print '\n'
print '\n'
#end def
ppid = os.getpid()
import DegenPrimer.TD_Functions as tdf
from DegenPrimer.SearchEngine import SearchEngine
from DegenPrimer.WorkCounter import WorkCounter
tdf.PCR_P.PCR_T = 60
searcher = SearchEngine(abort_event)
cProfile.runctx('for x in xrange(10): searcher._find(WorkCounter(), template, primer, len(template), len(primer), 6)',
globals(), locals(), 'SearchEngine._find.profile')
matches = searcher._find_mp(WorkCounter(), template[:2000], primer, len(template), len(primer), 6)
cProfile.runctx('for x in xrange(10): searcher.compile_duplexes(WorkCounter(), *matches)',
globals(), locals(), 'SearchEngine.compile_duplexes.profile')
f = 'test_search_results.txt'
dups = searcher.compile_duplexes(WorkCounter(), *matches)
if not os.path.isfile(f):
with open(f, 'w') as out:
out.write(str(dups))
sys.exit()
else:
with open(f, 'r') as inp:
if str(dups) != inp.read():
with open(f+'.wrong', 'w') as out:
out.write(str(dups))
raise RuntimeError('compiled duplexes differ from the standard')
#end def
ppid = os.getpid()
import DegenPrimer.TD_Functions as tdf
from DegenPrimer.SearchEngine import SearchEngine
from DegenPrimer.WorkCounter import WorkCounter
tdf.PCR_P.PCR_T = 60
searcher = SearchEngine(abort_event)
cProfile.runctx(
'for x in xrange(10): searcher._find(WorkCounter(), template, primer, len(template), len(primer), 6)',
globals(), locals(), 'SearchEngine._find.profile')
matches = searcher._find_mp(WorkCounter(), template[:2000], primer,
len(template), len(primer), 6)
cProfile.runctx(
'for x in xrange(10): searcher.compile_duplexes(WorkCounter(), *matches)',
globals(), locals(), 'SearchEngine.compile_duplexes.profile')
f = 'test_search_results.txt'
dups = searcher.compile_duplexes(WorkCounter(), *matches)
if not os.path.isfile(f):
with open(f, 'w') as out:
out.write(str(dups))
sys.exit()
else:
with open(f, 'r') as inp:
if str(dups) != inp.read():
with open(f + '.wrong', 'w') as out:
out.write(str(dups))
