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db_lib.py.pickle
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db_lib.py.pickle
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#!/usr/bin/python
import pickle
import time
import os
def createContainer(container_name,type_name,capacity):
containerObj = {"container_id":int(time.time()), "containerName":container_name,"type_name":type_name, "item_list":[]}
#the item list is a list of id's, whether they be other containers or samples. This is becasue samples and pucks can move.
for i in range (0,capacity):
containerObj["item_list"].append(None)
containerFile = open( "container.db", "a+" )
pickle.dump(containerObj,containerFile)
containerFile.close()
def getRasters():
ret_list = []
rasterFile = open( "raster.db", "r" )
try:
while (1):
retQ = pickle.load(rasterFile)
ret_list.append(retQ)
except EOFError:
rasterFile.close()
return ret_list
def addRaster(rasterDefObj):
rasterList = getRasters()
rasterList.append(rasterDefObj)
pickleFile = open( "raster.db", "w+" )
for i in range (0,len(rasterList)):
pickle.dump(rasterList[i],pickleFile)
pickleFile.close()
def clearRasters():
pickleFile = open( "raster.db", "w+" )
pickleFile.close()
def getNextRunRaster(updateFlag=1):
rasterList = getRasters()
if (len(rasterList) == 0):
return None
for i in range (0,len(rasterList)):
if (rasterList[i]["status"] == 0):
retRaster = rasterList[i]
if (updateFlag==1):
rasterList[i]["status"] = 1
break
else:
# print "drawing "
# print retRaster
return retRaster
pickleFile = open( "raster.db", "w+" )
for i in range (0,len(rasterList)):
pickle.dump(rasterList[i],pickleFile)
pickleFile.close()
return retRaster
def getNextDisplayRaster():
rasterList = getRasters()
if (len(rasterList) == 0):
return None
pickleFile = open( "raster.db", "w+" )
for i in range (0,len(rasterList)):
if (rasterList[i]["status"] == 1):
retRaster = (i,rasterList[i])
rasterList[i]["status"] = 2
break
for i in range (0,len(rasterList)):
pickle.dump(rasterList[i],pickleFile)
pickleFile.close()
return retRaster
def createSample(sampleName):
sampleObj = {"sample_id":int(time.time()), "sampleName":sampleName, "requestList":[]}
sampleFile = open( "sample.db", "a+" )
pickle.dump(sampleObj,sampleFile)
sampleFile.close()
return sampleObj["sample_id"]
def getSampleByID(sample_id):
pickleFile = open( "sample.db", "r" )
try:
while (1):
retQ = pickle.load(pickleFile)
if (retQ["sample_id"] == sample_id):
pickleFile.close()
return retQ
except EOFError:
pickleFile.close()
return None
def getSampleIDbyName(sample_name):
pickleFile = open( "sample.db", "r" )
try:
while (1):
retQ = pickle.load(pickleFile)
if (retQ["sampleName"] == sample_name):
pickleFile.close()
return retQ["sample_id"]
except EOFError:
pickleFile.close()
return -99
def getSampleNamebyID(sample_id):
pickleFile = open( "sample.db", "r" )
try:
while (1):
retQ = pickle.load(pickleFile)
if (retQ["sample_id"] == sample_id):
pickleFile.close()
return retQ["sampleName"]
except EOFError:
pickleFile.close()
return -99
def getContainerIDbyName(container_name):
pickleFile = open( "container.db", "r" )
try:
while (1):
retQ = pickle.load(pickleFile)
if (retQ["containerName"] == container_name):
pickleFile.close()
return retQ["container_id"]
except EOFError:
pickleFile.close()
return -99
def getContainerNameByID(container_id):
pickleFile = open( "container.db", "r" )
try:
while (1):
retQ = pickle.load(pickleFile)
if (retQ["container_id"] == container_id):
pickleFile.close()
return retQ["containerName"]
except EOFError:
pickleFile.close()
return ""
def addRequesttoSample(sample_id,request):
pickleFile = open( "sample.db", "a+" )
sampList = []
try:
while (1):
retQ = pickle.load(pickleFile)
if (retQ["sample_id"] == sample_id):
retQ["requestList"].append(request)
sampList.append(retQ)
except EOFError:
pickleFile.close()
pickleFile = open( "sample.db", "w+" )
for i in range (0,len(sampList)):
pickle.dump(sampList[i],pickleFile)
pickleFile.close()
def createDefaultRequest(sample_id):
request = {"request_id": int(time.time()), "sample_id" : sample_id,"sweep_start":0.0, "sweep_end":0.1, "img_width":.1, "exposure_time":.1, "priority":0,"protocol":"standard","directory":"/","file_prefix":getSampleNamebyID(sample_id)+"_data","file_number_start":1,"wavelength":1.1,"resolution":3.0,"slit_height":30.0,"slit_width":30.0,"attenuation":0,"pos_x":0,"pos_y":0,"pos_z":0,"pos_type":'A',"gridW":0,"gridH":0,"gridStep":10}
return request
#### addRequesttoSample(sample_id,request)
def insertIntoContainer(container_name,position,itemID):
origQ = getContainers()
found = 0
for i in range (0,len(origQ)):
if (origQ[i]["containerName"] == container_name):
origQ[i]["item_list"][position] = itemID
found = 1
break
if (found):
containerFile = open( "container.db", "w+" )
for i in range (0,len(origQ)):
pickle.dump(origQ[i],containerFile)
containerFile.close()
else:
print "bad container name"
def getContainers():
ret_list = []
containerFile = open( "container.db", "r" )
try:
while (1):
retQ = pickle.load(containerFile)
ret_list.append(retQ)
except EOFError:
containerFile.close()
return ret_list
def getContainersByType(type_name,group_name):
ret_list = []
containerFile = open( "container.db", "r" )
try:
while (1):
retQ = pickle.load(containerFile)
if (retQ["type_name"] == type_name):
ret_list.append(retQ)
except EOFError:
containerFile.close()
return ret_list
def getAllPucks():
return getContainersByType("puck","")
def getPrimaryDewar():
# return getContainersByType("dewar","")[0]
return getContainerByName("primaryDewar2")
def getContainerByName(container_name):
containerFile = open( "container.db", "r" )
try:
while (1):
retQ = pickle.load(containerFile)
if (retQ["containerName"] == container_name):
containerFile.close()
return retQ
except EOFError:
containerFile.close()
return None
def getContainerByID(container_id):
containerFile = open( "container.db", "r" )
try:
while (1):
retQ = pickle.load(containerFile)
if (retQ["container_id"] == container_id):
containerFile.close()
return retQ
except EOFError:
containerFile.close()
return None
#stuff I forgot - alignment type?, what about some sort of sample lock?,
def insertCollectionRequest(sample_id, sweep_start, sweep_end, img_width, exposure_time, priority,protocol,directory,file_prefix,file_number_start,wavelength,resolution,slit_height,slit_width,attenuation,pos_x,pos_y,pos_z,pos_type,gridW,gridH,gridStep):
colobj = {"request_id": int(time.time()), "sample_id":sample_id, "sweep_start":sweep_start, "sweep_end":sweep_end, "img_width":img_width, "exposure_time":exposure_time, "priority":priority,"protocol":protocol,"directory":directory,"file_prefix":file_prefix,"file_number_start":file_number_start,"wavelength":wavelength,"resolution":resolution,"slit_height":slit_height,"slit_width":slit_width,"attenuation":attenuation,"pos_x":pos_x,"pos_y":pos_y,"pos_z":pos_z,"pos_type":pos_type,"gridW":gridW,"gridH":gridH,"gridStep":gridStep}
######### need to insert this into the request List for the sample
sampleObj = getSampleByID(sample_id)
sampleObj["requestList"].append(colobj)
updateSample(sampleObj)
#,vec_x_start,vec_y_start,vec_z_start,vec_x_end,vec_y_end,vec_z_end,vec_numframes,vec_fpp
#vec_fpp means frames per point, vec_numframes is the total. Not sure if this is the best way.
