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32-zebra.py
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32-zebra.py
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print(f"Loading {__file__}...")
import os
import threading
import h5py
import numpy as np
import time as ttime
from ophyd import Device, EpicsSignal, EpicsSignalRO
from ophyd import Component as Cpt
from ophyd import FormattedComponent as FC
# from hxntools.detectors.zebra import Zebra, EpicsSignalWithRBV
from nslsii.detectors.zebra import Zebra, EpicsSignalWithRBV
class CurrentPreampZebra(Device):
ch0 = Cpt(EpicsSignalRO, "Cur:I0-I")
ch1 = Cpt(EpicsSignalRO, "Cur:I1-I")
ch2 = Cpt(EpicsSignalRO, "Cur:I2-I")
ch3 = Cpt(EpicsSignalRO, "Cur:I3-I")
# exp_time = Cpt(EpicsSignal, 'Per-SP')
exp_time = Cpt(
EpicsSignal, "XF:05IDD-ES:1{Dev:Zebra1}:PULSE3_WID", add_prefix=()
)
trigger_mode = Cpt(EpicsSignal, "Cmd:TrigMode")
initi_trigger = Cpt(EpicsSignal, "Cmd:Init")
zebra_trigger = Cpt(
EpicsSignal, "XF:05IDD-ES:1{Dev:Zebra1}:SOFT_IN:B0", add_prefix=()
)
zebra_pulse_3_source = Cpt(
EpicsSignal, "XF:05IDD-ES:1{Dev:Zebra1}:PULSE3_INP", add_prefix=()
)
current_scan_rate = Cpt(EpicsSignal, "Cmd:RdCur.SCAN")
def __init__(self, *args, **kwargs):
super().__init__(*args, **kwargs)
self.stage_sigs[self.zebra_trigger] = 0
# self.stage_sigs[self.zebra_pulse_3_source] = 44
self.stage_sigs[self.zebra_pulse_3_source] = 60
self.current_scan_rate.put(9)
# update
# self.trigger_mode.put(5)
self.stage_sigs[self.trigger_mode] = 5 # fix this
self.initi_trigger.put(1, wait=True)
def stage(self):
# Customize what is done before every scan (and undone at the end)
# self.stage_sigs[self.trans_diode] = 5
# or just use pyepics directly if you need to
ret = super().stage()
self.initi_trigger.put(1, wait=True)
return ret
def trigger(self):
init_ts = self.ch0.timestamp
timeout = float(self.exp_time.get() + 0.8)
def retrigger():
print(f"[WW] Re-triggered ion chamber;"
f"I0 for this point is suspect.")
self.zebra_trigger.put(0, wait=True)
self.zebra_trigger.put(1, wait=True)
def done_cb(
*args, obj=None, old_value=None,
value=None, timestamp=None, **kwargs
):
# if the value has changed, assume it is done
if value != old_value:
tmr.cancel()
ret._finished()
obj.clear_sub(done_cb)
tmr = threading.Timer(timeout, retrigger)
tmr.start()
ret = DeviceStatus(self)
self.ch0.subscribe(done_cb, event_type=self.ch0.SUB_VALUE, run=False)
self.zebra_trigger.put(0, wait=True)
self.zebra_trigger.put(1, wait=True)
return ret
# current_preamp = CurrentPreampZebra("XF:05IDA{IM:1}", name="current_preamp")
# current_preamp = CurrentPreamp('XF:05IDA{IM:1}', name='current_preamp')
class ZebraPositionCaptureData(Device):
"""
Data arrays for the Zebra position capture function and their metadata.
"""
# Data arrays
div1 = Cpt(EpicsSignal, "PC_DIV1")
div2 = Cpt(EpicsSignal, "PC_DIV2")
div3 = Cpt(EpicsSignal, "PC_DIV3")
div4 = Cpt(EpicsSignal, "PC_DIV4")
enc1 = Cpt(EpicsSignal, "PC_ENC1")
enc2 = Cpt(EpicsSignal, "PC_ENC2")
enc3 = Cpt(EpicsSignal, "PC_ENC3")
enc4 = Cpt(EpicsSignal, "PC_ENC4")
filt1 = Cpt(EpicsSignal, "PC_FILT1")
filt2 = Cpt(EpicsSignal, "PC_FILT2")
filt3 = Cpt(EpicsSignal, "PC_FILT3")
filt4 = Cpt(EpicsSignal, "PC_FILT4")
time = Cpt(EpicsSignal, "PC_TIME")
# Array sizes
num_cap = Cpt(EpicsSignal, "PC_NUM_CAP")
num_down = Cpt(EpicsSignal, "PC_NUM_DOWN")
# BOOLs to denote arrays with data
cap_enc1_bool = Cpt(EpicsSignal, "PC_BIT_CAP:B0")
cap_enc2_bool = Cpt(EpicsSignal, "PC_BIT_CAP:B1")
cap_enc3_bool = Cpt(EpicsSignal, "PC_BIT_CAP:B2")
cap_enc4_bool = Cpt(EpicsSignal, "PC_BIT_CAP:B3")
cap_filt1_bool = Cpt(EpicsSignal, "PC_BIT_CAP:B4")
cap_filt2_bool = Cpt(EpicsSignal, "PC_BIT_CAP:B5")
cap_div1_bool = Cpt(EpicsSignal, "PC_BIT_CAP:B6")
