2018-04-23 08:42

4 files changed, 170 insertions, 60 deletions

diff --git a/presentation.pdf b/presentation.pdf
index 21127c0..af0180f 100644
--- a/presentation.pdf
+++ b/presentation.pdf
diff --git a/presentation.tex b/presentation.tex
index 2ba5308..57a4094 100644
--- a/presentation.tex
+++ b/presentation.tex
@@ -13,15 +13,11 @@
 \begin{frame}{Introduction to CMDS}

   \begin{columns}

     \begin{column}{0.6\textwidth}

-      \includegraphics[width=\textwidth]{literature/MukamelShaul2009a_1}

-      \vspace{2\baselineskip} \\

+      \adjincludegraphics[scale=0.2]{presentation/SK_PhDThesis_fsTable-Overview} \\

       \tiny

-      Figure: \\

-      Mukamel, S., Tanimura, Y. and Hamm, P. (2009).

-      Coherent Multidimensional Optical Spectroscopy.

-      Accounts of Chemical Research, 42(9), pp.1207-1209.

-  \end{column}

-  \begin{column}{0.4\textwidth}

+      Figure courtesy of Schuyler Kain

+    \end{column}

+    \begin{column}{0.4\textwidth}

       \includegraphics[width=\textwidth]{"literature/BrownEmilyJ1999a_1"}

       \centering

       \\

@@ -36,12 +32,6 @@
   \end{columns}

 \end{frame}

 

-\begin{frame}{Introduction to CMDS: table layout}

-  \adjincludegraphics[scale=0.2]{presentation/SK_PhDThesis_fsTable-Overview} \\

-  \tiny

-  Figure courtesy of Schuyler Kain

-\end{frame}

-

 \begin{frame}{Introduction to CMDS: microscopic picture}

   \adjincludegraphics[width=\textwidth]{"mixed_domain/simulation overview"}

 \end{frame}

@@ -49,35 +39,49 @@
 \begin{frame}{Diversity}

   Great diversity of experimental strategies under the ``umbrella'' of CMDS:

   \vspace{\baselineskip} \\

-  Experimental geometry...

-  \begin{itemize}

-    \item $\vec{k_a} - \vec{k_b} + \vec{k_c}$

-    \item $\vec{k_a} + \vec{k_b} + \vec{k_c}$

-    \item $\vec{k_a} - \vec{k_a} + \vec{k_b} + \vec{k_c} + \vec{k_d}$

-  \end{itemize}

-  \vspace{\baselineskip}

-  Dimensions explored...

-  \begin{itemize}

-    \item MIR \& visible: DOVE, TRSF

-    \item fully visible: TREE, CARS

-    \item frequency-frequency: 2DES/2DIR, ``Resonant-(Raman/IR)''

-    \item frequency-delay: TG, TA

-    \item delay-delay: 3PE, MUPPETS

-  \end{itemize}

+  \begin{columns}

+    \begin{column}{0.5\textwidth}

+      Experimental geometry...

+      \begin{itemize}

+        \item $\vec{k_a} - \vec{k_b} + \vec{k_c}$

+        \item $\vec{k_a} + \vec{k_b} + \vec{k_c}$

+        \item $\vec{k_a} - \vec{k_a} + \vec{k_b} + \vec{k_c} + \vec{k_d}$

+      \end{itemize}

+    \end{column}

+    \begin{column}{0.5\textwidth}

+      Dimensions explored...

+      \begin{itemize}

+        \item MIR \& visible: DOVE, TRSF

+        \item fully visible: TREE, CARS

+        \item frequency-frequency: 2DES/2DIR, ``Resonant-(Raman/IR)''

+        \item frequency-delay: TG, TA

+        \item delay-delay: 3PE, MUPPETS

+      \end{itemize}

+    \end{column}

+  \end{columns}

+  \vphantom{m} \\

   Or 3D.. or 4D: many possibilities not yet popular enough to name  

   % SAY: based on the same basic ability to scan pulses in frequency, delay etc

+  %   all possible with one instrument

+  %   each has been focus of entire careers...

 \end{frame}

 

-\begin{frame}{Pipeline}

-  \adjincludegraphics[width=0.5\textwidth]{presentation/pipe}

-  What does the ``pipeline'' of MR-CMDS data acquisition and processing look like in the Wright

-  Group?

-  \vspace{\baselineskip} \\

-  How to increase data throughput and quality, while decreasing frustration of experimentalists?  %

-\end{frame}

-

-\begin{frame}{MR-CMDS development}

-  [SUMMARY SLIDE FOR REMAINDER OF PRESENTATION]

+\begin{frame}{My focus}

+  Focus on the \emph{pipeline} of CMDS:

+  \begin{itemize}

+    \item throughput

+    \item quality

+    \item diversity

+  \end{itemize}

+  \vphantom{M} \\

+  Unlock the true potential of these instruments:

+  \begin{itemize}

+    \item automated calibration

+    \item 2D, 3D, 4D...

