag_fsm.h"
+#include <queue>
+#include <iostream>
+
+using namespace std;
+
+Jtag_fsm::State Jtag_fsm::getTransition(State state, bool tms) {
+	switch (state) {
+	case TEST_LOGIC_RESET:
+		return tms ? TEST_LOGIC_RESET : RUN_TEST_IDLE;
+	case RUN_TEST_IDLE:
+		return tms ? SELECT_DR_SCAN : RUN_TEST_IDLE;
+	case SELECT_DR_SCAN:
+		return tms ? SELECT_IR_SCAN : CAPTURE_DR;
+	case CAPTURE_DR:
+		return tms ? EXIT1_DR : SHIFT_DR;
+	case SHIFT_DR:
+		return tms ? EXIT1_DR : SHIFT_DR;
+	case EXIT1_DR:
+		return tms ? UPDATE_DR : PAUSE_DR;
+	case PAUSE_DR:
+		return tms ? EXIT2_DR : PAUSE_DR;
+	case EXIT2_DR:
+		return tms ? UPDATE_DR : SHIFT_DR;
+	case UPDATE_DR:
+		return tms ? SELECT_DR_SCAN : RUN_TEST_IDLE;
+	case SELECT_IR_SCAN:
+		return tms ? TEST_LOGIC_RESET : CAPTURE_IR;
+	case CAPTURE_IR:
+		return tms ? EXIT1_IR : SHIFT_IR;
+	case SHIFT_IR:
+		return tms ? EXIT1_IR : SHIFT_IR;
+	case EXIT1_IR:
+		return tms ? UPDATE_IR : PAUSE_IR;
+	case PAUSE_IR:
+		return tms ? EXIT2_IR : PAUSE_IR;
+	case EXIT2_IR:
+		return tms ? UPDATE_IR : SHIFT_IR;
+	case UPDATE_IR:
+		return tms ? SELECT_DR_SCAN : RUN_TEST_IDLE;
+	}
+
+	return TEST_LOGIC_RESET;
+}
+
+Jtag_fsm::Transistions Jtag_fsm::getTransitions(State init, State final) {
+	queue<Transistions> queue;
+	Transistions t;
+	t.currentState = init;
+	t.moves = 0;
+	t.tms = 0;
+	queue.push(t);
+	while (!queue.empty()) {
+		t = queue.front();
+		queue.pop();
+		if (t.currentState == final) {
+			break;
+		}
+
+		State s0 = getTransition(t.currentState, false);
+		State s1 = getTransition(t.currentState, true);
+
+		t.moves++;
+		t.tms &= ~(1 << (t.moves-1)); // clear bit
+		t.currentState = s0;
+		queue.push(t);
+
+		t.tms |= (1 << (t.moves-1));
+		t.currentState = s1;
+		queue.push(t);
+	}
+
+	return t;
+}
+
+Jtag_fsm::State Jtag_fsm::getStateFromName(string s) {
+	if (s == "RESET")
+		return TEST_LOGIC_RESET;
+	if (s == "IDLE")
+		return RUN_TEST_IDLE;
+	if (s == "DRSELECT")
+		return SELECT_DR_SCAN;
+	if (s == "DRCAPTURE")
+		return CAPTURE_DR;
+	if (s == "DRSHIFT")
+		return SHIFT_DR;
+	if (s == "DREXIT1")
+		return EXIT1_DR;
+	if (s == "DRPAUSE")
+		return PAUSE_DR;
+	if (s == "DREXIT2")
+		return EXIT2_DR;
+	if (s == "DRUPDATE")
+		return UPDATE_DR;
+	if (s == "IRSELECT")
+		return SELECT_IR_SCAN;
+	if (s == "IRCAPTURE")
+		return CAPTURE_IR;
+	if (s == "IRSHIFT")
+		return SHIFT_IR;
+	if (s == "IREXIT1")
+		return EXIT1_IR;
+	if (s == "IRPAUSE")
+		return PAUSE_IR;
+	if (s == "IREXIT2")
+		return EXIT2_IR;
+	if (s == "IRUPDATE")
+		return UPDATE_IR;
+
+	cerr << "ERROR! Invalid state name " << s << endl;
+	return TEST_LOGIC_RESET;
+}
--- a/alchitry-loader/src/jtag_fsm.h
+++ b/alchitry-loader/src/jtag_fsm.h
@ -0,0 +1,52 @@
+/*
+ * jtag_fsm.h
+ *
+ *  Created on: May 24, 2017
+ *      Author: justin
+ */
+
+#ifndef JTAG_FSM_H_
+#define JTAG_FSM_H_
+
+#include <cstdint>
+#include <string>
+
+using namespace std;
+
+class Jtag_fsm {
+public:
+	enum State {
+		TEST_LOGIC_RESET,
+		RUN_TEST_IDLE,
+		SELECT_DR_SCAN,
+		CAPTURE_DR,
+		SHIFT_DR,
+		EXIT1_DR,
+		PAUSE_DR,
+		EXIT2_DR,
+		UPDATE_DR,
+		SELECT_IR_SCAN,
+		CAPTURE_IR,
+		SHIFT_IR,
+		EXIT1_IR,
+		PAUSE_IR,
+		EXIT2_IR,
+		UPDATE_IR
+	};
+	class Transistions {
+	public:
+		State currentState;
+		uint8_t tms;
+		uint8_t moves;
+	};
+
+	static Transistions getTransitions(State, State);
+	static State getStateFromName(string);
+
+
+private:
+	static State getTransition(State, bool);
+
+};
+
+#endif /* JTAG_FSM_H_ */
--- a/alchitry-loader/src/loader.cpp
+++ b/alchitry-loader/src/loader.cpp
@ -0,0 +1,388 @@
+/*
+ * Loader.cpp
+ *
+ *  Created on: Nov 6, 2017
+ *      Author: justin
+ */
+
+#include "loader.h"
+#include "jtag.h"
+#include <iomanip>
+#include <sstream>
+#include <iostream>
+#include <stdio.h>
+#include <unistd.h>
+#include <chrono>
+#include "config_type.h"
+#ifdef _WIN32
+#include "mingw.thread.h"
+#else
+#include <thread>
+#endif
+
+
+using namespace std;
+
+Loader::Loader(Jtag *dev) {
+	device = dev;
+	currentState = Jtag_fsm::TEST_LOGIC_RESET;
+}
+bool Loader::setState(Jtag_fsm::State state) {
+	if (!device->navigateToState(currentState, state))
+		return false;
+	currentState = state;
+	return true;
+
+}
+
+bool Loader::resetState() {
+	currentState = Jtag_fsm::TEST_LOGIC_RESET;
+	return device->navigateToState(Jtag_fsm::CAPTURE_DR,
+			Jtag_fsm::TEST_LOGIC_RESET);
+}
+
+bool Loader::setIR(Instruction inst) {
+	stringstream inst_str;
+	inst_str << std::setfill('0') << std::setw(2) << hex
+			<< static_cast<int>(inst);
+
+	if (!device->navigateToState(currentState, Jtag_fsm::SHIFT_IR)) {
+		cerr << "Failed to change to SHIFT_IR state!" << endl;
+		return false;
+	}
+	if (!device->shiftData(6, inst_str.str(), "", "")) {
+		cerr << "Failed to shift instruction data!" << endl;
+		return false;
+	}
+	if (!device->navigateToState(Jtag_fsm::EXIT1_IR, Jtag_fsm::RUN_TEST_IDLE)) {
+		cerr << "Failed to change to RUN_TEST_IDLE state!" << endl;
+		return false;
+	}
+	currentState = Jtag_fsm::RUN_TEST_IDLE;
+	return true;
+}
+
+// basically the same as shiftDR but ignores the first four bits
+bool Loader::shiftUDR(int bits, string write, string read, string mask) {
+	string uread = read;
+	string umask = mask;
+	string uwrite = write;
+
+	if (!read.empty()) {
+		uread = read + "0";
+		umask = mask + "0";
+		uwrite = "0" + write;
+		bits += 4;
+	}
+
+	return shiftDR(bits, uwrite, uread, umask);
+}
+
+bool Loader::shiftDR(int bits, string write, string read, string mask) {
+	if (!device->navigateToState(currentState, Jtag_fsm::SHIFT_DR)) {
+		cerr << "Failed to change to SHIFT_DR state!" << endl;
+		return false;
+	}
+	if (!device->shiftData(bits, write, read, mask)) {
+		cerr << "Failed to shift data!" << endl;
+		return false;
+	}
+	if (!device->navigateToState(Jtag_fsm::EXIT1_DR, Jtag_fsm::RUN_TEST_IDLE)) {
+		cerr << "Failed to change to RUN_TEST_IDLE state!" << endl;
+		return false;
+	}
+	currentState = Jtag_fsm::RUN_TEST_IDLE;
+	return true;
+}
+
+bool Loader::shiftIR(int bits, string write, string read, string mask) {
+	if (!device->navigateToState(currentState, Jtag_fsm::SHIFT_IR)) {
+		cerr << "Failed to change to SHIFT_IR state!" << endl;
+		return false;
+	}
+	if (!device->shiftData(bits, write, read, mask)) {
+		cerr << "Failed to shift data!" << endl;
+		return false;
+	}
+	if (!device->navigateToState(Jtag_fsm::EXIT1_IR, Jtag_fsm::RUN_TEST_IDLE)) {
+		cerr << "Failed to change to RUN_TEST_IDLE state!" << endl;
+		return false;
+	}
+	currentState = Jtag_fsm::RUN_TEST_IDLE;
+	return true;
+}
+
+string Loader::shiftDR(int bits, string write) {
+	if (!device->navigateToState(currentState, Jtag_fsm::SHIFT_DR)) {
+		cerr << "Failed to change to SHIFT_DR state!" << endl;
+		return NULL;
+	}
+
+	string data = device->shiftData(bits, write);
+	if (data.empty()) {
+		cerr << "Failed to shift data!" << endl;
+		return NULL;
+	}
+	if (!device->navigateToState(Jtag_fsm::EXIT1_DR, Jtag_fsm::RUN_TEST_IDLE)) {
+		cerr << "Failed to change to RUN_TEST_IDLE state!" << endl;
+		return NULL;
+	}
+	currentState = Jtag_fsm::RUN_TEST_IDLE;
+	return data;
+}
+
+bool Loader::loadBin(string file) {
+	string binStr = fileToBinStr(file);
+
+	string reversedBinStr = reverseBytes(binStr);
+
+	if (!device->setFreq(10000000)) {
+		cerr << "Failed to set JTAG frequency!" << endl;
+		return false;
+	}
+	if (!resetState())
+		return false;
+	if (!setState(Jtag_fsm::RUN_TEST_IDLE))
+		return false;
+
