ELogs/SaadShaikh

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== To Do ==
== To Do ==
-
=== High Priority ===
+
''Last updated 09/10/20''
-
*Add information to PBT Wiki
+
*'''FPGA programming'''
-
** Analysis routines to fit Bortfeld and quenched Bortfeld Bragg curves to simulated data.
+
**Calculate photodiode charge uncertainty.
-
** How to take data with scintillator stack coupled to CMOS sensor.
+
**Output data via USB 2.0 using Nexys Video.
-
** Analysis routines for data taken from scintillator stack.
+
**Boot via SD card.
 +
**Remotely toggle switches.
 +
*'''Data analysis'''
 +
**Shift HIT PDLs by WEPL of accelerator components/air and implement adaptive alpha/p calculation.
 +
**Add information to PBT Wiki on how to take and analyse simulated and telescope data.
 +
*'''Detector simulation'''
 +
**Reinstall GEANT4 with correct Qt5 usage to fix visualisation bug in MacOS Catalina.
 +
**Rebuild Laurent's QuARC simulation to fix bugs and enable multi-threading.
 +
**Improve accuracy of optical properties.
 +
*'''Heavy-ion fitting'''
 +
**Acquire HIT FLUKA tables for He, C and O beams.
 +
**Re-read relevant papers and implement Kramer's model for protons.
 +
**Implement Kramer's model for helium ions using cross-section formulae in Kramer 2016.
 +
**Implement Kramer's model for carbon ions: get in touch with Lenny or Kramer to discuss how to obtain cross-section data.
-
=== Low Priority ===
+
== Dates 2020 ==
-
* Investigate FPGAs.
+
-
== Completed ==
+
{| class="wikitable"
 +
! style="text-align: center;" | Date
 +
! style="text-align: center;" | Event
 +
|-
 +
|}
 +
 
 +
==PhD Year 1 Completed==
 +
*Review of literature given by Laurent
 +
*Delivered MSci presentation to PG Physics Society.
 +
*Set up environment in Eclipse for analysis code to fit Bortfeld and quenched Bortfeld Bragg curves to simulated data and data from range telescope.
 +
**Tested analysis routines on simulated and raw data.
 +
*HEP PG courses in term 1: SM1, SM2 & topics in particle physics.
 +
*Medical physics course in term 1: Treatment with Ionising Radiation.
 +
*Passed Standard Model exams: 80% SM1 and 48% SM2.
 +
*Analysis of effects of beam spot size on range reconstruction from April 2019 HIT data, also with photodiode approximation. Results shown in [http://www.hep.ucl.ac.uk/pbt/wikiData/presentations/2020/SS240220_SpotSizeEffects.pptx this presentation]
 +
*Medical physics courses in term 2: Radiotherapy Physics & Medical Imaging with Ionising Radiation.
 +
*Installed GEANT4 locally on MacOS High Sierra and Catalina, set up environment in Eclipse.
 +
**Can successfully run simulation of range telescope with different parameters and analyse output data.
 +
*Fully implemented Laurent's analysis code and made improvements for better code practice, better parameter estimation and started framework for He and C fitting.
 +
*Analysis of performance of quenched Bortfeld model with heavy ions, results shown in  [http://www.hep.ucl.ac.uk/pbt/wikiData/presentations/2020/SS150420_HeavyIonFitting.pptx this presentation]
 +
*Analysis of SOBP data, results shown in [http://www.hep.ucl.ac.uk/pbt/wikiData/presentations/2020/SS060520_SOBPFit.pptx this presentation]
 +
*Preliminary testing of 2nd order Birks' Law, results shown in [http://www.hep.ucl.ac.uk/pbt/wikiData/presentations/2020/SS200520_BirksLaw.pptx this presentation]
 +
*Presented on I/O signals and operation of TI DDC232CK based on datasheet information. Slides available [http://www.hep.ucl.ac.uk/pbt/wikiData/presentations/2020/SS090620_DDC232.pptx here].
 +
*Wrote code to interface FPGA with DDC232 and tested in simulation. Results of simulation discussed [http://www.hep.ucl.ac.uk/pbt/wikiData/presentations/2020/SS080720_DDC232_SIM.pptx here].
 +
*Interfaced DDC232 code with a UART transmitter, discussed UART interface in [http://www.hep.ucl.ac.uk/pbt/wikiData/presentations/2020/SS150720_UART_SIM.pptx this presentation].
 +
*DDC232 code operational, first tests discussed in [http://www.hep.ucl.ac.uk/pbt/wikiData/presentations/2020/SS220720_DDC232_TEST.pptx this presentation].
 +
*Implemented further features in DDC232 design, demo given in [http://www.hep.ucl.ac.uk/pbt/wikiData/presentations/2020/SS290720_DDC232_DEMO.pptx this presentation].
 +
*Added FIFO between DDC232 and UART transmitter and wrote ROOT macro to plot live photodiode data being saved by CoolTerm on MacOS.
 +
*Wrote PBT Wiki pages on [http://www.hep.ucl.ac.uk/pbt/wiki/Proton_Calorimetry/Equipment/ZyboZ7_DDC232 Zybo Z7 and DDC232] and [http://www.hep.ucl.ac.uk/pbt/wiki/Proton_Calorimetry/Detector_Analysis QuARC Data Analysis].
 +
*Implemented readout before and after CONV toggles in FPGA design, to access shortest possible DDC232 integration times.
 +
*Submitted transfer report.
 +
*Delivered [http://www.hep.ucl.ac.uk/pbt/wikiData/presentations/2020/SS300920_Transfer.pptx transfer talk].
 +
*Completed transfer mini-viva and passed Upgrade.
 +
*Ported FPGA design to Nexys Video.
 +
 