+    \item full diversity of possible hardware combinations, rapid development

+    \item powerful and flexible detection strategies

+    \item data processing tools

+  \end{itemize}

 \end{frame}

 

 \section{Tunability}  % ===========================================================================

@@ -131,17 +135,17 @@
       Crucial for electronic states, band structure.

     \end{column}

   \end{columns}

+  % SAY:

+  % - time domain: broadband, interferometric, fast

+  % - frequency domain: narrowband, direct, slow but broad bandwidth

+  % - bandwidth crucial for exploring diverse states

 \end{frame}

 

 \begin{frame}{Bandwidth}

   A lot more bandwidth... through the usage of OPAs

   \adjincludegraphics[width=\textwidth]{opa/OPA_ranges}

-\end{frame}

-

-\begin{frame}{TOPAS-C}

-  One of four models of OPAs used within the Wright Group.

-  \includegraphics[width=\textwidth]{opa/TOPAS-C}

-  Two ``stages'', each with two motorized optics.

+  \phantom{M} \hfill but how to make this strategy easy and \hl{robust}?

+  % SAY: previous spectrum was SHS

   % SAY: crystal angle, temporal and spatial overlap

 \end{frame}

 

@@ -154,15 +158,16 @@
       Fully automated OPA tuning

       \begin{itemize}

         \item less than 1 hour per OPA

-        \item can be scheduled for odd times

+        \item can be scheduled during down time

         \item high quality from global analysis 

         \item reproducible

-        \item unambiguous representations automatically generated

+        \item unambiguous representations automatically generated to assess health

       \end{itemize}

       \vspace{\baselineskip}

-      Other calibration steps also automated.

+      Other calibration also needed, automated.

     \end{column}

   \end{columns}

+  % SAY: one example for one stage in one model of OPA (out of four in WG)

 \end{frame}

 

 \section{Acquisition}  % ==========================================================================

@@ -230,7 +235,7 @@
 

 \section{Measurement enhancements}  % =============================================================

 

-\begin{frame}{Artifacts}

+\begin{frame}{Measurement enhancements}

   \centering \huge

   Measurement enhancements

 \end{frame}

@@ -247,12 +252,15 @@
     \end{column}

   \end{columns}

   \vphantom{M} \\

-  More flexibility:

   \begin{itemize}

-    \item shot-level statistics

-    \item more complex multi-pulse sequences allowed for

+    \item cheaper, fewer points of failure

+    \item more flexibility for different detector configurations

+    \item shot-level statistics, processing sequences

+    \begin{itemize}

+      \item configurable through simple python script

+    \end{itemize}

+    \item $\sim3\times$ faster

   \end{itemize}

-  plus... no need to wait for the boxcar averager to settle (speed up of $\sim3\times$)  

 \end{frame}

 

 \begin{frame}{Dual chopping}

@@ -272,16 +280,21 @@
   \end{columns}

   \centering

   \vphantom{M}

-  $\mathsf{I_{signal} = A - B + C - D}$

+  $\mathsf{I_{signal} = A - B + C - D}$ \\

+  \phantom{M} \\

+  \raggedright

+  Isolate signal that depends on \emph{all} indecent beams.

   \begin{itemize}

     \item{no scatter}

-    \item{no two-beam processes}

+    \item{no competing signals}  % e.g. 2k1+k3 vs k1+k2+k3

     \item{no voltage offset or room lights}

   \end{itemize}

 \end{frame}

 

 \begin{frame}{Digital processing}

-  \adjincludegraphics[height=3in]{MX2/11}

+  \adjincludegraphics[width=\textwidth]{presentation/chopped}

+  % SAY: this is a GOOD example

+  % - we now regularly extract signals that would be completely invisible on the 'detected' side

 \end{frame}

 

 \section{Processing}  % ===========================================================================

@@ -312,6 +325,7 @@
       \adjincludegraphics[width=\textwidth]{presentation/TOC}

     \end{column}

   \end{columns}

+  % SAY: multidimensional includes > 2 dimensions

 \end{frame}

 

 \subsection{Universal format}  % ------------------------------------------------------------------

@@ -326,6 +340,7 @@
   \begin{itemize}

     \item previous Wright Group acquisition software

     \item commercial instruments (JASCO, Shimadzu, Ocean Optics)

+    \item simulation packages

   \end{itemize}

 \end{frame}

 

@@ -334,19 +349,42 @@
 \begin{frame}{Flexible data model}

   Flexibility to transform into any desired ``projection'' on component variables.

