fix(file_writer): Fix file_writer format method.

csaxs_bec/bec_ipython_client/plugins/LamNI/LamNI_webpage_generator.py

@@ -0,0 +1,89 @@
+"""
+LamNI/webpage_generator.py
+===========================
+LamNI-specific webpage generator subclass.
+
+Integration (inside the LamNI __init__ / startup):
+---------------------------------------------------
+    from csaxs_bec.bec_ipython_client.plugins.LamNI.webpage_generator import (
+        LamniWebpageGenerator,
+    )
+    self._webpage_gen = LamniWebpageGenerator(
+        bec_client=client,
+        output_dir="~/data/raw/webpage/",
+    )
+    self._webpage_gen.start()
+
+Or use the factory (auto-selects by session name "lamni"):
+----------------------------------------------------------
+    from csaxs_bec.bec_ipython_client.plugins.flomni.webpage_generator import (
+        make_webpage_generator,
+    )
+    self._webpage_gen = make_webpage_generator(bec, output_dir="~/data/raw/webpage/")
+    self._webpage_gen.start()
+
+Interactive helpers:
+--------------------
+    lamni._webpage_gen.status()
+    lamni._webpage_gen.verbosity = 2
+    lamni._webpage_gen.stop()
+    lamni._webpage_gen.start()
+"""
+
+from pathlib import Path
+
+from csaxs_bec.bec_ipython_client.plugins.flomni.webpage_generator import (
+    WebpageGeneratorBase,
+    _safe_get,
+    _safe_float,
+    _gvar,
+)
+
+
+class LamniWebpageGenerator(WebpageGeneratorBase):
+    """
+    LamNI-specific webpage generator.
+    Logo: LamNI.png from the same directory as this file.
+
+    Override _collect_setup_data() to add LamNI-specific temperatures,
+    sample name, and measurement settings.
+    """
+
+    # TODO: fill in LamNI-specific device paths
+    # label -> dotpath under device_manager.devices
+    _TEMP_MAP = {
+        # "Sample":  "lamni_temphum.temperature_sample",
+        # "OSA":     "lamni_temphum.temperature_osa",
+    }
+
+    def _logo_path(self):
+        return Path(__file__).parent / "LamNI.png"
+
+    def _collect_setup_data(self) -> dict:
+        # ── LamNI-specific data goes here ─────────────────────────────
+        # Uncomment and adapt when device names are known:
+        #
+        # dm = self._bec.device_manager
+        # sample_name = _safe_get(dm, "lamni_samples.sample_names.sample0") or "N/A"
+        # temperatures = {
+        #     label: _safe_float(_safe_get(dm, path))
+        #     for label, path in self._TEMP_MAP.items()
+        # }
+        # settings = {
+        #     "Sample name":   sample_name,
+        #     "FOV x / y":     ...,
+        #     "Exposure time": _gvar(self._bec, "tomo_countingtime", ".3f", " s"),
+        #     "Angle step":    _gvar(self._bec, "tomo_angle_stepsize", ".2f", "\u00b0"),
+        # }
+        # return {
+        #     "type":         "lamni",
+        #     "sample_name":  sample_name,
+        #     "temperatures": temperatures,
+        #     "settings":     settings,
+        # }
+
+        # Placeholder — returns minimal info until implemented
+        return {
+            "type": "lamni",
+            # LamNI-specific data here
+        }

csaxs_bec/bec_ipython_client/plugins/flomni/flomni.py

@@ -21,6 +21,14 @@ from csaxs_bec.bec_ipython_client.plugins.omny.omny_general_tools import (
     TomoIDManager,
 )
 
+# from csaxs_bec.bec_ipython_client.plugins.flomni.webpage_generator import (
+#        FlomniWebpageGenerator,
+#       VERBOSITY_SILENT,   # 0 — no output
+#       VERBOSITY_NORMAL,   # 1 — startup / stop messages only  (default)
+#       VERBOSITY_VERBOSE,  # 2 — one-line summary per cycle
+#       VERBOSITY_DEBUG,    # 3 — full JSON payload per cycle
+#    )
+
 logger = bec_logger.logger
 
 if builtins.__dict__.get("bec") is not None:
@@ -1303,6 +1311,16 @@ class Flomni(
         self.corr_angle_y_2 = []
         self._progress_proxy = _ProgressProxy(self.client)
         self._progress_proxy.reset()
+        from csaxs_bec.bec_ipython_client.plugins.flomni.flomni_webpage_generator import (
+            FlomniWebpageGenerator,
+        )
+        self._webpage_gen = FlomniWebpageGenerator(
+            bec_client=client,
+            output_dir="~/data/raw/webpage/",
+            upload_url="http://s1090968537.online.de/upload.php",   # optional
+        )
+        self._webpage_gen.start()
+
         self.OMNYTools = OMNYTools(self.client)
         self.reconstructor = PtychoReconstructor(self.ptycho_reconstruct_foldername)
         self.tomo_id_manager = TomoIDManager()
@@ -2249,8 +2267,8 @@ class Flomni(
             + ' 888    888  "Y88888P"  888       888 888    Y888 8888888 \n'
         )
         padding = 20
-        fovxy = f"{self.fovx:.2f}/{self.fovy:.2f}"
-        stitching = f"{self.stitch_x:.2f}/{self.stitch_y:.2f}"
+        fovxy = f"{self.fovx:.1f}/{self.fovy:.1f}"
+        stitching = f"{self.stitch_x:.0f}/{self.stitch_y:.0f}"
         dataset_id = str(self.client.queue.next_dataset_number)
         account = bec.active_account
         content = [
@@ -2267,7 +2285,7 @@ class Flomni(
             f"{'Exposure time:':<{padding}}{self.tomo_countingtime:>{padding}.2f}\n",
             f"{'Fermat spiral step size:':<{padding}}{self.tomo_shellstep:>{padding}.2f}\n",
             f"{'FOV:':<{padding}}{fovxy:>{padding}}\n",
-            f"{'Stitching:':<{padding}}{stitching:>{padding}.0f}\n",
+            f"{'Stitching:':<{padding}}{stitching:>{padding}}\n",
             f"{'Number of individual sub-tomograms:':<{padding}}{8:>{padding}}\n",
             f"{'Angular step within sub-tomogram:':<{padding}}{self.tomo_angle_stepsize:>{padding}.2f}\n",
         ]

csaxs_bec/bec_ipython_client/plugins/omny/omny_webpage_generator.py

@@ -0,0 +1,96 @@
+"""
+omny/webpage_generator.py
+==========================
+OMNY-specific webpage generator subclass.
+
+Integration (inside the OMNY __init__ / startup):
+--------------------------------------------------
+    from csaxs_bec.bec_ipython_client.plugins.omny.webpage_generator import (
+        OmnyWebpageGenerator,
+    )
+    self._webpage_gen = OmnyWebpageGenerator(
+        bec_client=client,
+        output_dir="~/data/raw/webpage/",
+    )
+    self._webpage_gen.start()
+
+Or use the factory (auto-selects by session name "omny"):
+---------------------------------------------------------
+    from csaxs_bec.bec_ipython_client.plugins.flomni.webpage_generator import (
+        make_webpage_generator,
+    )
+    self._webpage_gen = make_webpage_generator(bec, output_dir="~/data/raw/webpage/")
+    self._webpage_gen.start()
+
+Interactive helpers:
+--------------------
+    omny._webpage_gen.status()
+    omny._webpage_gen.verbosity = 2
+    omny._webpage_gen.stop()
+    omny._webpage_gen.start()
+"""
+
+from pathlib import Path
+
+from csaxs_bec.bec_ipython_client.plugins.flomni.webpage_generator import (
+    WebpageGeneratorBase,
+    _safe_get,
+    _safe_float,
+    _gvar,
+)
+
+
+class OmnyWebpageGenerator(WebpageGeneratorBase):
+    """
+    OMNY-specific webpage generator.
+    Logo: OMNY.png from the same directory as this file.
+
+    Override _collect_setup_data() to add OMNY-specific temperatures,
+    sample name, and measurement settings.
+
+    The old OMNY spec webpage showed:
+        - Cryo temperatures (XOMNY-TEMP-CRYO-A/B)
+        - Per-channel temperatures (XOMNY-TEMP1..48)
+        - Dewar pressure / LN2 flow
+        - Interferometer strengths (OINTERF)
+    Map these to BEC device paths below once available.
+    """
+
+    # TODO: fill in OMNY-specific device paths
+    # label -> dotpath under device_manager.devices
+    _TEMP_MAP = {
+        # "Sample (cryo A)": "omny_temp.cryo_a",
+        # "Cryo head (B)":   "omny_temp.cryo_b",
+    }
+
+    def _logo_path(self):
+        return Path(__file__).parent / "OMNY.png"
+
+    def _collect_setup_data(self) -> dict:
+        # ── OMNY-specific data goes here ──────────────────────────────
+        # Uncomment and adapt when device names are known:
+        #
+        # dm = self._bec.device_manager
+        # sample_name = _safe_get(dm, "omny_samples.sample_names.sample0") or "N/A"
+        # temperatures = {
+        #     label: _safe_float(_safe_get(dm, path))
+        #     for label, path in self._TEMP_MAP.items()
+        # }
+        # settings = {
+        #     "Sample name":   sample_name,
+        #     "FOV x / y":     ...,
+        #     "Exposure time": _gvar(self._bec, "tomo_countingtime", ".3f", " s"),
+        #     "Angle step":    _gvar(self._bec, "tomo_angle_stepsize", ".2f", "\u00b0"),
+        # }
+        # return {
+        #     "type":         "omny",
+        #     "sample_name":  sample_name,
+        #     "temperatures": temperatures,
+        #     "settings":     settings,
+        # }
+
+        # Placeholder — returns minimal info until implemented
+        return {
+            "type": "omny",
+            # OMNY-specific data here
+        }

