Changes for page The FLASH HDF5 structure

Last modified by sndueste on 2025/02/06 10:55

From 9.1 to 10.1

From version 1.1

edited by sendels
on 2019/05/15 12:57

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To version 9.1

edited by sndueste
on 2019/09/17 16:31

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Title

@@ -1,1 +1,1 @@
--Information about the FLASH HDF5 structure
++The FLASH HDF5 structure

Author

@@ -1,1 +1,1 @@
--XWiki.sendels
++XWiki.sndueste

Content

@@ -2,22 +2,22 @@
  \\
--* General information about HDF5
--* FLASH HDF5 structure
--* Most popular FLASH parameters and their names in HDF5
--** FLASH1
--*** Beamline info (FLASH1)
--*** Photon Diagnostics: SASE / Spectrometer (FLASH1)
--*** Electron Beam properties (FLASH1)
--*** Timing information, rep rate etc.(FLASH1)
--*** Pump Probe Laser (FLASH1)
--*** User Data (FLASH1)
--** FLASH2
--** HDF5 structure revisions
--* Example code showing how to access HDF5 files
--** Samples how to read HDF5 with Matlab
--** How to read HDF5 with Python via FLASHH5
--* HDF5 and DOOCS
++* [[General information about HDF5>>doc:||anchor="General information about HDF5"]]
++* [[FLASH HDF5 structure>>doc:||anchor="FLASH HDF5 structure"]]
++* [[Most popular FLASH parameters and their names in HDF5>>doc:||anchor="Most popular FLASH parameters and their names in HDF5"]]
++** [[FLASH1>>doc:||anchor="FLASH1"]]
++*** [[Beamline info (FLASH1)>>doc:||anchor="Beamline info (FLASH1)"]]
++*** [[Photon Diagnostics SASE / Spectrometer (FLASH1)>>doc:||anchor="Photon Diagnostics SASE / Spectrometer (FLASH1)"]]
++*** [[Electron Beam properties (FLASH1)>>doc:||anchor="Electron Beam properties (FLASH1)"]]
++*** [[Timing information, rep rate etc.(FLASH1)>>doc:||anchor="Timing information, rep rate etc.(FLASH1)"]]
++*** [[Pump Probe Laser (FLASH1)>>doc:||anchor="Pump Probe Laser (FLASH1)"]]
++*** [[User Data (FLASH1)>>doc:||anchor="User Data (FLASH1)"]]
++** [[FLASH2>>doc:||anchor="FLASH2"]]
++** [[HDF5 structure revisions>>doc:||anchor="HDF5 structure revisions"]]
++* [[Example code showing how to access HDF5 files>>doc:||anchor="Example code showing how to access HDF5 files"]]
++** [[Samples how to read HDF5 with Matlab>>doc:||anchor="Samples how to read HDF5 with Matlab"]]
++** [[How to read HDF5 with Python via FLASHH5>>doc:||anchor="How to read HDF5 with Python via FLASHH5"]]
++* [[HDF5 and DOOCS>>doc:||anchor="HDF5 and DOOCS"]]
  \\
@@ -33,7 +33,7 @@
  {{code language="none"}}> module load xray{{/code}}
  {{code language="none"}}> hdfview{{/code}}
--\\
++[[Contents>>doc:||anchor="Contents"]]
  == FLASH HDF5 structure ==
@@ -44,21 +44,21 @@
  * Beamlines
  * Experiment
  * Timing
--[[image:url:http://hasfweb.desy.de/pub/Setup/HDF5main/HDF5_structure.jpg||alt="HDF5_structure.jpg" width="700" height="500"]]
++[[~[~[image:url:http://hasfweb.desy.de/pub/Setup/HDF5main/HDF5_structure.jpg~|~|alt="HDF5_structure.jpg" width="700" height="500"~]~]>>attach:HDF5_structure.jpg]]
  A detailled description of (most) channels can be found in the lower part of the hdf5 viewer:
--[[image:url:http://hasfweb.desy.de/pub/Setup/HDF5main/HDF5_structure_desc.jpg||alt="HDF5_structure_desc.jpg" width="341" height="413"]]
++[[~[~[image:url:http://hasfweb.desy.de/pub/Setup/HDF5main/HDF5_structure_desc.jpg~|~|alt="HDF5_structure_desc.jpg" width="341" height="413"~]~]>>attach:HDF5_structure_desc.jpg]]
--\\
++[[Contents>>doc:||anchor="Contents"]]
  \\
  == Most popular FLASH parameters and their names in HDF5 ==
--The compleate list for the relation between DOOCS names and HDF5 names for the recordable parameters can be found in [[DESY's Repository~[~[image:url:http://hasfweb.desy.de/pub/TWiki/TWikiDocGraphics/external-link.gif~|~|width="13" height="12"~]~]>>url:https://stash.desy.de/projects/CS/repos/pah/browse/src/camp/data/channel2HdfName.dat||shape="rect"]].