 +
== MSci Completed ==
* Literature review.
* Literature review.
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* Attended PPRIG 2019.
* Attended PPRIG 2019.
* Completed MSci Final report.
* Completed MSci Final report.
 +
* Delivered presentation on project.
* Attended PTCOG 2019.
* Attended PTCOG 2019.
-
 
-
== Dates 2019 ==
 
-
 
-
{| class="wikitable"
 
-
! style="text-align: center;" | Date
 
-
! style="text-align: center;" | Event
 
-
|-
 
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| style="text-align: center;" | 22/03
 
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| style="text-align: center;" | Final Report Deadline
 
-
|-
 
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| style="text-align: center;" | 03/06-07/06
 
-
| style="text-align: center;" | MSci Presentation Week
 
-
|}
 

Latest revision as of 10:34, 9 October 2020

Electronic Log for Saad Shaikh

Contents

To Do

Last updated 09/10/20

  • FPGA programming
    • Calculate photodiode charge uncertainty.
    • Output data via USB 2.0 using Nexys Video.
    • Boot via SD card.
    • Remotely toggle switches.
  • Data analysis
    • Shift HIT PDLs by WEPL of accelerator components/air and implement adaptive alpha/p calculation.
    • Add information to PBT Wiki on how to take and analyse simulated and telescope data.
  • Detector simulation
    • Reinstall GEANT4 with correct Qt5 usage to fix visualisation bug in MacOS Catalina.
    • Rebuild Laurent's QuARC simulation to fix bugs and enable multi-threading.
    • Improve accuracy of optical properties.
  • Heavy-ion fitting
    • Acquire HIT FLUKA tables for He, C and O beams.
    • Re-read relevant papers and implement Kramer's model for protons.
    • Implement Kramer's model for helium ions using cross-section formulae in Kramer 2016.
    • Implement Kramer's model for carbon ions: get in touch with Lenny or Kramer to discuss how to obtain cross-section data.

Dates 2020

Date Event

PhD Year 1 Completed

  • Review of literature given by Laurent
  • Delivered MSci presentation to PG Physics Society.
  • Set up environment in Eclipse for analysis code to fit Bortfeld and quenched Bortfeld Bragg curves to simulated data and data from range telescope.
    • Tested analysis routines on simulated and raw data.
  • HEP PG courses in term 1: SM1, SM2 & topics in particle physics.
  • Medical physics course in term 1: Treatment with Ionising Radiation.
  • Passed Standard Model exams: 80% SM1 and 48% SM2.
  • Analysis of effects of beam spot size on range reconstruction from April 2019 HIT data, also with photodiode approximation. Results shown in this presentation
  • Medical physics courses in term 2: Radiotherapy Physics & Medical Imaging with Ionising Radiation.
  • Installed GEANT4 locally on MacOS High Sierra and Catalina, set up environment in Eclipse.
    • Can successfully run simulation of range telescope with different parameters and analyse output data.
  • Fully implemented Laurent's analysis code and made improvements for better code practice, better parameter estimation and started framework for He and C fitting.
  • Analysis of performance of quenched Bortfeld model with heavy ions, results shown in this presentation
  • Analysis of SOBP data, results shown in this presentation
  • Preliminary testing of 2nd order Birks' Law, results shown in this presentation
  • Presented on I/O signals and operation of TI DDC232CK based on datasheet information. Slides available here.
  • Wrote code to interface FPGA with DDC232 and tested in simulation. Results of simulation discussed here.
  • Interfaced DDC232 code with a UART transmitter, discussed UART interface in this presentation.
  • DDC232 code operational, first tests discussed in this presentation.
  • Implemented further features in DDC232 design, demo given in this presentation.
  • Added FIFO between DDC232 and UART transmitter and wrote ROOT macro to plot live photodiode data being saved by CoolTerm on MacOS.
  • Wrote PBT Wiki pages on Zybo Z7 and DDC232 and QuARC Data Analysis.
  • Implemented readout before and after CONV toggles in FPGA design, to access shortest possible DDC232 integration times.
  • Submitted transfer report.
  • Delivered transfer talk.
  • Completed transfer mini-viva and passed Upgrade.
  • Ported FPGA design to Nexys Video.

MSci Completed

  • Literature review.
  • First Birmingham experimental run.
  • Wrote code to load and plot Caen digitiser data in histograms.
  • Overhauled LeCroy data analysis routines: (short region) double baseline sigma testing, dynamic integration window allocation, empty acquisition checks.
  • Wrote code to scale and plot LeCroy & Caen data onto single plot, using approximate x and y-scale factors.
  • Wrote code to load and plot PRaVDA data in 2D histograms.
  • Wrote code to correlate tracker and calorimeter measurements, to produce a list of events with X, Y, E coordinates.
  • Wrote code to plot matched events into various 3D histograms: XY, XE, YE.
  • Progress report.
  • Progress interview.
  • Improved LeCroy & Caen matching by finding x-scale factor through chi-square minimisation.
  • All runs from first Birmingham put through matching algorithm. Energy spectra, 2D tracker histograms, and 3D XY, XE & YE histograms plotted for all runs (187 plots).
  • Wrote code to plot 3D XY histograms, but with the height of bars being the average energy in the bin.
  • Improved LeCroy & Caen matching by finding y-scale factor through chi-square minimisation or through peak event counting. Peak event counting method best.
  • Converted energy to range in XYE histogram.
  • Plotted 2D number density histogram alongside 3D XYRange histogram.
  • Produced poster for PPRIG 2019 of experiment with single-module calorimeter and PRaVDA tracker.
  • Attended PPRIG 2019.
  • Completed MSci Final report.
  • Delivered presentation on project.
  • Attended PTCOG 2019.
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