csaxs_bec/device_configs/bl_endstation.yaml

@@ -72,7 +72,7 @@ xbpm3x:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -95,7 +95,7 @@ xbpm3y:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -118,7 +118,7 @@ sl3trxi:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -141,7 +141,7 @@ sl3trxo:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -164,7 +164,7 @@ sl3trxb:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -187,7 +187,7 @@ sl3trxt:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -210,7 +210,7 @@ fast_shutter_n1_x:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -234,7 +234,7 @@ fast_shutter_o1_x:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -257,7 +257,7 @@ fast_shutter_o2_x:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -280,7 +280,7 @@ filter_array_1_x:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -303,7 +303,7 @@ filter_array_2_x:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -326,7 +326,7 @@ filter_array_3_x:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -349,7 +349,7 @@ filter_array_4_x:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -372,7 +372,7 @@ sl4trxi:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -395,7 +395,7 @@ sl4trxo:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -418,7 +418,7 @@ sl4trxb:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -441,7 +441,7 @@ sl4trxt:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -466,7 +466,7 @@ sl5trxi:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -489,7 +489,7 @@ sl5trxo:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -512,7 +512,7 @@ sl5trxb:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -535,7 +535,7 @@ sl5trxt:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -558,7 +558,7 @@ xbimtrx:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -581,7 +581,7 @@ xbimtry:
     # precision: 3
     # tolerance: 0.005
   enabled: true
-  onFailure: buffer
+  onFailure: retry
   readOnly: false
   readoutPriority: baseline
   connectionTimeout: 20
@@ -589,3 +589,237 @@ xbimtry:
     init_position: 0
     # bl_smar_stage to use csaxs reference method. assign number according to axis channel
     bl_smar_stage: 1
+
+
+
+################### XBOX related ###################
+# we assue the epics settings for resolution, velocity etc. are correct
+# we do not overwrite from here
+
+aptrx:
+  description: Aperture pinhole X
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-PIN1:TRX1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+aptry:
+  description: Aperture pinhole Y
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-PIN1:TRY1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+ebtrx:
+  description: Exposure box aperture X
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-EB:TRX1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+ebtry:
+  description: Exposure box aperture Y
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-EB:TRY1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+ebtrz:
+  description: Exposure box aperture Z
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-EB:TRZ1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+ebsupport:
+  description: Exposure box granite support Y
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-EH1-EB:TRY1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+fttrx1:
+  description: FTS1 translation X
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-FTS1:TRX1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+fttry1:
+  description: FTS1 translation Y
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-FTS1:TRY1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+fttrx2:
+  description: FTS2 translation X
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-FTS2:TRX1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+fttry2:
+  description: FTS2 translation Y
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-FTS2:TRY1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+fttrz:
+  description: FTS1 translation Z
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-FTS1:TRZ1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+bs1x:
+  description: Beamstop 1 X
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-BS1:TRX1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+bs1y:
+  description: Beamstop 1 Y
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-BS1:TRY1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+bs2x:
+  description: Beamstop 2 X
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-BS2:TRX1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+bs2y:
+  description: Beamstop 2 Y
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-BS2:TRY1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+dttrx:
+  description: Detector table X
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-DETT:TRX1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+dttry:
+  description: Detector table Y
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-DETT:TRY1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+dttrz:
+  description: Detector table Z
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-DETT:TRZ1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false
+
+dettrx:
+  description: Detector 1 X
+  deviceClass: ophyd_devices.devices.psi_motor.EpicsUserMotorVME
+  deviceConfig:
+    prefix: X12SA-ES1-DET1:TRX1
+  deviceTags:
+    - cSAXS_ES
+  onFailure: retry
+  enabled: true
+  readoutPriority: baseline
+  softwareTrigger: false

csaxs_bec/device_configs/bl_optics_hutch.yaml

@@ -68,91 +68,106 @@ ccmx:
   - cSAXS
   - optics
 
+# ccm_energy:
+#   readoutPriority: baseline
+#   deviceClass: ophyd_devices.devices.simple_positioner.PSIPositionerBase
+#     prefix: "X12SA-OP-CCM1:"
+#     override_suffixes:
+#       user_readback: "ENERGY-GET"
+#       user_setpoint: "ENERGY-SET"
+#       velocity: "ROTY:VELO"
+#   deviceTags:
+#   - user motors
+#   enabled: true
+#   readOnly: false
+
 
 
 ##########################################################################
 ######################## SMARACT STAGES ##################################
 ##########################################################################
 
-xbpm2x:
-  description: X-ray beam position monitor 1 in OPbox
-  deviceClass: csaxs_bec.devices.smaract.smaract_ophyd.SmaractMotor
-  deviceConfig:
-    axis_Id: A
-    host: x12sa-eb-smaract-mcs-03.psi.ch
-    limits:
-    - -200
-    - 200
-    port: 5000
-    sign: 1
-  enabled: true
-  onFailure: buffer
-  readOnly: false
-  readoutPriority: baseline
-  connectionTimeout: 20
-  userParameter:
-    # bl_smar_stage to use csaxs reference method. assign number according to axis channel
-    bl_smar_stage: 0
+# xbpm2x:
+#   description: X-ray beam position monitor 1 in OPbox
+#   deviceClass: csaxs_bec.devices.smaract.smaract_ophyd.SmaractMotor
+#   deviceConfig:
+#     axis_Id: A
+#     host: x12sa-eb-smaract-mcs-03.psi.ch
+#     limits:
+#     - -200
+#     - 200
+#     port: 5000
+#     sign: 1
+#   enabled: true
+#   onFailure: buffer
+#   readOnly: false
+#   readoutPriority: baseline
+#   connectionTimeout: 20
+#   userParameter:
+#     # bl_smar_stage to use csaxs reference method. assign number according to axis channel
+#     bl_smar_stage: 0
 
-xbpm2y:
-  description: X-ray beam position monitor 1 in OPbox
-  deviceClass: csaxs_bec.devices.smaract.smaract_ophyd.SmaractMotor
-  deviceConfig:
-    axis_Id: B
-    host: x12sa-eb-smaract-mcs-03.psi.ch
-    limits:
-    - -200
-    - 200
-    port: 5000
-    sign: 1
-  enabled: true
-  onFailure: buffer
-  readOnly: false
-  readoutPriority: baseline
-  connectionTimeout: 20
-  userParameter:
-    # bl_smar_stage to use csaxs reference method. assign number according to axis channel
-    bl_smar_stage: 1
+# xbpm2y:
+#   description: X-ray beam position monitor 1 in OPbox
+#   deviceClass: csaxs_bec.devices.smaract.smaract_ophyd.SmaractMotor
+#   deviceConfig:
+#     axis_Id: B
+#     host: x12sa-eb-smaract-mcs-03.psi.ch
+#     limits:
+#     - -200
+#     - 200
+#     port: 5000
+#     sign: 1
+#   enabled: true
+#   onFailure: buffer
+#   readOnly: false
+#   readoutPriority: baseline
+#   connectionTimeout: 20
+#   userParameter:
+#     # bl_smar_stage to use csaxs reference method. assign number according to axis channel
+#     bl_smar_stage: 1
+
+# cu_foilx:
+#   description: Cu foil in OPbox
+#   deviceClass: csaxs_bec.devices.smaract.smaract_ophyd.SmaractMotor
+#   deviceConfig:
+#     axis_Id: C
+#     host: x12sa-eb-smaract-mcs-03.psi.ch
+#     limits:
+#     - -200
+#     - 200
+#     port: 5000
+#     sign: 1
+#   enabled: true
+#   onFailure: buffer
+#   readOnly: false
+#   readoutPriority: baseline
+#   connectionTimeout: 20
+#   userParameter:
+#     # bl_smar_stage to use csaxs reference method. assign number according to axis channel
+#     bl_smar_stage: 2
+
+# scinx:
+#   description: scintillator in OPbox
+#   deviceClass: csaxs_bec.devices.smaract.smaract_ophyd.SmaractMotor
+#   deviceConfig:
+#     axis_Id: D
+#     host: x12sa-eb-smaract-mcs-03.psi.ch
+#     limits:
+#     - -200
+#     - 200
+#     port: 5000
+#     sign: 1
+#   enabled: true
+#   onFailure: buffer
+#   readOnly: false
+#   readoutPriority: baseline
+#   connectionTimeout: 20
+#   userParameter:
+#     # bl_smar_stage to use csaxs reference method. assign number according to axis channel
+#     bl_smar_stage: 3
 
-cu_foilx:
-  description: Cu foil in OPbox
-  deviceClass: csaxs_bec.devices.smaract.smaract_ophyd.SmaractMotor
-  deviceConfig:
-    axis_Id: C
-    host: x12sa-eb-smaract-mcs-03.psi.ch
-    limits:
-    - -200
-    - 200
-    port: 5000
-    sign: 1
-  enabled: true
-  onFailure: buffer
-  readOnly: false
-  readoutPriority: baseline
-  connectionTimeout: 20
-  userParameter:
-    # bl_smar_stage to use csaxs reference method. assign number according to axis channel
-    bl_smar_stage: 2
 
