def start(self):
if self.params['reconid'] is not None:
self.recondata = apRecon.getRefineRunDataFromID(
self.params['reconid'])
print "Associated with", self.recondata[
'name'], ":", self.recondata['path']
if self.params['fulltomoid'] is not None:
self.tomodata = apTomo.getFullTomoData(self.params['fulltomoid'])
print "Associated with", self.tomodata['name'], ":", self.tomodata[
'path']['path']
if self.params['sessionname'] is not None:
self.sessiondata = apDatabase.getSessionDataFromSessionName(
self.params['sessionname'])
self.params['projectId'] = apProject.getProjectIdFromSessionName(
self.params['sessionname'])
self.filename = os.path.basename(self.params['file'])
self.newfile = os.path.join(self.params['rundir'], self.filename)
if os.path.isfile(self.newfile):
apDisplay.printError("File " + self.filename +
" already exists in dir " +
self.params['rundir'])
shutil.copy(self.oldfile, self.newfile)
# insert the info
self.insertMisc()
def setRunDir(self):
if self.params['reconid'] is not None:
self.recondata = apRecon.getRefineRunDataFromID(self.params['reconid'])
path = self.recondata['path']['path']
if self.params['fulltomoid'] is not None:
self.tomodata = apTomo.getFullTomoData(self.params['fulltomoid'])
path = self.tomodata['path']['path']
if self.params['sessionname'] is not None:
sessiondata = apDatabase.getSessionDataFromSessionName(self.params['sessionname'])
path = self.getDefaultBaseAppionDir(self.sessiondata,[])
self.params['rundir'] = os.path.join(path,"misc")
def setRunDir(self):
if self.params['reconid'] is not None:
self.recondata = apRecon.getRefineRunDataFromID(
self.params['reconid'])
path = self.recondata['path']['path']
if self.params['fulltomoid'] is not None:
self.tomodata = apTomo.getFullTomoData(self.params['fulltomoid'])
path = self.tomodata['path']['path']
if self.params['sessionname'] is not None:
sessiondata = apDatabase.getSessionDataFromSessionName(
self.params['sessionname'])
path = self.getDefaultBaseAppionDir(self.sessiondata, [])
self.params['rundir'] = os.path.join(path, "misc")
def start(self):
if self.params['reconid'] is not None:
self.recondata = apRecon.getRefineRunDataFromID(self.params['reconid'])
print "Associated with",self.recondata['name'],":",self.recondata['path']
if self.params['fulltomoid'] is not None:
self.tomodata = apTomo.getFullTomoData(self.params['fulltomoid'])
print "Associated with",self.tomodata['name'],":",self.tomodata['path']['path']
if self.params['sessionname'] is not None:
self.sessiondata = apDatabase.getSessionDataFromSessionName(self.params['sessionname'])
self.params['projectId'] = apProject.getProjectIdFromSessionName(self.params['sessionname'])
self.filename = os.path.basename(self.params['file'])
self.newfile = os.path.join(self.params['rundir'], self.filename)
if os.path.isfile(self.newfile):
apDisplay.printError("File "+self.filename+" already exists in dir "+self.params['rundir'])
shutil.copy(self.oldfile, self.newfile)
# insert the info
self.insertMisc()
projectid = int(sys.argv[2])
else:
projectid = None
if projectid is not None:
apDisplay.printWarning("Using split database")
# use a project database
newdbname = apProject.getAppionDBFromProjectId(projectid)
sinedon.setConfig('appiondata', db=newdbname)
apDisplay.printColor("Connected to database: '"+newdbname+"'", "green")
### run the program
if len(sys.argv) > 1:
reconid = int(sys.argv[1])
makeCoranKeepPlot(reconid)
else:
reconids = getAllCoranRecons()
for reconid in reconids:
recondata = apRecon.getRefineRunDataFromID(reconid)
reconpath = recondata['path']['path']
print reconpath
os.chdir(reconpath)
try:
makeCoranKeepPlot(reconid)
except:
pass
print "Usage: apCoranPlot.py <reconid> <projectid>"
### setup correct database after we have read the project id
if len(sys.argv) > 2:
projectid = int(sys.argv[2])
else:
projectid = None
if projectid is not None:
apDisplay.printWarning("Using split database")
# use a project database
newdbname = apProject.getAppionDBFromProjectId(projectid)
sinedon.setConfig('appiondata', db=newdbname)
apDisplay.printColor("Connected to database: '" + newdbname + "'",
"green")
### run the program
if len(sys.argv) > 1:
reconid = int(sys.argv[1])
makeCoranKeepPlot(reconid)
else:
reconids = getAllCoranRecons()
for reconid in reconids:
recondata = apRecon.getRefineRunDataFromID(reconid)
reconpath = recondata['path']['path']
print reconpath
os.chdir(reconpath)
try:
makeCoranKeepPlot(reconid)
except:
pass