cap_div2_bool = Cpt(EpicsSignal, "PC_BIT_CAP:B7")
cap_div3_bool = Cpt(EpicsSignal, "PC_BIT_CAP:B8")
cap_div4_bool = Cpt(EpicsSignal, "PC_BIT_CAP:B9")
def stage(self):
super().stage()
def unstage(self):
super().unstage()
class ZebraPositionCapture(Device):
"""
Signals for the position capture function of the Zebra
"""
# Configuration settings and status PVs
enc = Cpt(EpicsSignalWithRBV, "PC_ENC")
egu = Cpt(EpicsSignalRO, "M1:EGU")
dir = Cpt(EpicsSignalWithRBV, "PC_DIR")
tspre = Cpt(EpicsSignalWithRBV, "PC_TSPRE")
trig_source = Cpt(EpicsSignalWithRBV, "PC_ARM_SEL")
arm = Cpt(EpicsSignal, "PC_ARM")
disarm = Cpt(EpicsSignal, "PC_DISARM")
armed = Cpt(EpicsSignalRO, "PC_ARM_OUT")
gate_source = Cpt(EpicsSignalWithRBV, "PC_GATE_SEL")
gate_start = Cpt(EpicsSignalWithRBV, "PC_GATE_START")
gate_width = Cpt(EpicsSignalWithRBV, "PC_GATE_WID")
gate_step = Cpt(EpicsSignalWithRBV, "PC_GATE_STEP")
gate_num = Cpt(EpicsSignalWithRBV, "PC_GATE_NGATE")
gated = Cpt(EpicsSignalRO, "PC_GATE_OUT")
pulse_source = Cpt(EpicsSignalWithRBV, "PC_PULSE_SEL")
pulse_start = Cpt(EpicsSignalWithRBV, "PC_PULSE_START")
pulse_width = Cpt(EpicsSignalWithRBV, "PC_PULSE_WID")
pulse_step = Cpt(EpicsSignalWithRBV, "PC_PULSE_STEP")
pulse_max = Cpt(EpicsSignalWithRBV, "PC_PULSE_MAX")
pulse = Cpt(EpicsSignalRO, "PC_PULSE_OUT")
enc_pos1_sync = Cpt(EpicsSignal, "M1:SETPOS.PROC")
enc_pos2_sync = Cpt(EpicsSignal, "M2:SETPOS.PROC")
enc_pos3_sync = Cpt(EpicsSignal, "M3:SETPOS.PROC")
enc_pos4_sync = Cpt(EpicsSignal, "M4:SETPOS.PROC")
enc_res1 = Cpt(EpicsSignal, "M1:MRES")
enc_res2 = Cpt(EpicsSignal, "M2:MRES")
enc_res3 = Cpt(EpicsSignal, "M3:MRES")
enc_res4 = Cpt(EpicsSignal, "M4:MRES")
data_in_progress = Cpt(EpicsSignalRO, "ARRAY_ACQ")
block_state_reset = Cpt(EpicsSignal, "SYS_RESET.PROC")
data = Cpt(ZebraPositionCaptureData, "")
def stage(self):
self.arm.put(1)
super().stage()
def unstage(self):
self.disarm.put(1)
self.block_state_reset.put(1)
super().unstage()
class SRXZebraOR(Device):
# I really appreciate the different indexing for input source
# Thank you for that
use1 = Cpt(EpicsSignal, '_ENA:B0')
use2 = Cpt(EpicsSignal, '_ENA:B1')
use3 = Cpt(EpicsSignal, '_ENA:B2')
use4 = Cpt(EpicsSignal, '_ENA:B3')
input_source1 = Cpt(EpicsSignal, '_INP1')
input_source2 = Cpt(EpicsSignal, '_INP2')
input_source3 = Cpt(EpicsSignal, '_INP3')
input_source4 = Cpt(EpicsSignal, '_INP4')
invert1 = Cpt(EpicsSignal, '_INV:B0')
invert2 = Cpt(EpicsSignal, '_INV:B1')
invert3 = Cpt(EpicsSignal, '_INV:B2')
invert4 = Cpt(EpicsSignal, '_INV:B3')
def stage(self):
super().stage()
def unstage(self):
super().unstage()
class ZebraPulse(Device):
width = Cpt(EpicsSignalWithRBV, 'WID')
input_addr = Cpt(EpicsSignalWithRBV, 'INP')
input_str = Cpt(EpicsSignalRO, 'INP:STR', string=True)
input_status = Cpt(EpicsSignalRO, 'INP:STA')
delay = Cpt(EpicsSignalWithRBV, 'DLY')
delay_sync = Cpt(EpicsSignal, 'DLY:SYNC')
time_units = Cpt(EpicsSignalWithRBV, 'PRE', string=True)
output = Cpt(EpicsSignal, 'OUT')
input_edge = FC(EpicsSignal,
'{self._zebra_prefix}POLARITY:{self._edge_addr}')
_edge_addrs = {1: 'BC',
2: 'BD',
3: 'BE',
4: 'BF',
}
def stage(self):
super().stage()
def unstage(self):
super().unstage()
def __init__(self, prefix, *, index=None, parent=None,
configuration_attrs=None, read_attrs=None, **kwargs):
if read_attrs is None:
read_attrs = ['input_addr', 'input_edge', 'delay', 'width', 'time_units']
if configuration_attrs is None:
configuration_attrs = []
zebra = parent
self.index = index
self._zebra_prefix = zebra.prefix
self._edge_addr = self._edge_addrs[index]
super().__init__(prefix, configuration_attrs=configuration_attrs,
read_attrs=read_attrs, parent=parent, **kwargs)
class SRXZebra(Zebra):
"""
SRX Zebra device.