++The complete list for the relation between DOOCS names and HDF5 names for the recordable parameters can be found in [[DESY's Repository~[~[image:url:http://hasfweb.desy.de/pub/TWiki/TWikiDocGraphics/external-link.gif~|~|width="13" height="12"~]~]>>url:https://stash.desy.de/projects/CS/repos/pah/browse/src/camp/data/channel2HdfName.dat||shape="rect"]].
  The most common and often used ones are summarized below:
--Note, the HDF group and dataset names apply to our HDF tree version since vers. 0.3.0.
++Note, the HDF group and data set names apply to our HDF tree version since vers. 0.3.0.
  \\
@@ -96,7 +96,7 @@
  //always saved (PBD)//
  DOOCS prop : {{code language="none"}}TTF2.FEL/BLFILTERS1/FILTER1/FW.MOTOR.POS{{/code}}
  DAQ channel: {{code language="none"}}TTF2.FEL/BLFILTERS1/FILTER1/FW.MOTOR.POS{{/code}}
--desc: Position of the BL filterwheel 1 - to correlate with the filter material please look [[here>>url:http://hasfweb.desy.de/bin/view/Setup/FilterHistory||shape="rect" class="twikiLink"]]
++desc: Position of the BL filter wheel 1 - to correlate with the filter material please look [[here>>doc:FLASH.Filter history (BL filterwheel 12)]]
  units: degree
  \\
@@ -104,7 +104,7 @@
  //always saved (PBD)//
  DOOCS prop : {{code language="none"}}TTF2.FEL/BLFILTERS2/FILTER2/FW.MOTOR.POS{{/code}}
  DAQ channel: {{code language="none"}}TTF2.FEL/BLFILTERS2/FILTER2/FW.MOTOR.POS{{/code}}
--desc: Position of the BL filterwheel 2 - to correlate with the filter material please look [[here>>url:http://hasfweb.desy.de/bin/view/Setup/FilterHistory||shape="rect" class="twikiLink"]]
++desc: Position of the BL filter wheel 2 - to correlate with the filter material please look [[here>>doc:FLASH.Filter history (BL filterwheel 12)]]
  units: degree
  \\
@@ -112,7 +112,7 @@
  //always saved (PBD)//
  DOOCS prop : = TTF2.FEL/BDAF1/BDA.F1/FW.MOTOR.POS=
  DAQ channel: {{code language="none"}}TTF2.FEL/BDAF1/BDA.F1/FW.MOTOR.POS{{/code}}
--desc: Position of the PG filterwheel 1
++desc: Position of the PG filter wheel 1
  units: degree
  \\
@@ -120,7 +120,7 @@
  //always saved (PBD)//
  DOOCS prop : {{code language="none"}}TTF2.FEL/BDAF2/BDA.F2/FW.MOTOR.POS{{/code}}
  DAQ channel: {{code language="none"}}TTF2.FEL/BDAF2/BDA.F2/FW.MOTOR.POS{{/code}}
--desc: Position of the PG filterwheel 2
++desc: Position of the PG filter wheel 2
  units: degree
  \\
@@ -128,13 +128,19 @@
  //always saved (PBD)//
  DOOCS prop : {{code language="none"}}TTF2.FEL/PGFILTERS/PGFILTERS/FW.MOTOR.POS{{/code}}
  DAQ channel: {{code language="none"}}TTF2.FEL/PGFILTERS/PGFILTERS/FW.MOTOR.POS{{/code}}
--desc: Position of the PG filterwheel 3
++desc: Position of the PG filter wheel 3
  units: degree
++
  \\
++
++NOTE: Aperture positions in the beamline as well as the positions of the beam steering mirrors are also saved. for more Info contact your local contact
++
++[[Contents>>doc:||anchor="Contents"]]
++
  \\
--==== Photon Diagnostics: SASE / Spectrometer (FLASH1) ====
++==== Photon Diagnostics SASE / Spectrometer (FLASH1) ====
  {{code language="none"}}/FL1/Photon Diagnostic/GMD/Average energy/energy tunnel{{/code}}
  //always saved (PBD)//
@@ -148,7 +148,7 @@
  DOOCS prop : {{code language="none"}}TTF2.DAQ/PHFLUX/OUT34/VAL{{/code}}
  DAQ channel: {{code language="none"}}PBD.PHFLUX/TUNNEL.ENERGYPULSE.USER{{/code}}
  desc :Energy per pulse Tunnel (from e-) - the values are set to "0" if there was no SASE beam in the FEL
--units : a.u. (more or less µJ but need to be calibrated with the "Average energy" for good precision) [[see here for help>>url:http://hasfweb.desy.de/bin/view/Setup/CalibrateGMDSignals||shape="rect" class="twikiLink"]]