+	if (!setIR(JPROGRAM))
+		return false;
+	if (!setIR(ISC_NOOP))
+		return false;
+	std::this_thread::sleep_for(std::chrono::milliseconds(100));
+
+	// config/jprog/poll
+	if (!device->sendClocks(10000))
+		return false;
+	if (!shiftIR(6, "14", "11", "31"))
+		return false;
+
+	// config/slr
+	if (!setIR(CFG_IN))
+		return false;
+	if (!shiftDR(binStr.length() * 4, reversedBinStr, "", ""))
+		return false;
+
+	// config/start
+	if (!setState(Jtag_fsm::RUN_TEST_IDLE))
+		return false;
+	if (!device->sendClocks(100000))
+		return false;
+	if (!setIR(JSTART))
+		return false;
+	if (!setState(Jtag_fsm::RUN_TEST_IDLE))
+		return false;
+	if (!device->sendClocks(100))
+		return false;
+	if (!shiftIR(6, "09", "31", "11"))
+		return false;
+
+	// config/status
+	if (!setState(Jtag_fsm::TEST_LOGIC_RESET))
+		return false;
+	if (!device->sendClocks(5))
+		return false;
+	if (!setIR(CFG_IN))
+		return false;
+	if (!shiftDR(160, "0000000400000004800700140000000466aa9955", "", ""))
+		return false;
+	if (!setIR(CFG_OUT))
+		return false;
+	if (!shiftDR(32, "00000000", "3f5e0d40", "08000000"))
+		return false;
+	if (!setState(Jtag_fsm::TEST_LOGIC_RESET))
+		return false;
+	if (!device->sendClocks(5))
+		return false;
+
+	return true;
+}
+
+string Loader::fileToBinStr(string file) {
+	ifstream binFile(file);
+	stringstream hexString;
+
+	char *buffer;
+	binFile.seekg(0, ios::end);
+	unsigned int byteCount = binFile.tellg();
+	binFile.seekg(0, ios::beg);
+	buffer = new char[byteCount];
+	binFile.read(buffer, byteCount);
+	binFile.close();
+
+	for (int i = byteCount - 1; i >= 0; i--) {
+		hexString << setfill('0') << setw(2) << std::hex
+				<< (int) ((unsigned char) buffer[i]);
+	}
+
+	delete buffer;
+
+	return hexString.str();
+}
+
+bool Loader::eraseFlash(string loaderFile) {
+	cout << "Initializing FPGA..." << endl;
+	if (!loadBin(loaderFile)) {
+		cerr << "Failed to initialize FPGA!" << endl;
+		return false;
+	}
+
+	if (!device->setFreq(1500000)) {
+		cerr << "Failed to set JTAG frequency!" << endl;
+		return false;
+	}
+
+	cout << "Erasing..." << endl;
+
+	// Erase the flash
+	if (!setIR(USER1))
+		return false;
+
+	if (!shiftDR(1, "0", "", ""))
+		return false;
+
+	std::this_thread::sleep_for(std::chrono::seconds(1)); // wait for erase
+
+	if (!setIR(JPROGRAM))
+		return false;
+
+	// reset just for good measure
+	if (!resetState())
+		return false;
+
+	return true;
+}
+
+bool Loader::writeBin(string binFile, bool flash, string loaderFile) {
+	if (flash) {
+		string binStr = fileToBinStr(binFile);
+
+		cout << "Initializing FPGA..." << endl;
+		if (!loadBin(loaderFile)) {
+			cerr << "Failed to initialize FPGA!" << endl;
+			return false;
+		}
+
+		if (!device->setFreq(1500000)) {
+			cerr << "Failed to set JTAG frequency!" << endl;
+			return false;
+		}
+
+		cout << "Erasing..." << endl;
+
+		// Erase the flash
+		if (!setIR(USER1))
+			return false;
+
+		if (!shiftDR(1, "0", "", ""))
+			return false;
+
+		std::this_thread::sleep_for(std::chrono::milliseconds(100));
+
+		cout << "Writing..." << endl;
+
+		// Write the flash
+		if (!setIR(USER2))
+			return false;
+
+		if (!shiftDR(binStr.length() * 4, binStr, "", ""))
+			return false;
+
+		// If you enter the reset state after a write
+		// the loader firmware resets the flash into
+		// regular SPI mode and gets stuck in a dead FSM
+		// state. You need to do this before issuing a
+		// JPROGRAM command or the FPGA can't read the
+		// flash.
+		if (!resetState())
+			return false;
+
+		std::this_thread::sleep_for(std::chrono::milliseconds(100)); // 100ms delay is required before issuing JPROGRAM
+
+		cout << "Resetting FPGA..." << endl;
+		// JPROGRAM resets the FPGA configuration and will
+		// cause it to read the flash memory
+		if (!setIR(JPROGRAM))
+			return false;
+	} else {
+		cout << "Programming FPGA..." << endl;
+		if (!loadBin(binFile)) {
+			cerr << "Failed to initialize FPGA!" << endl;
+			return false;
+		}
+	}
+
+	// reset just for good measure
+	if (!resetState())
+		return false;
+
+	cout << "Done." << endl;
+	return true;
+}
+
+bool Loader::checkIDCODE() {
+	if (!setIR(IDCODE))
+		return false;
+
+	if (!shiftDR(32, "00000000", "0362D093", "0FFFFFFF")) // FPGA IDCODE
+		return false;
+
+	return true;
+}
+
+BYTE reverse(BYTE b) {
+	b = (b & 0xF0) >> 4 | (b & 0x0F) << 4;
+	b = (b & 0xCC) >> 2 | (b & 0x33) << 2;
+	b = (b & 0xAA) >> 1 | (b & 0x55) << 1;
+	return b;
+}
+
+bool Loader::setWREN() {
+	if (!setIR(USER1))
+		return false;
+	if (!shiftDR(8, reverseBytes("06"), "", ""))
+		return false;
+	return true;
+}
+
+int Loader::getStatus() {
+	if (!setIR(USER1))
+		return -1;
+	string data = shiftDR(17, reverseBytes("00005"));
+	cout << data << endl;
+	if (data.empty())
+		return -1;
+	int status = stoi(data, 0, 16);
+	status >>= 9;
+	return reverse(status);
+}
+
+void hexToByte(string hex, BYTE* out) {
+	int length = hex.length();
+	for (int i = 0; i < length / 2; i++) {
+		out[i] = stoi(hex.substr(length - 2 - i * 2, 2), 0, 16);
+	}
+	if ((length & 1) != 0)
+		out[length / 2] = stoi(hex.substr(0, 1), 0, 16);
+}
+
+string Loader::reverseBytes(string start) {
+	unsigned long l = start.length();
+	if (l & 1)
+		l++;
+	l /= 2;
+	BYTE* bytes = new BYTE[l];
+	hexToByte(start, bytes);
+	for (unsigned long i = 0; i < l; i++) {
+		bytes[i] = reverse(bytes[i]);
+	}
+	std::stringstream ss;
+	for (long i = l - 1; i >= 0; i--)
+		ss << setfill('0') << setw(2) << hex << (unsigned int) bytes[i];
+	string out = ss.str();
+	if (out.length() - 1 == start.length())
+		out = out.substr(1, out.length() - 1);
+	delete bytes;
+	return out;
+}
+
--- a/alchitry-loader/src/loader.h
+++ b/alchitry-loader/src/loader.h
@ -0,0 +1,77 @@
+/*
+ * Loader.h
+ *
+ *  Created on: Nov 6, 2017
+ *      Author: justin
+ */
+
+#ifndef LOADER_H_
+#define LOADER_H_
+
+#include <string>
+#include <fstream>
+#include <streambuf>
+#include <sstream>
+#include <iostream>
+#include <iomanip>
+#include<algorithm>
+#include "jtag.h"
+#include "jtag_fsm.h"
+
+class Loader {
+	Jtag* device;
+	Jtag_fsm::State currentState;
+
+	public:
+	enum Instruction {
+		EXTEST = 0x26,
+		EXTEST_PULSE = 0x3C,
+		EXTEST_TRAIN = 0x3D,
+		SAMPLE = 0x01,
+		USER1 = 0x02,
+		USER2 = 0x03,
+		USER3 = 0x22,
+		USER4 = 0x23,
+		CFG_OUT = 0x04,
+		CFG_IN = 0x05,
+		USERCODE = 0x08,
+		IDCODE = 0x09,
+		HIGHZ_IO = 0x0A,
+		JPROGRAM = 0x0B,
+		JSTART = 0x0C,
+		JSHUTDOWN = 0x0D,
+		XADC_DRP = 0x37,
+		ISC_ENABLE = 0x10,
+		ISC_PROGRAM = 0x11,
+		XSC_PROGRAM_KEY = 0x12,
+		XSC_DNA = 0x17,
+		FUSE_DNA = 0x32,
+		ISC_NOOP = 0x14,
+		ISC_DISABLE = 0x16,
+		BYPASS = 0x2F,
+	};
+
+public:
+	Loader(Jtag*);
+	bool resetState();
+	bool checkIDCODE();
+	bool eraseFlash(string);
+	bool writeBin(string, bool, string);
+
+private:
+	bool setWREN();
+	bool setIR(Instruction);
+	bool shiftUDR(int, string, string, string);
+	bool shiftDR(int, string, string, string);
+	string shiftDR(int, string);
+	bool shiftIR(int, string, string, string);
+	int getStatus();
+	string reverseBytes(string);
+	string fileToBinStr(string);
+	bool loadBin(string);
+	bool setState(Jtag_fsm::State);
+};
+
+
+
+#endif /* LOADER_H_ */
--- a/alchitry-loader/src/mingw.thread.h
+++ b/alchitry-loader/src/mingw.thread.h
@ -0,0 +1,414 @@
+/**
+* @file mingw.thread.h
+* @brief std::thread implementation for MinGW
+* (c) 2013-2016 by Mega Limited, Auckland, New Zealand
+* @author Alexander Vassilev
+*
+* @copyright Simplified (2-clause) BSD License.