"""
pc = Cpt(ZebraPositionCapture, "")
or1 = Cpt(SRXZebraOR, "OR1") # XF:05IDD-ES:1{Dev:Zebra2}:OR1_INV:B0
or2 = Cpt(SRXZebraOR, "OR2")
or3 = Cpt(SRXZebraOR, "OR3")
or4 = Cpt(SRXZebraOR, "OR4")
pulse1 = Cpt(ZebraPulse, "PULSE1_", index=1) # XF:05IDD-ES:1{Dev:Zebra2}:PULSE1_INP
pulse2 = Cpt(ZebraPulse, "PULSE2_", index=2)
pulse3 = Cpt(ZebraPulse, "PULSE3_", index=3)
pulse4 = Cpt(ZebraPulse, "PULSE4_", index=4)
def stage(self):
super().stage()
def unstage(self):
super().unstage()
def __init__(
self, prefix, *,
read_attrs=None, configuration_attrs=None, **kwargs
):
if read_attrs is None:
read_attrs = []
if configuration_attrs is None:
configuration_attrs = []
super().__init__(
prefix,
read_attrs=read_attrs,
configuration_attrs=configuration_attrs,
**kwargs,
)
def set_flyer_zebra_stage_sigs(flyer, method):
# Common stage_sigs
## PC Tab
# Setup
flyer.stage_sigs[flyer._encoder.pc.data.cap_enc1_bool] = 1
flyer.stage_sigs[flyer._encoder.pc.data.cap_enc2_bool] = 1
flyer.stage_sigs[flyer._encoder.pc.data.cap_enc3_bool] = 1
flyer.stage_sigs[flyer._encoder.pc.data.cap_enc4_bool] = 0
# flyer.stage_sigs[flyer._encoder.pc.enc] = 0
# flyer.stage_sigs[flyer._encoder.pc.dir] = 0
# flyer.stage_sigs[flyer._encoder.pc.tspre] = 1
## ENC tab
flyer.stage_sigs[flyer._encoder.pc.enc_pos1_sync] = 1
flyer.stage_sigs[flyer._encoder.pc.enc_pos2_sync] = 1
flyer.stage_sigs[flyer._encoder.pc.enc_pos3_sync] = 1
flyer.stage_sigs[flyer._encoder.pc.enc_pos4_sync] = 1
## SYS tab
flyer.stage_sigs[flyer._encoder.output1.ttl.addr] = 31 # PC_PULSE --> TTL1 --> xs
flyer.stage_sigs[flyer._encoder.output2.ttl.addr] = 31 # PC_PULSE --> TTL2 --> merlin
flyer.stage_sigs[flyer._encoder.output3.ttl.addr] = 36 # OR1 --> TTL3 --> scaler
flyer.stage_sigs[flyer._encoder.output4.ttl.addr] = 31 # PC_PULSE --> TTL4 --> dexela
if method == 'position':
flyer.mode.set('position')
## Specific stage sigs for Zebra - position
# PC Tab
# Arm
flyer.stage_sigs[flyer._encoder.pc.trig_source] = 0
# Gate
flyer.stage_sigs[flyer._encoder.pc.gate_source] = 0 # 0 = Position, 1 = Time
# flyer.stage_sigs[flyer._encoder.pc.gate_start] = 0
# flyer.stage_sigs[flyer._encoder.pc.gate_width] = 10
# flyer.stage_sigs[flyer._encoder.pc.gate_step] = 10.1
flyer.stage_sigs[flyer._encoder.pc.gate_num] = 1
# Pulse
flyer.stage_sigs[flyer._encoder.pc.pulse_source] = 0 # 0 = Position, 1 = Time
# flyer.stage_sigs[flyer._encoder.pc.pulse_start] = 0
# flyer.stage_sigs[flyer._encoder.pc.pulse_width] = 0.9
# flyer.stage_sigs[flyer._encoder.pc.pulse_step] = 1
# flyer.stage_sigs[flyer._encoder.pc.pulse_max] = 10
## OR Tab
flyer.stage_sigs[flyer._encoder.or1.use1] = 1 # 0 = No, 1 = Yes
flyer.stage_sigs[flyer._encoder.or1.use2] = 1
flyer.stage_sigs[flyer._encoder.or1.use3] = 1
flyer.stage_sigs[flyer._encoder.or1.use4] = 0
flyer.stage_sigs[flyer._encoder.or1.input_source1] = 54
flyer.stage_sigs[flyer._encoder.or1.input_source2] = 55
flyer.stage_sigs[flyer._encoder.or1.input_source3] = 53
flyer.stage_sigs[flyer._encoder.or1.input_source4] = 0
flyer.stage_sigs[flyer._encoder.or1.invert1] = 0 # 0 = No, 1 = Yes
flyer.stage_sigs[flyer._encoder.or1.invert2] = 0
flyer.stage_sigs[flyer._encoder.or1.invert3] = 0
flyer.stage_sigs[flyer._encoder.or1.invert4] = 0
## PULSE Tab
# flyer.stage_sigs[flyer._encoder.pulse1.input_addr] = 31
# flyer.stage_sigs[flyer._encoder.pulse1.input_edge] = 1 # 0 = rising, 1 = falling
# flyer.stage_sigs[flyer._encoder.pulse1.delay] = 0.2
# flyer.stage_sigs[flyer._encoder.pulse1.width] = 0.1
# flyer.stage_sigs[flyer._encoder.pulse1.time_units] = 0
flyer.stage_sigs[flyer._encoder.pulse2.input_addr] = 30
