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daq_macros.py
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daq_macros.py
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import beamline_support
import beamline_lib #did this really screw me if I imported b/c of daq_utils import??
from beamline_lib import *
import daq_lib
from daq_lib import *
import daq_utils
import db_lib
import det_lib
#import string
import math
import robot_lib
#from PyQt4 import QtGui
#from PyQt4 import QtCore
import time
from random import randint
import glob
##import xml.etree.ElementTree as ET
import xmltodict
##from XSDataMXv1 import XSDataResultCharacterisation
from importlib import reload
import start_bs
from start_bs import *
import subprocess
import super_state_machine
import _thread
import parseSheet
import attenCalc
import ispybLib
from XSDataMXv1 import XSDataResultCharacterisation
global rasterRowResultsList, processedRasterRowCount
global ednaActiveFlag
ednaActiveFlag = 0
rasterRowResultsList = []
global autoVectorFlag, autoVectorCoarseCoords
autoVectorCoarseCoords = {}
autoVectorFlag=False
def hi_macro():
print("hello from macros\n")
daq_lib.broadcast_output("broadcast hi")
def BS():
movr(omega,40)
def BS2():
ascan(omega,0,100,10)
def abortBS():
if (RE.state != "idle"):
try:
RE.abort()
except super_state_machine.errors.TransitionError:
print("caught BS")
def changeImageCenterLowMag(x,y,czoom):
zoom = int(czoom)
zoomMinXRBV = beamline_support.getPvValFromDescriptor("lowMagZoomMinXRBV")
zoomMinYRBV = beamline_support.getPvValFromDescriptor("lowMagZoomMinYRBV")
minXRBV = beamline_support.getPvValFromDescriptor("lowMagMinXRBV")
minYRBV = beamline_support.getPvValFromDescriptor("lowMagMinYRBV")
sizeXRBV = beamline_support.getPvValFromDescriptor("lowMagZoomSizeXRBV")
sizeYRBV = beamline_support.getPvValFromDescriptor("lowMagZoomSizeYRBV")
sizeXRBV = 640.0
sizeYRBV = 512.0
roiSizeXRBV = beamline_support.getPvValFromDescriptor("lowMagROISizeXRBV")
roiSizeYRBV = beamline_support.getPvValFromDescriptor("lowMagROISizeYRBV")
roiSizeZoomXRBV = beamline_support.getPvValFromDescriptor("lowMagZoomROISizeXRBV")
roiSizeZoomYRBV = beamline_support.getPvValFromDescriptor("lowMagZoomROISizeYRBV")
inputSizeZoomXRBV = beamline_support.getPvValFromDescriptor("lowMagZoomMaxSizeXRBV")
inputSizeZoomYRBV = beamline_support.getPvValFromDescriptor("lowMagZoomMaxSizeYRBV")
inputSizeXRBV = beamline_support.getPvValFromDescriptor("lowMagMaxSizeXRBV")
inputSizeYRBV = beamline_support.getPvValFromDescriptor("lowMagMaxSizeYRBV")
x_click = float(x)
y_click = float(y)
binningFactor = 2.0
if (zoom):
xclickFullFOV = x_click + zoomMinXRBV
yclickFullFOV = y_click + zoomMinYRBV
else:
binningFactor = 2.0
xclickFullFOV = (x_click * binningFactor) + minXRBV
yclickFullFOV = (y_click * binningFactor) + minYRBV
new_minXZoom = xclickFullFOV-(sizeXRBV/2.0)
new_minYZoom = yclickFullFOV-(sizeYRBV/2.0)
new_minX = new_minXZoom - (sizeXRBV/2.0)
new_minY = new_minYZoom - (sizeYRBV/2.0)
# if (new_minXZoom < 0):
# return
# new_minXZoom = 0
# if (new_minYZoom < 0):
# return
# new_minYZoom = 0
# if (new_minXZoom+roiSizeZoomXRBV>inputSizeZoomXRBV):
# return
# if (new_minYZoom+roiSizeZoomYRBV>inputSizeZoomYRBV):
# return
noZoomCenterX = sizeXRBV/2.0
noZoomCenterY = sizeYRBV/2.0
# if (daq_utils.detector_id != "EIGER-16"): #sloppy short circuit until fix up amx
# if (1): #sloppy short circuit until fix up amx
# return
if (new_minX < 0):
new_minX = 0
noZoomCenterX = (new_minXZoom+(sizeXRBV/2.0))/binningFactor
if (new_minY < 0):
new_minY = 0
noZoomCenterY = (new_minYZoom+(sizeYRBV/2.0))/binningFactor
if (new_minX+roiSizeXRBV>inputSizeXRBV):
new_minX = inputSizeXRBV-roiSizeXRBV
noZoomCenterX = ((new_minXZoom+(sizeXRBV/2.0)) - new_minX)/binningFactor
if (new_minY+roiSizeYRBV>inputSizeYRBV):
new_minY = inputSizeYRBV-roiSizeYRBV
noZoomCenterY = ((new_minYZoom+(sizeYRBV/2.0)) - new_minY)/binningFactor
# noZoomCenterY = (new_minYZoom+(sizeYRBV/2.0))/binningFactor
if (new_minXZoom+roiSizeZoomXRBV>inputSizeZoomXRBV):
new_minXZoom = inputSizeZoomXRBV-roiSizeZoomXRBV
if (new_minXZoom < 0):
new_minXZoom = 0
beamline_support.setPvValFromDescriptor("lowMagZoomMinX",new_minXZoom)
if (new_minYZoom+roiSizeZoomYRBV>inputSizeZoomYRBV):
new_minYZoom = inputSizeZoomYRBV-roiSizeZoomYRBV
if (new_minYZoom < 0):
new_minYZoom = 0
beamline_support.setPvValFromDescriptor("lowMagZoomMinY",new_minYZoom)
beamline_support.setPvValFromDescriptor("lowMagMinX",new_minX)
beamline_support.setPvValFromDescriptor("lowMagMinY",new_minY)
beamline_support.setPvValFromDescriptor("lowMagCursorX",noZoomCenterX)
beamline_support.setPvValFromDescriptor("lowMagCursorY",noZoomCenterY)
def changeImageCenterHighMag(x,y,czoom):
zoom = int(czoom)
zoomMinXRBV = beamline_support.getPvValFromDescriptor("highMagZoomMinXRBV")
zoomMinYRBV = beamline_support.getPvValFromDescriptor("highMagZoomMinYRBV")
minXRBV = beamline_support.getPvValFromDescriptor("highMagMinXRBV")
minYRBV = beamline_support.getPvValFromDescriptor("highMagMinYRBV")
sizeXRBV = beamline_support.getPvValFromDescriptor("highMagZoomSizeXRBV")
sizeYRBV = beamline_support.getPvValFromDescriptor("highMagZoomSizeYRBV")
sizeXRBV = 640.0
sizeYRBV = 512.0
roiSizeXRBV = beamline_support.getPvValFromDescriptor("highMagROISizeXRBV")
roiSizeYRBV = beamline_support.getPvValFromDescriptor("highMagROISizeYRBV")