-scinx:
-  description: scintillator in OPbox
-  deviceClass: csaxs_bec.devices.smaract.smaract_ophyd.SmaractMotor
-  deviceConfig:
-    axis_Id: D
-    host: x12sa-eb-smaract-mcs-03.psi.ch
-    limits:
-    - -200
-    - 200
-    port: 5000
-    sign: 1
-  enabled: true
-  onFailure: buffer
-  readOnly: false
-  readoutPriority: baseline
-  connectionTimeout: 20
-  userParameter:
-    # bl_smar_stage to use csaxs reference method. assign number according to axis channel
-    bl_smar_stage: 3
 
 
 # dmm1_trx_readback_example: # This is the same template as for i.e. bpm4i 

csaxs_bec/device_configs/main.yaml

@@ -10,8 +10,8 @@
 endstation:
   - !include ./bl_endstation.yaml
 
-detectors:
-  - !include ./bl_detectors.yaml
+# detectors:
+#   - !include ./bl_detectors.yaml
 
 #sastt:
 #  - !include ./sastt.yaml

csaxs_bec/device_configs/ptycho_flomni.yaml

@@ -395,7 +395,7 @@ rtz:
   readoutPriority: on_request
   connectionTimeout: 20
 
-rt_flyer:
+rt_positions:
   deviceClass: csaxs_bec.devices.omny.rt.rt_flomni_ophyd.RtFlomniFlyer
   deviceConfig:
     host: mpc2844.psi.ch
@@ -522,6 +522,18 @@ omny_panda:
       FMC_IN.VAL2.Min: cap_voltage_fzp_x_min
       FMC_IN.VAL2.Max: cap_voltage_fzp_x_max
       FMC_IN.VAL2.Mean: cap_voltage_fzp_x_mean
+      INENC1.VAL.Max: interf_st_fzp_y_max
+      INENC1.VAL.Mean: interf_st_fzp_y_mean
+      INENC1.VAL.Min: interf_st_fzp_y_min
+      INENC2.VAL.Max: interf_st_fzp_x_max
+      INENC2.VAL.Mean: interf_st_fzp_x_mean
+      INENC2.VAL.Min: interf_st_fzp_x_min
+      INENC3.VAL.Max: interf_st_rotz_max
+      INENC3.VAL.Mean: interf_st_rotz_mean
+      INENC3.VAL.Min: interf_st_rotz_min
+      INENC4.VAL.Max: interf_st_rotx_max
+      INENC4.VAL.Mean: interf_st_rotx_mean
+      INENC4.VAL.Min: interf_st_rotx_min
   deviceTags:
     - detector
   enabled: true

csaxs_bec/file_writer/__init__.py

@@ -1 +1 @@
-from .csaxs_nexus import NeXus_format as cSAXS_NeXus_format
+from .csaxs_nexus import cSAXSNeXusFormat

csaxs_bec/file_writer/csaxs_nexus.py

@@ -1,445 +1,472 @@
 from __future__ import annotations
 
-from typing import TYPE_CHECKING, Any
-
 import numpy as np
-
-if TYPE_CHECKING:
-    from bec_lib.devicemanager import DeviceManagerBase
-    from bec_server.file_writer.file_writer import HDF5Storage
+from bec_server.file_writer.default_writer import DefaultFormat
 
 
-def get_entry(data: dict, name: str, default=None) -> Any:
+class cSAXSNeXusFormat(DefaultFormat):
     """
-    Get an entry from the scan data assuming a <device>.<device>.value structure.
-
-    Args:
-        data (dict): Scan data
-        name (str): Entry name
-        default (Any, optional): Default value. Defaults to None.
+    NeXus file format for cSAXS beamline. This format is based on the default NeXus format, but with some additional entries specific to the cSAXS beamline. The structure of the file is based on the NeXus standard, but with some additional groups and datasets specific to the cSAXS beamline.
     """
-    if isinstance(data.get(name), list) and isinstance(data.get(name)[0], dict):
-        return [sub_data.get(name, {}).get("value", default) for sub_data in data.get(name)]
 
-    return data.get(name, {}).get(name, {}).get("value", default)
+    def format(self) -> None:
+        """
+        Prepare the NeXus file format.
+        Override this method in file writer plugins to customize the HDF5 file format.
 
+        The class provides access to the following attributes:
+        - self.storage: The HDF5Storage object.
+        - self.data: The data dictionary.
+        - self.file_references: The file references dictionary, which has the link to external data.
+        - self.device_manager: The DeviceManagerBase object.
+        - self.get_entry(name, default=None): Helper method to get an entry from the data dictionary.
 
-def NeXus_format(
-    storage: HDF5Storage, data: dict, file_references: dict, device_manager: DeviceManagerBase
-) -> HDF5Storage:
-    """
-    Prepare the NeXus file format.
+        See also: :class:`bec_server.file_writer.file_writer.HDF5Storage`.
 
-    Args:
-        storage (HDF5Storage): HDF5 storage. Pseudo hdf5 file container that will be written to disk later.
-        data (dict): scan data
-        file_references (dict): File references. Can be used to add external files to the HDF5 file. The path is given relative to the HDF5 file.
-        device_manager (DeviceManagerBase): Device manager. Can be used to check if devices are available.
+        """
 
-    Returns:
-        HDF5Storage: Updated HDF5 storage
-    """
-    # /entry
-    entry = storage.create_group("entry")
-    entry.attrs["NX_class"] = "NXentry"
-    entry.attrs["definition"] = "NXsas"
-    entry.attrs["start_time"] = data.get("start_time")
-    entry.attrs["end_time"] = data.get("end_time")
-    entry.attrs["version"] = 1.0
+        # entry = self.storage.create_group("entry")
 
-    # /entry/collection
-    collection = entry.create_group("collection")
-    collection.attrs["NX_class"] = "NXcollection"
-    bec_collection = collection.create_group("bec")
+        # # /entry/control
+        # control = entry.create_group("control")
+        # control.attrs["NX_class"] = "NXmonitor"
+        # control.create_dataset(name="mode", data="monitor")
 
-    # /entry/control
-    control = entry.create_group("control")
-    control.attrs["NX_class"] = "NXmonitor"
-    control.create_dataset(name="mode", data="monitor")
-    control.create_dataset(name="integral", data=get_entry(data, "bpm4i"))
+        # #########
+        # # EXAMPLE for soft link
+        # #########
+        # # /entry/data
+        # if "eiger_4" in self.device_manager.devices:
+        #     entry.create_soft_link(name="data", target="/entry/instrument/eiger_4")
 
-    # /entry/data
-    main_data = entry.create_group("data")
-    main_data.attrs["NX_class"] = "NXdata"
-    if "eiger_4" in device_manager.devices:
-        main_data.create_soft_link(name="data", target="/entry/instrument/eiger_4/data")
-    elif "eiger9m" in device_manager.devices:
-        main_data.create_soft_link(name="data", target="/entry/instrument/eiger9m/data")
-    elif "pilatus_2" in device_manager.devices:
-        main_data.create_soft_link(name="data", target="/entry/instrument/pilatus_2/data")
+        # ########
+        # # EXAMPLE for external link
+        # ########
+        # # control = entry.create_group("sample")
+        # # control.create_ext_link("data", self.file_references["eiger9m"]["path"], "EG9M/data")
 
-    # /entry/sample
-    control = entry.create_group("sample")
-    control.attrs["NX_class"] = "NXsample"
-    control.create_dataset(name="name", data=get_entry(data, "samplename"))
-    control.create_dataset(name="description", data=data.get("sample_description"))
-    x_translation = control.create_dataset(name="x_translation", data=get_entry(data, "samx"))
-    x_translation.attrs["units"] = "mm"
-    y_translation = control.create_dataset(name="y_translation", data=get_entry(data, "samy"))
-    y_translation.attrs["units"] = "mm"
-    temperature_log = control.create_dataset(name="temperature_log", data=get_entry(data, "temp"))
-    temperature_log.attrs["units"] = "K"
+        # # /entry/sample
+        # control = entry.create_group("sample")
+        # control.attrs["NX_class"] = "NXsample"
+        # control.create_dataset(name="name", data=self.data.get("samplename"))
+        # control.create_dataset(name="description", data=self.data.get("sample_description"))
 
-    # /entry/instrument
-    instrument = entry.create_group("instrument")
-    instrument.attrs["NX_class"] = "NXinstrument"
-    instrument.create_dataset(name="name", data="cSAXS beamline")
+        # # /entry/instrument
+        # instrument = entry.create_group("instrument")
+        # instrument.attrs["NX_class"] = "NXinstrument"
 
-    source = instrument.create_group("source")
-    source.attrs["NX_class"] = "NXsource"
-    source.create_dataset(name="type", data="Synchrotron X-ray Source")
-    source.create_dataset(name="name", data="Swiss Light Source")
-    source.create_dataset(name="probe", data="x-ray")
-    distance = source.create_dataset(
-        name="distance", data=-33800 - np.asarray(get_entry(data, "samz", 0))
-    )
-    distance.attrs["units"] = "mm"
-    sigma_x = source.create_dataset(name="sigma_x", data=0.202)
-    sigma_x.attrs["units"] = "mm"
-    sigma_y = source.create_dataset(name="sigma_y", data=0.018)
-    sigma_y.attrs["units"] = "mm"
-    divergence_x = source.create_dataset(name="divergence_x", data=0.000135)
-    divergence_x.attrs["units"] = "radians"
-    divergence_y = source.create_dataset(name="divergence_y", data=0.000025)
-    divergence_y.attrs["units"] = "radians"
-    current = source.create_dataset(name="current", data=get_entry(data, "curr"))
-    current.attrs["units"] = "mA"
+        # source = instrument.create_group("source")
+        # source.attrs["NX_class"] = "NXsource"
+        # source.create_dataset(name="type", data="Synchrotron X-ray Source")
+        # source.create_dataset(name="name", data="Swiss Light Source")
+        # source.create_dataset(name="probe", data="x-ray")
 