flyer.stage_sigs[flyer._encoder.pulse2.input_edge] = 0 # 0 = rising, 1 = falling
flyer.stage_sigs[flyer._encoder.pulse2.delay] = 0
flyer.stage_sigs[flyer._encoder.pulse2.width] = 0.1
flyer.stage_sigs[flyer._encoder.pulse2.time_units] = 0
flyer.stage_sigs[flyer._encoder.pulse3.input_addr] = 31
flyer.stage_sigs[flyer._encoder.pulse3.input_edge] = 1 # 0 = rising, 1 = falling
flyer.stage_sigs[flyer._encoder.pulse3.delay] = 0.2
flyer.stage_sigs[flyer._encoder.pulse3.width] = 0.1
flyer.stage_sigs[flyer._encoder.pulse3.time_units] = 0
flyer.stage_sigs[flyer._encoder.pulse4.input_addr] = 31
flyer.stage_sigs[flyer._encoder.pulse4.input_edge] = 1 # 0 = rising, 1 = falling
flyer.stage_sigs[flyer._encoder.pulse4.delay] = 0
flyer.stage_sigs[flyer._encoder.pulse4.width] = 0.1
flyer.stage_sigs[flyer._encoder.pulse4.time_units] = 0
elif method == 'time':
## Specific stage sigs for Zebra - time
flyer.mode.set('time')
# PC Tab
# Arm
flyer.stage_sigs[flyer._encoder.pc.trig_source] = 0
# Gate
flyer.stage_sigs[flyer._encoder.pc.gate_source] = 1 # 0 = Position, 1 = Time
# flyer.stage_sigs[flyer._encoder.pc.gate_start] = 0
# flyer.stage_sigs[flyer._encoder.pc.gate_width] = 10
# flyer.stage_sigs[flyer._encoder.pc.gate_step] = 10.1
flyer.stage_sigs[flyer._encoder.pc.gate_num] = 1
# Pulse
flyer.stage_sigs[flyer._encoder.pc.pulse_source] = 1 # 0 = Position, 1 = Time
# flyer.stage_sigs[flyer._encoder.pc.pulse_start] = 0
# flyer.stage_sigs[flyer._encoder.pc.pulse_width] = 0.9
# flyer.stage_sigs[flyer._encoder.pc.pulse_step] = 1
# flyer.stage_sigs[flyer._encoder.pc.pulse_max] = 10
## OR Tab
flyer.stage_sigs[flyer._encoder.or1.use1] = 1 # 0 = No, 1 = Yes
flyer.stage_sigs[flyer._encoder.or1.use2] = 1
flyer.stage_sigs[flyer._encoder.or1.use3] = 0
flyer.stage_sigs[flyer._encoder.or1.use4] = 0
flyer.stage_sigs[flyer._encoder.or1.input_source1] = 54
flyer.stage_sigs[flyer._encoder.or1.input_source2] = 55
flyer.stage_sigs[flyer._encoder.or1.input_source3] = 53
flyer.stage_sigs[flyer._encoder.or1.input_source4] = 0
flyer.stage_sigs[flyer._encoder.or1.invert1] = 0 # 0 = No, 1 = Yes
flyer.stage_sigs[flyer._encoder.or1.invert2] = 0
flyer.stage_sigs[flyer._encoder.or1.invert3] = 0
flyer.stage_sigs[flyer._encoder.or1.invert4] = 0
## PULSE Tab
# flyer.stage_sigs[flyer._encoder.pulse1.input_addr] = 31
# flyer.stage_sigs[flyer._encoder.pulse1.input_edge] = 1 # 0 = rising, 1 = falling
# flyer.stage_sigs[flyer._encoder.pulse1.delay] = 0.2
# flyer.stage_sigs[flyer._encoder.pulse1.width] = 0.1
# flyer.stage_sigs[flyer._encoder.pulse1.time_units] = 0
# flyer.stage_sigs[flyer._encoder.pulse2.input_addr] = 30
# flyer.stage_sigs[flyer._encoder.pulse2.input_edge] = 0 # 0 = rising, 1 = falling
# flyer.stage_sigs[flyer._encoder.pulse2.delay] = 0
# flyer.stage_sigs[flyer._encoder.pulse2.width] = 0.1
# flyer.stage_sigs[flyer._encoder.pulse2.time_units] = 0
flyer.stage_sigs[flyer._encoder.pulse3.input_addr] = 31
flyer.stage_sigs[flyer._encoder.pulse3.input_edge] = 0 # 0 = rising, 1 = falling
flyer.stage_sigs[flyer._encoder.pulse3.delay] = 0.0
flyer.stage_sigs[flyer._encoder.pulse3.width] = 0.1
flyer.stage_sigs[flyer._encoder.pulse3.time_units] = 0
flyer.stage_sigs[flyer._encoder.pulse4.input_addr] = 31
flyer.stage_sigs[flyer._encoder.pulse4.input_edge] = 1 # 0 = rising, 1 = falling
flyer.stage_sigs[flyer._encoder.pulse4.delay] = 0
flyer.stage_sigs[flyer._encoder.pulse4.width] = 0.1
flyer.stage_sigs[flyer._encoder.pulse4.time_units] = 0
else:
print('i don\'t know what to do')
class SRXFlyer1Axis(Device):
"""
This is the flyer object for the Zebra.