+* You should have received a copy of the license along with this
+* program.
+*
+* This code is distributed in the hope that it will be useful,
+* but WITHOUT ANY WARRANTY; without even the implied warranty of
+* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+* @note
+* This file may become part of the mingw-w64 runtime package. If/when this happens,
+* the appropriate license will be added, i.e. this code will become dual-licensed,
+* and the current BSD 2-clause license will stay.
+*/
+
+#ifndef WIN32STDTHREAD_H
+#define WIN32STDTHREAD_H
+
+#if !defined(__cplusplus) || (__cplusplus < 201103L)
+#error A C++11 compiler is required!
+#endif
+
+//  Use the standard classes for std::, if available.
+#include <thread>
+
+#include <cstddef>      //  For std::size_t
+#include <cerrno>       //  Detect error type.
+#include <exception>    //  For std::terminate
+#include <system_error> //  For std::system_error
+#include <functional>   //  For std::hash
+#include <tuple>        //  For std::tuple
+#include <chrono>       //  For sleep timing.
+#include <memory>       //  For std::unique_ptr
+#include <ostream>      //  Stream output for thread ids.
+#include <utility>      //  For std::swap, std::forward
+
+//  For the invoke implementation only:
+#include <type_traits>  //  For std::result_of, etc.
+//#include <utility>      //  For std::forward
+//#include <functional>   //  For std::reference_wrapper
+
+#include <windows.h>
+#include <process.h>  //  For _beginthreadex
+
+#ifndef NDEBUG
+#include <cstdio>
+#endif
+
+#if !defined(_WIN32_WINNT) || (_WIN32_WINNT < 0x0501)
+#error To use the MinGW-std-threads library, you will need to define the macro _WIN32_WINNT to be 0x0501 (Windows XP) or higher.
+#endif
+
+//  Instead of INVALID_HANDLE_VALUE, _beginthreadex returns 0.
+namespace mingw_stdthread
+{
+namespace detail
+{
+//  For compatibility, implement std::invoke for C++11 and C++14
+#if __cplusplus < 201703L
+  template<bool PMemFunc, bool PMemData>
+  struct Invoker
+  {
+    template<class F, class... Args>
+    inline static typename std::result_of<F(Args...)>::type invoke (F&& f, Args&&... args)
+    {
+      return std::forward<F>(f)(std::forward<Args>(args)...);
+    }
+  };
+  template<bool>
+  struct InvokerHelper;
+
+  template<>
+  struct InvokerHelper<false>
+  {
+    template<class T1>
+    inline static auto get (T1&& t1) -> decltype(*std::forward<T1>(t1))
+    {
+      return *std::forward<T1>(t1);
+    }
+
+    template<class T1>
+    inline static auto get (const std::reference_wrapper<T1>& t1) -> decltype(t1.get())
+    {
+      return t1.get();
+    }
+  };
+
+  template<>
+  struct InvokerHelper<true>
+  {
+    template<class T1>
+    inline static auto get (T1&& t1) -> decltype(std::forward<T1>(t1))
+    {
+      return std::forward<T1>(t1);
+    }
+  };
+
+  template<>
+  struct Invoker<true, false>
+  {
+    template<class T, class F, class T1, class... Args>
+    inline static auto invoke (F T::* f, T1&& t1, Args&&... args) ->\
+      decltype((InvokerHelper<std::is_base_of<T,typename std::decay<T1>::type>::value>::get(std::forward<T1>(t1)).*f)(std::forward<Args>(args)...))
+    {
+      return (InvokerHelper<std::is_base_of<T,typename std::decay<T1>::type>::value>::get(std::forward<T1>(t1)).*f)(std::forward<Args>(args)...);
+    }
+  };
+
+  template<>
+  struct Invoker<false, true>
+  {
+    template<class T, class F, class T1, class... Args>
+    inline static auto invoke (F T::* f, T1&& t1, Args&&... args) ->\
+      decltype(InvokerHelper<std::is_base_of<T,typename std::decay<T1>::type>::value>::get(t1).*f)
+    {
+      return InvokerHelper<std::is_base_of<T,typename std::decay<T1>::type>::value>::get(t1).*f;
+    }
+  };
+
+  template<class F, class... Args>
+  struct InvokeResult
+  {
+    typedef Invoker<std::is_member_function_pointer<typename std::remove_reference<F>::type>::value,
+                    std::is_member_object_pointer<typename std::remove_reference<F>::type>::value &&
+                    (sizeof...(Args) == 1)> invoker;
+    inline static auto invoke (F&& f, Args&&... args) -> decltype(invoker::invoke(std::forward<F>(f), std::forward<Args>(args)...))
+    {
+      return invoker::invoke(std::forward<F>(f), std::forward<Args>(args)...);
+    };
+  };
+
+  template<class F, class...Args>
+  auto invoke (F&& f, Args&&... args) -> decltype(InvokeResult<F, Args...>::invoke(std::forward<F>(f), std::forward<Args>(args)...))
+  {
+    return InvokeResult<F, Args...>::invoke(std::forward<F>(f), std::forward<Args>(args)...);
+  }
+#else
+    using std::invoke;
+#endif
+
+    template<std::size_t...>
+    struct IntSeq {};
+
+    template<std::size_t N, std::size_t... S>
+    struct GenIntSeq : GenIntSeq<N-1, N-1, S...> { };
+
+    template<std::size_t... S>
+    struct GenIntSeq<0, S...> { typedef IntSeq<S...> type; };
+
+    // We can't define the Call struct in the function - the standard forbids template methods in that case
+    template<class Func, typename... Args>
+    class ThreadFuncCall
+    {
+        typedef std::tuple<Args...> Tuple;
+        Func mFunc;
+        Tuple mArgs;
+
+        template <std::size_t... S>
+        void callFunc(detail::IntSeq<S...>)
+        {
+            detail::invoke(std::forward<Func>(mFunc), std::get<S>(std::forward<Tuple>(mArgs)) ...);
+        }
+    public:
+        ThreadFuncCall(Func&& aFunc, Args&&... aArgs)
+        :mFunc(std::forward<Func>(aFunc)), mArgs(std::forward<Args>(aArgs)...){}
+
+        void callFunc()
+        {
+            callFunc(typename detail::GenIntSeq<sizeof...(Args)>::type());
+        }
+    };
+
+} //  Namespace "detail"
+
+class thread
+{
+public:
+    class id
+    {
+        DWORD mId;
+        void clear() {mId = 0;}
+        friend class thread;
+        friend class std::hash<id>;
+    public:
+        explicit id(DWORD aId=0) noexcept : mId(aId){}
+        friend bool operator==(id x, id y) noexcept {return x.mId == y.mId; }
+        friend bool operator!=(id x, id y) noexcept {return x.mId != y.mId; }
+        friend bool operator< (id x, id y) noexcept {return x.mId <  y.mId; }
+        friend bool operator<=(id x, id y) noexcept {return x.mId <= y.mId; }
+        friend bool operator> (id x, id y) noexcept {return x.mId >  y.mId; }
+        friend bool operator>=(id x, id y) noexcept {return x.mId >= y.mId; }
+
+        template<class _CharT, class _Traits>
+        friend std::basic_ostream<_CharT, _Traits>&
+        operator<<(std::basic_ostream<_CharT, _Traits>& __out, id __id)
+        {
+            if (__id.mId == 0)
+            {
+                return __out << "(invalid std::thread::id)";
+            }
+            else
+            {
+                return __out << __id.mId;
+            }
+        }
+    };
+private:
+    static constexpr HANDLE kInvalidHandle = nullptr;
+    HANDLE mHandle;
+    id mThreadId;
+
+    template <class Call>
+    static unsigned __stdcall threadfunc(void* arg)
+    {
+        std::unique_ptr<Call> call(static_cast<Call*>(arg));
+        call->callFunc();
+        return 0;
+    }
+
+    static unsigned int _hardware_concurrency_helper() noexcept
+    {
+        SYSTEM_INFO sysinfo;
+//    This is one of the few functions used by the library which has a nearly-
+//  equivalent function defined in earlier versions of Windows. Include the
+//  workaround, just as a reminder that it does exist.