++units : a.u. (more or less µJ but need to be calibrated with the "Average energy" for good precision) [[see here for help>>doc:FLASH.Calibrating the pulse resolved (electron) data from GMD]]
  {{code language="none"}}/FL1/Photon Diagnostic/GMD/Pulse resolved energy/energy tunnel (raw){{/code}}
  //always saved (PBD)//
@@ -155,7 +155,7 @@
  DOOCS prop : {{code language="none"}}TTF2.DAQ/PHFLUX/OUT14/VAL{{/code}}
  DAQ channel: {{code language="none"}}PBD.PHFLUX/TUNNEL.ENERGYPULSE.FF{{/code}}
  desc :Energy per pulse Tunnel (from e-) - uncorrected values. There are also values saved if there was no beam ... just background noise
--units : a.u. (more or less µJ but need to be calibrated with the "Average energy" for good precision) [[see here for help>>url:http://hasfweb.desy.de/bin/view/Setup/CalibrateGMDSignals||shape="rect" class="twikiLink"]]
++units : a.u. (more or less µJ but need to be calibrated with the "Average energy" for good precision) [[see here for help>>doc:FLASH.Calibrating the pulse resolved (electron) data from GMD]]
  {{code language="none"}}/FL1/Photon Diagnostic/GMD/Average energy/energy BDA{{/code}}
  //always saved (PBD)//
@@ -169,7 +169,7 @@
  DOOCS prop : {{code language="none"}}TTF2.DAQ/PHFLUX/OUT35/VAL{{/code}}
  DAQ channel: {{code language="none"}}PBD.PHFLUX/BDA.ENERGYPULSE.USER{{/code}}
  desc :Energy per pulse BDA (from e-) - the values are set to "0" if there was no SASE beam in the FEL
--units : a.u. (more or less µJ but need to be calibrated with the "Average energy" for good precision) [[see here for help>>url:http://hasfweb.desy.de/bin/view/Setup/CalibrateGMDSignals||shape="rect" class="twikiLink"]]
++units : a.u. (more or less µJ but need to be calibrated with the "Average energy" for good precision) [[see here for help>>doc:FLASH.Calibrating the pulse resolved (electron) data from GMD]]
  {{code language="none"}}/FL1/Photon Diagnostic/GMD/Pulse resolved energy/energy BDA (raw){{/code}}
  //always saved (PBD)//
@@ -176,13 +176,13 @@
  DOOCS prop : {{code language="none"}}TTF2.DAQ/PHFLUX/OUT15/VAL{{/code}}
  DAQ channel: {{code language="none"}}PBD.PHFLUX/BDA.ENERGYPULSE.FF{{/code}}
  desc :Energy per pulse BDA (from e-) - uncorrected values. There are also values saved if there was no beam ... just background noise
--units : a.u. (more or less µJ but need to be calibrated with the "Average energy" for good precision) [[see here for help>>url:http://hasfweb.desy.de/bin/view/Setup/CalibrateGMDSignals||shape="rect" class="twikiLink"]]
++units : a.u. (more or less µJ but need to be calibrated with the "Average energy" for good precision) [[see here for help>>doc:FLASH.Calibrating the pulse resolved (electron) data from GMD]]
  {{code language="none"}}/FL1/Photon Diagnostic/GMD/Beam position/position BDA horizontal{{/code}}
  //always saved (PBD)//
  DOOCS prop : {{code language="none"}}FLASH.FEL/XGM.POSMON/FL1.BDA/IX.POS{{/code}}
  DAQ channel: {{code language="none"}}FLASH.FEL/XGM.POSMON/FL1.BDA/IX.POS{{/code}}
--desc :Beam position of the photon Beam determined by the [[GMD>>url:http://hasfweb.desy.de/bin/view/Setup/GMD||shape="rect" class="twikiLink"]] (BDA, x=horizontal)
++desc :Beam position of the photon Beam determined by the [[GMD>>doc:FLASH.Gas Monitor Detector]] (BDA, x=horizontal)
  units : mm
  {{code language="none"}}/FL1/Photon Diagnostic/GMD/Beam position/position BDA vertical{{/code}}
@@ -189,7 +189,7 @@
  //always saved (PBD)//
  DOOCS prop : {{code language="none"}}FLASH.FEL/XGM.POSMON/FL1.BDA/IY.POS{{/code}}
  DAQ channel: {{code language="none"}}FLASH.FEL/XGM.POSMON/FL1.BDA/IY.POS{{/code}}