This is the position based flyer.
"""
LARGE_FILE_DIRECTORY_WRITE_PATH = (
"/nsls2/data/srx/assets/zebra/2022/2022-2/"
)
LARGE_FILE_DIRECTORY_READ_PATH = (
"/nsls2/data/srx/assets/zebra/2022/2022-2/"
)
KNOWN_DETS = {"xs", "xs2", "xs4", "merlin", "dexela"}
fast_axis = Cpt(Signal, value="HOR", kind="config")
slow_axis = Cpt(Signal, value="VER", kind="config")
mode = Cpt(Signal, value='position', kind='config')
_staging_delay = 0.010
@property
def encoder(self):
return self._encoder
@property
def detectors(self):
return tuple(self._dets)
@detectors.setter
def detectors(self, value):
dets = tuple(value)
if not all(d.name in self.KNOWN_DETS for d in dets):
raise ValueError(
f"One or more of {[d.name for d in dets]}"
f"is not known to the zebra. "
f"The known detectors are {self.KNOWN_DETS})"
)
self._dets = dets
@property
def sclr(self):
return self._sis
def __init__(self, dets, sclr1, zebra, *, reg=db.reg, **kwargs):
super().__init__("", parent=None, **kwargs)
self._mode = "idle"
self._dets = dets
self._sis = sclr1
self._filestore_resource = None
self._encoder = zebra
# Put SIS3820 into single count (not autocount) mode
self.stage_sigs[self._sis.count_mode] = 0
# Stop the SIS3820
self._sis.stop_all.put(1)
self._encoder.pc.block_state_reset.put(1)
self.reg = reg
self._document_cache = []
self._last_bulk = None
def stage(self):
dir = self.fast_axis.get()
if dir == "HOR":
self.stage_sigs[self._encoder.pc.enc] = "Enc2"
self.stage_sigs[self._encoder.pc.dir] = "Positive"
elif dir == "VER":
self.stage_sigs[self._encoder.pc.enc] = "Enc1"
self.stage_sigs[self._encoder.pc.dir] = "Positive"
elif dir == "DET2HOR":
self.stage_sigs[self._encoder.pc.enc] = "Enc3"
self.stage_sigs[self._encoder.pc.dir] = "Positive"
elif dir == "DET2VER":
self.stage_sigs[self._encoder.pc.enc] = "Enc4"
self.stage_sigs[self._encoder.pc.dir] = "Positive"
elif dir == "NANOHOR":
self.stage_sigs[self._encoder.pc.enc] = "Enc1"
self.stage_sigs[self._encoder.pc.dir] = "Positive"
elif dir == "NANOVER":
self.stage_sigs[self._encoder.pc.enc] = "Enc2"
self.stage_sigs[self._encoder.pc.dir] = "Positive"
elif dir == "NANOZ":
self.stage_sigs[self._encoder.pc.enc] = "Enc3"
self.stage_sigs[self._encoder.pc.dir] = "Positive"
self._stage_with_delay()
def _stage_with_delay(self):
# Staging taken from https://github.com/bluesky/ophyd/blob/master/ophyd/device.py
# Device - BlueskyInterface
"""Stage the device for data collection.
This method is expected to put the device into a state where
repeated calls to :meth:`~BlueskyInterface.trigger` and
:meth:`~BlueskyInterface.read` will 'do the right thing'.
Staging not idempotent and should raise
:obj:`RedundantStaging` if staged twice without an
intermediate :meth:`~BlueskyInterface.unstage`.
This method should be as fast as is feasible as it does not return
a status object.
The return value of this is a list of all of the (sub) devices
stage, including it's self. This is used to ensure devices
are not staged twice by the :obj:`~bluesky.run_engine.RunEngine`.
This is an optional method, if the device does not need
staging behavior it should not implement `stage` (or
`unstage`).
Returns
-------
devices : list
list including self and all child devices staged
"""
if self._staged == Staged.no:
pass # to short-circuit checking individual cases
elif self._staged == Staged.yes:
raise RedundantStaging("Device {!r} is already staged. "
"Unstage it first.".format(self))
elif self._staged == Staged.partially:
raise RedundantStaging("Device {!r} has been partially staged. "
"Maybe the most recent unstaging "
"encountered an error before finishing. "
"Try unstaging again.".format(self))
self.log.debug("Staging %s", self.name)
self._staged = Staged.partially
# Resolve any stage_sigs keys given as strings: 'a.b' -> self.a.b
stage_sigs = OrderedDict()
for k, v in self.stage_sigs.items():
if isinstance(k, str):
# Device.__getattr__ handles nested attr lookup
stage_sigs[getattr(self, k)] = v
else:
stage_sigs[k] = v
# Read current values, to be restored by unstage()
original_vals = {sig: sig.get() for sig in stage_sigs}
# We will add signals and values from original_vals to
# self._original_vals one at a time so that
# we can undo our partial work in the event of an error.
# Apply settings.
devices_staged = []
try:
for sig, val in stage_sigs.items():
self.log.debug("Setting %s to %r (original value: %r)",
self.name,
val, original_vals[sig])
sig.set(val).wait()
ttime.sleep(self._staging_delay)
# It worked -- now add it to this list of sigs to unstage.
self._original_vals[sig] = original_vals[sig]
devices_staged.append(self)
# Call stage() on child devices.
for attr in self._sub_devices:
device = getattr(self, attr)
if hasattr(device, 'stage'):
device.stage()
devices_staged.append(device)
except Exception:
self.log.debug("An exception was raised while staging %s or "
"one of its children. Attempting to restore "
"original settings before re-raising the "
"exception.", self.name)
self.unstage()
raise
else:
self._staged = Staged.yes
return devices_staged
def unstage(self):
self._unstage_with_delay()
def _unstage_with_delay(self):
# Staging taken from https://github.com/bluesky/ophyd/blob/master/ophyd/device.py
# Device - BlueskyInterface
"""Unstage the device.
This method returns the device to the state it was prior to the
last `stage` call.
This method should be as fast as feasible as it does not
return a status object.
This method must be idempotent, multiple calls (without a new
call to 'stage') have no effect.
Returns
-------
devices : list
list including self and all child devices unstaged
"""
self.log.debug("Unstaging %s", self.name)
self._staged = Staged.partially
devices_unstaged = []
# Call unstage() on child devices.
for attr in self._sub_devices[::-1]:
device = getattr(self, attr)
if hasattr(device, 'unstage'):
device.unstage()
devices_unstaged.append(device)
# Restore original values.
for sig, val in reversed(list(self._original_vals.items())):
self.log.debug("Setting %s back to its original value: %r)",
self.name,
val)
sig.set(val).wait()
ttime.sleep(self._staging_delay)
self._original_vals.pop(sig)
devices_unstaged.append(self)
self._staged = Staged.no
return devices_unstaged
def describe_collect(self):
ext_spec = "FileStore:"
spec = {
"external": ext_spec,
"dtype": "array",
"shape": [self._npts],
"source": "", # make this the PV of the array the det is writing
}
desc = OrderedDict()
for chan in ("time", "enc1", "enc2", "enc3"):
desc[chan] = spec
desc[chan]["source"] = getattr(self._encoder.pc.data, chan).pvname
# Handle the detectors we are going to get
for d in self._dets:
desc.update(d.describe())
# Handle the ion chamber that the zebra is collecting
desc["i0"] = spec
desc["i0"]["source"] = self._sis.mca2.pvname
desc["i0_time"] = spec
desc["i0_time"]["source"] = self._sis.mca1.pvname
desc["im"] = spec
desc["im"]["source"] = self._sis.mca3.pvname
desc["it"] = spec
desc["it"]["source"] = self._sis.mca4.pvname
return {"stream0": desc}
def kickoff(self, *, xstart, xstop, xnum, dwell, tacc):
dets_by_name = {d.name: d for d in self.detectors}
mode = self.mode.get()
# print(f'{mode=}')
self._encoder.pc.arm.put(0)
self._mode = "kicked off"
self._npts = int(xnum)
if xstart < xstop:
direction = 1
else:
direction = -1
pxsize = np.abs(xstop - xstart) / (xnum - 1)
extent = np.abs(xstop - xstart) + pxsize
v = pxsize / dwell
if mode == 'position':
# 0.1 ms delay between pulses
decrement = (pxsize / dwell) * 0.0001
if decrement < 1e-5:
print('Warning: Changing the pulse width!')