+#if defined(_WIN32_WINNT) && (_WIN32_WINNT >= 0x0501)
+        ::GetNativeSystemInfo(&sysinfo);
+#else
+        ::GetSystemInfo(&sysinfo);
+#endif
+        return sysinfo.dwNumberOfProcessors;
+    }
+public:
+    typedef HANDLE native_handle_type;
+    id get_id() const noexcept {return mThreadId;}
+    native_handle_type native_handle() const {return mHandle;}
+    thread(): mHandle(kInvalidHandle), mThreadId(){}
+
+    thread(thread&& other)
+    :mHandle(other.mHandle), mThreadId(other.mThreadId)
+    {
+        other.mHandle = kInvalidHandle;
+        other.mThreadId.clear();
+    }
+
+    thread(const thread &other)=delete;
+
+    template<class Func, typename... Args>
+    explicit thread(Func&& func, Args&&... args) : mHandle(), mThreadId()
+    {
+        typedef detail::ThreadFuncCall<Func, Args...> Call;
+        auto call = new Call(
+            std::forward<Func>(func), std::forward<Args>(args)...);
+        auto int_handle = _beginthreadex(NULL, 0, threadfunc<Call>,
+            static_cast<LPVOID>(call), 0,
+            reinterpret_cast<unsigned*>(&(mThreadId.mId)));
+        if (int_handle == 0)
+        {
+            mHandle = kInvalidHandle;
+            int errnum = errno;
+            delete call;
+//  Note: Should only throw EINVAL, EAGAIN, EACCES
+            throw std::system_error(errnum, std::generic_category());
+        } else
+            mHandle = reinterpret_cast<HANDLE>(int_handle);
+    }
+
+    bool joinable() const {return mHandle != kInvalidHandle;}
+
+//    Note: Due to lack of synchronization, this function has a race condition
+//  if called concurrently, which leads to undefined behavior. The same applies
+//  to all other member functions of this class, but this one is mentioned
+//  explicitly.
+    void join()
+    {
+        using namespace std;
+        if (get_id() == id(GetCurrentThreadId()))
+            throw system_error(make_error_code(errc::resource_deadlock_would_occur));
+        if (mHandle == kInvalidHandle)
+            throw system_error(make_error_code(errc::no_such_process));
+        if (!joinable())
+            throw system_error(make_error_code(errc::invalid_argument));
+        WaitForSingleObject(mHandle, INFINITE);
+        CloseHandle(mHandle);
+        mHandle = kInvalidHandle;
+        mThreadId.clear();
+    }
+
+    ~thread()
+    {
+        if (joinable())
+        {
+#ifndef NDEBUG
+            std::printf("Error: Must join() or detach() a thread before \
+destroying it.\n");
+#endif
+            std::terminate();
+        }
+    }
+    thread& operator=(const thread&) = delete;
+    thread& operator=(thread&& other) noexcept
+    {
+        if (joinable())
+        {
+#ifndef NDEBUG
+            std::printf("Error: Must join() or detach() a thread before \
+moving another thread to it.\n");
+#endif
+            std::terminate();
+        }
+        swap(std::forward<thread>(other));
+        return *this;
+    }
+    void swap(thread&& other) noexcept
+    {
+    	HANDLE tmph = mHandle;
+    	mHandle = other.mHandle;
+    	other.mHandle = tmph;
+    	DWORD tmpd = mThreadId.mId;
+    	mThreadId.mId = other.mThreadId.mId;
+    	other.mThreadId.mId = tmpd;
+    }
+
+    static unsigned int hardware_concurrency() noexcept
+    {
+        static unsigned int cached = _hardware_concurrency_helper();
+        return cached;
+    }
+
+    void detach()
+    {
+        if (!joinable())
+        {
+            using namespace std;
+            throw system_error(make_error_code(errc::invalid_argument));
+        }
+        if (mHandle != kInvalidHandle)
+        {
+            CloseHandle(mHandle);
+            mHandle = kInvalidHandle;
+        }
+        mThreadId.clear();
+    }
+};
+
+namespace this_thread
+{
+    inline thread::id get_id() noexcept {return thread::id(GetCurrentThreadId());}
+    inline void yield() noexcept {Sleep(0);}
+    template< class Rep, class Period >
+    void sleep_for( const std::chrono::duration<Rep,Period>& sleep_duration)
+    {
+        using namespace std::chrono;
+        using rep = milliseconds::rep;
+        rep ms = duration_cast<milliseconds>(sleep_duration).count();
+        while (ms > 0)
+        {
+            constexpr rep kMaxRep = static_cast<rep>(INFINITE - 1);
+            auto sleepTime = (ms < kMaxRep) ? ms : kMaxRep;
+            Sleep(static_cast<DWORD>(sleepTime));
+            ms -= sleepTime;
+        }
+    }
+    template <class Clock, class Duration>
+    void sleep_until(const std::chrono::time_point<Clock,Duration>& sleep_time)
+    {
+        sleep_for(sleep_time-Clock::now());
+    }
+}
+} //  Namespace mingw_stdthread
+
+namespace std
+{
+//    Because of quirks of the compiler, the common "using namespace std;"
+//  directive would flatten the namespaces and introduce ambiguity where there
+//  was none. Direct specification (std::), however, would be unaffected.
+//    Take the safe option, and include only in the presence of MinGW's win32
+//  implementation.
+#if defined(__MINGW32__ ) && !defined(_GLIBCXX_HAS_GTHREADS)
+using mingw_stdthread::thread;
+//    Remove ambiguity immediately, to avoid problems arising from the above.
+//using std::thread;
+namespace this_thread
+{
+using namespace mingw_stdthread::this_thread;
+}
+#elif !defined(MINGW_STDTHREAD_REDUNDANCY_WARNING)  //  Skip repetition
+#define MINGW_STDTHREAD_REDUNDANCY_WARNING
+#pragma message "This version of MinGW seems to include a win32 port of\
+ pthreads, and probably already has C++11 std threading classes implemented,\
+ based on pthreads. These classes, found in namespace std, are not overridden\
+ by the mingw-std-thread library. If you would still like to use this\
+ implementation (as it is more lightweight), use the classes provided in\
+ namespace mingw_stdthread."
+#endif
+
+//    Specialize hash for this implementation's thread::id, even if the
+//  std::thread::id already has a hash.
+template<>
+struct hash<mingw_stdthread::thread::id>
+{
+    typedef mingw_stdthread::thread::id argument_type;
+    typedef size_t result_type;
+    size_t operator() (const argument_type & i) const noexcept
+    {
+        return i.mId;
+    }
+};
+}
+#endif // WIN32STDTHREAD_H
--- a/alchitry-loader/src/spi.cpp
+++ b/alchitry-loader/src/spi.cpp
@ -0,0 +1,940 @@
+/*
+ *  iceprog -- simple programming tool for FTDI-based Lattice iCE programmers
+ *
+ *  Copyright (C) 2015  Clifford Wolf <clifford@clifford.at>
+ *  Copyright (C) 2018  Piotr Esden-Tempski <piotr@esden.net>
+ *
+ *  Permission to use, copy, modify, and/or distribute this software for any
+ *  purpose with or without fee is hereby granted, provided that the above
+ *  copyright notice and this permission notice appear in all copies.
+ *
+ *  THE SOFTWARE IS PROVIDED "AS IS" AND THE AUTHOR DISCLAIMS ALL WARRANTIES
+ *  WITH REGARD TO THIS SOFTWARE INCLUDING ALL IMPLIED WARRANTIES OF
+ *  MERCHANTABILITY AND FITNESS. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR
+ *  ANY SPECIAL, DIRECT, INDIRECT, OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES
+ *  WHATSOEVER RESULTING FROM LOSS OF USE, DATA OR PROFITS, WHETHER IN AN
+ *  ACTION OF CONTRACT, NEGLIGENCE OR OTHER TORTIOUS ACTION, ARISING OUT OF
+ *  OR IN CONNECTION WITH THE USE OR PERFORMANCE OF THIS SOFTWARE.
