def spawn_tasks(self):
""" This spawns ipython ipengine tasks
NOTE: These ipython tasks are intended to be run on a single machine (transx)
"""
Get_Classifications_For_Ptf_Srcid = GetClassificationsForPtfSrcid(
schema_str=self.schema_str
) # this class is just loaded for the next simple method (really, this next method could exist elsewhere and less initialization would be needed):
total_srcid_list = Get_Classifications_For_Ptf_Srcid.retrieve_ptf_variable_sources(
)
# KLUDGE: unfortunately we need to reinitialize taskclient due to memory leaks in a primary class.
list_incr = 5
for i_low in xrange(0, len(total_srcid_list), list_incr):
short_srcid_list = total_srcid_list[i_low:i_low + list_incr]
exec_str = """schema_str="%s"
for src_id in srcid_list:
try:
#is_already_ingested = Get_Classifications_For_Ptf_Srcid.check_srcid_ingested(src_id, schema_str)
#if not is_already_ingested:
if True:
Get_Classifications_For_Ptf_Srcid.main(src_id=src_id)
except:
pass # skipping this srcid""" % (self.schema_str)
taskid = self.tc.run(client.StringTask(exec_str, \
push={'srcid_list':short_srcid_list}))
def visitLink(self, url):
if url not in self.allLinks:
self.allLinks.append(url)
if url.startswith(self.site):
print ' ', url
self.linksWorking[url] = self.tc.run(
client.StringTask('links = fetchAndParse(url)',
pull=['links'],
push={'url': url}))
def time_twisted(nmessages, t=0, f=wait):
from IPython.kernel import client as kc
client = kc.TaskClient()
if f is wait:
s = "import time; time.sleep(%f)"%t
task = kc.StringTask(s)
elif f is echo:
t = np.random.random(t/8)
s = "s=t"
task = kc.StringTask(s, push=dict(t=t), pull=['s'])
else:
raise
# do one ping before starting timing
client.barrier(client.run(task))
tic = time.time()
tids = []
for i in xrange(nmessages):
tids.append(client.run(task))
lap = time.time()
client.barrier(tids)
toc = time.time()
return lap-tic, toc-tic
def parallel_populate_mysql_with_initial_tutor_sources(self, fpath_list, \
test_aitc=None):
""" This takes fpaths to TUTOR Vosource.xmls and adds each source's
srcid, science_class to class table in parallel using Ipython1.
"""
if test_aitc != None:
# for linear TESTING without Ipython1 / parallelization:
for fpath in fpath_list:
test_aitc.insert_vosource_info_into_table(fpath)
return
from IPython.kernel import client
tc = client.TaskClient()
for fpath in fpath_list:
exec_str = "aitc.insert_vosource_info_into_table('%s')" % (fpath)
taskid = tc.run(client.StringTask(exec_str))
self.running_ingest_tasks.append(taskid)
def generate_classifications(self, schema_str=""):
"""
"""
from IPython.kernel import client # 20091202 added
##### Do classifications using schema
import get_classifications_for_ptf_srcid_and_class_schema
IpythonTaskController = get_classifications_for_ptf_srcid_and_class_schema.\
Ipython_Task_Controller(schema_str=schema_str)
IpythonTaskController.initialize_ipengines()
#IpythonTaskController.spawn_tasks()
srcid_list = []
select_str = 'SELECT tcp_srcid FROM ' + self.pars['lookup_tablename'] + ' WHERE tcp_srcid IS NOT NULL AND (class_type LIKE "%rrl%" OR class_type LIKE "%EB%" OR class_type LIKE "\%epheid\%")'
self.cursor.execute(select_str)
rows = self.cursor.fetchall()
for row in rows:
srcid_list.append(row[0])
list_incr = 5
for i_low in xrange(0, len(srcid_list), list_incr):
short_srcid_list = srcid_list[i_low:i_low + list_incr]
if 0:
### For debugging only:
import classification_interface
import plugin_classifier
import get_classifications_for_ptf_srcid_and_class_schema
Get_Classifications_For_Ptf_Srcid = get_classifications_for_ptf_srcid_and_class_schema.GetClassificationsForPtfSrcid(schema_str=schema_str)
Get_Classifications_For_Ptf_Srcid.main(src_id=short_srcid_list[0])
exec_str = """schema_str="%s"
for src_id in srcid_list:
try:
if True:
Get_Classifications_For_Ptf_Srcid.main(src_id=src_id)
except:
pass # skipping this srcid""" % (schema_str)
taskid = IpythonTaskController.tc.run(client.StringTask(exec_str, \
push={'srcid_list':short_srcid_list}))
IpythonTaskController.wait_for_tasks_to_finish()
def main(self):
""" Main function for Testing.