roiSizeZoomXRBV = beamline_support.getPvValFromDescriptor("highMagZoomROISizeXRBV")
roiSizeZoomYRBV = beamline_support.getPvValFromDescriptor("highMagZoomROISizeYRBV")
inputSizeZoomXRBV = beamline_support.getPvValFromDescriptor("highMagZoomMaxSizeXRBV")
inputSizeZoomYRBV = beamline_support.getPvValFromDescriptor("highMagZoomMaxSizeYRBV")
inputSizeXRBV = beamline_support.getPvValFromDescriptor("highMagMaxSizeXRBV")
inputSizeYRBV = beamline_support.getPvValFromDescriptor("highMagMaxSizeYRBV")
x_click = float(x)
y_click = float(y)
binningFactor = 2.0
if (zoom):
xclickFullFOV = x_click + zoomMinXRBV
yclickFullFOV = y_click + zoomMinYRBV
else:
binningFactor = 2.0
xclickFullFOV = (x_click * binningFactor) + minXRBV
yclickFullFOV = (y_click * binningFactor) + minYRBV
new_minXZoom = xclickFullFOV-(sizeXRBV/2.0)
new_minYZoom = yclickFullFOV-(sizeYRBV/2.0)
new_minX = new_minXZoom - (sizeXRBV/2.0)
new_minY = new_minYZoom - (sizeYRBV/2.0)
# if (new_minXZoom < 0 or new_minYZoom < 0):
# return
# if (new_minXZoom+roiSizeZoomXRBV>inputSizeZoomXRBV):
# return
# if (new_minYZoom+roiSizeZoomYRBV>inputSizeZoomYRBV):
# return
noZoomCenterX = sizeXRBV/2.0
noZoomCenterY = sizeYRBV/2.0
# if (daq_utils.detector_id != "EIGER-16"): #sloppy short circuit until fix up amx
# if (1): #sloppy short circuit until fix up amx
# return
if (new_minX < 0):
new_minX = 0
noZoomCenterX = (new_minXZoom+(sizeXRBV/2.0))/binningFactor
if (new_minY < 0):
new_minY = 0
noZoomCenterY = (new_minYZoom+(sizeYRBV/2.0))/binningFactor
if (new_minX+roiSizeXRBV>inputSizeXRBV):
new_minX = inputSizeXRBV-roiSizeXRBV
noZoomCenterX = ((new_minXZoom+(sizeXRBV/2.0)) - new_minX)/binningFactor
if (new_minY+roiSizeYRBV>inputSizeYRBV):
new_minY = inputSizeYRBV-roiSizeYRBV
noZoomCenterY = ((new_minYZoom+(sizeYRBV/2.0)) - new_minY)/binningFactor
# noZoomCenterY = (new_minYZoom+(sizeYRBV/2.0))/binningFactor
if (new_minXZoom+roiSizeZoomXRBV>inputSizeZoomXRBV):
new_minXZoom = inputSizeZoomXRBV-roiSizeZoomXRBV
if (new_minXZoom < 0):
new_minXZoom = 0
if (new_minYZoom+roiSizeZoomYRBV>inputSizeZoomYRBV):
new_minYZoom = inputSizeZoomYRBV-roiSizeZoomYRBV
if (new_minYZoom < 0):
new_minYZoom = 0
beamline_support.setPvValFromDescriptor("highMagZoomMinX",new_minXZoom)
beamline_support.setPvValFromDescriptor("highMagZoomMinY",new_minYZoom)
beamline_support.setPvValFromDescriptor("highMagMinX",new_minX)
beamline_support.setPvValFromDescriptor("highMagMinY",new_minY)
beamline_support.setPvValFromDescriptor("highMagCursorX",noZoomCenterX)
beamline_support.setPvValFromDescriptor("highMagCursorY",noZoomCenterY)
def autoRasterLoop(currentRequest):
if not (daq_lib.setGovRobotSA()):
return 0
reqObj = currentRequest["request_obj"]
if ("centeringOption" in reqObj):
if (reqObj["centeringOption"] == "AutoLoop"):
status = loop_center_xrec()
if (status== 0):
mvrDescriptor("sampleX",200)
status = loop_center_xrec()
time.sleep(2.0)
status = loop_center_xrec()
return status
# return 1 #short circuit for commissioning
set_field("xrecRasterFlag","100")
sampleID = currentRequest["sample"]
print("auto raster " + str(sampleID))
status = loop_center_xrec()
if (status== 0):
mvrDescriptor("sampleX",200)
status = loop_center_xrec()
time.sleep(2.0)
status = loop_center_xrec()
time.sleep(2.0)
status = loop_center_xrec()
if (status == -99): #abort, never hit this
db_lib.updatePriority(currentRequest["uid"],5000)
return 0
if not (status):
return 0
time.sleep(2.0) #looks like I really need this sleep, they really improve the appearance
# runRasterScan(currentRequest,"LoopShape")
runRasterScan(currentRequest,"Coarse")
time.sleep(1.5)
loop_center_mask()
time.sleep(1)
runRasterScan(currentRequest,"Fine")
time.sleep(1)
runRasterScan(currentRequest,"Line")
time.sleep(1)
return 1
def autoVector(currentRequest):
global autoVectorFlag
if not (daq_lib.setGovRobotSA()):
return 0
reqObj = currentRequest["request_obj"]
set_field("xrecRasterFlag","100")
sampleID = currentRequest["sample"]
print("auto raster " + str(sampleID))
status = loop_center_xrec()
if (status== 0):
mvrDescriptor("sampleX",200)
status = loop_center_xrec()
time.sleep(2.0)
status = loop_center_xrec()
time.sleep(2.0)
status = loop_center_xrec()
if (status == -99): #abort, never hit this
db_lib.updatePriority(currentRequest["uid"],5000)
return 0
if not (status):
return 0
time.sleep(2.0) #looks like I really need this sleep, they really improve the appearance
autoVectorFlag = True
runRasterScan(currentRequest,"Coarse")
autoVectorFlag = False
print("autovec coarse coorda")
print(autoVectorCoarseCoords)
x = autoVectorCoarseCoords["start"]["x"]
y = autoVectorCoarseCoords["start"]["y"]
z = autoVectorCoarseCoords["start"]["z"]
mvaDescriptor("sampleX",x,"sampleY",y,"sampleZ",z)
time.sleep(1.5)
loop_center_mask()
time.sleep(1)
runRasterScan(currentRequest,"Fine")
time.sleep(1)
runRasterScan(currentRequest,"Line")
mvrDescriptor("omega",-90.0)
time.sleep(1)
vectorStart = {"x":motorPosFromDescriptor("sampleX"),"y":motorPosFromDescriptor("sampleY"),"z":motorPosFromDescriptor("sampleZ")}
x = autoVectorCoarseCoords["end"]["x"]
y = autoVectorCoarseCoords["end"]["y"]
z = autoVectorCoarseCoords["end"]["z"]
mvaDescriptor("sampleX",x,"sampleY",y,"sampleZ",z)
time.sleep(1.5)
loop_center_mask()
time.sleep(1)
runRasterScan(currentRequest,"Fine")
time.sleep(1)
runRasterScan(currentRequest,"Line")
time.sleep(1)