+ *
+ *  Relevant Documents:
+ *  -------------------
+ *  http://www.latticesemi.com/~/media/Documents/UserManuals/EI/icestickusermanual.pdf
+ *  http://www.micron.com/~/media/documents/products/data-sheet/nor-flash/serial-nor/n25q/n25q_32mb_3v_65nm.pdf
+ *  http://www.ftdichip.com/Support/Documents/AppNotes/AN_108_Command_Processor_for_MPSSE_and_MCU_Host_Bus_Emulation_Modes.pdf
+ */
+
+#include "spi.h"
+#include <unistd.h>
+#include <iostream>
+#include <iomanip>
+#include <string>
+#include <sstream>
+#include <stdio.h>
+#include <string.h>
+#ifdef _WIN32
+#include "mingw.thread.h"
+#else
+#include <thread>
+#endif
+
+#include <chrono>
+
+using namespace std;
+
+/* MPSSE engine command definitions */
+enum mpsse_cmd {
+	/* Mode commands */
+	MC_SETB_LOW = 0x80, /* Set Data bits LowByte */
+	MC_READB_LOW = 0x81, /* Read Data bits LowByte */
+	MC_SETB_HIGH = 0x82, /* Set Data bits HighByte */
+	MC_READB_HIGH = 0x83, /* Read data bits HighByte */
+	MC_LOOPBACK_EN = 0x84, /* Enable loopback */
+	MC_LOOPBACK_DIS = 0x85, /* Disable loopback */
+	MC_SET_CLK_DIV = 0x86, /* Set clock divisor */
+	MC_FLUSH = 0x87, /* Flush buffer fifos to the PC. */
+	MC_WAIT_H = 0x88, /* Wait on GPIOL1 to go high. */
+	MC_WAIT_L = 0x89, /* Wait on GPIOL1 to go low. */
+	MC_TCK_X5 = 0x8A, /* Disable /5 div, enables 60MHz master clock */
+	MC_TCK_D5 = 0x8B, /* Enable /5 div, backward compat to FT2232D */
+	MC_EN_3PH_CLK = 0x8C, /* Enable 3 phase clk, DDR I2C */
+	MC_DIS_3PH_CLK = 0x8D, /* Disable 3 phase clk */
+	MC_CLK_N = 0x8E, /* Clock every bit, used for JTAG */
+	MC_CLK_N8 = 0x8F, /* Clock every byte, used for JTAG */
+	MC_CLK_TO_H = 0x94, /* Clock until GPIOL1 goes high */
+	MC_CLK_TO_L = 0x95, /* Clock until GPIOL1 goes low */
+	MC_EN_ADPT_CLK = 0x96, /* Enable adaptive clocking */
+	MC_DIS_ADPT_CLK = 0x97, /* Disable adaptive clocking */
+	MC_CLK8_TO_H = 0x9C, /* Clock until GPIOL1 goes high, count bytes */
+	MC_CLK8_TO_L = 0x9D, /* Clock until GPIOL1 goes low, count bytes */
+	MC_TRI = 0x9E, /* Set IO to only drive on 0 and tristate on 1 */
+	/* CPU mode commands */
+	MC_CPU_RS = 0x90, /* CPUMode read short address */
+	MC_CPU_RE = 0x91, /* CPUMode read extended address */
+	MC_CPU_WS = 0x92, /* CPUMode write short address */
+	MC_CPU_WE = 0x93, /* CPUMode write extended address */
+};
+
+// ---------------------------------------------------------
+// FLASH definitions
+// ---------------------------------------------------------
+
+/* Transfer Command bits */
+
+/* All byte based commands consist of:
+ * - Command byte
+ * - Length lsb
+ * - Length msb
+ *
+ * If data out is enabled the data follows after the above command bytes,
+ * otherwise no additional data is needed.
+ * - Data * n
+ *
+ * All bit based commands consist of:
+ * - Command byte
+ * - Length
+ *
+ * If data out is enabled a byte containing bitst to transfer follows.
+ * Otherwise no additional data is needed. Only up to 8 bits can be transferred
+ * per transaction when in bit mode.
+ */
+
+/* b 0000 0000
+ *   |||| |||`- Data out negative enable. Update DO on negative clock edge.
+ *   |||| ||`-- Bit count enable. When reset count represents bytes.
+ *   |||| |`--- Data in negative enable. Latch DI on negative clock edge.
+ *   |||| `---- LSB enable. When set clock data out LSB first.
+ *   ||||
+ *   |||`------ Data out enable
+ *   ||`------- Data in enable
+ *   |`-------- TMS mode enable
+ *   `--------- Special command mode enable. See mpsse_cmd enum.
+ */
+
+#define MC_DATA_TMS  (0x40) /* When set use TMS mode */
+#define MC_DATA_IN   (0x20) /* When set read data (Data IN) */
+#define MC_DATA_OUT  (0x10) /* When set write data (Data OUT) */
+#define MC_DATA_LSB  (0x08) /* When set input/output data LSB first. */
+#define MC_DATA_ICN  (0x04) /* When set receive data on negative clock edge */
+#define MC_DATA_BITS (0x02) /* When set count bits not bytes */
+#define MC_DATA_OCN  (0x01) /* When set update data on negative clock edge */
+
+/* Flash command definitions */
+/* This command list is based on the Winbond W25Q128JV Datasheet */
+enum flash_cmd {
+	FC_WE = 0x06, /* Write Enable */
+	FC_SRWE = 0x50, /* Volatile SR Write Enable */
+	FC_WD = 0x04, /* Write Disable */
+	FC_RPD = 0xAB, /* Release Power-Down, returns Device ID */
+	FC_MFGID = 0x90, /*  Read Manufacturer/Device ID */
+	FC_JEDECID = 0x9F, /* Read JEDEC ID */
+	FC_UID = 0x4B, /* Read Unique ID */
+	FC_RD = 0x03, /* Read Data */
+	FC_FR = 0x0B, /* Fast Read */
+	FC_PP = 0x02, /* Page Program */
+	FC_SE = 0x20, /* Sector Erase 4kb */
+	FC_BE32 = 0x52, /* Block Erase 32kb */
+	FC_BE64 = 0xD8, /* Block Erase 64kb */
+	FC_CE = 0xC7, /* Chip Erase */
+	FC_RSR1 = 0x05, /* Read Status Register 1 */
+	FC_WSR1 = 0x01, /* Write Status Register 1 */
+	FC_RSR2 = 0x35, /* Read Status Register 2 */
+	FC_WSR2 = 0x31, /* Write Status Register 2 */
+	FC_RSR3 = 0x15, /* Read Status Register 3 */
+	FC_WSR3 = 0x11, /* Write Status Register 3 */
+	FC_RSFDP = 0x5A, /* Read SFDP Register */
+	FC_ESR = 0x44, /* Erase Security Register */
+	FC_PSR = 0x42, /* Program Security Register */
+	FC_RSR = 0x48, /* Read Security Register */
+	FC_GBL = 0x7E, /* Global Block Lock */
+	FC_GBU = 0x98, /* Global Block Unlock */
+	FC_RBL = 0x3D, /* Read Block Lock */
+	FC_RPR = 0x3C, /* Read Sector Protection Registers (adesto) */
+	FC_IBL = 0x36, /* Individual Block Lock */
+	FC_IBU = 0x39, /* Individual Block Unlock */
+	FC_EPS = 0x75, /* Erase / Program Suspend */
+	FC_EPR = 0x7A, /* Erase / Program Resume */
+	FC_PD = 0xB9, /* Power-down */
+	FC_QPI = 0x38, /* Enter QPI mode */
+	FC_ERESET = 0x66, /* Enable Reset */
+	FC_RESET = 0x99, /* Reset Device */
+};
+
+Spi::Spi() {
+	ftHandle = 0;
+	active = false;
+	verbose = false;
+}
+
+FT_STATUS Spi::connect(unsigned int devNumber) {
+	return FT_Open(devNumber, &ftHandle);
+}
+
+FT_STATUS Spi::disconnect() {
+	active = false;
+	return FT_Close(ftHandle);
+}
+
+bool Spi::initialize() {
+	BYTE byInputBuffer[1024]; // Buffer to hold data read from the FT2232H
+	DWORD dwNumBytesToRead = 0; // Number of bytes available to read in the driver's input buffer
+	DWORD dwNumBytesRead = 0; // Count of actual bytes read - used with FT_Read
+	FT_STATUS ftStatus;
+	ftStatus = FT_ResetDevice(ftHandle);
+	//Reset USB device
+	//Purge USB receive buffer first by reading out all old data from FT2232H receive buffer
+	ftStatus |= FT_GetQueueStatus(ftHandle, &dwNumBytesToRead);	// Get the number of bytes in the FT2232H receive buffer