decrement = 1e-5
elif mode == 'time':
decrement = 0.0002
if mode == 'position':
self._encoder.pc.gate_start.put(xstart - direction * (pxsize / 2))
self._encoder.pc.gate_step.put(extent + 0.051)
self._encoder.pc.gate_width.put(extent + 0.050)
elif mode == 'time':
self._encoder.pc.gate_start.put(tacc)
self._encoder.pc.gate_step.put(extent / v)
self._encoder.pc.gate_width.put(extent / v + 0.050)
self._encoder.pc.pulse_start.put(0.0)
self._encoder.pc.pulse_max.put(xnum)
if mode == 'position':
self._encoder.pc.pulse_step.put(pxsize)
self._encoder.pc.pulse_width.put(pxsize - decrement)
elif mode == 'time':
self._encoder.pc.pulse_step.put(dwell)
self._encoder.pc.pulse_width.put(dwell - decrement)
# For dexela, we will use time triggering in a pixel, not position
# if "dexela" in dets_by_name:
# self._encoder.output1.ttl.addr.put(52)
# self._encoder.output3.ttl.addr.put(52)
# self._encoder.pulse1.width.put(0.5 * dwell - 0.050)
# else:
# self._encoder.output1.ttl.addr.put(31)
# # self._encoder.output3.ttl.addr.put(31)
# self._encoder.output3.ttl.addr.put(36)
# self._encoder.pulse3.input_addr.put(31)
# self._encoder.pulse4.input_addr.put(31)
self._encoder.pc.enc_pos1_sync.put(1) # Scanner X
self._encoder.pc.enc_pos2_sync.put(1) # Scanner Y
self._encoder.pc.enc_pos3_sync.put(1) # Scanner Z
# self._encoder.pc.enc_pos4_sync.put(1) # None
# Arm the zebra
self._encoder.pc.arm.put(1)
st = (
NullStatus()
)
# TODO Return a status object *first*
# and do the above asynchronously.
return st
def complete(self):
"""
Call this when all needed data has been collected. This has no idea
whether that is true, so it will obligingly stop immediately. It is
up to the caller to ensure that the motion is actually complete.
"""
amk_debug_flag = False
# Our acquisition complete PV is: XF:05IDD-ES:1{Dev:Zebra1}:ARRAY_ACQ
while self._encoder.pc.data_in_progress.get() == 1:
ttime.sleep(0.01)
# ttime.sleep(.1)
self._mode = "complete"
self._encoder.pc.block_state_reset.put(1)
# see triggering errors of the xspress3 on suspension. This is
# to test the reset of the xspress3 after a line.
for d in self._dets:
d.stop(success=True)
self.__filename = "{}.h5".format(uuid.uuid4())
self.__filename_sis = "{}.h5".format(uuid.uuid4())
self.__read_filepath = os.path.join(
self.LARGE_FILE_DIRECTORY_READ_PATH, self.__filename
)
self.__read_filepath_sis = os.path.join(
self.LARGE_FILE_DIRECTORY_READ_PATH, self.__filename_sis
)
self.__write_filepath = os.path.join(
self.LARGE_FILE_DIRECTORY_WRITE_PATH, self.__filename
)
self.__write_filepath_sis = os.path.join(
self.LARGE_FILE_DIRECTORY_WRITE_PATH, self.__filename_sis
)
self.__filestore_resource, datum_factory_z = resource_factory(
"ZEBRA_HDF51",
root="/",
resource_path=self.__read_filepath,
resource_kwargs={},
path_semantics="posix",
)
self.__filestore_resource_sis, datum_factory_sis = resource_factory(
"SIS_HDF51",
root="/",
resource_path=self.__read_filepath_sis,
resource_kwargs={},
path_semantics="posix",
)
time_datum = datum_factory_z({"column": "time"})
enc1_datum = datum_factory_z({"column": "enc1"})
enc2_datum = datum_factory_z({"column": "enc2"})
enc3_datum = datum_factory_z({"column": "enc3"})
sis_datum = datum_factory_sis({"column": "i0"})
sis_datum_im = datum_factory_sis({"column": "im"})
sis_datum_it = datum_factory_sis({"column": "it"})
sis_time = datum_factory_sis({"column": "time"})
self._document_cache.extend(
("resource", d)
for d in (self.__filestore_resource, self.__filestore_resource_sis)
)
self._document_cache.extend(
("datum", d)
for d in (
time_datum,
enc1_datum,
enc2_datum,
enc3_datum,
sis_datum,
sis_time,
sis_datum_im,
sis_datum_it,
)
)
# grab the asset documents from all of the child detectors
for d in self._dets:
self._document_cache.extend(d.collect_asset_docs())
# Write the file.
# @timer_wrapper
def get_zebra_data():
if 'nano' in self.name:
export_nano_zebra_data(self._encoder, self.__write_filepath, self.fast_axis.get())
else:
export_zebra_data(self._encoder, self.__write_filepath, self.fast_axis)
if amk_debug_flag:
t_getzebradata = tic()
get_zebra_data()
if amk_debug_flag:
toc(t_getzebradata, str='Get Zebra data')
# @timer_wrapper
def get_sis_data():
export_sis_data(
self._sis, self.__write_filepath_sis, self._encoder
)
if amk_debug_flag:
t_sisdata = tic()
get_sis_data()
if amk_debug_flag:
toc(t_sisdata, str='Get SIS data')
# Yield a (partial) Event document. The RunEngine will put this
# into metadatastore, as it does all readings.
self._last_bulk = {
"time": ttime.time(),
"seq_num": 1,
"data": {
"time": time_datum["datum_id"],
"enc1": enc1_datum["datum_id"],
"enc2": enc2_datum["datum_id"],
"enc3": enc3_datum["datum_id"],
"i0": sis_datum["datum_id"],
"i0_time": sis_time["datum_id"],
"im": sis_datum_im["datum_id"],
"it": sis_datum_it["datum_id"],
},
"timestamps": {
"time": time_datum["datum_id"], # not a typo#
"enc1": time_datum["datum_id"],
"enc2": time_datum["datum_id"],
"enc3": time_datum["datum_id"],
"i0": sis_time["datum_id"],
"i0_time": sis_time["datum_id"],
"im": sis_datum_im["datum_id"],
"it": sis_datum_it["datum_id"],
},
}
for d in self._dets:
reading = d.read()
self._last_bulk["data"].update(
{k: v["value"] for k, v in reading.items()}
)
self._last_bulk["timestamps"].update(
{k: v["timestamp"] for k, v in reading.items()}
)
return NullStatus()
def collect(self):