vectorEnd = {"x":motorPosFromDescriptor("sampleX"),"y":motorPosFromDescriptor("sampleY"),"z":motorPosFromDescriptor("sampleZ")}
x_vec_end = vectorEnd["x"]
y_vec_end = vectorEnd["y"]
z_vec_end = vectorEnd["z"]
x_vec_start = vectorStart["x"]
y_vec_start = vectorStart["y"]
z_vec_start = vectorStart["z"]
x_vec = x_vec_end - x_vec_start
y_vec = y_vec_end - y_vec_start
z_vec = z_vec_end - z_vec_start
trans_total = math.sqrt(x_vec**2 + y_vec**2 + z_vec**2)
# print trans_total
framesPerPoint = 1
vectorParams={"vecStart":vectorStart,"vecEnd":vectorEnd,"x_vec":x_vec,"y_vec":y_vec,"z_vec":z_vec,"trans_total":trans_total,"fpp":framesPerPoint}
reqObj["vectorParams"] = vectorParams
reqObj["centeringOption"] = "Interactive" #kind of kludgy so that collectData doesn't go rastering for vector params again
currentRequest["request_obj"] = reqObj
# currentRequest["protocol"] = "vector"
db_lib.updateRequest(currentRequest)
daq_lib.collectData(currentRequest)
daq_lib.setGovRobotSA()
return 1
def multiCol(currentRequest):
set_field("xrecRasterFlag","100")
sampleID = currentRequest["sample"]
print("multiCol " + str(sampleID))
status = loop_center_xrec()
if not (status):
return 0
time.sleep(1) #looks like I really need this sleep, they really improve the appearance
runRasterScan(currentRequest,"Coarse")
# runRasterScan(currentRequest,"LoopShape")
# time.sleep(1)
def loop_center_xrec_slow():
global face_on
daq_lib.abort_flag = 0
for i in range(0,360,40):
if (daq_lib.abort_flag == 1):
print("caught abort in loop center")
return 0
mvaDescriptor("omega",i)
pic_prefix = "findloop_" + str(i)
time.sleep(1.5) #for video lag. This sucks
daq_utils.take_crystal_picture(filename=pic_prefix)
comm_s = "xrec " + os.environ["CONFIGDIR"] + "/xrec_360_40.txt xrec_result.txt"
print(comm_s)
os.system(comm_s)
xrec_out_file = open("xrec_result.txt","r")
target_angle = 0.0
radius = 0
x_centre = 0
y_centre = 0
reliability = 0
for result_line in xrec_out_file.readlines():
print(result_line)
tokens = result_line.split()
tag = tokens[0]
val = tokens[1]
if (tag == "TARGET_ANGLE"):
target_angle = float(val )
elif (tag == "RADIUS"):
radius = float(val )
elif (tag == "Y_CENTRE"):
y_centre_xrec = float(val )
elif (tag == "X_CENTRE"):
x_centre_xrec = float(val )
elif (tag == "RELIABILITY"):
reliability = int(val )
elif (tag == "FACE"):
face_on = float(tokens[3])
xrec_out_file.close()
xrec_check_file = open("Xrec_check.txt","r")
check_result = int(xrec_check_file.read(1))
print("result = " + str(check_result))
xrec_check_file.close()
if (reliability < 70 or check_result == 0): #bail if xrec couldn't align loop
return 0
mvaDescriptor("omega",target_angle)
# x_center = daq_utils.lowMagPixX/2
# y_center = daq_utils.lowMagPixY/2
x_center = beamline_support.getPvValFromDescriptor("lowMagCursorX")
y_center = beamline_support.getPvValFromDescriptor("lowMagCursorY")
# set_epics_pv("image_X_center","A",x_center)
# set_epics_pv("image_Y_center","A",y_center)
print("center on click " + str(x_center) + " " + str(y_center-radius))
print("center on click " + str((x_center*2) - y_centre_xrec) + " " + str(x_centre_xrec))
# fovx = daq_utils.highMagFOVx
# fovy = daq_utils.highMagFOVy
fovx = daq_utils.lowMagFOVx
fovy = daq_utils.lowMagFOVy
center_on_click(x_center,y_center-radius,fovx,fovy,source="macro")
center_on_click((x_center*2) - y_centre_xrec,x_centre_xrec,fovx,fovy,source="macro")
# center_on_click(y_centre_xrec,x_centre_xrec,source="macro")
mvaDescriptor("omega",face_on)
#now try to get the loopshape starting from here
return 1
def fakeDC(directory,filePrefix,numstart,numimages):
if (numimages > 900):
return
testImgFileList = glob.glob("/GPFS/CENTRAL/XF17ID1/skinner/eiger16M/cbf/*.cbf")
# testImgFileList = glob.glob("/GPFS/CENTRAL/XF17ID1/skinner/testdata/johnPil6/data/B1GGTApo_9_0*.cbf")
testImgFileList.sort()
prefix_long = directory+"/"+filePrefix
expectedFilenameList = []
for i in range (numstart,numstart+numimages):
filename = daq_utils.create_filename(prefix_long,i)
expectedFilenameList.append(filename)
for i in range (0,len(expectedFilenameList)):
comm_s = "ln -sf " + testImgFileList[i] + " " + expectedFilenameList[i]
# print(comm_s)
os.system(comm_s)
def generateGridMap(rasterRequest,rasterEncoderMap=None):
global rasterRowResultsList
reqObj = rasterRequest["request_obj"]
rasterDef = reqObj["rasterDef"]
stepsize = float(rasterDef["stepsize"])
omega = float(rasterDef["omega"])
rasterStartX = float(rasterDef["x"])
rasterStartY = float(rasterDef["y"])
rasterStartZ = float(rasterDef["z"])
omegaRad = math.radians(omega)
filePrefix = reqObj["directory"]+"/"+reqObj["file_prefix"]
rasterCellMap = {}
os.system("mkdir -p " + reqObj["directory"])
for i in range(len(rasterDef["rowDefs"])):
numsteps = float(rasterDef["rowDefs"][i]["numsteps"])
#next 6 lines to differentiate horizontal vs vertical raster
startX = rasterDef["rowDefs"][i]["start"]["x"]
endX = rasterDef["rowDefs"][i]["end"]["x"]
startY = rasterDef["rowDefs"][i]["start"]["y"]
endY = rasterDef["rowDefs"][i]["end"]["y"]
deltaX = abs(endX-startX)
deltaY = abs(endY-startY)
if ((deltaX != 0) and (deltaX>deltaY or not db_lib.getBeamlineConfigParam(daq_utils.beamline,"vertRasterOn"))): #horizontal raster
if (i%2 == 0): #left to right if even, else right to left - a snake attempt
startX = rasterDef["rowDefs"][i]["start"]["x"]+(stepsize/2.0) #this is relative to center, so signs are reversed from motor movements.