+	if ((ftStatus == FT_OK) && (dwNumBytesToRead > 0))
+		FT_Read(ftHandle, &byInputBuffer, dwNumBytesToRead, &dwNumBytesRead);//Read out the data from FT2232H receive buffer
+	ftStatus |= FT_SetUSBParameters(ftHandle, 65536, 65535);//Set USB request transfer sizes to 64K
+	ftStatus |= FT_SetChars(ftHandle, false, 0, false, 0); //Disable event and error characters
+	ftStatus |= FT_SetTimeouts(ftHandle, 0, 5000); //Sets the read and write timeouts in milliseconds
+	ftStatus |= FT_SetLatencyTimer(ftHandle, 1); //Set the latency timer 1ms
+	ftStatus |= FT_SetBitMode(ftHandle, 0x0, 0x00);	        //Reset controller
+	ftStatus |= FT_SetBitMode(ftHandle, 0x0, 0x02);	        //Enable MPSSE mode
+
+	if (ftStatus != FT_OK) {
+		cerr << "Failed to set initial configuration!" << endl;
+		return false;
+	}
+
+	std::this_thread::sleep_for(std::chrono::milliseconds(100)); // Wait for all the USB stuff to complete and work
+
+	if (!sync_mpsse()){
+		cerr << "Failed to sync with MPSSE!" << endl;
+		return false;
+	}
+
+	if (!config_spi()){
+		cerr << "Failed to set SPI configuration!" << endl;
+		return false;
+	}
+
+	active = true;
+
+	return true;
+}
+
+bool Spi::sync_mpsse() {
+	BYTE byOutputBuffer[8]; // Buffer to hold MPSSE commands and data to be sent to the FT2232H
+	BYTE byInputBuffer[8]; // Buffer to hold data read from the FT2232H
+	DWORD dwCount = 0; // General loop index
+	DWORD dwNumBytesToSend = 0; // Index to the output buffer
+	DWORD dwNumBytesSent = 0; // Count of actual bytes sent - used with FT_Write
+	DWORD dwNumBytesToRead = 0; // Number of bytes available to read in the driver's input buffer
+	DWORD dwNumBytesRead = 0; // Count of actual bytes read - used with FT_Read
+	FT_STATUS ftStatus;
+
+	byOutputBuffer[dwNumBytesToSend++] = 0xAA;	//'\xAA';
+	//Add bogus command ‘xAA’ to the queue
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	// Send off the BAD commands
+	dwNumBytesToSend = 0; // Reset output buffer pointer
+	do {
+		ftStatus = FT_GetQueueStatus(ftHandle, &dwNumBytesToRead);
+		// Get the number of bytes in the device input buffer
+	} while ((dwNumBytesToRead == 0) && (ftStatus == FT_OK));
+	if (dwNumBytesRead > 8) {
+		cerr << "Input buffer too small in sync_mpsse()!" << endl;
+		return false;
+	}
+	//or Timeout
+	bool bCommandEchod = false;
+	ftStatus = FT_Read(ftHandle, &byInputBuffer, dwNumBytesToRead,
+			&dwNumBytesRead);
+	//Read out the data from input buffer
+	for (dwCount = 0; dwCount < dwNumBytesRead - 1; dwCount++)
+	//Check if Bad command and echo command received
+			{
+		if ((byInputBuffer[dwCount] == 0xFA)
+				&& (byInputBuffer[dwCount + 1] == 0xAA)) {
+			bCommandEchod = true;
+			break;
+		}
+	}
+
+	return bCommandEchod;
+}
+
+bool Spi::config_spi() {
+	FT_STATUS ftStatus;
+	BYTE byOutputBuffer[64]; // Buffer to hold MPSSE commands and data to be sent to the FT2232H
+	DWORD dwNumBytesToSend = 0; // Index to the output buffer
+	DWORD dwNumBytesSent = 0; // Count of actual bytes sent - used with FT_Write
+	DWORD dwClockDivisor = 0x0; // Value of clock divisor, SCL Frequency = 60/((1+0x0)*2) (MHz) = 30MHz
+	// -----------------------------------------------------------
+	// Configure the MPSSE settings for SPI
+	// Multiple commands can be sent to the MPSSE with one FT_Write
+	// -----------------------------------------------------------
+	dwNumBytesToSend = 0; // Start with a fresh index
+	// Set up the Hi-Speed specific commands for the FTx232H
+	byOutputBuffer[dwNumBytesToSend++] = 0x8A;
+	// Use 60MHz master clock (disable divide by 5)
+	byOutputBuffer[dwNumBytesToSend++] = 0x97;
+	// Turn off adaptive clocking (may be needed for ARM)
+	byOutputBuffer[dwNumBytesToSend++] = 0x8D;
+	// Disable three-phase clocking
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	// Send off the HS-specific commands
+
+	if (ftStatus != FT_OK)
+		return false;
+
+	dwNumBytesToSend = 0; // Reset output buffer pointer
+	// Set initial states of the MPSSE interface - low byte, both pin directions and output values
+	// Pin name Signal Direction Config Initial State Config
+	// ADBUS0 SCK output 1 low 0
+	// ADBUS1 MOSI output 1 low 0
+	// ADBUS2 MISO input 0 low 0
+	// ADBUS3 NC output 1 low 0
+	// ADBUS4 SS output 1 low 0
+	// ADBUS5 NC output 1 low 0
+	// ADBUS6 CDONE input 0 low 0
+	// ADBUS7 CRESET output 1 low 0
+	byOutputBuffer[dwNumBytesToSend++] = 0x80;
+	// Set data bits low-byte of MPSSE port
+	byOutputBuffer[dwNumBytesToSend++] = 0x00;
+	// Initial state config above
+	byOutputBuffer[dwNumBytesToSend++] = 0xBB;
+	// Direction config above
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	// Send off the low GPIO config commands
+
+	if (ftStatus != FT_OK)
+		return false;
+
+	dwNumBytesToSend = 0; // Reset output buffer pointer
+	// Set initial states of the MPSSE interface - high byte, both pin directions and output values
+	// Pin name Signal Direction Config Initial State Config
+	// ACBUS0 GPIOH0 input 0 0
+	// ACBUS1 GPIOH1 input 0 0
+	// ACBUS2 GPIOH2 input 0 0
+	// ACBUS3 GPIOH3 input 0 0
+	// ACBUS4 GPIOH4 input 0 0
+	// ACBUS5 GPIOH5 input 0 0
+	// ACBUS6 GPIOH6 input 0 0
+	// ACBUS7 GPIOH7 input 0 0
+	byOutputBuffer[dwNumBytesToSend++] = 0x82;
+	// Set data bits low-byte of MPSSE port
+	byOutputBuffer[dwNumBytesToSend++] = 0x00;
+	// Initial state config above
+	byOutputBuffer[dwNumBytesToSend++] = 0x00;
+	// Direction config above
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	// Send off the high GPIO config commands
+
+	if (ftStatus != FT_OK)
+		return false;
+
+	dwNumBytesToSend = 0; // Reset output buffer pointer
+	// Set TCK frequency
+	// TCK = 60MHz /((1 + [(1 +0xValueH*256) OR 0xValueL])*2)
+	byOutputBuffer[dwNumBytesToSend++] = 0x86;
+	//Command to set clock divisor
+	byOutputBuffer[dwNumBytesToSend++] = dwClockDivisor & 0xFF;
+	//Set 0xValueL of clock divisor
+	byOutputBuffer[dwNumBytesToSend++] = (dwClockDivisor >> 8) & 0xFF;
+	//Set 0xValueH of clock divisor
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	// Send off the clock divisor commands
+
+	if (ftStatus != FT_OK)
+		return false;
+
+	dwNumBytesToSend = 0; // Reset output buffer pointer
+	// Disable internal loop-back
+	byOutputBuffer[dwNumBytesToSend++] = 0x85;
+	// Disable loopback
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, dwNumBytesToSend,
+			&dwNumBytesSent);
+	// Send off the loopback command
+
+	if (ftStatus != FT_OK)
+		return false;
+
+	return true;
+}
+
+void Spi::check_rx() {
+	FT_STATUS ftStatus;
+	BYTE byInputBuffer[1];