--desc :Beam position of the photon Beam determined by the [[GMD>>url:http://hasfweb.desy.de/bin/view/Setup/GMD||shape="rect" class="twikiLink"]] (BDA, y=vertical)
++desc :Beam position of the photon Beam determined by the [[GMD>>doc:FLASH.Gas Monitor Detector]] (BDA, y=vertical)
  units : mm
  {{code language="none"}}/FL1/Photon Diagnostic/GMD/Beam position/position tunnel horizontal{{/code}}
@@ -196,7 +196,7 @@
  //always saved (PBD)//
  DOOCS prop : {{code language="none"}}FLASH.FEL/XGM.POSMON/FL1.TUNNEL/IX.POS{{/code}}
  DAQ channel: {{code language="none"}}FLASH.FEL/XGM.POSMON/FL1.TUNNEL/IX.POS{{/code}}
--desc :Beam position of the photon Beam determined by the [[GMD>>url:http://hasfweb.desy.de/bin/view/Setup/GMD||shape="rect" class="twikiLink"]] (TUNNEL, x=horizontal)
++desc :Beam position of the photon Beam determined by the [[GMD>>doc:FLASH.Gas Monitor Detector]] (TUNNEL, x=horizontal)
  units : mm
  {{code language="none"}}/FL1/Photon Diagnostic/GMD/Beam position/position tunnel vertical{{/code}}
@@ -203,7 +203,7 @@
  //always saved (PBD)//
  DOOCS prop : {{code language="none"}}FLASH.FEL/XGM.POSMON/FL1.TUNNEL/IY.POS{{/code}}
  DAQ channel: {{code language="none"}}FLASH.FEL/XGM.POSMON/FL1.TUNNEL/IY.POS{{/code}}
--desc :Beam position of the photon Beam determined by the [[GMD>>url:http://hasfweb.desy.de/bin/view/Setup/GMD||shape="rect" class="twikiLink"]] (TUNNEL, y=vertical)
++desc :Beam position of the photon Beam determined by the [[GMD>>doc:FLASH.Gas Monitor Detector]] (TUNNEL, y=vertical)
  units : mm
  {{code language="none"}}/FL1/Photon Diagnostic/Wavelength/Tunnelspectrometer/wavelength{{/code}}
@@ -269,12 +269,10 @@
  desc : increment value (in nm) for each pixel for the wavelength axis of the XUV Spectrum measured with the "PG spectrometer"
  units : nm
--\\
++[[Contents>>doc:||anchor="Contents"]]
  ==== Electron Beam properties (FLASH1) ====
--\\
--
  ===== bunch charge =====
  {{code language="none"}}/FL1/Electron Diagnostic/Bunch charge/after undulator{{/code}}
@@ -283,12 +283,10 @@
  DAQ channel: {{code language="none"}}FLASH.DIAG/TOROID/12EXP{{/code}}
  desc: electron bunch charge (FLASH1)
  units: nC
--\\
--\\
++=====
++arrival time =====
--===== arrival time =====
--
  {{code language="none"}}/FL1/Electron Diagnostic/BAM/4DBC3/electron bunch arrival time (low charge){{/code}}
  //always saved (PBD)//
  DOOCS prop : {{code language="none"}}FLASH.SDIAG/BAM/4DBC3/LOW_CHARGE_ARRIVAL_TIME{{/code}}
@@ -295,10 +295,8 @@
  DAQ channel: {{code language="none"}}FLASH.SDIAG/BAM.DAQ/4DBC3.LOW_CHARGE_ARRIVAL_TIME{{/code}}
  desc: Electron bunch arrival time measured with the BAM (more or less) before the undulator (pulse resolved data)
  units: ps (bigger numbers indicate later arrivaltime of the electrons)
--note: besides the arivaltime from FLASH1 there is also the FLASH2/3 electron arrival time saved. [[LINK to detailled infos from MSK (may only work inside DESY network~[~[image:url:http://hasfweb.desy.de/pub/TWiki/TWikiDocGraphics/external-link.gif~|~|width="13" height="12"~]~]>>url:http://mskwiki/index.php?title=BAM-DAQ_Channels||shape="rect"]]
++note: besides the arivaltime from FLASH1 there is also the FLASH2/3 electron arrival time saved. [[LINK to detailled infos from MSK (may only work inside DESY network~[~[image:url:http://hasfweb.desy.de/pub/TWiki/TWikiDocGraphics/external-link.gif~|~|width="13" height="12"~]~]>>url:http://www.desy.de/~~mbock/pages/BAM_daq_channel_descriptions.html||shape="rect"]] and to a recent  [[talk about the working principle of the BAM>>url:https://confluence.desy.de/download/attachments/134216957/BAM-basics_and_outlook-2018_DESY-template_16-9Format.pdf?version=1&modificationDate=1565162143328&api=v2||shape="rect"]]