-    insertion_device = instrument.create_group("insertion_device")
-    insertion_device.attrs["NX_class"] = "NXinsertion_device"
-    source.create_dataset(name="type", data="undulator")
-    gap = source.create_dataset(name="gap", data=get_entry(data, "idgap"))
-    gap.attrs["units"] = "mm"
-    k = source.create_dataset(name="k", data=2.46)
-    k.attrs["units"] = "NX_DIMENSIONLESS"
-    length = source.create_dataset(name="length", data=1820)
-    length.attrs["units"] = "mm"
+        # # /entry
+        # entry = self.storage.create_group("entry")
+        # entry.attrs["NX_class"] = "NXentry"
+        # entry.attrs["definition"] = "NXsas"
+        # entry.attrs["start_time"] = self.data.get("start_time")
+        # entry.attrs["end_time"] = self.data.get("end_time")
+        # entry.attrs["version"] = 1.0
 
-    slit_0 = instrument.create_group("slit_0")
-    slit_0.attrs["NX_class"] = "NXslit"
-    source.create_dataset(name="material", data="OFHC Cu")
-    source.create_dataset(name="description", data="Horizontal secondary source slit")
-    x_gap = source.create_dataset(name="x_gap", data=get_entry(data, "sl0wh"))
-    x_gap.attrs["units"] = "mm"
-    x_translation = source.create_dataset(name="x_translation", data=get_entry(data, "sl0ch"))
-    x_translation.attrs["units"] = "mm"
-    distance = source.create_dataset(
-        name="distance", data=-21700 - np.asarray(get_entry(data, "samz", 0))
-    )
-    distance.attrs["units"] = "mm"
+        # # /entry/control
+        # control = entry.create_group("control")
+        # control.attrs["NX_class"] = "NXmonitor"
+        # control.create_dataset(name="mode", data="monitor")
+        # control.create_dataset(name="integral", data=self.get_entry("bpm4i"))
 
-    slit_1 = instrument.create_group("slit_1")
-    slit_1.attrs["NX_class"] = "NXslit"
-    source.create_dataset(name="material", data="OFHC Cu")
-    source.create_dataset(name="description", data="Horizontal secondary source slit")
-    x_gap = source.create_dataset(name="x_gap", data=get_entry(data, "sl1wh"))
-    x_gap.attrs["units"] = "mm"
-    y_gap = source.create_dataset(name="y_gap", data=get_entry(data, "sl1wv"))
-    y_gap.attrs["units"] = "mm"
-    x_translation = source.create_dataset(name="x_translation", data=get_entry(data, "sl1ch"))
-    x_translation.attrs["units"] = "mm"
-    height = source.create_dataset(name="x_translation", data=get_entry(data, "sl1ch"))
-    height.attrs["units"] = "mm"
-    distance = source.create_dataset(
-        name="distance", data=-7800 - np.asarray(get_entry(data, "samz", 0))
-    )
-    distance.attrs["units"] = "mm"
+        # # /entry/data
+        # main_data = entry.create_group("data")
+        # main_data.attrs["NX_class"] = "NXdata"
+        # if "eiger_4" in self.device_manager.devices:
+        #     main_data.create_soft_link(name="data", target="/entry/instrument/eiger_4/data")
+        # elif "eiger9m" in self.device_manager.devices:
+        #     main_data.create_soft_link(name="data", target="/entry/instrument/eiger9m/data")
+        # elif "pilatus_2" in self.device_manager.devices:
+        #     main_data.create_soft_link(name="data", target="/entry/instrument/pilatus_2/data")
 
-    mono = instrument.create_group("monochromator")
-    mono.attrs["NX_class"] = "NXmonochromator"
-    mokev = data.get("mokev", {})
-    if mokev:
-        if isinstance(mokev, list):
-            mokev = mokev[0]
-        wavelength = mono.create_dataset(
-            name="wavelength", data=12.3984193 / (mokev.get("mokev").get("value") + 1e-9)
-        )
-        wavelength.attrs["units"] = "Angstrom"
-        energy = mono.create_dataset(name="energy", data=mokev.get("mokev").get("value"))
-        energy.attrs["units"] = "keV"
-    mono.create_dataset(name="type", data="Double crystal fixed exit monochromator.")
-    distance = mono.create_dataset(
-        name="distance", data=-5220 - np.asarray(get_entry(data, "samz", 0))
-    )
-    distance.attrs["units"] = "mm"
+        # # /entry/sample
+        # control = entry.create_group("sample")
+        # control.attrs["NX_class"] = "NXsample"
+        # control.create_dataset(name="name", data=self.get_entry("samplename"))
+        # control.create_dataset(name="description", data=self.data.get("sample_description"))
+        # x_translation = control.create_dataset(name="x_translation", data=self.get_entry("samx"))
+        # x_translation.attrs["units"] = "mm"
+        # y_translation = control.create_dataset(name="y_translation", data=self.get_entry("samy"))
+        # y_translation.attrs["units"] = "mm"
+        # temperature_log = control.create_dataset(
+        #     name="temperature_log", data=self.get_entry("temp")
+        # )
+        # temperature_log.attrs["units"] = "K"
 
-    crystal_1 = mono.create_group("crystal_1")
-    crystal_1.attrs["NX_class"] = "NXcrystal"
-    crystal_1.create_dataset(name="usage", data="Bragg")
-    crystal_1.create_dataset(name="order_no", data="1")
-    crystal_1.create_dataset(name="reflection", data="[1 1 1]")
-    bragg_angle = crystal_1.create_dataset(name="bragg_angle", data=get_entry(data, "moth1"))
-    bragg_angle.attrs["units"] = "degrees"
+        # # /entry/instrument
+        # instrument = entry.create_group("instrument")
+        # instrument.attrs["NX_class"] = "NXinstrument"
+        # instrument.create_dataset(name="name", data="cSAXS beamline")
 
-    crystal_2 = mono.create_group("crystal_2")
-    crystal_2.attrs["NX_class"] = "NXcrystal"
-    crystal_2.create_dataset(name="usage", data="Bragg")
-    crystal_2.create_dataset(name="order_no", data="2")
-    crystal_2.create_dataset(name="reflection", data="[1 1 1]")
-    bragg_angle = crystal_2.create_dataset(name="bragg_angle", data=get_entry(data, "moth1"))
-    bragg_angle.attrs["units"] = "degrees"
-    bend_x = crystal_2.create_dataset(name="bend_x", data=get_entry(data, "mobd"))
-    bend_x.attrs["units"] = "degrees"
+        # source = instrument.create_group("source")
+        # source.attrs["NX_class"] = "NXsource"
+        # source.create_dataset(name="type", data="Synchrotron X-ray Source")
+        # source.create_dataset(name="name", data="Swiss Light Source")
+        # source.create_dataset(name="probe", data="x-ray")
+        # distance = source.create_dataset(
+        #     name="distance", data=-33800 - np.asarray(self.get_entry("samz", 0))
+        # )
+        # distance.attrs["units"] = "mm"
+        # sigma_x = source.create_dataset(name="sigma_x", data=0.202)
+        # sigma_x.attrs["units"] = "mm"
+        # sigma_y = source.create_dataset(name="sigma_y", data=0.018)
+        # sigma_y.attrs["units"] = "mm"
+        # divergence_x = source.create_dataset(name="divergence_x", data=0.000135)
+        # divergence_x.attrs["units"] = "radians"
+        # divergence_y = source.create_dataset(name="divergence_y", data=0.000025)
+        # divergence_y.attrs["units"] = "radians"
+        # current = source.create_dataset(name="current", data=self.get_entry("curr"))
+        # current.attrs["units"] = "mA"
 