else:
startX = (numsteps*stepsize) + rasterDef["rowDefs"][i]["start"]["x"]-(stepsize/2.0)
startY = rasterDef["rowDefs"][i]["start"]["y"]+(stepsize/2.0)
xRelativeMove = startX
yzRelativeMove = startY*sin(omegaRad)
yyRelativeMove = startY*cos(omegaRad)
xMotAbsoluteMove = rasterStartX+xRelativeMove
yMotAbsoluteMove = rasterStartY-yyRelativeMove
zMotAbsoluteMove = rasterStartZ-yzRelativeMove
numsteps = int(rasterDef["rowDefs"][i]["numsteps"])
for j in range(numsteps):
imIndexStr = str((i*numsteps)+j+1)
if (i%2 == 0): #left to right if even, else right to left - a snake attempt
xMotCellAbsoluteMove = xMotAbsoluteMove+(j*stepsize)
else:
xMotCellAbsoluteMove = xMotAbsoluteMove-(j*stepsize)
if (daq_utils.detector_id == "EIGER-16"):
# dataFileName = "%s_%06d.cbf" % (reqObj["directory"]+"/cbf/"+reqObj["file_prefix"]+"_Raster_"+str(i),j+1)
dataFileName = "%s_%06d.cbf" % (reqObj["directory"]+"/cbf/"+reqObj["file_prefix"]+"_Raster_"+str(i),(i*numsteps)+j+1)
# dataFileName = imIndexStr #A TERRIBLE KLUDGE TO SWITCH FROM FILENAME DICT KEY TO INDEX FOR DIALS TO DOZOR
else:
dataFileName = daq_utils.create_filename(filePrefix+"_Raster_"+str(i),(i*numsteps)+j+1)
# dataFileName = daq_utils.create_filename(filePrefix+"_Raster_"+str(i),j+1)
rasterCellCoords = {"x":xMotCellAbsoluteMove,"y":yMotAbsoluteMove,"z":zMotAbsoluteMove}
rasterCellMap[dataFileName[:-4]] = rasterCellCoords
# rasterCellMap[dataFileName] = rasterCellCoords
else: #vertical raster
if (i%2 == 0): #top to bottom if even, else bottom to top - a snake attempt
startY = rasterDef["rowDefs"][i]["start"]["y"]+(stepsize/2.0) #this is relative to center, so signs are reversed from motor movements.
else:
startY = (numsteps*stepsize) + rasterDef["rowDefs"][i]["start"]["y"]-(stepsize/2.0)
startX = rasterDef["rowDefs"][i]["start"]["x"]+(stepsize/2.0)
xRelativeMove = startX
yzRelativeMove = startY*sin(omegaRad)
yyRelativeMove = startY*cos(omegaRad)
xMotAbsoluteMove = rasterStartX+xRelativeMove
yMotAbsoluteMove = rasterStartY-yyRelativeMove
zMotAbsoluteMove = rasterStartZ-yzRelativeMove
numsteps = int(rasterDef["rowDefs"][i]["numsteps"])
for j in range(numsteps):
imIndexStr = str((i*numsteps)+j+1)
if (i%2 == 0): #top to bottom if even, else bottom to top - a snake attempt
yMotCellAbsoluteMove = yMotAbsoluteMove-(cos(omegaRad)*(j*stepsize))
zMotCellAbsoluteMove = zMotAbsoluteMove-(sin(omegaRad)*(j*stepsize))
else:
yMotCellAbsoluteMove = yMotAbsoluteMove+(cos(omegaRad)*(j*stepsize))
zMotCellAbsoluteMove = zMotAbsoluteMove+(sin(omegaRad)*(j*stepsize))
if (daq_utils.detector_id == "EIGER-16"):
dataFileName = "%s_%06d.cbf" % (reqObj["directory"]+"/cbf/"+reqObj["file_prefix"]+"_Raster_"+str(i),(i*numsteps)+j+1)
# dataFileName = "%s_%06d.cbf" % (reqObj["directory"]+"/cbf/"+reqObj["file_prefix"]+"_Raster_"+str(i),j+1)
# dataFileName = imIndexStr #A TERRIBLE KLUDGE TO SWITCH FROM FILENAME DICT KEY TO INDEX FOR DIALS TO DOZOR
else:
dataFileName = daq_utils.create_filename(filePrefix+"_Raster_"+str(i),j+1)
rasterCellCoords = {"x":xMotAbsoluteMove,"y":yMotCellAbsoluteMove,"z":zMotCellAbsoluteMove}
rasterCellMap[dataFileName[:-4]] = rasterCellCoords
# rasterCellMap[dataFileName] = rasterCellCoords
#commented out all of the processing, as this should have been done by the thread
if (rasterEncoderMap!= None):
rasterCellMap = rasterEncoderMap
# for fname in rasterCellMap.keys():
# print(fname + " " + str(rasterCellMap[fname]["x"]) + " " + str(rasterCellMap[fname]["y"]) + " " + str(rasterCellMap[fname]["z"]))
if ("parentReqID" in rasterRequest["request_obj"]):
parentReqID = rasterRequest["request_obj"]["parentReqID"]
else:
parentReqID = -1
print("RASTER CELL RESULTS")
# print(rasterCellMap)
dialsResultLocalList = []
for i in range (0,len(rasterRowResultsList)):
for j in range (0,len(rasterRowResultsList[i])):
try:
dialsResultLocalList.append(rasterRowResultsList[i][j])
except KeyError: #this is to deal with single cell row. Instead of getting back a list of one row, I get back just the row from Dials.