--\\
--
  ===== electron beam profile =====
  {{code language="none"}}/FL1/Electron Diagnostic/Electron bunch profile/TDS profile{{/code}}
@@ -323,10 +323,7 @@
  DAQ channel: {{code language="none"}}PBD.BEAM.PROF.ML/PROFWIDTHCCTED{{/code}}
  desc: rms pulse width of the measures TDS electron bunch profile
  units: fs
--\\
--\\
--
  ===== electron bunch energy =====
  {{code language="none"}}/FL1/Electron Diagnostic/Electron energy/average electron energy{{/code}}
@@ -334,7 +334,7 @@
  DOOCS prop : {{code language="none"}}TTF2.DAQ/ENERGY.DOGLEG/E_INTRA_MEAN/VAL{{/code}}
  DAQ channel: {{code language="none"}}PBD.ENERGY.DOGLEG/E_MEAN{{/code}}
  desc: electron bunch energy (average over the bunch train)
--units: (% class="twikiNewLink" %)[[MeV>>url:http://hasfweb.desy.de/bin/edit/Setup/MeV?topicparent=Setup.HDF5main;nowysiwyg=0||rel="nofollow" shape="rect"]](%%)
++units: (% class="twikiNewLink" %)MeV(%%)
  \\
  {{code language="none"}}/FL1/Electron Diagnostic/Electron energy/pulse resolved energy{{/code}}
@@ -342,8 +342,7 @@
  DOOCS prop : {{code language="none"}}TTF2.DAQ/ENERGY.DOGLEG/E_SPECT/VAL.TD{{/code}}
  DAQ channel: {{code language="none"}}PBD.ENERGY.DOGLEG/E_SPECT{{/code}}
  desc: electron bunch energy bunch resolved
--units: (% class="twikiNewLink" %)[[MeV>>url:http://hasfweb.desy.de/bin/edit/Setup/MeV?topicparent=Setup.HDF5main;nowysiwyg=0||rel="nofollow" shape="rect"]](%%)
--\\
++units: (% class="twikiNewLink" %)MeV
  \\
@@ -355,14 +355,12 @@
  units: nm
  \\
--\\
++[[Contents>>doc:||anchor="Contents"]]
  \\
--==== Timing information, rep rate etc.(FLASH1) ====
++==== Timing information, rep rate etc.  (FLASH1) ====
--\\
--
  ===== bunch repetition rate =====
  {{code language="none"}}/FL1/Timing/repetition rate{{/code}}
@@ -373,8 +373,6 @@
  units: kHz
  \\
--\\
--
  ===== set number of pulses =====
  {{code language="none"}}/FL1/Timing/set number of bunches{{/code}}
@@ -383,10 +383,7 @@
  DAQ channel: {{code language="none"}}TTF2.UTIL/LASER.CONTROL/GUN/PULSE_NUM{{/code}}
  desc: Number of pulses set at the gun (FLASH1)
  units:
--\\
--\\
--
  ===== actual number of pulses =====
  {{code language="none"}}/FL1/Timing/actual number of bunches{{/code}}
@@ -397,8 +397,6 @@
  units:
  \\
--\\
--
  ===== actual pulse pattern recorded after the undulator =====
  {{code language="none"}}/FL1/Timing/Bunch pattern/pattern after undulator{{/code}}
@@ -409,8 +409,6 @@
  units:
  \\
--\\
--
  ===== Train ID =====
  {{code language="none"}}/Timing/train ID{{/code}}
@@ -421,8 +421,6 @@
  units:
  \\
--\\
--
  ===== Train time =====
  {{code language="none"}}/Timing/train time{{/code}}
@@ -436,18 +436,22 @@
  third column: Train ID of FLASH
  \\
--\\
++[[Contents>>doc:||anchor="Contents"]]
  \\
  ==== Pump Probe Laser (FLASH1) ====
--{{code language="none"}}/FL1/Experiment/Pump probe laser/laser attenuation{{/code}} //always saved (PBD)//
++{{code language="none"}}/FL1/Experiment/Pump probe laser/laser attenuation{{/code}}
++
++//always saved (PBD)//
  DOOCS prop : {{code language="none"}}TTF2.FEL/PPDELAYCAL/PPDELAYCAL/ROT2.CURRENT{{/code}}
  DAQ channel: {{code language="none"}}TTF2.FEL/PPDELAYCAL/PPDELAYCAL/ROT2.CURRENT{{/code}}
  desc: attenuation of the PPLaser (rotation of a waveplate)
  units : 0 no transmission , 1: full transmission
++\\
++
  {{code language="none"}}/FL1/Experiment/Pump probe laser/laser delay{{/code}}
  //always saved (PBD)//
  DOOCS prop : {{code language="none"}}TTF2.FEL/PPDELAYCAL/PPDELAYCAL/DLY1.CURRENT{{/code}}