-    xbpm4 = instrument.create_group("XBPM4")
-    xbpm4.attrs["NX_class"] = "NXdetector"
-    xbpm4_sum = xbpm4.create_group("XBPM4_sum")
-    xbpm4_sum_data = xbpm4_sum.create_dataset(name="data", data=get_entry(data, "bpm4s"))
-    xbpm4_sum_data.attrs["units"] = "NX_DIMENSIONLESS"
-    xbpm4_sum.create_dataset(name="description", data="Sum of counts for the four quadrants.")
-    xbpm4_x = xbpm4.create_group("XBPM4_x")
-    xbpm4_x_data = xbpm4_x.create_dataset(name="data", data=get_entry(data, "bpm4x"))
-    xbpm4_x_data.attrs["units"] = "NX_DIMENSIONLESS"
-    xbpm4_x.create_dataset(
-        name="description", data="Normalized difference of counts between left and right quadrants."
-    )
-    xbpm4_y = xbpm4.create_group("XBPM4_y")
-    xbpm4_y_data = xbpm4_y.create_dataset(name="data", data=get_entry(data, "bpm4y"))
-    xbpm4_y_data.attrs["units"] = "NX_DIMENSIONLESS"
-    xbpm4_y.create_dataset(
-        name="description", data="Normalized difference of counts between high and low quadrants."
-    )
-    xbpm4_skew = xbpm4.create_group("XBPM4_skew")
-    xbpm4_skew_data = xbpm4_skew.create_dataset(name="data", data=get_entry(data, "bpm4z"))
-    xbpm4_skew_data.attrs["units"] = "NX_DIMENSIONLESS"
-    xbpm4_skew.create_dataset(
-        name="description", data="Normalized difference of counts between diagonal quadrants."
-    )
+        # insertion_device = instrument.create_group("insertion_device")
+        # insertion_device.attrs["NX_class"] = "NXinsertion_device"
+        # source.create_dataset(name="type", data="undulator")
+        # gap = source.create_dataset(name="gap", data=self.get_entry("idgap"))
+        # gap.attrs["units"] = "mm"
+        # k = source.create_dataset(name="k", data=2.46)
+        # k.attrs["units"] = "NX_DIMENSIONLESS"
+        # length = source.create_dataset(name="length", data=1820)
+        # length.attrs["units"] = "mm"
 
-    mirror = instrument.create_group("mirror")
-    mirror.attrs["NX_class"] = "NXmirror"
-    mirror.create_dataset(name="type", data="single")
-    mirror.create_dataset(
-        name="description",
-        data="Grazing incidence mirror to reject high-harmonic wavelengths from the monochromator. There are three coating options available that are used depending on the X-ray energy, no coating (SiO2), rhodium (Rh) or platinum (Pt).",
-    )
-    incident_angle = mirror.create_dataset(name="incident_angle", data=get_entry(data, "mith"))
-    incident_angle.attrs["units"] = "degrees"
-    substrate_material = mirror.create_dataset(name="substrate_material", data="SiO2")
-    substrate_material.attrs["units"] = "NX_CHAR"
-    coating_material = mirror.create_dataset(name="coating_material", data="SiO2")
-    coating_material.attrs["units"] = "NX_CHAR"
-    bend_y = mirror.create_dataset(name="bend_y", data="mibd")
-    bend_y.attrs["units"] = "NX_DIMENSIONLESS"
-    distance = mirror.create_dataset(
-        name="distance", data=-4370 - np.asarray(get_entry(data, "samz", 0))
-    )
-    distance.attrs["units"] = "mm"
+        # slit_0 = instrument.create_group("slit_0")
+        # slit_0.attrs["NX_class"] = "NXslit"
+        # source.create_dataset(name="material", data="OFHC Cu")
+        # source.create_dataset(name="description", data="Horizontal secondary source slit")
+        # x_gap = source.create_dataset(name="x_gap", data=self.get_entry("sl0wh"))
+        # x_gap.attrs["units"] = "mm"
+        # x_translation = source.create_dataset(name="x_translation", data=self.get_entry("sl0ch"))
+        # x_translation.attrs["units"] = "mm"
+        # distance = source.create_dataset(
+        #     name="distance", data=-21700 - np.asarray(self.get_entry("samz", 0))
+        # )
+        # distance.attrs["units"] = "mm"
 
-    xbpm5 = instrument.create_group("XBPM5")
-    xbpm5.attrs["NX_class"] = "NXdetector"
-    xbpm5_sum = xbpm5.create_group("XBPM5_sum")
-    xbpm5_sum_data = xbpm5_sum.create_dataset(name="data", data=get_entry(data, "bpm5s"))
-    xbpm5_sum_data.attrs["units"] = "NX_DIMENSIONLESS"
-    xbpm5_sum.create_dataset(name="description", data="Sum of counts for the four quadrants.")
-    xbpm5_x = xbpm5.create_group("XBPM5_x")
-    xbpm5_x_data = xbpm5_x.create_dataset(name="data", data=get_entry(data, "bpm5x"))
-    xbpm5_x_data.attrs["units"] = "NX_DIMENSIONLESS"
-    xbpm5_x.create_dataset(
-        name="description", data="Normalized difference of counts between left and right quadrants."
-    )
-    xbpm5_y = xbpm5.create_group("XBPM5_y")
-    xbpm5_y_data = xbpm5_y.create_dataset(name="data", data=get_entry(data, "bpm5y"))
-    xbpm5_y_data.attrs["units"] = "NX_DIMENSIONLESS"
-    xbpm5_y.create_dataset(
-        name="description", data="Normalized difference of counts between high and low quadrants."
-    )
-    xbpm5_skew = xbpm5.create_group("XBPM5_skew")
-    xbpm5_skew_data = xbpm5_skew.create_dataset(name="data", data=get_entry(data, "bpm5z"))
-    xbpm5_skew_data.attrs["units"] = "NX_DIMENSIONLESS"
-    xbpm5_skew.create_dataset(
-        name="description", data="Normalized difference of counts between diagonal quadrants."
-    )
+        # slit_1 = instrument.create_group("slit_1")
+        # slit_1.attrs["NX_class"] = "NXslit"
+        # source.create_dataset(name="material", data="OFHC Cu")
+        # source.create_dataset(name="description", data="Horizontal secondary source slit")
+        # x_gap = source.create_dataset(name="x_gap", data=self.get_entry("sl1wh"))
+        # x_gap.attrs["units"] = "mm"
+        # y_gap = source.create_dataset(name="y_gap", data=self.get_entry("sl1wv"))
+        # y_gap.attrs["units"] = "mm"
+        # x_translation = source.create_dataset(name="x_translation", data=self.get_entry("sl1ch"))
+        # x_translation.attrs["units"] = "mm"
+        # height = source.create_dataset(name="x_translation", data=self.get_entry("sl1ch"))
+        # height.attrs["units"] = "mm"
+        # distance = source.create_dataset(
+        #     name="distance", data=-7800 - np.asarray(self.get_entry("samz", 0))
+        # )
+        # distance.attrs["units"] = "mm"
 
-    slit_2 = instrument.create_group("slit_2")
-    slit_2.attrs["NX_class"] = "NXslit"
-    source.create_dataset(name="material", data="Ag")
-    source.create_dataset(name="description", data="Slit 2, optics hutch")
-    x_gap = source.create_dataset(name="x_gap", data=get_entry(data, "sl2wh"))
-    x_gap.attrs["units"] = "mm"
-    y_gap = source.create_dataset(name="y_gap", data=get_entry(data, "sl2wv"))
-    y_gap.attrs["units"] = "mm"
-    x_translation = source.create_dataset(name="x_translation", data=get_entry(data, "sl2ch"))
-    x_translation.attrs["units"] = "mm"
-    height = source.create_dataset(name="x_translation", data=get_entry(data, "sl2cv"))
-    height.attrs["units"] = "mm"
-    distance = source.create_dataset(
-        name="distance", data=-3140 - np.asarray(get_entry(data, "samz", 0))
-    )
-    distance.attrs["units"] = "mm"
+        # mono = instrument.create_group("monochromator")
+        # mono.attrs["NX_class"] = "NXmonochromator"
+        # mokev = self.data.get("mokev", {})
+        # if mokev:
+        #     if isinstance(mokev, list):
+        #         mokev = mokev[0]
+        #     wavelength = mono.create_dataset(
+        #         name="wavelength", data=12.3984193 / (mokev.get("mokev").get("value") + 1e-9)
+        #     )
+        #     wavelength.attrs["units"] = "Angstrom"
+        #     energy = mono.create_dataset(name="energy", data=mokev.get("mokev").get("value"))
+        #     energy.attrs["units"] = "keV"
+        # mono.create_dataset(name="type", data="Double crystal fixed exit monochromator.")
+        # distance = mono.create_dataset(
+        #     name="distance", data=-5220 - np.asarray(self.get_entry("samz", 0))
+        # )
+        # distance.attrs["units"] = "mm"
 
-    slit_3 = instrument.create_group("slit_3")
-    slit_3.attrs["NX_class"] = "NXslit"
-    source.create_dataset(name="material", data="Si")
-    source.create_dataset(name="description", data="Slit 3, experimental hutch, exposure box")
-    x_gap = source.create_dataset(name="x_gap", data=get_entry(data, "sl3wh"))
-    x_gap.attrs["units"] = "mm"
-    y_gap = source.create_dataset(name="y_gap", data=get_entry(data, "sl3wv"))
-    y_gap.attrs["units"] = "mm"
-    x_translation = source.create_dataset(name="x_translation", data=get_entry(data, "sl3ch"))
-    x_translation.attrs["units"] = "mm"
-    height = source.create_dataset(name="x_translation", data=get_entry(data, "sl3cv"))
-    height.attrs["units"] = "mm"
-    # distance = source.create_dataset(name="distance", data=-3140 - get_entry(data, "samz", 0))
-    # distance.attrs["units"] = "mm"
+        # crystal_1 = mono.create_group("crystal_1")
+        # crystal_1.attrs["NX_class"] = "NXcrystal"
+        # crystal_1.create_dataset(name="usage", data="Bragg")
+        # crystal_1.create_dataset(name="order_no", data="1")
+        # crystal_1.create_dataset(name="reflection", data="[1 1 1]")
+        # bragg_angle = crystal_1.create_dataset(name="bragg_angle", data=self.get_entry("moth1"))
+        # bragg_angle.attrs["units"] = "degrees"
 