+	DWORD dwNumBytesRead = 0;
+
+	while (1) {
+		ftStatus = FT_Read(ftHandle, &byInputBuffer, 1, &dwNumBytesRead);
+		if (ftStatus != FT_OK)
+			break;
+		cerr << "Unexpected rx byte: " << byInputBuffer[0] << endl;
+	}
+}
+
+void Spi::error(int status) {
+	check_rx();
+	cerr << "ABORT." << endl;
+	if (active)
+		disconnect();
+	exit(status);
+}
+
+BYTE Spi::recv_byte() {
+	FT_STATUS ftStatus;
+	BYTE byInputBuffer[1];
+	DWORD dwNumBytesRead = 0;
+	while (1) {
+		ftStatus = FT_Read(ftHandle, &byInputBuffer, 1, &dwNumBytesRead);
+		if (ftStatus != FT_OK) {
+			cerr << "Read error." << endl;
+			error(2);
+		}
+		if (dwNumBytesRead == 1)
+			break;
+		std::this_thread::sleep_for(std::chrono::microseconds(100));
+	}
+	return byInputBuffer[0];
+}
+
+void Spi::send_byte(uint8_t data) {
+	FT_STATUS ftStatus;
+	BYTE byOutputBuffer[1];
+	DWORD dwNumBytesSent = 0;
+
+	byOutputBuffer[0] = data;
+
+	ftStatus = FT_Write(ftHandle, byOutputBuffer, 1, &dwNumBytesSent);
+	if (ftStatus != FT_OK) {
+		cerr << "Write error!" << endl;
+		error(2);
+	}
+	if (dwNumBytesSent != 1) {
+		cerr << "Write error (single byte, received " << dwNumBytesSent
+				<< ", expected 1)." << endl;
+		error(2);
+	}
+}
+
+void Spi::send_spi(uint8_t *data, int n) {
+	if (n < 1)
+		return;
+
+	/* Output only, update data on negative clock edge. */
+	send_byte(MC_DATA_OUT | MC_DATA_OCN);
+	send_byte(n - 1);
+	send_byte((n - 1) >> 8);
+
+	FT_STATUS ftStatus;
+	DWORD dwNumBytesSent = 0;
+
+	ftStatus = FT_Write(ftHandle, data, n, &dwNumBytesSent);
+	if (ftStatus != FT_OK) {
+		cerr << "Write error!" << endl;
+		error(2);
+	}
+
+	if (dwNumBytesSent != (unsigned int) n) {
+		fprintf(stderr, "Write error (chunk, rc=%u, expected %d).\n",
+				dwNumBytesSent, n);
+		error(2);
+	}
+}
+
+void Spi::xfer_spi(uint8_t *data, int n) {
+	if (n < 1)
+		return;
+
+	/* Input and output, update data on negative edge read on positive. */
+	send_byte(MC_DATA_IN | MC_DATA_OUT | MC_DATA_OCN);
+	send_byte(n - 1);
+	send_byte((n - 1) >> 8);
+
+	FT_STATUS ftStatus;
+	DWORD dwNumBytesSent = 0;
+
+	ftStatus = FT_Write(ftHandle, data, n, &dwNumBytesSent);
+	if (ftStatus != FT_OK) {
+		cerr << "Write error!" << endl;
+		error(2);
+	}
+
+	if (dwNumBytesSent != (unsigned int) n) {
+		fprintf(stderr, "Write error (chunk, rc=%u, expected %d).\n",
+				dwNumBytesSent, n);
+		error(2);
+	}
+
+	for (int i = 0; i < n; i++)
+		data[i] = recv_byte();
+}
+
+uint8_t Spi::xfer_spi_bits(uint8_t data, int n) {
+	if (n < 1)
+		return 0;
+
+	/* Input and output, update data on negative edge read on positive, bits. */
+	send_byte(MC_DATA_IN | MC_DATA_OUT | MC_DATA_OCN | MC_DATA_BITS);
+	send_byte(n - 1);
+	send_byte(data);
+
+	return recv_byte();
+}
+
+void Spi::set_gpio(int slavesel_b, int creset_b) {
+	uint8_t gpio = 0;
+
+	if (slavesel_b) {
+		// ADBUS4 (GPIOL0)
+		gpio |= 0x10;
+	}
+
+	if (creset_b) {
+		// ADBUS7 (GPIOL3)
+		gpio |= 0x80;
+	}
+
+	send_byte(MC_SETB_LOW);
+	send_byte(gpio); /* Value */
+	send_byte(0x93); /* Direction */
+}
+
+int Spi::get_cdone() {
+	uint8_t data;
+	send_byte(MC_READB_LOW);
+	data = recv_byte();
+	// ADBUS6 (GPIOL2)
+	return (data & 0x40) != 0;
+}
+
+// ---------------------------------------------------------
+// FLASH function implementations
+// ---------------------------------------------------------
+
+// the FPGA reset is released so also FLASH chip select should be deasserted
+void Spi::flash_release_reset() {
+	set_gpio(1, 1);
+}
+
+// FLASH chip select assert
+// should only happen while FPGA reset is asserted
+void Spi::flash_chip_select() {
+	set_gpio(0, 0);
+}
+
+// FLASH chip select deassert
+void Spi::flash_chip_deselect() {
+	set_gpio(1, 0);
+}
+
+// SRAM reset is the same as flash_chip_select()
+// For ease of code reading we use this function instead
+void Spi::sram_reset() {
+	// Asserting chip select and reset lines
+	set_gpio(0, 0);
+}
+
+// SRAM chip select assert
+// When accessing FPGA SRAM the reset should be released
+void Spi::sram_chip_select() {
+	set_gpio(0, 1);
+}
+
+void Spi::flash_read_id() {
+	/* JEDEC ID structure:
+	 * Byte No. | Data Type
+	 * ---------+----------
+	 *        0 | FC_JEDECID Request Command
+	 *        1 | MFG ID
+	 *        2 | Dev ID 1
+	 *        3 | Dev ID 2
+	 *        4 | Ext Dev Str Len
+	 */
+
+	uint8_t data[260] = { FC_JEDECID };
+	int len = 5; // command + 4 response bytes
+
+	if (verbose)
+		fprintf(stdout, "read flash ID..\n");
+
+	flash_chip_select();
+
+	// Write command and read first 4 bytes
+	xfer_spi(data, len);
+
+	if (data[4] == 0xFF)
+		fprintf(stderr, "Extended Device String Length is 0xFF, "
+				"this is likely a read error. Ignorig...\n");
+	else {
+		// Read extended JEDEC ID bytes
+		if (data[4] != 0) {
+			len += data[4];
+			xfer_spi(data + 5, len - 5);
+		}
+	}
+
+	flash_chip_deselect();
+
+	fprintf(stdout, "flash ID:");
+	for (int i = 1; i < len; i++)
+		fprintf(stdout, " 0x%02X", data[i]);
+	fprintf(stdout, "\n");
+}
+
+void Spi::flash_reset() {
+	flash_chip_select();
+	xfer_spi_bits(0xFF, 8);
+	flash_chip_deselect();
+
+	flash_chip_select();
+	xfer_spi_bits(0xFF, 2);
+	flash_chip_deselect();
+}
+
+void Spi::flash_power_up() {
+	uint8_t data_rpd[1] = { FC_RPD };
+	flash_chip_select();
+	xfer_spi(data_rpd, 1);
+	flash_chip_deselect();
+}
+
+void Spi::flash_power_down() {
+	uint8_t data[1] = { FC_PD };
+	flash_chip_select();
+	xfer_spi(data, 1);
+	flash_chip_deselect();
+}
+
+uint8_t Spi::flash_read_status() {
+	uint8_t data[2] = { FC_RSR1 };
+
+	flash_chip_select();
+	xfer_spi(data, 2);
+	flash_chip_deselect();
+
+	if (verbose) {
+		fprintf(stdout, "SR1: 0x%02X\n", data[1]);
+		fprintf(stdout, " - SPRL: %s\n",
+				((data[1] & (1 << 7)) == 0) ? "unlocked" : "locked");
+		fprintf(stdout, " -  SPM: %s\n",
+				((data[1] & (1 << 6)) == 0) ?
+						"Byte/Page Prog Mode" : "Sequential Prog Mode");
+		fprintf(stdout, " -  EPE: %s\n",
+				((data[1] & (1 << 5)) == 0) ?
+						"Erase/Prog success" : "Erase/Prog error");
+		fprintf(stdout, "-  SPM: %s\n",
+				((data[1] & (1 << 4)) == 0) ?
+						"~WP asserted" : "~WP deasserted");
+		fprintf(stdout, " -  SWP: ");
+		switch ((data[1] >> 2) & 0x3) {
+		case 0:
+			fprintf(stdout, "All sectors unprotected\n");
+			break;
+		case 1:
+			fprintf(stdout, "Some sectors protected\n");
+			break;
+		case 2:
+			fprintf(stdout, "Reserved (xxxx 10xx)\n");
+			break;
+		case 3:
+			fprintf(stdout, "All sectors protected\n");
+			break;
+		}
+		fprintf(stdout, " -  WEL: %s\n",
+				((data[1] & (1 << 1)) == 0) ?
+						"Not write enabled" : "Write enabled");
+		fprintf(stdout, " - ~RDY: %s\n",
+				((data[1] & (1 << 0)) == 0) ? "Ready" : "Busy");
+	}
+
+	std::this_thread::sleep_for(std::chrono::milliseconds(1));
+	return data[1];
+}
+
+void Spi::flash_write_enable() {
+	if (verbose) {
+		fprintf(stdout, "status before enable:\n");
+		flash_read_status();
+	}
+
+	if (verbose)
+		fprintf(stdout, "write enable..\n");
+
+	uint8_t data[1] = { FC_WE };
+	flash_chip_select();
+	xfer_spi(data, 1);
+	flash_chip_deselect();
+
+	if (verbose) {
+		fprintf(stdout, "status after enable:\n");
+		flash_read_status();
+	}
+}
+
+void Spi::flash_bulk_erase() {
+	if (verbose)
+		fprintf(stdout, "bulk erase..\n");
+
+	uint8_t data[1] = { FC_CE };
+	flash_chip_select();
+	xfer_spi(data, 1);
+	flash_chip_deselect();
+}
+
+void Spi::flash_64kB_sector_erase(int addr) {
+	if (verbose)
+		fprintf(stdout, "erase 64kB sector at 0x%06X..\n", addr);
+
+	uint8_t command[4] = { FC_BE64, (uint8_t) (addr >> 16),
+			(uint8_t) (addr >> 8), (uint8_t) addr };
+
+	flash_chip_select();
+	send_spi(command, 4);
+	flash_chip_deselect();
+}
+
+void Spi::flash_prog(int addr, uint8_t *data, int n) {
+	if (verbose)
+		fprintf(stdout, "prog 0x%06X +0x%03X..\n", addr, n);
+
+	uint8_t command[4] = { FC_PP, (uint8_t) (addr >> 16), (uint8_t) (addr >> 8),
+			(uint8_t) addr };
+
+	flash_chip_select();
+	send_spi(command, 4);
+	send_spi(data, n);
+	flash_chip_deselect();
+
+	if (verbose)
+		for (int i = 0; i < n; i++)
+			fprintf(stderr, "%02x%c", data[i],
+					i == n - 1 || i % 32 == 31 ? '\n' : ' ');
+}
+
+void Spi::flash_read(int addr, uint8_t *data, int n) {
+	if (verbose)
+		fprintf(stdout, "read 0x%06X +0x%03X..\n", addr, n);
+
+	uint8_t command[4] = { FC_RD, (uint8_t) (addr >> 16), (uint8_t) (addr >> 8),
+			(uint8_t) addr };
+
+	flash_chip_select();
+	send_spi(command, 4);
+	memset(data, 0, n);
+	xfer_spi(data, n);
+	flash_chip_deselect();
+
+	if (verbose)
+		for (int i = 0; i < n; i++)
+			fprintf(stderr, "%02x%c", data[i],
+					i == n - 1 || i % 32 == 31 ? '\n' : ' ');
+}
+
+void Spi::flash_wait() {
+	if (verbose)
+		fprintf(stderr, "waiting..");
+
+	int count = 0;
+	while (1) {
+		uint8_t data[2] = { FC_RSR1 };
+
+		flash_chip_select();
+		xfer_spi(data, 2);
+		flash_chip_deselect();
+
+		if ((data[1] & 0x01) == 0) {
+			if (count < 2) {
+				count++;
+				if (verbose) {
+					fprintf(stderr, "r");
+					fflush(stderr);
+				}
+			} else {
+				if (verbose) {
+					fprintf(stderr, "R");
+					fflush(stderr);
+				}
+				break;
+			}
+		} else {
+			if (verbose) {
+				fprintf(stderr, ".");
+				fflush(stderr);
+			}
+			count = 0;
+		}
+
+		std::this_thread::sleep_for(std::chrono::milliseconds(1));
+	}
+
+	if (verbose)
+		fprintf(stderr, "\n");
+
+}
+
+void Spi::flash_disable_protection() {
+	fprintf(stderr, "disable flash protection...\n");
+
+	// Write Status Register 1 <- 0x00
+	uint8_t data[2] = { FC_WSR1, 0x00 };
+	flash_chip_select();
+	xfer_spi(data, 2);
+	flash_chip_deselect();
+
+	flash_wait();
+
+	// Read Status Register 1
+	data[0] = FC_RSR1;
+
+	flash_chip_select();
+	xfer_spi(data, 2);
+	flash_chip_deselect();
+
+	if (data[1] != 0x00)
+		fprintf(stderr,
+				"failed to disable protection, SR now equal to 0x%02x (expected 0x00)\n",
+				data[1]);
+
+}
+
+bool Spi::eraseFlash() {
+	fprintf(stdout, "reset..\n");
+
+	flash_chip_deselect();
+	std::this_thread::sleep_for(std::chrono::milliseconds(250));
+
+	fprintf(stdout, "cdone: %s\n", get_cdone() ? "high" : "low");
+
+	flash_reset();
+	flash_power_up();
+
+	flash_read_id();
+
+	flash_write_enable();
+	flash_bulk_erase();
+	flash_wait();
+
+	// ---------------------------------------------------------
+	// Reset
+	// ---------------------------------------------------------
+
+	flash_power_down();
+
+	set_gpio(1, 1);
+	std::this_thread::sleep_for(std::chrono::milliseconds(250));
+
+	fprintf(stdout, "cdone: %s\n", get_cdone() ? "high" : "low");
+
+	return true;
+}
+bool Spi::writeBin(string filename) {
+	int rw_offset = 0;
+
+	FILE *f = NULL;
+	long file_size = -1;
+
+	f = fopen(filename.c_str(), "rb");
+
+	if (f == NULL) {
+		fprintf(stderr, "Can't open '%s' for reading: ", filename.c_str());
+		return false;
+	}
+
+	if (fseek(f, 0L, SEEK_END) != -1) {
+		file_size = ftell(f);
+		if (file_size == -1) {
+			fprintf(stderr, "%s: ftell: ", filename.c_str());
+			return false;
+		}
+		if (fseek(f, 0L, SEEK_SET) == -1) {
+			fprintf(stderr, "%s: fseek: ", filename.c_str());
+			return false;
+		}
+	} else {
+		FILE *pipe = f;
+
+		f = tmpfile();
+		if (f == NULL) {
+			fprintf(stderr, "can't open temporary file\n");
+			return false;
+		}
+		file_size = 0;
+
+		while (true) {
+			static unsigned char buffer[4096];
+			size_t rc = fread(buffer, 1, 4096, pipe);
+			if (rc <= 0)
+				break;
+			size_t wc = fwrite(buffer, 1, rc, f);
+			if (wc != rc) {
+				fprintf(stderr, "can't write to temporary file\n");
+				return false;
+			}
+			file_size += rc;
+		}
+		fclose(pipe);
+
+		/* now seek to the beginning so we can
+		 start reading again */
+		fseek(f, 0, SEEK_SET);
+	}
+
+	cout << "Resetting..." << endl;
+
+	flash_chip_deselect();
+	std::this_thread::sleep_for(std::chrono::milliseconds(250));
+
+	cout << "cdone: " << (get_cdone() ? "high" : "low") << endl;
+
+	flash_reset();
+	flash_power_up();
+
+	flash_read_id();
+
+	int begin_addr = rw_offset & ~0xffff;
+	int end_addr = (rw_offset + file_size + 0xffff) & ~0xffff;
+
+	for (int addr = begin_addr; addr < end_addr; addr += 0x10000) {
+		flash_write_enable();
+		flash_64kB_sector_erase(addr);
+		if (verbose) {
+			fprintf(stderr, "Status after block erase:\n");
+			flash_read_status();
+		}
+		flash_wait();
+	}
+
+	cout << "Programming... ";
+
+	for (int rc, addr = 0; true; addr += rc) {
+		uint8_t buffer[256];
+		int page_size = 256 - (rw_offset + addr) % 256;
+		rc = fread(buffer, 1, page_size, f);
+		if (rc <= 0)
+			break;
+		flash_write_enable();
+		flash_prog(rw_offset + addr, buffer, rc);
+		flash_wait();
+	}
+
+	cout << "Done." << endl;
+
+	/* seek to the beginning for second pass */
+	fseek(f, 0, SEEK_SET);
+
+	// ---------------------------------------------------------
+	// Reset
+	// ---------------------------------------------------------
+
+	flash_power_down();
+
+	set_gpio(1, 1);
+	std::this_thread::sleep_for(std::chrono::milliseconds(250));
+
+	cout << "cdone: " << (get_cdone() ? "high" : "low") << endl;
+	cout << "Done." << endl;
+
+	if (f != NULL && f != stdin && f != stdout)
+		fclose(f);
+	return true;
+}
--- a/alchitry-loader/src/spi.h
+++ b/alchitry-loader/src/spi.h
@ -0,0 +1,66 @@
+/*
+ * spi.h
+ *
+ *  Created on: Feb 5, 2019
+ *      Author: justin
+ */
+
+#ifndef SPI_H_
+#define SPI_H_
+
+#include "ftd2xx.h"
+#include <unistd.h>
+#include <string>
+
+using namespace std;
+
+class Spi {
+	FT_HANDLE ftHandle;
+	unsigned int uiDevIndex = 0xF; // The device in the list that is used
+	bool active;
+	bool verbose;
+
+public:
+	Spi();
+	FT_STATUS connect(unsigned int);
+	FT_STATUS disconnect();
+	bool initialize();
+	bool eraseFlash();
+	bool writeBin(string);
+
+private:
+	bool sync_mpsse();
+	bool config_spi();
+	static void hexToByte(string, BYTE*);
+	bool flush();
+	bool compareHexString(string, string, string);
+	void check_rx();
+	void error(int);
+	BYTE recv_byte();
+	void send_byte(BYTE data);
+	void send_spi(uint8_t *data, int n);
+	void xfer_spi(uint8_t *data, int n);
+	uint8_t xfer_spi_bits(uint8_t data, int n);
+	void set_gpio(int slavesel_b, int creset_b);
+	int get_cdone();
+	void flash_release_reset();
+	void flash_chip_select();
+	void flash_chip_deselect();
+	void sram_reset();
+	void sram_chip_select();
+	void flash_read_id();
+	void flash_reset();
+	void flash_power_up();
+	void flash_power_down();
+	uint8_t flash_read_status();
+	void flash_write_enable();
+	void flash_bulk_erase();
+	void flash_64kB_sector_erase(int addr);
+	void flash_prog(int addr, uint8_t *data, int n);
+	void flash_read(int addr, uint8_t *data, int n);
+	void flash_wait();
+	void flash_disable_protection();
+
+};
+
+#endif /* SPI_H_ */