"""
# This tests the Multi-engine interface:
mec = client.MultiEngineClient()
exec_str = """import os
os.environ['TCP_SEX_BIN']=os.path.expandvars('$HOME/bin/sex')
os.environ['TCP_WCSTOOLS_DIR']=os.path.expandvars('$HOME/src/install/wcstools-3.6.4/bin/')
os.environ['TCP_DIR']=os.path.expandvars('$HOME/src/TCP/')
os.environ['TCP_DATA_DIR']=os.path.expandvars('$HOME/scratch/TCP_scratch/')
os.environ['CLASSPATH']=os.path.expandvars('$HOME/src/install/weka-3-5-7/weka.jar')
"""
#if os.path.exists(os.path.expandvars("$HOME/.ipython/custom_configs")): execfile(os.path.expandvars("$HOME/.ipython/custom_configs"))
mec.execute(exec_str)
# This tests the task client interface:
tc = client.TaskClient()
task_list = []
n_iters_total = 8
n_iters_per_clear = 10
for i in xrange(n_iters_total):
task_str = """cat = os.getpid()""" # os.getpid() # os.environ
taskid = tc.run(client.StringTask(task_str, pull="cat"))
task_list.append(taskid)
### NOTE: This can be used to thin down the ipcontroller memory storage of
### finished tasks, but afterwards you cannot retrieve values (below):
#if (i % n_iters_per_clear == 0):
# tc.clear()
print '!!! NUMBER OF TASKS STILL SCHEDULED: ', tc.queue_status(
)['scheduled']
for i, taskid in enumerate(task_list):
### NOTE: The following retrieval doesnt work if
### tc.clear() was called earlier:
task_result = tc.get_task_result(taskid, block=True)
print task_result['cat']
print 'done'
print tc.queue_status()
def spawn_tasks__crap2(self):
""" This spawns ipython ipengine tasks
NOTE: These ipython tasks are intended to be run on a single machine (transx)
"""
Get_Classifications_For_Ptf_Srcid = GetClassificationsForPtfSrcid(
schema_str=self.schema_str
) # this class is just loaded for the next simple method (really, this next method could exist elsewhere and less initialization would be needed):
total_srcid_list = Get_Classifications_For_Ptf_Srcid.retrieve_ptf_variable_sources(
)
