mkdocs config and files, initial push

pcdshub · Jan 23, 2025 · 9c617be · 9c617be
1 parent 72f4f59
commit 9c617be
Show file tree

Hide file tree

Showing 52 changed files with 807 additions and 0 deletions.
diff --git a/.DS_Store b/.DS_Store
diff --git a/docs/DoT.md b/docs/DoT.md
@@ -0,0 +1,175 @@
+## MFX Droplet on Tape (DOT) Operations Notes
+
+**MFX X-1001621**  
+**Last Revised:** 08/18/2023  
+**By:** Victor Sosa Alfaro
+
+### Procedures
+1. Start up
+2. Align beam
+3. Setup DOT
+
+```bash
+# launch MFX home gui
+mfxhome
+# start the daq
+restartdaq
+# start camViewer session
+camViewer -w 100
+# launch python 3 session
+mfx3
+# bring up LFE home, should bring up current stable version (one in MFX home may not be current)
+lfe
+```
+
+-   ePix100_1: go to idle, issue epix tripped temp is 16, dewpoint set
+    to 20, reduce dewpoint # to 15 and try idling again, then turn on;
+    helium flow was off
+    -   Humidity ~15% and 19% for epix_1 and epix_2 now, still tripping
+    -   Epix_1 down to ~10%
+-   \[camviewer - look at xcs_yag3m (farthest downstream on the mainline)
+-   Pull up eloggrabber (LCLS tab in MFX Home)
+-   MFX Home - middle click and open in new window to have certain
+    things from MFX home in separate window, do that for attenuators
+-   To re-enable F12 key: Restart gnome shell: alt + f2 and typing r in
+    command window
+    -   \[Terminal: gnome-settings.sh\]
+    -   Moves in pulse picker, blocks beam
+-   MFX Home \> LCLS \> HOMS overview: MR1L4 is MFX/MEC mirror
+-   \[python: tfs.find_best_combo(energy = 9800)\] - does it work?
+-   Transfocator has 9 different lenses, for a given energy, need
+    particular combo of lenses
+    -   Look at MFX elog and find post at similar energy and use the lens settings
+-   Timeout error starting daq
+    -   \[Terminal: serverStat 172.21.24.123 cycle\] to restart node
+        (this node was the one in the error)
+    -   \[Terminal: serverStat 172.21.24.123 status\]
+    -   Once you can ssh into it, it should be good (takes several minutes to fully come back)
+-   Edit Config in DAQ \> EVR, should be 30 Hz
+-   Rayonix have to connect directly to computer for it
+    -   \[ssh -X hsuser\@con-ics-mfx-rayonix\]
+    -   \[killall procServ\]
+    -   \[capxure\]
+    -   \[cd ~/slac/\]
+    -   \[./startDaqInterface_newcraydl\] start DAQ process that was killed with the killall command
+-   DG2 STP 1 closed (delivers beam to CXI), will need to have it opened to see beam on xcs_yag3m
+-   XRT Common Vacuum window
+-   YAGs for MFX:
+    -   UM6 (upstream of mirror for hutch 6) (not sure what this is in camVieiwer)
+    -   MEC YAG0 (just after mirror)
+    -   XCS YAG3M (HFX DG3:PIM & IPM)
+    -   MFX_dia_yag (dia = diagnostics stand, right after MFX stopper, equivalent of SB at XCS)
+        -   Slowly
+    -   MFX_DG1_YAG
+        -   PIM DIA, IPM DIA
+        -   Beam moved vertical positive by 80 um 
+    -   MFX_DG2_YAG (usually brighter w/ lenses in because it's after transfocator)
+    -   MFX_DG3_YAG (after rayonix)
+        -   Take cover off rayonix, slowly bringing up beam making sure centered on detector (Rayonix window in AMI)
+-   MFX Lens System (mfx home)
+    -   For 9.8 keV: 50, 125, 250 radius in position (TFS04, TFS06, TFS09)
+-   EVR Trigger card (the physical card is between the beam pipes just before endstation):
+    -   MFXhome \> Laser \> ns laser EVR
+    -   We connected the camera to this card, set EVR to 42 (30 Hz)
+-   Focus
+    -   LBL_inline camera, yag screen in place, 
+    -   Get focus right
+    -   Cross hair \#1 somewhere top left of spot, cross hair \#2 bottom right, defining ROI for integration
+    -   \[Terminal: cd bin
+    -   \[focus_scan \--h\] get help to see how it runs
+    -   \[focus_scan {camera name} \--scan\] camera PV = MFX:GIGE:LBL:01 (does not take the alias)
+        -   \[Terminal: camViewer -c LBL_Inline -m\] bring up config window
+-   Ref laser "in" position is 54 mm