@@ -455,6 +455,8 @@
  desc: delay of the Pump probe laser - measured by the read back position of the motor. only read out every secound ... better use the encoder
  units : ps ( pos delay means IR comes later)
++\\
++
  {{code language="none"}}/FL1/Experiment/Pump probe laser/delay line IK220.0/ENC.DELAY{{/code}}
  //always saved (PBD)//
  DOOCS prop : {{code language="none"}}TTF2.FEL/DELLINE.ENC/IK220.0/ENC.DELAY{{/code}}
@@ -462,11 +462,13 @@
  subsystem: {{code language="none"}}DELLINE.ENC{{/code}} desc : delay of the Pump probe laser - measured by an encoder. The position is read out with 10Hz train synchronized and should be used to determine the actual laser delay (the motor position is only read out about every second
  units : ps ( pos delay means IR comes later)
++\\
++
  {{code language="none"}}/FL1/Experiment/Pump probe laser/Synchronization/timing jitter RMS GECCO{{/code}}
  //always saved (PBD)//
  DOOCS prop : {{code language="none"}}FLASH.SYNC/F1PPL.LASER_LOCK/28C.F1PPL1.CONTROLLER/ADV_CTRL_MANAGER.0.PID_INPUT_JITTER.2.RD{{/code}}
  DAQ channel: {{code language="none"}}FLASH.SYNC/F1PPL.LASER_LOCK/28C.F1PPL1.CONTROLLER/ADV_CTRL_MANAGER.0.PID_INPUT_JITTER.2.RD{{/code}}
--desc: rms jitter of the GECCO (% class="twikiNewLink" %)[[TiSa>>url:http://hasfweb.desy.de/bin/edit/Setup/TiSa?topicparent=Setup.HDF5main;nowysiwyg=0||rel="nofollow" shape="rect"]](%%) Oscillator units: fs
++desc: rms jitter of the GECCO (% class="twikiNewLink" %)TiSa(%%) Oscillator units: fs
  \\
@@ -478,17 +478,15 @@
  \\
--\\
++[[Contents>>doc:||anchor="Contents"]]
  \\
  ==== User Data (FLASH1) ====
--\\
--
  ===== GHz ADCs =====
--ADC traces of the (SPDevices 412) GHZ ADCs available for the users . More information about the ADCs can be found [[here>>url:http://hasfweb.desy.de/bin/view/Setup/MtcaAdc||shape="rect" class="twikiLink"]]
++ADC traces of the (SPDevices 412) GHZ ADCs available for the users . More information about the ADCs can be found [[here>>doc:FLASHUSER.Data Acquisition and controls.Controls (DOOCS, jDDD,\.\.\.).MTCA ADCs.WebHome]]
  //saved on DEMAND in the user DAQ//
  \\The HDF5 names for the ADC traces are depending on the beamline :
  \\PG Beamline:
@@ -521,7 +521,7 @@
  ===== MHz ADCs =====
--similar to the GHz ADCs the MHz ASDsa re saved with HDF5 names like:
++similar to the GHz ADCs the MHz ADCs are saved with HDF5 names like:
  {{code language="none"}}/FL1/Experiment/BL1/SIS8300 100MHz ADC/CH2/TD{{/code}}
  DOOCS prop : FLASH.FEL/ADC.SIS.BL1/EXP1.CH02/CH00.TD
  DAQ channel: : FLASH.FEL/ADC.SIS.BL1/EXP1.CH02
@@ -528,16 +528,168 @@
  \\
--\\
++[[Contents>>doc:||anchor="Contents"]]
  === FLASH2 ===
++There is analog to FLASH1 a permanently running "PhotonDagnostic DAQ FLASH2" (PBD2) and 2 User DAQs
++
++==== Beamline info (FLASH2) ====
++
++(% style="color: rgb(255,153,0);" %)(not yet available){{code language="none"}}/FL2/Beamlines/Attenuator/pressure  {{/code}}(%%)
++//always saved (PBD2)//
++DOOCS prop : {{code language="none"}}FLASH.FEL/ATT.GAS_DOSING/FL2.HALL/PRESSURE{{/code}}
++DAQ channel:  {{code language="none"}}FLASH.FEL/ATT.GAS_DOSING/FL2.HALL/PRESSURE{{/code}}
++desc: set pressure in the gas attenuator
++units: mbar
  \\
++{{code language="none"}}/FL2/Beamlines/FL20/Shutter/open{{/code}}
++//always saved (PBD2)//
++DOOCS prop : {{code language="none"}}FLASH.FEL/ADC.SIS.FL2FS/FL20.SHUTTER/CH00.TD{{/code}}
++DAQ channel: {{code language="none"}}FLASH.FEL/ADC.SIS.FL2FS/FL20.SHUTTER{{/code}}
++desc: BL Beamline Fast shutter state: 1 is open, 0 is closed ( for technical reasons there are 100 vales of this state saved ...)
++units: none
++
++
++{{code language="none"}}/FL2/Beamlines/Filter wheel/position wheel 1{{/code}}
++//always saved (PBD2)//
++DOOCS prop : {{code language="none"}}FLASH.FEL/FL20H.PH.MOTOR/MOTOR1.MOT3/FPOS{{/code}}
++DAQ channel: FLASH.FEL/FL20H.PH.MOTOR/MOTOR1.MOT3/FPOS
++desc: Position of the BL filter wheel 1 - to correlate with the filter material please look [[here>>doc:FLASH.Filter history (BL filterwheel 12)]]
++units: degree
++\\
++
++
++//always saved (PBD2)//
++\\\\[[here>>doc:FLASH.Filter history (BL filterwheel 12)]]
++{{code language="none"}}/FL2/Beamlines/Filter wheel/position wheel 2  DOOCS prop : FLASH.FEL/FL20H.PH.MOTOR/MOTOR2.MOT3/FPOS DAQ channel: FLASH.FEL/FL20H.PH.MOTOR/MOTOR2.MOT3/FPOS desc: Position of the BL filter wheel 2 - to correlate with the filter material please look units: degree{{/code}}
++
++\\
++
++NOTE: Aperture positions in the beamline as well as the positions of the beam steering mirrors are also saved. for more Info contact your local contact
++
++[[Contents>>doc:||anchor="Contents"]]
++
++\\
++
++\\
++
++==== Photon Diagnostics SASE (XGMD) ====
++
++{{code language="none"}}/FL2/Photon Diagnostic/GMD/Average energy/energy tunnel{{/code}}
++//always saved (PBD2)//
++DOOCS prop : {{code language="none"}}FLASH.FEL/XGM.PHOTONFLUX/FL2.TUNNEL/PHOTONFLUX.UJ{{/code}}
++DAQ channel:{{code language="none"}} FLASH.FEL/XGM.PHOTONFLUX/FL2.TUNNEL/PHOTONFLUX.UJ{{/code}}
++desc : calibrated average ( ~~ 20 sec averaging time ) SASE Energy/pulse measured in the TUNNEL before the attenuator (ion current)
++units : microJ
++
++\\
++
++(% style="color: rgb(255,204,0);" %)average Sigma    to be included in
++
++(% style="color: rgb(193,199,208);" %){{code language="none"}}/FL2/Photon Diagnostic/GMD/Average energy/energy tunnel uncertainty{{/code}} (%%)
++(% style="color: rgb(193,199,208);" %)//always saved (PBD2)// (%%)
++(% style="color: rgb(193,199,208);" %)DOOCS prop : FLASH.FEL/XGM.PHOTONFLUX/FL2.TUNNEL/PHOTONFLUX.UJ.SIGMA (%%)
++(% style="color: rgb(193,199,208);" %)DAQ channel: FLASH.FEL/XGM.PHOTONFLUX/FL2.TUNNEL/PHOTONFLUX.UJ.SIGMA (%%)
++(% style="color: rgb(193,199,208);" %)desc :  This parameter gives an indication of the error of the measurement of the average pulse energy. This takes signal to noise,  detector resolution, uncertainties in crossection etc into account. (it is NOT the measurement of the statistical fluctuation of the SASE pulses)(%%)
++(% style="color: rgb(193,199,208);" %)units : microJ
++
++\\
++
++\\
++
++{{code language="none"}}/FL2/Photon Diagnostic/GMD/Pulse resolved energy/energy tunnel{{/code}}
++//always saved (PBD2)//
++DOOCS prop : {{code language="none"}}FLASH.FEL/XGM.INTENSITY/FL2.TUNNEL/INTENSITY.TD{{/code}}
++DAQ channel: {{code language="none"}}FLASH.FEL/XGM.INTENSITY/FL2.TUNNEL/INTENSITY.TD{{/code}}
++desc : Energy per pulse measured in the Tunnel  (in fromt of the gas attenuator and the apertures in the Hall)
++units : a.u. (more or less µJ but need to be calibrated with the "Average energy" for good precision) [[see here for help>>doc:FLASH.Calibrating the pulse resolved (electron) data from GMD]]
++
++\\
++
++\\
++
++{{code language="none"}}/FL2/Photon Diagnostic/GMD/Pulse resolved energy/energy tunnel uncertainty (sigma){{/code}}
++//always saved (PBD2)//
++DOOCS prop : {{code language="none"}}FLASH.FEL/XGM.INTENSITY/FL2.TUNNEL/INTENSITY.SIGMA.TD{{/code}}
++DAQ channel: {{code language="none"}}FLASH.FEL/XGM.INTENSITY/FL2.TUNNEL:4{{/code}}
++desc :(% style="color: rgb(0,0,0);" %)This parameter gives an indication of the error of the measurement of the pulse energy. This takes signal to noise,  detector resolution, uncertainties in crossection etc into account. (it is NOT the measurement of the statistical fluctuation of the SASE pulses)(%%)
++units : a.u. (more or less µJ - related to the value of the pulse energy )
++
++
++{{code language="none"}}{{/code}}
++
++All values for the GMD are also available for the** HALL GMD **which is located in the experimental hall down stream the gas attenuator. If the attenuator is on the ratio between Hall and Tunnel signal shows the attenuation. **BUT NOTE** that the filter unit and the Aperture 4 are downstream the GMD. So if filters and aperture are used this influence is NOT measured by the GMD hall !
++
++\\
++
++Besides  pulse energy the GMD also provides information about the beam position
++
++\\
++
++{{code language="none"}}/FL2/Photon Diagnostic/GMD/Average Beam position/position tunnel horizontal{{/code}}
++//always saved (PBD2)//
++DOOCS prop : {{code language="none"}}FLASH.FEL/XGM.POSMON/FL2.TUNNEL/IX.POS{{/code}}
++DAQ channel: {{code language="none"}}FLASH.FEL/XGM.POSMON/FL2.TUNNEL/IX.POS{{/code}}
++desc : the Average ( ~~ 20 sec averaging time ) Beam position of the photon Beam determined by the [[GMD>>doc:FLASH.Gas Monitor Detector]] (tunnel, x=horizontal)
++units : mm
++
++\\
++
++\\
++
++\\
++
++{{code language="none"}}/FL2/Photon Diagnostic/GMD/Average Beam position/position tunnel vertical{{/code}}
++//always saved (PBD2)//
++DOOCS prop : {{code language="none"}}FLASH.FEL/XGM.POSMON/FL2.TUNNEL/IY.POS{{/code}}
++DAQ channel: {{code language="none"}}FLASH.FEL/XGM.POSMON/FL2.TUNNEL/IY.POS{{/code}}
++desc : the Average ( ~~ 20 sec averaging time ) Beam position of the photon Beam determined by the [[GMD>>doc:FLASH.Gas Monitor Detector]] (tunnel, x=horizontal)
++units : mm
++
++\\
++
++\\
++
++
++//always saved (PBD2)//
++\\\\{{code language="none"}}/FL2/Photon Diagnostic/GMD/Pulse resolved beam position/position tunnel x DOOCS prop : FLASH.FEL/XGM.BPM/FL2.HALL/X.TDDAQ channel: FLASH.FEL/XGM.BPM/FL2.HALL:2 desc: {{/code}}Besides the well calibrated averaged beam position information there is also the option
++{{code language="none"}}to measure the beam position on a single bunch level. HOWEVER this methide needs a perfectly adjusted signal level (talk to your local contact !!) and also then the signal to noise is rather small and one needs some averaging ... BUT with this option one can determine if there was a spatial slope on a burst (say forst bunches were lower than the last ones or so ...)units : mm    {{/code}}
++
++{{code language="none"}}(x=horizontal, y = vertial){{/code}}
++
++again the same parameter set is available for the **HALL GMD**
++
++\\
++
++\\
++
++\\
++
++\\
++
++\\
++
++\\
++
++\\
++
++\\
++
++\\
++
++\\
++
++\\
++
++\\
++
++(% class="wrapped" %)
  |=(((
--[[DAQ name>>url:http://hasfweb.desy.de/bin/view/Setup/HDF5main?sortcol=0;table=1;up=0#sorted_table||title="Sort by this column" rel="nofollow" shape="rect"]]
++DAQ name
  )))|=(((
--[[HDF5 name>>url:http://hasfweb.desy.de/bin/view/Setup/HDF5main?sortcol=1;table=1;up=0#sorted_table||title="Sort by this column" rel="nofollow" shape="rect"]]
++HDF5 name
  )))
  |(((
  FLASH.UTIL/FL2.UND.MOTOR/FL2SASE3/GAP
@@ -722,7 +722,7 @@
  \\
--\\
++[[Contents>>doc:||anchor="Contents"]]
  === HDF5 structure revisions ===
@@ -736,10 +736,11 @@
  \\
++(% class="wrapped" %)
  |=(((
--[[earlier HDF path (vers. 0.2)>>url:http://hasfweb.desy.de/bin/view/Setup/HDF5main?sortcol=0;table=2;up=0#sorted_table||title="Sort by this column" rel="nofollow" shape="rect"]]
++earlier HDF path (vers. 0.2)
  )))|=(((
--[[is now (vers. 0.3)>>url:http://hasfweb.desy.de/bin/view/Setup/HDF5main?sortcol=1;table=2;up=0#sorted_table||title="Sort by this column" rel="nofollow" shape="rect"]]
++is now (vers. 0.3)
  )))
  |(((
  /Photon Diagnostic/GMD/Beam position/position BDA x
@@ -834,7 +834,7 @@
  \\
--\\
++[[Contents>>doc:||anchor="Contents"]]
  \\
@@ -893,14 +893,16 @@
  GMD_Spectrum=h5read(hdf5file,'/Photon Diagnostic/GMD/Pulse resolved energy/energy BDA',[1 Start_event],[40 Number_of_events] );
  )))
--\\
++[[Contents>>doc:||anchor="Contents"]]
  === How to read HDF5 with Python via FLASHH5 ===
--With [[FlashH5>>url:http://hasfweb.desy.de/bin/view/Setup/FlashH5||shape="rect" class="twikiLink"]] we provide h5py based examples to access and evaluate FLASH's HDF5 files.
++With [[FlashH5>>doc:FLASHUSER.FLASHH5 for easier access of FLASH's HDF5 files]] we provide h5py based examples to access and evaluate FLASH's HDF5 files.
  \\
  == HDF5 and DOOCS ==
--Here is an outdated [[list with the available properties that are always saved (PBD) for FLASH1 as>>url:http://hasfweb.desy.de/pub/Setup/HDF5main/FLASH1__DaqChannel2HdfNamePbd.xlsx||shape="rect"]] HDF5 names and the corresponding DOOCS names
++Here is an outdated [[list with the available properties that are always saved (PBD) for FLASH1 as>>attach:FLASH1__DaqChannel2HdfNamePbd.xlsx]] HDF5 names and the corresponding DOOCS names
++
++[[Contents>>doc:||anchor="Contents"]]

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