-    filter_set = instrument.create_group("filter_set")
-    filter_set.attrs["NX_class"] = "NXattenuator"
-    filter_set.create_dataset(name="material", data="Si")
-    filter_set.create_dataset(
-        name="description",
-        data="The filter set consists of 4 linear stages, each with five filter positions. Additionally, each one allows for an out position to allow 'no filtering'.",
-    )
-    attenuator_transmission = filter_set.create_dataset(
-        name="attenuator_transmission", data=10 ** get_entry(data, "ftrans", 0)
-    )
-    attenuator_transmission.attrs["units"] = "NX_DIMENSIONLESS"
+        # crystal_2 = mono.create_group("crystal_2")
+        # crystal_2.attrs["NX_class"] = "NXcrystal"
+        # crystal_2.create_dataset(name="usage", data="Bragg")
+        # crystal_2.create_dataset(name="order_no", data="2")
+        # crystal_2.create_dataset(name="reflection", data="[1 1 1]")
+        # bragg_angle = crystal_2.create_dataset(name="bragg_angle", data=self.get_entry("moth1"))
+        # bragg_angle.attrs["units"] = "degrees"
+        # bend_x = crystal_2.create_dataset(name="bend_x", data=self.get_entry("mobd"))
+        # bend_x.attrs["units"] = "degrees"
 
-    slit_4 = instrument.create_group("slit_4")
-    slit_4.attrs["NX_class"] = "NXslit"
-    source.create_dataset(name="material", data="Si")
-    source.create_dataset(name="description", data="Slit 4, experimental hutch, exposure box")
-    x_gap = source.create_dataset(name="x_gap", data=get_entry(data, "sl4wh"))
-    x_gap.attrs["units"] = "mm"
-    y_gap = source.create_dataset(name="y_gap", data=get_entry(data, "sl4wv"))
-    y_gap.attrs["units"] = "mm"
-    x_translation = source.create_dataset(name="x_translation", data=get_entry(data, "sl4ch"))
-    x_translation.attrs["units"] = "mm"
-    height = source.create_dataset(name="x_translation", data=get_entry(data, "sl4cv"))
-    height.attrs["units"] = "mm"
-    # distance = source.create_dataset(name="distance", data=-3140 - get_entry(data, "samz", 0))
-    # distance.attrs["units"] = "mm"
+        # xbpm4 = instrument.create_group("XBPM4")
+        # xbpm4.attrs["NX_class"] = "NXdetector"
+        # xbpm4_sum = xbpm4.create_group("XBPM4_sum")
+        # xbpm4_sum_data = xbpm4_sum.create_dataset(name="data", data=self.get_entry("bpm4s"))
+        # xbpm4_sum_data.attrs["units"] = "NX_DIMENSIONLESS"
+        # xbpm4_sum.create_dataset(name="description", data="Sum of counts for the four quadrants.")
+        # xbpm4_x = xbpm4.create_group("XBPM4_x")
+        # xbpm4_x_data = xbpm4_x.create_dataset(name="data", data=self.get_entry("bpm4x"))
+        # xbpm4_x_data.attrs["units"] = "NX_DIMENSIONLESS"
+        # xbpm4_x.create_dataset(
+        #     name="description",
+        #     data="Normalized difference of counts between left and right quadrants.",
+        # )
+        # xbpm4_y = xbpm4.create_group("XBPM4_y")
+        # xbpm4_y_data = xbpm4_y.create_dataset(name="data", data=self.get_entry("bpm4y"))
+        # xbpm4_y_data.attrs["units"] = "NX_DIMENSIONLESS"
+        # xbpm4_y.create_dataset(
+        #     name="description",
+        #     data="Normalized difference of counts between high and low quadrants.",
+        # )
+        # xbpm4_skew = xbpm4.create_group("XBPM4_skew")
+        # xbpm4_skew_data = xbpm4_skew.create_dataset(name="data", data=self.get_entry("bpm4z"))
+        # xbpm4_skew_data.attrs["units"] = "NX_DIMENSIONLESS"
+        # xbpm4_skew.create_dataset(
+        #     name="description", data="Normalized difference of counts between diagonal quadrants."
+        # )
 
-    slit_5 = instrument.create_group("slit_5")
-    slit_5.attrs["NX_class"] = "NXslit"
-    source.create_dataset(name="material", data="Si")
-    source.create_dataset(name="description", data="Slit 5, experimental hutch, exposure box")
-    x_gap = source.create_dataset(name="x_gap", data=get_entry(data, "sl5wh"))
-    x_gap.attrs["units"] = "mm"
-    y_gap = source.create_dataset(name="y_gap", data=get_entry(data, "sl5wv"))
-    y_gap.attrs["units"] = "mm"
-    x_translation = source.create_dataset(name="x_translation", data=get_entry(data, "sl5ch"))
-    x_translation.attrs["units"] = "mm"
-    height = source.create_dataset(name="x_translation", data=get_entry(data, "sl5cv"))
-    height.attrs["units"] = "mm"
-    # distance = source.create_dataset(name="distance", data=-3140 - get_entry(data, "samz", 0))
-    # distance.attrs["units"] = "mm"
+        # mirror = instrument.create_group("mirror")
+        # mirror.attrs["NX_class"] = "NXmirror"
+        # mirror.create_dataset(name="type", data="single")
+        # mirror.create_dataset(
+        #     name="description",
+        #     data="Grazing incidence mirror to reject high-harmonic wavelengths from the monochromator. There are three coating options available that are used depending on the X-ray energy, no coating (SiO2), rhodium (Rh) or platinum (Pt).",
+        # )
+        # incident_angle = mirror.create_dataset(name="incident_angle", data=self.get_entry("mith"))
+        # incident_angle.attrs["units"] = "degrees"
+        # substrate_material = mirror.create_dataset(name="substrate_material", data="SiO2")
+        # substrate_material.attrs["units"] = "NX_CHAR"
+        # coating_material = mirror.create_dataset(name="coating_material", data="SiO2")
+        # coating_material.attrs["units"] = "NX_CHAR"
+        # bend_y = mirror.create_dataset(name="bend_y", data="mibd")
+        # bend_y.attrs["units"] = "NX_DIMENSIONLESS"
+        # distance = mirror.create_dataset(
+        #     name="distance", data=-4370 - np.asarray(self.get_entry("samz", 0))
+        # )
+        # distance.attrs["units"] = "mm"
 
-    beam_stop_1 = instrument.create_group("beam_stop_1")
-    beam_stop_1.attrs["NX_class"] = "NX_beamstop"
-    beam_stop_1.create_dataset(name="description", data="circular")
-    bms1_size = beam_stop_1.create_dataset(name="size", data=3)
-    bms1_size.attrs["units"] = "mm"
-    bms1_x = beam_stop_1.create_dataset(name="size", data=get_entry(data, "bs1x"))
-    bms1_x.attrs["units"] = "mm"
-    bms1_y = beam_stop_1.create_dataset(name="size", data=get_entry(data, "bs1y"))
-    bms1_y.attrs["units"] = "mm"
+        # xbpm5 = instrument.create_group("XBPM5")
+        # xbpm5.attrs["NX_class"] = "NXdetector"
+        # xbpm5_sum = xbpm5.create_group("XBPM5_sum")
+        # xbpm5_sum_data = xbpm5_sum.create_dataset(name="data", data=self.get_entry("bpm5s"))
+        # xbpm5_sum_data.attrs["units"] = "NX_DIMENSIONLESS"
+        # xbpm5_sum.create_dataset(name="description", data="Sum of counts for the four quadrants.")
+        # xbpm5_x = xbpm5.create_group("XBPM5_x")
+        # xbpm5_x_data = xbpm5_x.create_dataset(name="data", data=self.get_entry("bpm5x"))
+        # xbpm5_x_data.attrs["units"] = "NX_DIMENSIONLESS"
+        # xbpm5_x.create_dataset(
+        #     name="description",
+        #     data="Normalized difference of counts between left and right quadrants.",
+        # )
+        # xbpm5_y = xbpm5.create_group("XBPM5_y")
+        # xbpm5_y_data = xbpm5_y.create_dataset(name="data", data=self.get_entry("bpm5y"))
+        # xbpm5_y_data.attrs["units"] = "NX_DIMENSIONLESS"
+        # xbpm5_y.create_dataset(
+        #     name="description",
+        #     data="Normalized difference of counts between high and low quadrants.",
+        # )
+        # xbpm5_skew = xbpm5.create_group("XBPM5_skew")
+        # xbpm5_skew_data = xbpm5_skew.create_dataset(name="data", data=self.get_entry("bpm5z"))
+        # xbpm5_skew_data.attrs["units"] = "NX_DIMENSIONLESS"
+        # xbpm5_skew.create_dataset(
+        #     name="description", data="Normalized difference of counts between diagonal quadrants."
+        # )
 