# Create records in the FileStore database.
# move this to stage because I thinkt hat describe_collect needs the
# resource id
# TODO use ophyd.areadectector.filestoer_mixins.resllource_factory here
if self._last_bulk is None:
raise Exception(
"the order of complete and collect is brittle and out "
"of sync. This device relies on in-order and 1:1 calls "
"between complete and collect to correctly create and stash "
"the asset registry documents"
)
yield self._last_bulk
self._last_bulk = None
self._mode = "idle"
def collect_asset_docs(self):
yield from iter(list(self._document_cache))
self._document_cache.clear()
def stop(self):
self._encoder.pc.block_state_reset.put(1)
pass
def pause(self):
"Pausing in the middle of a kickoff nukes the partial dataset."
self._encoder.pc.block_state_reset.put(1)
self._sis.stop_all.put(1)
for d in self._dets:
if hasattr(d, "settings"):
d.settings.acquire.put(0)
if hasattr(d, "cam"):
d.cam.acquire.put(0)
self._mode = "idle"
self.unstage()
def resume(self):
self.unstage()
self.stage()
# For microES
try:
microZebra = SRXZebra("XF:05IDD-ES:1{Dev:Zebra1}:", name="microZebra",
read_attrs=["pc.data.enc1", "pc.data.enc2", "pc.data.time"],
)
# There is no flyer attached to Zebra1.
# Leaving object as none until it is confirmed that it can be removed.
flying_zebra = None
# flying_zebra = SRXFlyer1Axis(
# list(xs for xs in [xs] if xs is not None), sclr1, microZebra, name="flying_zebra"
# )
except Exception as ex:
print("Cannot connect to microZebra. Continuing without device.\n", ex)
raise ex
flying_zebra = None
# For nanoES
try:
# Setup nanoZebra
nanoZebra = SRXZebra("XF:05IDD-ES:1{Dev:Zebra2}:", name="nanoZebra",
read_attrs=["pc.data.enc1", "pc.data.enc2", "pc.data.enc3", "pc.data.time"],
)
if os.getenv("TOUCHBEAMLINE", "0") == "1":
print(' Touching nanoZebra...', end='')
# Set encoder resolution on startup
nanoZebra.pc.enc_res1.put(-9.5368e-05)
nanoZebra.pc.enc_res2.put(9.5368e-05)
nanoZebra.pc.enc_res3.put(9.5368e-05)
print('done')
nano_flying_zebra = SRXFlyer1Axis(
list(xs for xs in [xs] if xs is not None), sclr1, nanoZebra, name="nano_flying_zebra"
)
set_flyer_zebra_stage_sigs(nano_flying_zebra, 'position')
nano_flying_zebra_coarse = SRXFlyer1Axis(
list(xs for xs in [xs] if xs is not None), sclr1, nanoZebra, name="nano_flying_zebra_coarse"
)
set_flyer_zebra_stage_sigs(nano_flying_zebra_coarse, 'time')
# Temporary flyer for ME4 until ME7 is commissioned
nano_flying_zebra_me4 = SRXFlyer1Axis(
list(xs4 for xs4 in [xs4] if xs4 is not None), sclr1, nanoZebra, name="nano_flying_zebra_me4"
)
set_flyer_zebra_stage_sigs(nano_flying_zebra_me4, 'position')
# Temporary flyer for ME4 until ME7 is commissioned
nano_flying_zebra_coarse_me4 = SRXFlyer1Axis(
list(xs4 for xs4 in [xs4] if xs4 is not None), sclr1, nanoZebra, name="nano_flying_zebra_coarse_me4"
)
set_flyer_zebra_stage_sigs(nano_flying_zebra_coarse_me4, 'time')
except Exception as ex:
print("Cannot connect to nanoZebra. Continuing without device.\n", ex)
nano_flying_zebra = None
nano_flying_zebra_coarse = None
nano_flying_zebra_me4 = None
# For confocal
# For plans that call xs2,
# should we simply add xs2 to flying_zebra.dets
# and set dir to 'DET2HOR'?
# if xs2 is not None:
# # flying_zebra_x_xs2 = SRXFlyer1Axis(
# # zebra, [xs2], sclr1, "HOR", name="flying_zebra_x_xs2"
# # )
# # flying_zebra_y_xs2 = SRXFlyer1Axis(
# # zebra, [xs2], sclr1, "VER", name="flying_zebra_y_xs2"
# # )
# flying_zebra_xs2 = SRXFlyer1Axis(
# list(xs2 for xs2 in [xs2] if xs2 is not None),
# sclr1,
# nanoZebra,
# name="flying_zebra_xs2"
# )
#
# else:
# flying_zebra_xs2 = None