+-   Align von Hamos Fe Kα and Kβ crystals
+    -   Issues with alignment due to motor control connection/movement (encoder error), but was able to align Kα crystals
+    -   Could not algin the Kβ due to a lack of signal in the VH detectors (the chamber is not under He which reduces signal to noise)
+-   Insert/move Rayonix into DOT chamber
+    - Collect dark background ( issues with connections: rayonix damaging only in 3x3 mode with or without even sequencer. 4x4 works and 5x5 seemingly worked)
+
+#### 8/19/2023
+
+-   XRT Spectrometer = FEE-SPEC0_H in DAQ
+    -   In XRT, gives single shot beam profile
+    -   Useful for crystallography to have shot-to-shot energy distribution for correct indexing of the Bragg peaks
+-   Talking to Newport controller
+    -   Franklin Sample Delivery window in MFX Home
+    -   "Newport screen", try "Initialize All", Try "Reboot IOC" in top right of window
+-   \[Terminal: awr\]: are we ready
+    -   Current photon energy getting read is (PV1 SIOC:SYS0:ML00:A0627) at 1032.66 eV
+-   \[capxsure\]
+    -   Frame Trigger Mode: None
+    -   Exposure Type: Normal
+    -   Click Collect New Background
+    -   Change exposure type to Dark then collect new background
+    -   Then turn exposure type back to normal
+    -   \[./startDaqInterface_newcraydl\]
+    -   Restart DAQ
+-   Checking mfx_dia_yag
+    -   Make sure s4.5 stopper open, pp open
+    -   Checking beam then on mfx_dg1_yag
+    -   Can walk down beamline on MFX home
+    -   Checking beam then on mfx_dg2_yag
+    -   Jaws ~0.7 mm open
+-   Took off Rayonix cover to see beam on mfx_dg3_yag (post detector)
+    -   Slowly unattenuating
+-   Bring in Rayonix into DOT chamber
+    -   Move in the z- directions initially position should be at 1100mm
+    -   Slowly move by 100mm steps until we get to 800mm then move by 50mm steps until we get to 250mm then smaller steps until we get to 188mm (final position)
+    -   \*During movement always have clicker ready to stop incase an
+        issues arises
+-   Plan to run samples:
+    -   Fe(bpy)3 \[10mM\]
+    -   Ferri cyanide \[9mM\]
+    -   Ferro cyande \[10mM\]
+-   To run samples:
+    -   initially bring in beam by removing stopper on door screen (Remove 43) and open pulse picker (PP)
+    -   Slowly unattenuating from \[att(1e-6)\] to 10% \[att(1e-1)\] then full beam \[att(1)\]
+    -   Make sure we are in 30hz sequencer for timing is proper \[ mfx_timing.set30hz()\]
+    -   Make sure pp is in flip-flop
+    -   On DAQ clip on record and start run
+-   \*If computer freezes just wait ~5-10mins until things get back to
+    normal if this is not the case then call tech support.
+-   To end shift:
+    -   remove Rayonix from 188mm to 1100mm (all at once no steps need unless they state it)
+    -   take full screen in eblogger and type \[end of shift\]
+    -   in terminal type \[takepads\]
+    -   copy e-milano message and inset uniname
+
+#### 8/20/2023
+-   Visualize on first diagnostic yag
+    -   PIM DIA
+-   Then visualize on DG1 yag
+    -   DG1 slit width is open 0.85 mm
+-   Z Translation set to 120 mm for TFS
+-   \[python: att(1e-9)\]
+-   Taking pedastals is a way to get background
+**[Samples for Co Kβ]{.ul}**
+
+CoCl2 run 122-126
+
+![A graph on a screen Description automatically
+generated](media/image1.png)
+
+Reduced Cobaloxime run 127-131
+
+![A graph of a graph Description automatically generated with medium
+confidence](media/image2.png)
+
+Oxidized Coblaloxime run 132-136
+
+![A graph of a number of red and blue lines Description automatically
+generated](media/image3.png)
+
+We can compare the CoCl2 counts with the reduced cobaloxime.
+
+#### 8/23/2023
+
+Hydrogenase samples:
+
+Switched the crystals to Ni kα
+
+Then able to run samples (prepared inside the glovebox)
+
+Used commands to run:
+
+To turn on PP and to start run.
diff --git a/docs/DropsDriver.md b/docs/DropsDriver.md
@@ -0,0 +1 @@
+::: dod.DropsDriver