-    beam_stop_2 = instrument.create_group("beam_stop_2")
-    beam_stop_2.attrs["NX_class"] = "NX_beamstop"
-    beam_stop_2.create_dataset(name="description", data="rectangular")
-    bms2_size_x = beam_stop_2.create_dataset(name="size_x", data=5)
-    bms2_size_x.attrs["units"] = "mm"
-    bms2_size_y = beam_stop_2.create_dataset(name="size_y", data=2.25)
-    bms2_size_y.attrs["units"] = "mm"
-    bms2_x = beam_stop_2.create_dataset(name="size", data=get_entry(data, "bs2x"))
-    bms2_x.attrs["units"] = "mm"
-    bms2_y = beam_stop_2.create_dataset(name="size", data=get_entry(data, "bs2y"))
-    bms2_y.attrs["units"] = "mm"
-    bms2_data = beam_stop_2.create_dataset(name="data", data=get_entry(data, "diode"))
-    bms2_data.attrs["units"] = "NX_DIMENSIONLESS"
+        # slit_2 = instrument.create_group("slit_2")
+        # slit_2.attrs["NX_class"] = "NXslit"
+        # source.create_dataset(name="material", data="Ag")
+        # source.create_dataset(name="description", data="Slit 2, optics hutch")
+        # x_gap = source.create_dataset(name="x_gap", data=self.get_entry("sl2wh"))
+        # x_gap.attrs["units"] = "mm"
+        # y_gap = source.create_dataset(name="y_gap", data=self.get_entry("sl2wv"))
+        # y_gap.attrs["units"] = "mm"
+        # x_translation = source.create_dataset(name="x_translation", data=self.get_entry("sl2ch"))
+        # x_translation.attrs["units"] = "mm"
+        # height = source.create_dataset(name="x_translation", data=self.get_entry("sl2cv"))
+        # height.attrs["units"] = "mm"
+        # distance = source.create_dataset(
+        #     name="distance", data=-3140 - np.asarray(self.get_entry("samz", 0))
+        # )
+        # distance.attrs["units"] = "mm"
 
-    if "eiger1p5m" in device_manager.devices and device_manager.devices.eiger1p5m.enabled:
-        eiger_4 = instrument.create_group("eiger_4")
-        eiger_4.attrs["NX_class"] = "NXdetector"
-        x_pixel_size = eiger_4.create_dataset(name="x_pixel_size", data=75)
-        x_pixel_size.attrs["units"] = "um"
-        y_pixel_size = eiger_4.create_dataset(name="y_pixel_size", data=75)
-        y_pixel_size.attrs["units"] = "um"
-        polar_angle = eiger_4.create_dataset(name="polar_angle", data=0)
-        polar_angle.attrs["units"] = "degrees"
-        azimuthal_angle = eiger_4.create_dataset(name="azimuthal_angle", data=0)
-        azimuthal_angle.attrs["units"] = "degrees"
-        rotation_angle = eiger_4.create_dataset(name="rotation_angle", data=0)
-        rotation_angle.attrs["units"] = "degrees"
-        description = eiger_4.create_dataset(
-            name="description", data="Single-photon counting detector, 320 micron-thick Si chip"
-        )
-        orientation = eiger_4.create_group("orientation")
-        orientation.attrs["description"] = (
-            "Orientation defines the number of counterclockwise rotations by 90 deg followed by a transposition to reach the 'cameraman orientation', that is looking towards the beam."
-        )
-        orientation.create_dataset(name="transpose", data=1)
-        orientation.create_dataset(name="rot90", data=3)
+        # slit_3 = instrument.create_group("slit_3")
+        # slit_3.attrs["NX_class"] = "NXslit"
+        # source.create_dataset(name="material", data="Si")
+        # source.create_dataset(name="description", data="Slit 3, experimental hutch, exposure box")
+        # x_gap = source.create_dataset(name="x_gap", data=self.get_entry("sl3wh"))
+        # x_gap.attrs["units"] = "mm"
+        # y_gap = source.create_dataset(name="y_gap", data=self.get_entry("sl3wv"))
+        # y_gap.attrs["units"] = "mm"
+        # x_translation = source.create_dataset(name="x_translation", data=self.get_entry("sl3ch"))
+        # x_translation.attrs["units"] = "mm"
+        # height = source.create_dataset(name="x_translation", data=self.get_entry("sl3cv"))
+        # height.attrs["units"] = "mm"
+        # # distance = source.create_dataset(name="distance", data=-3140 - self.get_entry("samz", 0))
+        # # distance.attrs["units"] = "mm"
 
-    if (
-        "eiger9m" in device_manager.devices
-        and device_manager.devices.eiger9m.enabled
-        and "eiger9m" in file_references
-    ):
-        eiger9m = instrument.create_group("eiger9m")
-        eiger9m.attrs["NX_class"] = "NXdetector"
-        x_pixel_size = eiger9m.create_dataset(name="x_pixel_size", data=75)
-        x_pixel_size.attrs["units"] = "um"
-        y_pixel_size = eiger9m.create_dataset(name="y_pixel_size", data=75)
-        y_pixel_size.attrs["units"] = "um"
-        polar_angle = eiger9m.create_dataset(name="polar_angle", data=0)
-        polar_angle.attrs["units"] = "degrees"
-        azimuthal_angle = eiger9m.create_dataset(name="azimuthal_angle", data=0)
-        azimuthal_angle.attrs["units"] = "degrees"
-        rotation_angle = eiger9m.create_dataset(name="rotation_angle", data=0)
-        rotation_angle.attrs["units"] = "degrees"
-        description = eiger9m.create_dataset(
-            name="description", data="Eiger9M detector, in-house developed, Paul Scherrer Institute"
-        )
-        orientation = eiger9m.create_group("orientation")
-        orientation.attrs["description"] = (
-            "Orientation defines the number of counterclockwise rotations by 90 deg followed by a transposition to reach the 'cameraman orientation', that is looking towards the beam."
-        )
-        orientation.create_dataset(name="transpose", data=1)
-        orientation.create_dataset(name="rot90", data=3)
-        data = eiger9m.create_ext_link("data", file_references["eiger9m"]["path"], "EG9M/data")
-        status = eiger9m.create_ext_link(
-            "status", file_references["eiger9m"]["path"], "EG9M/status"
-        )
+        # filter_set = instrument.create_group("filter_set")
+        # filter_set.attrs["NX_class"] = "NXattenuator"
+        # filter_set.create_dataset(name="material", data="Si")
+        # filter_set.create_dataset(
+        #     name="description",
+        #     data="The filter set consists of 4 linear stages, each with five filter positions. Additionally, each one allows for an out position to allow 'no filtering'.",
+        # )
+        # attenuator_transmission = filter_set.create_dataset(
+        #     name="attenuator_transmission", data=10 ** self.get_entry("ftrans", 0)
+        # )
+        # attenuator_transmission.attrs["units"] = "NX_DIMENSIONLESS"
 
-    if (
-        "pilatus_2" in device_manager.devices
-        and device_manager.devices.pilatus_2.enabled
-        and "pilatus_2" in file_references
-    ):
-        pilatus_2 = instrument.create_group("pilatus_2")
-        pilatus_2.attrs["NX_class"] = "NXdetector"
-        x_pixel_size = pilatus_2.create_dataset(name="x_pixel_size", data=172)
-        x_pixel_size.attrs["units"] = "um"
-        y_pixel_size = pilatus_2.create_dataset(name="y_pixel_size", data=172)
-        y_pixel_size.attrs["units"] = "um"
-        polar_angle = pilatus_2.create_dataset(name="polar_angle", data=0)
-        polar_angle.attrs["units"] = "degrees"
-        azimuthal_angle = pilatus_2.create_dataset(name="azimuthal_angle", data=0)
-        azimuthal_angle.attrs["units"] = "degrees"
-        rotation_angle = pilatus_2.create_dataset(name="rotation_angle", data=0)
-        rotation_angle.attrs["units"] = "degrees"
-        description = pilatus_2.create_dataset(
-            name="description", data="Pilatus 300K detector, Dectris, Switzerland"
-        )
-        orientation = pilatus_2.create_group("orientation")
-        orientation.attrs["description"] = (
-            "Orientation defines the number of counterclockwise rotations by 90 deg followed by a transposition to reach the 'cameraman orientation', that is looking towards the beam."
-        )
-        orientation.create_dataset(name="transpose", data=1)
-        orientation.create_dataset(name="rot90", data=2)
-        data = pilatus_2.create_ext_link(
-            "data", file_references["pilatus_2"]["path"], "entry/instrument/pilatus_2/data"
-        )
+        # slit_4 = instrument.create_group("slit_4")
+        # slit_4.attrs["NX_class"] = "NXslit"
+        # source.create_dataset(name="material", data="Si")
+        # source.create_dataset(name="description", data="Slit 4, experimental hutch, exposure box")
+        # x_gap = source.create_dataset(name="x_gap", data=self.get_entry("sl4wh"))
+        # x_gap.attrs["units"] = "mm"
+        # y_gap = source.create_dataset(name="y_gap", data=self.get_entry("sl4wv"))
+        # y_gap.attrs["units"] = "mm"
+        # x_translation = source.create_dataset(name="x_translation", data=self.get_entry("sl4ch"))
+        # x_translation.attrs["units"] = "mm"
+        # height = source.create_dataset(name="x_translation", data=self.get_entry("sl4cv"))
+        # height.attrs["units"] = "mm"
+        # # distance = source.create_dataset(name="distance", data=-3140 - self.get_entry("samz", 0))
+        # # distance.attrs["units"] = "mm"
 