dialsResultLocalList.append(rasterRowResultsList[i])
break
###############
# print(dialsResultLocalList)
# rasterResultObj = {"sample_id": rasterRequest["sample"],"parentReqID":parentReqID,"rasterCellMap":rasterCellMap,"rasterCellResults":{"type":"dozorRasterResult","resultObj":dialsResultLocalList}}
rasterResultObj = {"sample_id": rasterRequest["sample"],"parentReqID":parentReqID,"rasterCellMap":rasterCellMap,"rasterCellResults":{"type":"dialsRasterResult","resultObj":dialsResultLocalList}}
rasterResultID = db_lib.addResultforRequest("rasterResult",rasterRequest["uid"], owner=daq_utils.owner,result_obj=rasterResultObj,proposalID=daq_utils.getProposalID(),beamline=daq_utils.beamline)
rasterResult = db_lib.getResult(rasterResultID)
return rasterResult
def rasterWait():
time.sleep(0.2)
while (beamline_support.getPvValFromDescriptor("RasterActive")):
time.sleep(0.2)
def vectorWait():
time.sleep(0.15)
while (beamline_support.getPvValFromDescriptor("VectorActive")):
time.sleep(0.05)
def vectorActiveWait():
time.sleep(0.15)
while (beamline_support.getPvValFromDescriptor("VectorActive")!=1):
time.sleep(0.05)
def vectorHoldWait():
time.sleep(0.15)
while (beamline_support.getPvValFromDescriptor("VectorState")!=2):
time.sleep(0.05)
def vectorProceed():
beamline_support.setPvValFromDescriptor("vectorProceed",1)
def vectorSync():
beamline_support.setPvValFromDescriptor("vectorSync",1)
def runDozorThread(directory,prefix,rowIndex,rowCellCount,seqNum):
global rasterRowResultsList,processedRasterRowCount
time.sleep(1.0)
# dialsComm = db_lib.getBeamlineConfigParam(daq_utils.beamline,"dialsComm")
dozorComm = os.environ["CONFIGDIR"] + "software/bin/spot_test_row"
if (rowIndex%2 == 0):
node = "cpu-003"
else:
node = "cpu-003"
# if (rowIndex%4 == 0):
# node = db_lib.getBeamlineConfigParam(daq_utils.beamline,"spotNode1")
# elif (rowIndex%4 == 1):
# node = db_lib.getBeamlineConfigParam(daq_utils.beamline,"spotNode2")
# elif (rowIndex%4 == 2):
# node = db_lib.getBeamlineConfigParam(daq_utils.beamline,"spotNode3")
# else:
# node = db_lib.getBeamlineConfigParam(daq_utils.beamline,"spotNode4")
hdfSampleDataPattern = directory+"/"+prefix+"_"
hdfRowFilepattern = hdfSampleDataPattern + str(int(float(seqNum))) + "_master.h5"
startIndex=(rowIndex*rowCellCount) + 1
endIndex = startIndex+rowCellCount-1
comm_s = "ssh -q " + node + " \"source /home/skinner/.bashrc;" + dozorComm + " " + hdfRowFilepattern + " " + str(startIndex) + " " + str(endIndex) + " " + str(rowCellCount) + "\"" #works for rectangles only
print(comm_s)
localDozorResultDict={}
localDozorResultDict["data"]={}
localDozorResultDict["data"]["response"]=[]
lines = os.popen(comm_s).readlines()
found = 0
for line in lines:
line.strip()
tokens = line.split()
if (found == 0):
if (tokens[0] == 'sort_key'):
found = 1
else:
continue
else:
if (len(tokens) == 5):
index = float(tokens[0])
column = int(tokens[1])
row = int(tokens[2])
mainScore = float(tokens[3])
spotScore = float(tokens[4])
# index = ((row-1)*rowCellCount) + column
print(tokens)
localDozorResultDict["data"]["response"].append({'masterIndex': index,'mainScore': mainScore,'spotScore': spotScore,'spot_count_no_ice':spotScore,'image':hdfRowFilepattern,'d_min': index,'total_intensity':mainScore}) ###kludge to give GUI what it wants! see the dials keys in the dict
processedRasterRowCount+=1
rasterRowResultsList[rowIndex] = localDozorResultDict["data"]["response"]
# return localDozorResultDict
return
def runDialsThread(directory,prefix,rowIndex,rowCellCount,seqNum):
global rasterRowResultsList,processedRasterRowCount
time.sleep(1.0)
cbfComm = db_lib.getBeamlineConfigParam(daq_utils.beamline,"cbfComm")
dialsComm = db_lib.getBeamlineConfigParam(daq_utils.beamline,"dialsComm")
dialsTuneLowRes = db_lib.getBeamlineConfigParam(daq_utils.beamline,"rasterTuneLowRes")
dialsTuneHighRes = db_lib.getBeamlineConfigParam(daq_utils.beamline,"rasterTuneHighRes")
dialsTuneIceRingFlag = db_lib.getBeamlineConfigParam(daq_utils.beamline,"rasterTuneIceRingFlag")
dialsTuneResoFlag = db_lib.getBeamlineConfigParam(daq_utils.beamline,"rasterTuneResoFlag")
dialsTuneIceRingWidth = db_lib.getBeamlineConfigParam(daq_utils.beamline,"rasterTuneIceRingWidth")
if (dialsTuneIceRingFlag):
iceRingParams = " ice_rings.filter=true ice_rings.width=" + str(dialsTuneIceRingWidth)
else:
iceRingParams = ""
if (dialsTuneResoFlag):
resoParams = " d_min=" + str(dialsTuneLowRes) + " d_max=" + str(dialsTuneHighRes)
else:
resoParams = ""
dialsCommWithParams = dialsComm + resoParams + iceRingParams
print(dialsCommWithParams)
if (rowIndex%8 == 0):
node = db_lib.getBeamlineConfigParam(daq_utils.beamline,"spotNode1")
elif (rowIndex%8 == 1):
node = db_lib.getBeamlineConfigParam(daq_utils.beamline,"spotNode2")
elif (rowIndex%8 == 2):
node = db_lib.getBeamlineConfigParam(daq_utils.beamline,"spotNode3")
elif (rowIndex%8 == 3):
node = db_lib.getBeamlineConfigParam(daq_utils.beamline,"spotNode4")
elif (rowIndex%8 == 4):
node = db_lib.getBeamlineConfigParam(daq_utils.beamline,"spotNode5")
elif (rowIndex%8 == 5):
node = db_lib.getBeamlineConfigParam(daq_utils.beamline,"spotNode6")
elif (rowIndex%8 == 6):
