# Path: lib/page.py
# class Page:
# 	def __init__(self):
# 	def addSection(self, title, content, footer=None, description=None, container=True):
# 	def addSectionFront(self, title, content, footer=None, description=None, container=True):
# 	def addNav(self, nav_list, active_title=""):
# 	def enableNavSeparators(self,enable):
# 	def addScript(self, script):
# 	def addStyle(self, style):
# 	def setNavRight(self, nav):
# 	def setSidebarFooter(self, html):
# 	def enableFullscreenSections(self):
# 	def enableSidebar(self,enable):
# 	def setFooter(self,footer):
# 	def html(self):
# 
# Path: lib/util.py
# STATUS_NORMAL=1
# STATUS_MAX_MEMORY_EXCEEDED=2
# STATUS_MAX_RUNTIME_EXCEEDED=3
# MAX_LEN_OUT = 10000
# def runAndMeasure(command,detailed=True,maxtime=0,maxmem=0):
# def runSimple(command):
# def runAndMeasureInternal(return_queue,command,maxtime=0,maxmem=0):
# def runInternal(control_queue,command,max_memory):
# def measureProcess(queue, initial_pids, command, measurement_interval=1, max_runtime=0, max_memory=0, debug=False):
# 	def extendTargets(targets, proc):
# 	def killTargets(targets):
# 	def updateTargets(targets, metrics):
# 	def updateMetrics(target, metrics):
# def loadConfig(name, parent_dir="", already_included=[]):
# def setCallDir(d):
# def setRootDir(d):
# def enterCallDir():
# def enterRootDir():
# def getRootDir():
# def nl2br(text):
# def msg(text="", level=1):
# def yes_no(b):
# def md5(text):
# def merge(x, y):
# def formatFilesize(n):
# def percent(val, base, offset=0):
# def abs_path(path):
# def get_sam_header_line_count(filename):
# def is_sam_sorted(filename):
# def sort_sam(filename,threads=1):
# def sort_sam_picard(filename,threads=-1):
# def line_count(filename):
# def sanitize_string(s):
# def makeExportDropdown(plot_id,csv_filename):
# def parseMD(md,seq):


import time
import os
import sys
import math
import yaml
		import json
			import report_plot
from lib import page
from lib import util
				elif measure == "corrects":
					try:
						value = test.getRunResults().correct / float(test.getRunResults().maptime)
					except ZeroDivisionError:
						value = 0

				elif measure == "precision":
					value = test.getRunResults().precision
				elif measure == "recall":
					value = test.getRunResults().recall
				elif measure == "fmeasure":
					value = test.getRunResults().fmeasure
				value = round(value, 4)
				column.append(value)

			if len(column):
				data.append(column)

		if min != 0:
			min_str = ",min: %f" % min
		else:
			min_str = ""

		titles = []
		for name in self.mate.getTestNameList():
			tests = self.mate.getTestsByName(name)
			if len(tests) != 0 and tests[0]._("base") == "tests_base/base_mapping":
				titles.append(tests[0].getTitle())
		# titles=["0%","75%","90%","95%","99%"]
		page.addSection("Results: %s" % title_section, """<div id="plot_%s"></div>%s""" % (measure,util.makeExportDropdown("plot_%s"%measure,"")))

# Path: lib/page.py
# class Page:
# 	def __init__(self):
# 	def addSection(self, title, content, footer=None, description=None, container=True):
# 	def addSectionFront(self, title, content, footer=None, description=None, container=True):
# 	def addNav(self, nav_list, active_title=""):
# 	def enableNavSeparators(self,enable):
# 	def addScript(self, script):
# 	def addStyle(self, style):
# 	def setNavRight(self, nav):
# 	def setSidebarFooter(self, html):
# 	def enableFullscreenSections(self):
# 	def enableSidebar(self,enable):
# 	def setFooter(self,footer):
# 	def html(self):
# 
# Path: lib/util.py
# STATUS_NORMAL=1
# STATUS_MAX_MEMORY_EXCEEDED=2
# STATUS_MAX_RUNTIME_EXCEEDED=3
# MAX_LEN_OUT = 10000
# def runAndMeasure(command,detailed=True,maxtime=0,maxmem=0):
# def runSimple(command):
# def runAndMeasureInternal(return_queue,command,maxtime=0,maxmem=0):
# def runInternal(control_queue,command,max_memory):
# def measureProcess(queue, initial_pids, command, measurement_interval=1, max_runtime=0, max_memory=0, debug=False):
# 	def extendTargets(targets, proc):
# 	def killTargets(targets):
# 	def updateTargets(targets, metrics):
# 	def updateMetrics(target, metrics):
# def loadConfig(name, parent_dir="", already_included=[]):
# def setCallDir(d):
# def setRootDir(d):
# def enterCallDir():
# def enterRootDir():
# def getRootDir():
# def nl2br(text):
# def msg(text="", level=1):
# def yes_no(b):
# def md5(text):
# def merge(x, y):
# def formatFilesize(n):
# def percent(val, base, offset=0):
# def abs_path(path):
# def get_sam_header_line_count(filename):
# def is_sam_sorted(filename):
# def sort_sam(filename,threads=1):
# def sort_sam_picard(filename,threads=-1):
# def line_count(filename):
# def sanitize_string(s):
# def makeExportDropdown(plot_id,csv_filename):
# def parseMD(md,seq):


# Path: lib/report.py
import time
import os
import sys
import math
import yaml
		import json
			import report_plot
from lib import page
from lib import util

				elif measure == "corrects":
					try:
						value = test.getRunResults().correct / float(test.getRunResults().maptime)
					except ZeroDivisionError:
						value = 0

				elif measure == "precision":
					value = test.getRunResults().precision
				elif measure == "recall":
					value = test.getRunResults().recall
				elif measure == "fmeasure":
					value = test.getRunResults().fmeasure
				value = round(value, 4)
				column.append(value)

			if len(column):
				data.append(column)

		if min != 0:
			min_str = ",min: %f" % min
		else:
			min_str = ""

		titles = []
		for name in self.mate.getTestNameList():
			tests = self.mate.getTestsByName(name)
			if len(tests) != 0 and tests[0]._("base") == "tests_base/base_mapping":
				titles.append(tests[0].getTitle())
		# titles=["0%","75%","90%","95%","99%"]
		page.addSection("Results: %s" % title_section, """<div id="plot_%s"></div>%s""" % (measure,util.makeExportDropdown("plot_%s"%measure,"")))

		page.addScript("""