# KLUDGE: unfortunately we need to reinitialize taskclient due to memory leaks in a primary class.
#list_incr = 5
#for i_low in xrange(0, len(total_srcid_list), list_incr):
# short_srcid_list = total_srcid_list[i_low:i_low + list_incr]
if 1:
short_srcid_list = total_srcid_list
exec_str = """schema_str="%s"
import os,sys
import classification_interface
import plugin_classifier
import ptf_master
import MySQLdb
import get_classifications_for_ptf_srcid_and_class_schema
Get_Classifications_For_Ptf_Srcid = get_classifications_for_ptf_srcid_and_class_schema.GetClassificationsForPtfSrcid(schema_str=schema_str)
for src_id in srcid_list:
try:
is_already_ingested = Get_Classifications_For_Ptf_Srcid.check_srcid_ingested(src_id, schema_str)
if not is_already_ingested:
Get_Classifications_For_Ptf_Srcid.main(src_id=src_id)
except:
pass # skipping this srcid
del Get_Classifications_For_Ptf_Srcid""" % (self.schema_str)
taskid = self.tc.run(client.StringTask(exec_str, \
push={'srcid_list':short_srcid_list}, \
clear_after=True))
task_string = """\
op = MCOptionPricer(S,K,sigma,r,days,paths)
op.run()
vp, ap, vc, ac = op.vanilla_put, op.asian_put, op.vanilla_call, op.asian_call
"""
# Create arrays of strike prices and volatilities
K_vals = N.linspace(90.0, 100.0, 5)
sigma_vals = N.linspace(0.0, 0.2, 5)
# Submit tasks
taskids = []
for K in K_vals:
for sigma in sigma_vals:
t = client.StringTask(task_string,
push=dict(sigma=sigma, K=K),
pull=('vp', 'ap', 'vc', 'ac', 'sigma', 'K'))
taskids.append(tc.run(t))
print "Submitted tasks: ", taskids
# Block until tasks are completed
tc.barrier(taskids)
# Get the results
results = [tc.get_task_result(tid) for tid in taskids]
# Assemble the result
vc = N.empty(K_vals.shape[0] * sigma_vals.shape[0], dtype='float64')
vp = N.empty(K_vals.shape[0] * sigma_vals.shape[0], dtype='float64')
ac = N.empty(K_vals.shape[0] * sigma_vals.shape[0], dtype='float64')
#!/usr/bin/env python
# encoding: utf-8
from IPython.kernel import client
import time
tc = client.TaskClient()
mec = client.MultiEngineClient()
mec.execute('import time')
for i in range(24):
tc.run(client.StringTask('time.sleep(1)'))
for i in range(6):
time.sleep(1.0)
print "Queue status (vebose=False)"
print tc.queue_status()
for i in range(24):
tc.run(client.StringTask('time.sleep(1)'))
for i in range(6):
time.sleep(1.0)
print "Queue status (vebose=True)"
print tc.queue_status(True)
for i in range(12):
tc.run(client.StringTask('time.sleep(2)'))
print "Queue status (vebose=True)"
def simulate(self):
ep = self.expParams
ep.samplingTime = int(ep.Tsim / (200 * ep.DTsim))
m = self.models
r = self.recordings
# Run simulation
print 'Running lsms:', datetime.today().strftime('%x %X')
t0=datetime.today()
self.net.reset();
cmd = """
exper.reset()
exper.models.input.resetStimulus(SUD)
exper.run('oneRun', saveData = False)
resp,inp = exper.getOutput()
"""
tc = self.IPcluster.getTaskControllerClient()
tids=[]
print "Preparing liquid responses for training phase..."
for i in range(len(m.SudList)):
tids.append(tc.run(kernel.StringTask(cmd, pull=['resp','inp'], push=dict(SUD=m.SudList[i]))))
print len(tids), 'Tasks started...'
tc.barrier(tids)
m.trainResp = []
m.trainInp = []
for tid in range(len(tids)):
res = tc.get_task_result(tids[tid])
if None<>res.failure:
res.failure.printDetailedTraceback()
res.failure.raiseException()
m.trainResp.append(res.results['resp'])
m.trainInp.append(res.results['inp'])
print "Done."
print "number of synapses of the first circuit is ", m.trainResp[0].numSynapses
r.numSynapses = m.trainResp[0].numSynapses
print "Shutting down cluster ..."
self.IPcluster.stop()
print "Done"
currEpoch = 0
for currPhase in range(len(m.sudListSegments)):
m.phasePreparations[currPhase]()
print "Starting phase :", m.sudListSegments[currPhase][0]
for epochWithinPhase in range(m.sudListSegments[currPhase][1],m.sudListSegments[currPhase][2]):
if currEpoch % 10 == 0:
stdout.write(str(currEpoch))
else:
stdout.write(".")
m.rewardInput.reset(currEpoch, m.trainResp[currEpoch], m.SudList[currEpoch][2])
m.readout.diminishWeights()
self.net.advance(int(ep.trialT / ep.DTsim))
currEpoch += 1
print "done."
