def start(self):
# config file for multiple job submission
self.configfile = apConfig.getAppionConfigFile()
# make necessary directories
if not os.path.exists(os.path.join(self.params['rundir'], "inputs")):
os.makedirs(os.path.join(self.params['rundir'], "inputs"))
if not os.path.exists(os.path.join(self.params['rundir'],
"Particles")):
os.makedirs(os.path.join(self.params['rundir'], "Particles"))
moviedir = os.path.join(self.params['rundir'], "movies")
if not os.path.exists(moviedir):
os.mkdir(moviedir)
os.system("ln -s %s/*st.mrc %s" % (self.ddstackpath, moviedir))
# write particle coordinate files
self.write_inputs(self.stackparts)
# submission agent object
a = apParallelTasks.Agent(self.configfile)
for i in range(len(self.joblist)):
jobfile = 'align_polish_parts_%d' % i
task = self.joblist[i]
a.Main(jobfile, [task])
# Clean up
apDisplay.printMsg("deleting temporary processing files")
# Upload results
# if self.params['commit'] is True:
# apStack.commitPolishedStack(self.params, oldstackparts, newname='start.hed')
time.sleep(1)
return
def start(self):
# config file for multiple job submission
self.configfile = apConfig.getAppionConfigFile()
# make necessary directories
if not os.path.exists(os.path.join(self.params['rundir'],"inputs")):
os.makedirs(os.path.join(self.params['rundir'],"inputs"))
if not os.path.exists(os.path.join(self.params['rundir'],"Particles")):
os.makedirs(os.path.join(self.params['rundir'],"Particles"))
moviedir = os.path.join(self.params['rundir'],"movies")
if not os.path.exists(moviedir):
os.mkdir(moviedir)
os.system("ln -s %s/*st.mrc %s" % (self.ddstackpath, moviedir))
# write particle coordinate files
self.write_inputs(self.stackparts)
# submission agent object
a = apParallelTasks.Agent(self.configfile)
for i in range(len(self.joblist)):
jobfile = 'align_polish_parts_%d' % i
task = self.joblist[i]
a.Main(jobfile, [task])
# Clean up
apDisplay.printMsg("deleting temporary processing files")
# Upload results
# if self.params['commit'] is True:
# apStack.commitPolishedStack(self.params, oldstackparts, newname='start.hed')
time.sleep(1)
return
#!/usr/bin/env python #pythonlib import sys #appion from appionlib import apTaskMonitor from appionlib import apConfig configfile = apConfig.getAppionConfigFile() rundir = sys.argv[1] a = apTaskMonitor.ParallelTaskMonitor(configfile, rundir) a.Main()
#!/bin/python #pythonlib import sys #appion from appionlib import apTaskMonitor from appionlib import apConfig configfile = apConfig.getAppionConfigFile() rundir = sys.argv[1] a = apTaskMonitor.ParallelTaskMonitor(configfile,rundir) a.Main()