node = db_lib.getBeamlineConfigParam(daq_utils.beamline,"spotNode7")
else:
node = db_lib.getBeamlineConfigParam(daq_utils.beamline,"spotNode8")
if (seqNum>-1): #eiger
cbfDir = directory+"/cbf"
comm_s = "mkdir -p " + cbfDir
os.system(comm_s)
hdfSampleDataPattern = directory+"/"+prefix+"_"
hdfRowFilepattern = hdfSampleDataPattern + str(int(float(seqNum))) + "_master.h5"
# hdfRowFilepattern = hdfSampleDataPattern + str(rowIndex) + "_" + str(int(float(seqNum))) + "_master.h5"
CBF_conversion_pattern = cbfDir + "/" + prefix+"_" + str(rowIndex)+"_"
comm_s = "eiger2cbf-linux " + hdfRowFilepattern
startIndex=(rowIndex*rowCellCount) + 1
endIndex = startIndex+rowCellCount-1
if (0):
# if (rowCellCount==1): #account for bug in converter
# comm_s = "ssh -q " + node + " \"/usr/local/MX-Soft/bin/eiger2cbfJohn " + hdfRowFilepattern + " 1 " + CBF_conversion_pattern + "000001.cbf\""
comm_s = "ssh -q " + node + " \"" + cbfComm + " " + hdfRowFilepattern + " 1 " + CBF_conversion_pattern + "000001.cbf\""
else:
# comm_s = "ssh -q " + node + " \"" + cbfComm + " " + hdfRowFilepattern + " 1:" + str(rowCellCount) + " " + CBF_conversion_pattern + "\""
comm_s = "ssh -q " + node + " \"" + cbfComm + " " + hdfRowFilepattern + " " + str(startIndex) + ":" + str(endIndex) + " " + CBF_conversion_pattern + "\"" #works for rectangles only
print(comm_s)
os.system(comm_s)
CBFpattern = CBF_conversion_pattern + "*.cbf"
else:
CBFpattern = directory + "/" + prefix+"_" + str(rowIndex) + "_" + "*.cbf"
time.sleep(1.0)
comm_s = "ssh -q " + node + " \"ls -rt " + CBFpattern + ">>/dev/null\""
lsOut = os.system(comm_s)
# comm_s = "ssh -q " + node + " \"ls -rt " + CBFpattern + "|" + dialsComm + "\""
comm_s = "ssh -q " + node + " \"ls " + CBFpattern + "|" + dialsCommWithParams + "\""
# comm_s = "ssh -q " + node + " \"ls -rt " + CBFpattern + "|/usr/local/MX-Soft/Phenix/phenix-installer-dev-2666-intel-linux-2.6-x86_64-centos6/build/bin/dials.find_spots_client\""
##4/11 comm_s = "ssh -q " + node + " \"ls -rt " + CBFpattern + "|/usr/local/crys-local/dials-v1-2-0/build/bin/dials.find_spots_client\""
print(comm_s)
retry = 3
while(1):
resultString = "<data>\n"+os.popen(comm_s).read()+"</data>\n"
print(resultString)
localDialsResultDict = xmltodict.parse(resultString)
if (localDialsResultDict["data"] == None and retry>0):
print("ERROR \n" + resultString + " retry = " + str(retry))
retry = retry - 1
if (retry==0):
localDialsResultDict["data"]={}
localDialsResultDict["data"]["response"]=[]
for jj in range (0,rowCellCount):
localDialsResultDict["data"]["response"].append({'d_min': '-1.00','d_min_method_1': '-1.00','d_min_method_2': '-1.00','image': '','spot_count': '0','spot_count_no_ice': '0','total_intensity': '0'})
break
else:
break
rasterRowResultsList[rowIndex] = localDialsResultDict["data"]["response"]
# print("\n")
# print(rasterRowResultsList[rowIndex])
# print("\n")
processedRasterRowCount+=1
def snakeRaster(rasterReqID,grain=""):
global rasterRowResultsList,processedRasterRowCount
# if not (daq_lib.setGovRobotDA()):
# return
daq_lib.setRobotGovState("DA")
rasterRequest = db_lib.getRequestByID(rasterReqID)
reqObj = rasterRequest["request_obj"]
parentReqID = reqObj["parentReqID"]
parentReqProtocol = ""
if (parentReqID != -1):
parentRequest = db_lib.getRequestByID(parentReqID)
parentReqObj = parentRequest["request_obj"]
parentReqProtocol = parentReqObj["protocol"]
detDist = parentReqObj["detDist"]
# 2/17/16 - a few things for integrating dials/spotfinding into this routine
# filePrefix = reqObj["directory"]+"/"+reqObj["file_prefix"]
data_directory_name = str(reqObj["directory"])
os.system("mkdir -p " + data_directory_name)
os.system("chmod -R 777 " + data_directory_name)
filePrefix = str(reqObj["file_prefix"])
file_number_start = reqObj["file_number_start"]
dataFilePrefix = reqObj["directory"]+"/"+reqObj["file_prefix"]
exptimePerCell = reqObj["exposure_time"]
img_width_per_cell = reqObj["img_width"]
# sweep_end_angle = reqObj["sweep_end"]
#really should read these two from hardware
wave = reqObj["wavelength"]
xbeam = beamline_support.getPvValFromDescriptor("beamCenterX")
ybeam = beamline_support.getPvValFromDescriptor("beamCenterY")
rasterDef = reqObj["rasterDef"]
stepsize = float(rasterDef["stepsize"])
omega = float(rasterDef["omega"])
rasterStartX = float(rasterDef["x"]) #these are real sample motor positions
rasterStartY = float(rasterDef["y"])
rasterStartZ = float(rasterDef["z"])
omegaRad = math.radians(omega)
# current_omega_mod = beamline_lib.get_epics_motor_pos(beamline_support.pvNameSuffix_from_descriptor("omega"))%360.0
rowCount = len(rasterDef["rowDefs"])
rasterRowResultsList = [{} for i in range(0,rowCount)]
processedRasterRowCount = 0
rasterEncoderMap = {}
totalImages = 0
for i in range(len(rasterDef["rowDefs"])):
numsteps = int(rasterDef["rowDefs"][i]["numsteps"])
totalImages = totalImages+numsteps
rasterFilePrefix = dataFilePrefix + "_Raster"
total_exposure_time = exptimePerCell*totalImages
det_lib.detector_set_num_triggers(totalImages)
det_lib.detector_set_trigger_mode(3)
det_lib.detector_setImagesPerFile(numsteps)
detectorArm(omega,img_width_per_cell,totalImages,exptimePerCell,rasterFilePrefix,data_directory_name,file_number_start) #this waits
if not (daq_lib.setGovRobotDA()):
return
zebraVecDaqSetup(omega,img_width_per_cell,exptimePerCell,numsteps,rasterFilePrefix,data_directory_name,file_number_start)
procFlag = int(db_lib.getBeamlineConfigParam(daq_utils.beamline,"rasterProcessFlag"))
for i in range(len(rasterDef["rowDefs"])):
if (daq_lib.abort_flag == 1):
daq_lib.setGovRobotSA()
return 0
numsteps = int(rasterDef["rowDefs"][i]["numsteps"])
startX = rasterDef["rowDefs"][i]["start"]["x"]
endX = rasterDef["rowDefs"][i]["end"]["x"]
startY = rasterDef["rowDefs"][i]["start"]["y"]
endY = rasterDef["rowDefs"][i]["end"]["y"]
deltaX = abs(endX-startX)
deltaY = abs(endY-startY)
if ((deltaX != 0) and (deltaX>deltaY or not db_lib.getBeamlineConfigParam(daq_utils.beamline,"vertRasterOn"))): #horizontal raster
#### startX = startX + (stepsize/2.0)
#### endX = endX - (stepsize/2.0)
startY = startY + (stepsize/2.0)
endY = startY
else: #vertical raster
#### startY = startY + (stepsize/2.0)
#### endY = endY - (stepsize/2.0)
startX = startX + (stepsize/2.0)
endX = startX
xRelativeMove = startX
yzRelativeMove = startY*sin(omegaRad)
yyRelativeMove = startY*cos(omegaRad)
print("x rel move = " + str(xRelativeMove))
xMotAbsoluteMove = rasterStartX+xRelativeMove #note we convert relative to absolute moves, using the raster center that was saved in x,y,z
yMotAbsoluteMove = rasterStartY-yyRelativeMove
zMotAbsoluteMove = rasterStartZ-yzRelativeMove
## time.sleep(1)#cosmetic
# yRelativeMove = -((numsteps-1)*stepsize)
xRelativeMove = endX-startX
yRelativeMove = endY-startY
## yRelativeMove = -(endY-startY)
yyRelativeMove = yRelativeMove*cos(omegaRad)
yzRelativeMove = yRelativeMove*sin(omegaRad)
xEnd = xMotAbsoluteMove + xRelativeMove
yEnd = yMotAbsoluteMove - yyRelativeMove
zEnd = zMotAbsoluteMove - yzRelativeMove
if (i%2 != 0): #this is to scan opposite direction for snaking
xEndSave = xEnd
yEndSave = yEnd
zEndSave = zEnd
xEnd = xMotAbsoluteMove
yEnd = yMotAbsoluteMove
zEnd = zMotAbsoluteMove
xMotAbsoluteMove = xEndSave
yMotAbsoluteMove = yEndSave
zMotAbsoluteMove = zEndSave
beamline_support.setPvValFromDescriptor("zebraPulseMax",numsteps) #moved this
beamline_support.setPvValFromDescriptor("vectorStartOmega",omega)
beamline_support.setPvValFromDescriptor("vectorEndOmega",(img_width_per_cell*numsteps)+omega)
beamline_support.setPvValFromDescriptor("vectorStartX",xMotAbsoluteMove)
beamline_support.setPvValFromDescriptor("vectorStartY",yMotAbsoluteMove)
beamline_support.setPvValFromDescriptor("vectorStartZ",zMotAbsoluteMove)
###### mvaDescriptor("sampleX",xMotAbsoluteMove,"sampleY",yMotAbsoluteMove,"sampleZ",zMotAbsoluteMove)
beamline_support.setPvValFromDescriptor("vectorEndX",xEnd)
beamline_support.setPvValFromDescriptor("vectorEndY",yEnd)
beamline_support.setPvValFromDescriptor("vectorEndZ",zEnd)
beamline_support.setPvValFromDescriptor("vectorframeExptime",exptimePerCell*1000.0)
beamline_support.setPvValFromDescriptor("vectorNumFrames",numsteps)
rasterFilePrefix = dataFilePrefix + "_Raster_" + str(i)
scanWidth = float(numsteps)*img_width_per_cell
### beamline_support.setPvValFromDescriptor("zebraGateNumGates",numsteps) #moved to setup
# time.sleep(.2)
beamline_support.setPvValFromDescriptor("vectorGo",1)
vectorActiveWait()
vectorWait()
zebraWait()
# time.sleep(1)
zebraWaitDownload(numsteps)
if (procFlag):
if (0):
################ if (daq_utils.beamline == "amx"):
rasterRowEncoderVals = {"x":beamline_support.getPvValFromDescriptor("zebraEncX"),"y":beamline_support.getPvValFromDescriptor("zebraEncY"),"z":beamline_support.getPvValFromDescriptor("zebraEncZ"),"omega":beamline_support.getPvValFromDescriptor("zebraEncOmega")}
# print(rasterRowEncoderVals)
for j in range (0,numsteps):
dataFileName = "%s_%06d.cbf" % (reqObj["directory"]+"/cbf/"+reqObj["file_prefix"]+"_Raster_"+str(i),(i*numsteps)+j+1)
# dataFileName = "%s_%06d.cbf" % (reqObj["directory"]+"/cbf/"+reqObj["file_prefix"]+"_Raster_"+str(i),j+1)
imIndexStr = str((i*numsteps)+j+1)
# dataFileName = imIndexStr
# rasterEncoderMap[dataFileName] = {"x":rasterRowEncoderVals["x"][j],"y":rasterRowEncoderVals["y"][j],"z":rasterRowEncoderVals["z"][j],"omega":rasterRowEncoderVals["omega"][j]}
rasterEncoderMap[dataFileName[:-4]] = {"x":rasterRowEncoderVals["x"][j],"y":rasterRowEncoderVals["y"][j],"z":rasterRowEncoderVals["z"][j],"omega":rasterRowEncoderVals["omega"][j]}
if (daq_utils.detector_id == "EIGER-16"):
# seqNum = beamline_support.get_any_epics_pv("XF:17IDC-ES:FMX{Det:Eig16M}cam1:SequenceId","VAL")
seqNum = int(det_lib.detector_get_seqnum())
else:
seqNum = -1
# print("running dials thread")
_thread.start_new_thread(runDialsThread,(data_directory_name,filePrefix+"_Raster",i,numsteps,seqNum))
# _thread.start_new_thread(runDozorThread,(data_directory_name,filePrefix+"_Raster",i,numsteps,seqNum))
# print("thread running")
time.sleep(2.0)
det_lib.detector_stop_acquire()
det_lib.detector_wait()
# set_field("xrecRasterFlag",rasterRequest["uid"])
#I guess this starts the gather loop
if (procFlag):
rasterTimeout = 300
# rasterTimeout = 900
timerCount = 0
while (1):
timerCount +=1
if (daq_lib.abort_flag == 1):
print("caught abort waiting for raster!")
break
if (timerCount>rasterTimeout):
print("Raster timeout!")
break
time.sleep(1)
print(processedRasterRowCount)
if (processedRasterRowCount == rowCount):
break
if (0):
# if (daq_utils.beamline == "amx"):
rasterResult = generateGridMap(rasterRequest,rasterEncoderMap) #I think rasterRequest is entire request, of raster type
else:
rasterResult = generateGridMap(rasterRequest)
rasterRequest["request_obj"]["rasterDef"]["status"] = 2
protocol = reqObj["protocol"]
print("protocol = " + protocol)
if (protocol == "multiCol" or parentReqProtocol == "multiColQ"):
if (parentReqProtocol == "multiColQ"):
multiColThreshold = parentReqObj["diffCutoff"]
else:
multiColThreshold = reqObj["diffCutoff"]
gotoMaxRaster(rasterResult,multiColThreshold=multiColThreshold)
else:
if (1):
gotoMaxRaster(rasterResult)
rasterRequestID = rasterRequest["uid"]
db_lib.updateRequest(rasterRequest)
db_lib.updatePriority(rasterRequestID,-1)
if (procFlag):
set_field("xrecRasterFlag",rasterRequest["uid"])
time.sleep(1.0)
# mvaDescriptor("omega",omega) #this was commented, don't know why
if (lastOnSample()):
daq_lib.setGovRobotSA()
return 1
def snakeStepRaster(rasterReqID,grain=""):
if not (daq_lib.setGovRobotDA()):
return
rasterRequest = db_lib.getRequestByID(rasterReqID)
reqObj = rasterRequest["request_obj"]
sweep_start_angle = reqObj["sweep_start"]
sweep_end_angle = reqObj["sweep_end"]
range_degrees = sweep_end_angle-sweep_start_angle
imgWidth = reqObj["img_width"]
numImagesPerStep = int((sweep_end_angle - sweep_start_angle) / imgWidth)
data_directory_name = str(reqObj["directory"])
os.system("mkdir -p " + data_directory_name)
os.system("chmod -R 777 " + data_directory_name)
filePrefix = str(reqObj["file_prefix"])
file_number_start = reqObj["file_number_start"]
dataFilePrefix = reqObj["directory"]+"/"+reqObj["file_prefix"]
exptimePerCell = reqObj["exposure_time"]
img_width_per_cell = reqObj["img_width"]
#really should read these two from hardware
wave = reqObj["wavelength"]
xbeam = beamline_support.getPvValFromDescriptor("beamCenterX")
ybeam = beamline_support.getPvValFromDescriptor("beamCenterY")
rasterDef = reqObj["rasterDef"]
stepsize = float(rasterDef["stepsize"])
omega = float(rasterDef["omega"])
rasterStartX = float(rasterDef["x"]) #these are real sample motor positions
rasterStartY = float(rasterDef["y"])
rasterStartZ = float(rasterDef["z"])
omegaRad = math.radians(omega)
# current_omega_mod = beamline_lib.get_epics_motor_pos(beamline_support.pvNameSuffix_from_descriptor("omega"))%360.0
totalImages = 0
for i in range(len(rasterDef["rowDefs"])): #just counting images here for single detector arm
numsteps = int(rasterDef["rowDefs"][i]["numsteps"]*numImagesPerStep)
totalImages = totalImages+numsteps
print("total images = " + str(totalImages))
rasterFilePrefix = dataFilePrefix
detector_dead_time = det_lib.detector_get_deadtime()
total_exposure_time = exptimePerCell*totalImages
exposureTimePerImage = exptimePerCell - detector_dead_time
det_lib.detector_set_num_triggers(totalImages)
detector_set_period(exptimePerCell)
detector_set_exposure_time(exposureTimePerImage)
det_lib.detector_set_trigger_mode(3)
det_lib.detector_setImagesPerFile(numImagesPerStep)
detectorArm(sweep_start_angle,img_width_per_cell,totalImages,exptimePerCell,filePrefix,data_directory_name,file_number_start) #this waits
###? detectorArm(omega,img_width_per_cell,totalImages,exptimePerCell,rasterFilePrefix,data_directory_name,file_number_start) #this waits
# zebraVecDaqSetup(omega,img_width_per_cell,exptimePerCell,numsteps,rasterFilePrefix,data_directory_name,file_number_start)
for i in range(len(rasterDef["rowDefs"])):
if (daq_lib.abort_flag == 1):
return 0
numsteps = int(rasterDef["rowDefs"][i]["numsteps"])
startX = rasterDef["rowDefs"][i]["start"]["x"]
endX = rasterDef["rowDefs"][i]["end"]["x"]
startY = rasterDef["rowDefs"][i]["start"]["y"]
endY = rasterDef["rowDefs"][i]["end"]["y"]
deltaX = abs(endX-startX)
deltaY = abs(endY-startY)
if (deltaX>deltaY): #horizontal raster - I think this was decided in the rasterDefine, and we're just checking
startY = startY + (stepsize/2.0)
endY = startY
else: #vertical raster
startX = startX + (stepsize/2.0)
endX = startX
xRelativeMove = startX
yzRelativeMove = startY*sin(omegaRad)
yyRelativeMove = startY*cos(omegaRad)
print("x rel move = " + str(xRelativeMove))
xMotAbsoluteMove = rasterStartX+xRelativeMove #note we convert relative to absolute moves, using the raster center that was saved in x,y,z
yMotAbsoluteMove = rasterStartY-yyRelativeMove
zMotAbsoluteMove = rasterStartZ-yzRelativeMove
## time.sleep(1)#cosmetic
# yRelativeMove = -((numsteps-1)*stepsize)
xRelativeMove = endX-startX
yRelativeMove = endY-startY
## yRelativeMove = -(endY-startY)