t1=datetime.today()
print '\nDone.', (t1-t0).seconds, 'sec CPU time for', ep.Tsim, 's simulation time';
self.expParams.simDuration = (t1 - t0).seconds
"""
A Distributed Hello world
Ken Kinder <*****@*****.**>
"""
from IPython.kernel import client
tc = client.TaskClient()
mec = client.MultiEngineClient()
mec.execute('import time')
hello_taskid = tc.run(client.StringTask('time.sleep(3) ; word = "Hello,"', pull=('word')))
world_taskid = tc.run(client.StringTask('time.sleep(3) ; word = "World!"', pull=('word')))
print "Submitted tasks:", hello_taskid, world_taskid
print tc.get_task_result(hello_taskid,block=True).ns.word, tc.get_task_result(world_taskid,block=True).ns.word
def populate_mysql_with_iterative_classes_for_sources(self, aitc, \
vsrc_xml_fpath_list=[], \
do_nonparallel=False):
""" Here we actually iteratively add the individual epochs
for a vosource, classify, and enter into the analysis Mysql table.
"""
# TODO: Here we retrieve all relevant vosource.xml fpaths from
# mysql table
if len(vsrc_xml_fpath_list) > 0:
vosource_fpath_list = vsrc_xml_fpath_list
else:
select_str = "SELECT fpath FROM %s" % (self.pars['table_name'])
aitc.cursor.execute(select_str)
results = aitc.cursor.fetchall()
vosource_fpath_list = []
for result in results:
vosource_fpath_list.append(result[0])
if do_nonparallel:
import ptf_master
#special_vosource_fpath_list = []
#for elem in special_vosource_fpath_list:
# try:
# vosource_fpath_list.pop(elem)
# except:
# pass
#special_vosource_fpath_list.extend(vosource_fpath_list)
#for i,fpath in enumerate(special_vosource_fpath_list):
for i,fpath in enumerate(vosource_fpath_list):
ptf_master.test_nonthread_nonipython1(use_postgre_ptf=False,
case_simulate_ptf_stream_using_vosource=True,
vosource_xml_fpath=fpath,
case_poll_for_recent_postgre_table_entries=False,
insert_row_into_iterative_class_probs=True)
print "Done: VOSource %d of %d" % (i, len(vosource_fpath_list))
return (None, None)
##### For debugging using cProfile, kcachegrind, etc:
#p = cProfile.Profile()
#p.run("""
#import ptf_master
#for i,fpath in enumerate(%s):
# ptf_master.test_nonthread_nonipython1(use_postgre_ptf=False,
# case_simulate_ptf_stream_using_vosource=True,
# vosource_xml_fpath=fpath,
# case_poll_for_recent_postgre_table_entries=False,
# insert_row_into_iterative_class_probs=True)""" % (str(vosource_fpath_list[:14])))
#k = lsprofcalltree.KCacheGrind(p)
#data = open('/tmp/prof_14.kgrind', 'w+')
#k.output(data)
#data.close()
#sys.exit()
from ipython1.kernel import client
tc = client.TaskClient((self.pars['ipython_host_ip'], \
self.pars['ipython_taskclient_port']))
for fpath in vosource_fpath_list:
exec_str = \
"""ptf_master.test_nonthread_nonipython1(use_postgre_ptf=False,
case_simulate_ptf_stream_using_vosource=True,
vosource_xml_fpath='%s',
case_poll_for_recent_postgre_table_entries=False,
insert_row_into_iterative_class_probs=True)
""" % (fpath)
taskid = tc.run(client.StringTask(exec_str))
self.running_ingest_tasks.append(taskid)
#print 'yo' # print tc.get_task_result(self.running_ingest_tasks[243], block=False)
return (tc, vosource_fpath_list) # for polling which task threads are still queued, which are finished.