-    if (
-        "falcon" in device_manager.devices
-        and device_manager.devices.falcon.enabled
-        and "falcon" in file_references
-    ):
-        falcon = instrument.create_ext_link(
-            "falcon", file_references["falcon"]["path"], "entry/instrument/FalconX1"
-        )
+        # slit_5 = instrument.create_group("slit_5")
+        # slit_5.attrs["NX_class"] = "NXslit"
+        # source.create_dataset(name="material", data="Si")
+        # source.create_dataset(name="description", data="Slit 5, experimental hutch, exposure box")
+        # x_gap = source.create_dataset(name="x_gap", data=self.get_entry("sl5wh"))
+        # x_gap.attrs["units"] = "mm"
+        # y_gap = source.create_dataset(name="y_gap", data=self.get_entry("sl5wv"))
+        # y_gap.attrs["units"] = "mm"
+        # x_translation = source.create_dataset(name="x_translation", data=self.get_entry("sl5ch"))
+        # x_translation.attrs["units"] = "mm"
+        # height = source.create_dataset(name="x_translation", data=self.get_entry("sl5cv"))
+        # height.attrs["units"] = "mm"
+        # # distance = source.create_dataset(name="distance", data=-3140 - self.get_entry("samz", 0))
+        # # distance.attrs["units"] = "mm"
 
-    return storage
+        # beam_stop_1 = instrument.create_group("beam_stop_1")
+        # beam_stop_1.attrs["NX_class"] = "NX_beamstop"
+        # beam_stop_1.create_dataset(name="description", data="circular")
+        # bms1_size = beam_stop_1.create_dataset(name="size", data=3)
+        # bms1_size.attrs["units"] = "mm"
+        # bms1_x = beam_stop_1.create_dataset(name="size", data=self.get_entry("bs1x"))
+        # bms1_x.attrs["units"] = "mm"
+        # bms1_y = beam_stop_1.create_dataset(name="size", data=self.get_entry("bs1y"))
+        # bms1_y.attrs["units"] = "mm"
+
+        # beam_stop_2 = instrument.create_group("beam_stop_2")
+        # beam_stop_2.attrs["NX_class"] = "NX_beamstop"
+        # beam_stop_2.create_dataset(name="description", data="rectangular")
+        # bms2_size_x = beam_stop_2.create_dataset(name="size_x", data=5)
+        # bms2_size_x.attrs["units"] = "mm"
+        # bms2_size_y = beam_stop_2.create_dataset(name="size_y", data=2.25)
+        # bms2_size_y.attrs["units"] = "mm"
+        # bms2_x = beam_stop_2.create_dataset(name="size", data=self.get_entry("bs2x"))
+        # bms2_x.attrs["units"] = "mm"
+        # bms2_y = beam_stop_2.create_dataset(name="size", data=self.get_entry("bs2y"))
+        # bms2_y.attrs["units"] = "mm"
+        # bms2_data = beam_stop_2.create_dataset(name="data", data=self.get_entry("diode"))
+        # bms2_data.attrs["units"] = "NX_DIMENSIONLESS"
+
+        # if (
+        #     "eiger1p5m" in self.device_manager.devices
+        #     and self.device_manager.devices.eiger1p5m.enabled
+        # ):
+        #     eiger_4 = instrument.create_group("eiger_4")
+        #     eiger_4.attrs["NX_class"] = "NXdetector"
+        #     x_pixel_size = eiger_4.create_dataset(name="x_pixel_size", data=75)
+        #     x_pixel_size.attrs["units"] = "um"
+        #     y_pixel_size = eiger_4.create_dataset(name="y_pixel_size", data=75)
+        #     y_pixel_size.attrs["units"] = "um"
+        #     polar_angle = eiger_4.create_dataset(name="polar_angle", data=0)
+        #     polar_angle.attrs["units"] = "degrees"
+        #     azimuthal_angle = eiger_4.create_dataset(name="azimuthal_angle", data=0)
+        #     azimuthal_angle.attrs["units"] = "degrees"
+        #     rotation_angle = eiger_4.create_dataset(name="rotation_angle", data=0)
+        #     rotation_angle.attrs["units"] = "degrees"
+        #     description = eiger_4.create_dataset(
+        #         name="description", data="Single-photon counting detector, 320 micron-thick Si chip"
+        #     )
+        #     orientation = eiger_4.create_group("orientation")
+        #     orientation.attrs["description"] = (
+        #         "Orientation defines the number of counterclockwise rotations by 90 deg followed by a transposition to reach the 'cameraman orientation', that is looking towards the beam."
+        #     )
+        #     orientation.create_dataset(name="transpose", data=1)
+        #     orientation.create_dataset(name="rot90", data=3)
+
+        # if (
+        #     "eiger9m" in self.device_manager.devices
+        #     and self.device_manager.devices.eiger9m.enabled
+        #     and "eiger9m" in self.file_references
+        # ):
+        #     eiger9m = instrument.create_group("eiger9m")
+        #     eiger9m.attrs["NX_class"] = "NXdetector"
+        #     x_pixel_size = eiger9m.create_dataset(name="x_pixel_size", data=75)
+        #     x_pixel_size.attrs["units"] = "um"
+        #     y_pixel_size = eiger9m.create_dataset(name="y_pixel_size", data=75)
+        #     y_pixel_size.attrs["units"] = "um"
+        #     polar_angle = eiger9m.create_dataset(name="polar_angle", data=0)
+        #     polar_angle.attrs["units"] = "degrees"
+        #     azimuthal_angle = eiger9m.create_dataset(name="azimuthal_angle", data=0)
+        #     azimuthal_angle.attrs["units"] = "degrees"
+        #     rotation_angle = eiger9m.create_dataset(name="rotation_angle", data=0)
+        #     rotation_angle.attrs["units"] = "degrees"
+        #     description = eiger9m.create_dataset(
+        #         name="description",
+        #         data="Eiger9M detector, in-house developed, Paul Scherrer Institute",
+        #     )
+        #     orientation = eiger9m.create_group("orientation")
+        #     orientation.attrs["description"] = (
+        #         "Orientation defines the number of counterclockwise rotations by 90 deg followed by a transposition to reach the 'cameraman orientation', that is looking towards the beam."
+        #     )
+        #     orientation.create_dataset(name="transpose", data=1)
+        #     orientation.create_dataset(name="rot90", data=3)
+        #     data = eiger9m.create_ext_link(
+        #         "data", self.file_references["eiger9m"]["path"], "EG9M/data"
+        #     )
+        #     status = eiger9m.create_ext_link(
+        #         "status", self.file_references["eiger9m"]["path"], "EG9M/status"
+        #     )
+
+        # if (
+        #     "pilatus_2" in self.device_manager.devices
+        #     and self.device_manager.devices.pilatus_2.enabled
+        #     and "pilatus_2" in self.file_references
+        # ):
+        #     pilatus_2 = instrument.create_group("pilatus_2")
+        #     pilatus_2.attrs["NX_class"] = "NXdetector"
+        #     x_pixel_size = pilatus_2.create_dataset(name="x_pixel_size", data=172)
+        #     x_pixel_size.attrs["units"] = "um"
+        #     y_pixel_size = pilatus_2.create_dataset(name="y_pixel_size", data=172)
+        #     y_pixel_size.attrs["units"] = "um"
+        #     polar_angle = pilatus_2.create_dataset(name="polar_angle", data=0)
+        #     polar_angle.attrs["units"] = "degrees"
+        #     azimuthal_angle = pilatus_2.create_dataset(name="azimuthal_angle", data=0)
+        #     azimuthal_angle.attrs["units"] = "degrees"
+        #     rotation_angle = pilatus_2.create_dataset(name="rotation_angle", data=0)
+        #     rotation_angle.attrs["units"] = "degrees"
+        #     description = pilatus_2.create_dataset(
+        #         name="description", data="Pilatus 300K detector, Dectris, Switzerland"
+        #     )
+        #     orientation = pilatus_2.create_group("orientation")
+        #     orientation.attrs["description"] = (
+        #         "Orientation defines the number of counterclockwise rotations by 90 deg followed by a transposition to reach the 'cameraman orientation', that is looking towards the beam."
+        #     )
+        #     orientation.create_dataset(name="transpose", data=1)
+        #     orientation.create_dataset(name="rot90", data=2)
+        #     data = pilatus_2.create_ext_link(
+        #         "data", self.file_references["pilatus_2"]["path"], "entry/instrument/pilatus_2/data"
+        #     )
+
+        # if (
+        #     "falcon" in self.device_manager.devices
+        #     and self.device_manager.devices.falcon.enabled
+        #     and "falcon" in self.file_references
+        # ):
+        #     falcon = instrument.create_ext_link(
+        #         "falcon", self.file_references["falcon"]["path"], "entry/instrument/FalconX1"
+        #     )

csaxs_bec/scans/flomni_fermat_scan.py

@@ -105,11 +105,11 @@ class FlomniFermatScan(AsyncFlyScanBase):
 
     def scan_report_instructions(self):
         """Scan report instructions for the progress bar"""
-        yield from self.stubs.scan_report_instruction({"device_progress": ["rt_flyer"]})
+        yield from self.stubs.scan_report_instruction({"device_progress": ["rt_positions"]})
 
     @property
     def monitor_sync(self) -> str:
-        return "rt_flyer"
+        return "rt_positions"
 
     def initialize(self):
         self.scan_motors = []
@@ -294,10 +294,10 @@ class FlomniFermatScan(AsyncFlyScanBase):
 
     def scan_core(self):
         # send off the flyer
-        yield from self.stubs.kickoff(device="rt_flyer")
+        yield from self.stubs.kickoff(device="rt_positions")
 
         # start the readout loop of the flyer
-        status = yield from self.stubs.complete(device="rt_flyer", wait=False)
+        status = yield from self.stubs.complete(device="rt_positions", wait=False)
 
         # read the monitors until the flyer is done
         while not status.done: