def getLsos(self):
"""
Return a function to display R memory usage
"""
fileName = PathDefaults.getSourceDir() + "/apgl/metabolomics/R/Util.R"
robjects.r["source"](fileName)
return robjects.r['lsos']
def test():
"""
A function which uses the unittest library to find all tests within apgl (those files
matching "*Test.py"), and run those tests. In python 2.7 and above the unittest framework
is used otherwise one needs unittest2 for python 2.3-2.6.
"""
try:
import traceback
import sys
import os
import logging
from apgl.util.PathDefaults import PathDefaults
logging.disable(logging.WARNING)
#logging.disable(logging.INFO)
sourceDir = PathDefaults.getSourceDir()
print("Running tests from " + sourceDir)
version = getPythonVersion()
if version >= 2.7:
import unittest
else:
import unittest2 as unittest
overallTestSuite = unittest.TestSuite()
overallTestSuite.addTest(unittest.defaultTestLoader.discover(os.path.join(sourceDir, "data"), pattern='*Test.py', top_level_dir=sourceDir))
overallTestSuite.addTest(unittest.defaultTestLoader.discover(os.path.join(sourceDir, "features"), pattern='*Test.py', top_level_dir=sourceDir))
overallTestSuite.addTest(unittest.defaultTestLoader.discover(os.path.join(sourceDir, "generator"), pattern='*Test.py', top_level_dir=sourceDir))
overallTestSuite.addTest(unittest.defaultTestLoader.discover(os.path.join(sourceDir, "graph"), pattern='*Test.py', top_level_dir=sourceDir))
overallTestSuite.addTest(unittest.defaultTestLoader.discover(os.path.join(sourceDir, "kernel"), pattern='*Test.py', top_level_dir=sourceDir))
overallTestSuite.addTest(unittest.defaultTestLoader.discover(os.path.join(sourceDir, "predictors"), pattern='*Test.py', top_level_dir=sourceDir))
overallTestSuite.addTest(unittest.defaultTestLoader.discover(os.path.join(sourceDir, "util"), pattern='*Test.py', top_level_dir=sourceDir))
unittest.TextTestRunner(verbosity=1).run(overallTestSuite)
except ImportError as error:
traceback.print_exc(file=sys.stdout)
def test():
"""
A function which uses the unittest library to find all tests within apgl (those files
matching "*Test.py"), and run those tests. In python 2.7 and above the unittest framework
is used otherwise one needs unittest2 for python 2.3-2.6.
"""
try:
import traceback
import sys
import os
import logging
from apgl.util.PathDefaults import PathDefaults
logging.disable(logging.WARNING)
#logging.disable(logging.INFO)
sourceDir = PathDefaults.getSourceDir()
print("Running tests from " + sourceDir)
version = getPythonVersion()
if version >= 2.7:
import unittest
else:
import unittest2 as unittest
overallTestSuite = unittest.TestSuite()
overallTestSuite.addTest(unittest.defaultTestLoader.discover(os.path.join(sourceDir, "generator"), pattern='*Test.py', top_level_dir=sourceDir))
overallTestSuite.addTest(unittest.defaultTestLoader.discover(os.path.join(sourceDir, "graph"), pattern='*Test.py', top_level_dir=sourceDir))
overallTestSuite.addTest(unittest.defaultTestLoader.discover(os.path.join(sourceDir, "util"), pattern='*Test.py', top_level_dir=sourceDir))
unittest.TextTestRunner(verbosity=1).run(overallTestSuite)
except ImportError as error:
traceback.print_exc(file=sys.stdout)
def testGetProjectDir(self):
print((PathDefaults.getSourceDir()))
def __loadLeafRanks(self):
utilFileName = PathDefaults.getSourceDir() + "/apgl/metabolomics/R/Util.R"
leafRanksFileName = PathDefaults.getSourceDir() + "/apgl/metabolomics/R/MSLeafRanks.R"
robjects.r["source"](utilFileName)
robjects.r["source"](leafRanksFileName)
def testGetProjectDir(self):
print((PathDefaults.getSourceDir()))
def testGetProjectDir(self):
logging.debug((PathDefaults.getSourceDir()))