   \adjincludegraphics[width=\textwidth]{processing/fringes_transform}

-  % mention: including expressions

+  % SAY: 'derived dimensionality' - DJM

+  % - including expressions

 \end{frame}

 

-\subsection{Integrations}  % -----------------------------------------------------------------------

+\subsection{Integrations}  % ----------------------------------------------------------------------

 

 \begin{frame}{Integrations}

-  \adjincludegraphics[height=3in]{PbSe_global_analysis/movies_fitted}

+  \begin{columns}

+    \begin{column}{0.6\textwidth}

+      \adjincludegraphics[width=\textwidth]{PbSe_global_analysis/movies_fitted}

+    \end{column}

+    \begin{column}{0.4\textwidth}

+      \begin{itemize}

+        \item WrightTools as a backend

+        \item puts models and experiments on the same footing

+        \item makes custom modeling work easier

+        \item more general-purpose modeling coming soon

+      \end{itemize}

+    \end{column}

+  \end{columns}

 \end{frame}

 

 \section{Conclusion}  % ===========================================================================

 

 \begin{frame}{Conclusion}

-  [CONCLUSION]

+  \begin{columns}

+    \begin{column}{0.5\textwidth}

+      \adjincludegraphics[height=1.5in]{opa/autotune_preamp}

+      \adjincludegraphics[width=\textwidth]{acquisition/screenshots/000}

+    \end{column}

+    \begin{column}{0.5\textwidth}

+      \adjincludegraphics[width=\textwidth]{presentation/chopped}

+      \phantom{M}

+      \adjincludegraphics[width=\textwidth]{processing/fringes_transform}

+    \end{column}

+  \end{columns}

 \end{frame}

 

 \begin{frame}{Acknowledgments}

@@ -384,6 +422,8 @@
         \item Steve Myers

       \end{itemize}

       \phantom{M}

+      Friends and family \\

+      \phantom{M} \\

       You, the audience!

       \hl{Questions?}

     \end{column}

@@ -392,6 +432,12 @@
   

 \section{Supplement}  % ===========================================================================

 

+\begin{frame}{TOPAS-C}

+  One of four models of OPAs used within the Wright Group.

+  \includegraphics[width=\textwidth]{opa/TOPAS-C}

+  Two ``stages'', each with two motorized optics.

+\end{frame}

+

 \begin{frame}{Tuning}

   % TODO: curve plot?

   Tuning curves---recorded correspondence between motor positions and output color.

diff --git a/presentation/chopped.png b/presentation/chopped.png
new file mode 100644
index 0000000..ba3dcfd
--- /dev/null
+++ b/presentation/chopped.png
diff --git a/presentation/chopped.py b/presentation/chopped.py
new file mode 100644
index 0000000..7878b99
--- /dev/null
+++ b/presentation/chopped.py
@@ -0,0 +1,64 @@
+"""Bandwidth comparison between Singh & Czech."""
+
+
+# --- import --------------------------------------------------------------------------------------
+
+
+import os
+
+import numpy as np
+
+import matplotlib.pyplot as plt
+import matplotlib.patches as patches
+
+import WrightTools as wt
+from WrightTools import datasets
+
+
+# --- define --------------------------------------------------------------------------------------
+
+
+here = os.path.abspath(os.path.dirname(__file__))
+
+
+# --- workspace -----------------------------------------------------------------------------------
+
+
+fig, gs = wt.artists.create_figure(width='double', cols=[1, 1, 'cbar'])
+
+# get data
+ps = datasets.COLORS.v2p1_MoS2_TrEE_movie
+data = wt.data.from_COLORS(ps)
+data.convert('eV', convert_variables=True)
+data.ai0.signed = False
+data.ai0.clip(min=0, replace='value')
+data.level(0, 2, -4)
+data = data.chop('w1=wm', 'w2', at={'d2': [-80, 'fs']})[0]
+
+# decoration
+def decorate(ax):
+    ax.grid()
+    wt.artists.diagonal_line()
+
+# detector sees
+ax = plt.subplot(gs[0, 0])
+ax.pcolor(data, channel='ai4')
+ax.set_title('detected', fontsize=20)
+decorate(ax)
+
+# chopped
+ax = plt.subplot(gs[0, 1])
+ax.pcolor(data, channel='ai0')
+ax.set_title('chopped', fontsize=20)
+decorate(ax)
+
+# label
+wt.artists.set_fig_labels(xlabel=data.w1__e__wm.label, ylabel=data.w2.label)
+
+# colorbar
+cax = plt.subplot(gs[0, -1])
+wt.artists.plot_colorbar(cax=cax, label='intensity')
+
+# save
+p = os.path.join(here, 'chopped.png')
+wt.artists.savefig(p)