def main():
parser = OptionParser()
parser.set_defaults(n=100)
parser.set_defaults(tmin=1)
parser.set_defaults(tmax=60)
parser.set_defaults(controller='localhost')
parser.set_defaults(meport=10105)
parser.set_defaults(tport=10113)
parser.add_option("-n",
type='int',
dest='n',
help='the number of tasks to run')
parser.add_option("-t",
type='float',
dest='tmin',
help='the minimum task length in seconds')
parser.add_option("-T",
type='float',
dest='tmax',
help='the maximum task length in seconds')
parser.add_option("-c",
type='string',
dest='controller',
help='the address of the controller')
parser.add_option(
"-p",
type='int',
dest='meport',
help=
"the port on which the controller listens for the MultiEngine/RemoteController client"
)
parser.add_option(
"-P",
type='int',
dest='tport',
help=
"the port on which the controller listens for the TaskClient client")
(opts, args) = parser.parse_args()
assert opts.tmax >= opts.tmin, "tmax must not be smaller than tmin"
rc = client.MultiEngineClient()
tc = client.TaskClient()
print tc.task_controller
rc.block = True
nengines = len(rc.get_ids())
rc.execute('from IPython.utils.timing import time')
# the jobs should take a random time within a range
times = [
random.random() * (opts.tmax - opts.tmin) + opts.tmin
for i in range(opts.n)
]
tasks = [client.StringTask("time.sleep(%f)" % t) for t in times]
stime = sum(times)
print "executing %i tasks, totalling %.1f secs on %i engines" % (
opts.n, stime, nengines)
time.sleep(1)
start = time.time()
taskids = [tc.run(t) for t in tasks]
tc.barrier(taskids)
stop = time.time()
ptime = stop - start
scale = stime / ptime
print "executed %.1f secs in %.1f secs" % (stime, ptime)
print "%.3fx parallel performance on %i engines" % (scale, nengines)
print "%.1f%% of theoretical max" % (100 * scale / nengines)
def main_ipython_cluster(self,
noisify_attribs=[],
ntrees=100,
mtry=25,
nodesize=5,
n_iters=23):
""" Main() for Debug_Feature_Class_Dependence
Partially adapted from compare_randforest_classifers.py
do training and crossvalidation on just Debosscher data for spped.
- parse debosscher arff
- remove certain features
- train/test classifier using cross validation
- store error rates for those removed features
"""
try:
from IPython.kernel import client
except:
pass
tc = self.initialize_mec(client=client)
result_dict = {}
new_orig_feat_tups = []
task_id_list = []
for feat_name in noisify_attribs:
tc_exec_str = """
new_orig_feat_tups = ''
task_randint = random.randint(0,1000000000000)
classifier_base_dirpath = os.path.expandvars("$HOME/scratch/debug_feature_classifier_dependence/%d" % (task_randint))
os.system("mkdir -p %s" % (classifier_base_dirpath))
try:
DebugFeatureClassDependence = debug_feature_classifier_dependence.Debug_Feature_Class_Dependence(pars={'algorithms_dirpath':os.path.abspath(os.environ.get("TCP_DIR") + 'Algorithms/')})
out_dict = DebugFeatureClassDependence.get_crossvalid_errors_for_single_arff(arff_fpath=pars['orig_arff_dirpath'],
noisify_attribs=[feat_name],
ntrees=ntrees,
mtry=mtry,
nodesize=nodesize,
n_iters=n_iters,
classifier_base_dirpath=classifier_base_dirpath,
algorithms_dirpath=os.path.abspath(os.environ.get("TCP_DIR") + 'Algorithms/'))
orig_wa = numpy.average(out_dict['means'], weights=out_dict['stds'])
DebugFeatureClassDependence.load_rpy2_rc(algorithms_dirpath=os.path.abspath(os.environ.get("TCP_DIR") + 'Algorithms/'))
out_dict = DebugFeatureClassDependence.get_crossvalid_errors_for_single_arff(arff_fpath=pars['new_arff_dirpath'],
noisify_attribs=[feat_name],
ntrees=ntrees,