#pinpos, sweep_start, numimages, sweep_inc, exposure_time, protocol, file_prefix, file_number_start, wavelength, resolution, xtal_id, slit_height, slit_width, attenuation,priority
def getQueue():
ret_list = []
dewar = getContainerByName("primaryDewar2")
for i in range (0,len(dewar["item_list"])): #these are pucks
if (dewar["item_list"][i] != None):
puck_id = dewar["item_list"][i]
if (puck_id != None):
puck = getContainerByID(puck_id)
sampleList = puck["item_list"]
for j in range (0,len(sampleList)):
if (sampleList[j] != None):
# print "sample ID = " + str(sampleList[j])
sampleObj = getSampleByID(sampleList[j])
if (sampleObj == None): #not sure how it gets here, I think it's a server update
print "sample ID = " + str(sampleList[j])
else:
sampleReqList = sampleObj["requestList"]
for k in range (0,len(sampleReqList)):
if (sampleReqList[k] != None):
ret_list.append(sampleReqList[k])
return ret_list
def getDewarPosfromSampleID(sample_id):
dewar = getContainerByName("primaryDewar2")
for i in range (0,len(dewar["item_list"])): #these are pucks
if (dewar["item_list"][i] != None):
puck_id = dewar["item_list"][i]
if (puck_id != None):
puck = getContainerByID(puck_id)
sampleList = puck["item_list"]
for j in range (0,len(sampleList)):
if (sampleList[j] != None):
if (sampleList[j] == sample_id):
containerID = puck_id
position = j
return (containerID,position)
def getAbsoluteDewarPosfromSampleID(sample_id):
dewar = getContainerByName("primaryDewar2")
dewarCapacity = len(dewar["item_list"])
for i in range (0,dewarCapacity): #these are pucks
if (dewar["item_list"][i] != None):
puck_id = dewar["item_list"][i]
if (puck_id != None):
puck = getContainerByID(puck_id)
sampleList = puck["item_list"]
puckCapacity = len(sampleList) #puck
for j in range (0,puckCapacity):
if (sampleList[j] != None):
if (sampleList[j] == sample_id):
absPosition = (i*puckCapacity) + j
return absPosition
def popNextRequest():
orderedRequests = getOrderedRequestList()
if (orderedRequests[0]["priority"] > 0):
return orderedRequests[0]
else:
return {}
def getRequest(reqID): #need to get this from searching the dewar I guess
reqList = getQueue()
for i in range (0,len(reqList)):
req = reqList[i]
if (req["request_id"] == int(reqID)):
return req
return None
def getAllSamples():
pickleFile = open( "sample.db", "r" )
retList = []
try:
while (1):
retQ = pickle.load(pickleFile)
retList.append(retQ)
except EOFError:
pickleFile.close()
return retList
#really need to generalize these update routines
def updateSample(sampleObj):
sampleList = getAllSamples()
for i in range (0,len(sampleList)):
if (sampleList[i]["sample_id"] == sampleObj["sample_id"]):
sampleList[i] = sampleObj
break
pickleFile = open( "sample.db", "w+" )
for i in range (0,len(sampleList)):
pickle.dump(sampleList[i],pickleFile)
pickleFile.close()
def updateContainer(containerObj):
containerList = getContainers()
for i in range (0,len(containerList)):
if (containerList[i]["container_id"] == containerObj["container_id"]):
containerList[i] = containerObj
break
pickleFile = open( "container.db", "w+" )
for i in range (0,len(containerList)):
pickle.dump(containerList[i],pickleFile)
pickleFile.close()
#this is really "update_sample" because the request is stored with the sample.
def updateRequest(reqObj):
found = 0
sample = getSampleByID(reqObj["sample_id"])
reqList = sample["requestList"]
for i in range (0,len(reqList)):
if (reqList[i] != None):
if (reqObj["request_id"] == reqList[i]["request_id"]):
sample["requestList"][i] = reqObj
found = 1
break
if (found):
updateSample(sample)
else:
addRequesttoSample(reqObj["sample_id"],reqObj)
def deleteRequest(reqObj):
origQ = getQueue()
found = 0
for i in range (0,len(origQ)):
if (origQ[i]["request_id"] == reqObj["request_id"]):
print "found the request to delete 1"
s = getSampleByID(reqObj["sample_id"])
for i in range (0,len(s["requestList"])):
if (s["requestList"][i] != None):
if (s["requestList"][i]["request_id"] == reqObj["request_id"]):
print "trying to delete request"
s["requestList"][i] = None
updateSample(s)
def deleteSample(samplObj):
retList = []
pickleFile = open( "sample.db", "a+" )
try:
while (1):
retQ = pickle.load(pickleFile)
if (retQ["sample_id"] != samplObj["sample_id"]):
retList.append(retQ)
except EOFError:
pickleFile.close()
pickleFile = open( "sample.db", "w+" )
for i in range (0,len(retList)):
pickle.dump(retList[i],pickleFile)
pickleFile.close()
def removePuckFromDewar(dewarPos):
dewar = getPrimaryDewar()
dewar["item_list"][dewarPos] = None
updateContainer(dewar)
def emptyLiveQueue(): #a convenience to say nothing is ready to be run
q = getQueue()
for i in range (0,len(q)):
q[i]["priority"] = 0
updateRequest(q[i])
def getSortedPriorityList(): # mayb an intermediate to return a list of all priorities.
pList = []
requestsList = getQueue()
for i in range (0,len(requestsList)):
if (requestsList[i]["priority"] not in pList):
pList.append(requestsList[i]["priority"])
return sorted(pList,reverse=True)
def getOrderedRequestList():
orderedRequestsList = []
priorityList = getSortedPriorityList() #just sorts priorities
requestsList = getQueue() #this is everything in the dewar
# dewarDict = getDewar()
for i in range (0,len(priorityList)):
for j in range (0,len(requestsList)):
if (requestsList[j]["priority"] == priorityList[i]):
orderedRequestsList.append(requestsList[j])
return orderedRequestsList