mtry=mtry,
nodesize=nodesize,
n_iters=n_iters,
classifier_base_dirpath=classifier_base_dirpath,
algorithms_dirpath=os.path.abspath(os.environ.get("TCP_DIR") + 'Algorithms/'))
new_wa = numpy.average(out_dict['means'], weights=out_dict['stds'])
new_orig_feat_tups = (new_wa - orig_wa, feat_name, numpy.std(out_dict['means']))
except:
new_orig_feat_tups = str(sys.exc_info())
"""
taskid = tc.run(
client.StringTask(
tc_exec_str,
push={
'pars': pars,
'feat_name': feat_name,
'ntrees': ntrees,
'mtry': mtry,
'nodesize': nodesize,
'n_iters': n_iters
},
pull='new_orig_feat_tups', #'new_orig_feat_tups',
retries=3))
task_id_list.append(taskid)
if 0:
### debug: This inspect.getmembers() only works if task doesnt fail:
time.sleep(60)
temp = tc.get_task_result(taskid, block=False)
import inspect
for a, b in inspect.getmembers(temp):
print a, b
out_dict = temp.results.get('new_orig_feat_tups', None)
import pdb
pdb.set_trace()
print
######
new_orig_feat_tups = self.wait_for_task_completion(
task_id_list=task_id_list, tc=tc)
new_orig_feat_tups.sort()
pprint.pprint(new_orig_feat_tups)
import pdb
pdb.set_trace()
print
from IPython.kernel import client tc = client.TaskClient() rc = client.MultiEngineClient() rc.push(dict(d=30)) cmd1 = """\ a = 5 b = 10*d c = a*b*d """ t1 = client.StringTask(cmd1, clear_before=False, clear_after=True, pull=['a','b','c']) tid1 = tc.run(t1) tr1 = tc.get_task_result(tid1,block=True) tr1.raise_exception() print "a, b: ", tr1.ns.a, tr1.ns.b
def spawn_off_arff_line_tasks(self, vosource_xml_dirpath):
""" This spawns off ipython task clients which
take vosource.xml fpaths and generate feature/class structure
which will be used to create a .arff line.
The task results should be 'pulled' and then inserted into a final
Weka .arff file.
"""
##### For testing:
skipped_deb_srcids = [
'12645', '12646', '12649', '12653', '12655', '12656', '12658',
'12660', '12670', '12675', '12700', '12745', '12766', '12797',
'12798', '12806', '12841', '12847', '12849', '12850', '12851',
'12852', '12853', '12854', '12856', '12858', '12861', '12864',
'12868', '12869', '12870', '12875', '12879', '12882', '12885',
'12886', '12888', '12890', '12891', '12893', '12895', '12901',
'12904', '12907', '12909', '12914', '12915', '12921', '12923',
'12924', '12928', '12930', '12932', '12933', '12934', '12936',
'12941', '12948', '12950', '12957', '12958', '12960', '12961',
'12970', '13007', '13024', '13034', '13059', '13076', '13078',
'13091', '13094', '13119', '13122', '13128', '13156', '13170',
'13172', '13239', '13242', '13246', '13247', '13261', '13268',
'13280', '13324', '13333', '13354', '13360', '13362', '13369',
'13374', '13402', '13418', '13420', '13421', '13423', '13424',
'13425', '13427', '13429', '13432', '13433', '13439', '13440',
'13442', '13443', '13444', '13448', '13458', '13462', '13465',
'13466', '13469', '13471', '13476', '13477', '13478', '13480',
'13481', '13483', '13484', '13491', '13493', '13495', '13500',
'13502', '13505', '13511', '13519', '13520', '13521', '13530',
'13535', '13543', '13544', '13552', '13553', '13560', '13561',
'13564', '13565', '13571', '13573', '13577', '13580', '13582',
'13591', '13594', '13596', '13602', '13607', '13608', '13616',
'13618', '13622', '13623', '13625', '13630', '13632', '13638',
'13642', '13646', '13647', '13650', '13656', '13657', '13668',
'13676', '13678', '13680', '13686', '13687', '13689', '13690',
'13692', '13694', '13695', '13698', '13701', '13703', '13704',
'13708', '13712', '13716', '13717', '13718', '13719', '13722',
'13723', '13731', '13733', '13739', '13740', '13743', '13744',
'13747', '13748', '13750', '13760', '13763', '13774', '13776',
'13777', '13780', '13782', '13783', '13784', '13786', '13788',
'13793', '13800', '13804', '13806', '13810', '13814', '13815',
'13819', '13824', '13826', '13832', '13833', '13838', '13843',
'13847', '13851', '13854', '13858', '13860', '13869', '13873',
'13881', '13882', '13885', '13888', '13889', '13890', '13892',
'13893', '13894', '13896', '13898', '13900', '13906', '13911',
'13922', '13927', '13928', '13929', '13936', '13938', '13942',
'13944', '13951', '13955', '13957', '13958', '13959', '13962',
'13965', '13972', '13974', '13988', '13989', '13996', '13997',
'13998', '14004', '14006', '14009', '14010', '14017', '14018',
'14024', '14025', '14028', '14029', '14032', '14035', '14043',
'14047', '14048', '14051', '14055', '14056', '14065', '14066',
'14070', '14071', '14072', '14087', '14088', '14089', '14093',
'14095', '14104', '14108', '14109', '14113', '14117', '14120',
'14122', '14125', '14129', '14133', '14136', '14137', '14151',
'14155', '14157', '14163', '14166', '14167', '14168', '14174',
'14175', '14181', '14182', '14186', '14191', '14194', '14198',
'14205', '14206', '14216', '14218', '14219', '14225', '14226',
'14234', '14239', '14243', '14244', '14246', '14247', '14248',
'14250', '14251', '14255', '14256', '14263', '14269', '14275',
'14280', '14282'
]
import dotastro_sciclass_tools
dst = dotastro_sciclass_tools.Dotastro_Sciclass_Tools()
dst.make_tutor_db_connection()
#####
xml_fpath_list = glob.glob(vosource_xml_dirpath + '/*xml')
# KLUDGE: This can potentially load a lot of xml-strings into memory:
for xml_fpath in xml_fpath_list:
fname = xml_fpath[xml_fpath.rfind('/') + 1:xml_fpath.rfind('.')]
num = fname # Seems OK: ?CAN I just use the filename rather than the sourceid? # xml_fname[:xml_fname.rfind('.')]
#srcid_xml_tuple_list.append((num, xml_fpath))
#task_str = """cat = os.getpid()"""
#taskid = self.tc.run(client.StringTask(task_str, pull="cat"))
#time.sleep(1)
#print self.tc.get_task_result(taskid, block=False).results
#print 'yo'
##### For testing:
#if "100017522.xml" in xml_fpath:
# print "yo"
if 0:
import pdb
pdb.set_trace()
print
num_orig_str = str(int(num) - 100000000)
if num_orig_str in skipped_deb_srcids:
#print num_orig_str
select_str = "select sources.source_id, sources.project_id, sources.source_name, sources.class_id, sources.pclass_id, project_classes.pclass_name, project_classes.pclass_short_name from Sources join project_classes using (pclass_id) where source_id = %s" % (
num_orig_str)
dst.cursor.execute(select_str)
results = dst.cursor.fetchall()
a = arffify.Maker(
search=[],
skip_class=False,
local_xmls=True,
convert_class_abrvs_to_names=False,
flag_retrieve_class_abrvs_from_TUTOR=False,
dorun=False)
out_dict = a.generate_arff_line_for_vosourcexml(
num=str(num), xml_fpath=xml_fpath)
print '!!!', results[0]
else:
try:
a = arffify.Maker(
search=[],
skip_class=False,
local_xmls=True,
convert_class_abrvs_to_names=False,
flag_retrieve_class_abrvs_from_TUTOR=False,
dorun=False)
out_dict = a.generate_arff_line_for_vosourcexml(
num=str(num), xml_fpath=xml_fpath)
except:
print "barf on some xml:", xml_fpath
#print xml_fpath
#continue
#####
if 1:
exec_str = """out_dict = a.generate_arff_line_for_vosourcexml(num="%s", xml_fpath="%s")
""" % (str(num), xml_fpath)
#print exec_str
try:
taskid = self.tc.run(client.StringTask(exec_str, \
pull='out_dict', retries=3))
self.task_id_list.append(taskid)
except:
print "EXCEPT!: taskid=", taskid, exec_str