Index: /trunk/doc/release.2015/systematics.20140411/Makefile
===================================================================
--- /trunk/doc/release.2015/systematics.20140411/Makefile	(revision 40303)
+++ /trunk/doc/release.2015/systematics.20140411/Makefile	(revision 40304)
@@ -4,5 +4,5 @@
 # 
 DO_PDFLATEX = 1
-DO_BIBTEX = 0
+DO_BIBTEX = 1
 
 help:
@@ -16,4 +16,12 @@
 # if you have PDF pics, they may need to be converted to EPS
 PDFPICS = \
+pics/dmag.pdf \
+pics/dapmag.pdf \
+pics/all_effects_r.pdf \
+pics/radial_p1_r.pdf \
+pics/radial_p2_r.pdf \
+pics/radial_p3_r.pdf
+
+OLD_PDFPICS = \
 pics/all_effects_r.pdf \
 pics/astrom_trends.pdf \
Index: /trunk/doc/release.2015/systematics.20140411/diffusion.tex
===================================================================
--- /trunk/doc/release.2015/systematics.20140411/diffusion.tex	(revision 40303)
+++ /trunk/doc/release.2015/systematics.20140411/diffusion.tex	(revision 40304)
@@ -15,4 +15,11 @@
 % \RequirePackage{pbox}
 \input{astro.sty}
+
+%\newcommand\oldtext[1]{\color{red}#1}
+%\newcommand\newtext[1]{\textbf{\color{blue}#1}}
+
+\newcommand\oldtext[1]{\textbf{\color{lightgray}#1}
+\newcommand\newtext[1]{\textbf{\color{blue}#1}
+\newcommand\fixtext[1]{\textbf{\color{red}#1}
 
 \usepackage[T1]{fontenc}% (2) specify encoding
@@ -414,9 +421,9 @@
 illustrate the effects in detail, but a similar set of effects are
 seen in many, if not all, of the GPC1 detectors with varying
-strengths.  First, we show the residual PSF photometry.  Second, we
+strengths.  \fixtext{First, we show the residual PSF photometry.  Second, we
 show the residual aperture photometry.  Third, we show the astrometric
 residual patterns.  Fourth, we show the patterns observed in the
 flat-field images.  Finally, we show measurements derived from the
-second-moments of the stars.
+second-moments of the stars.}
 
 For all effects discussed below, we are measuring the mean value of
@@ -509,20 +516,20 @@
 \subsection{Astrometric Residuals}
 
-% astrometry radial term
-\begin{figure*}[htbp]
-\begin{center}
-\parbox[b]{\figwidth}{\includegraphics[width=\figwidth]{\picdir/drad.\plotext}}
-\hspace{\jumpleft}
-\parbox[b]{\capwidth}{
-\caption{Astrometric residuals of the displacement in the radial
-  direction, relative to the chip coordinate -5,4960 (upper left
-  corner), by filter (\grizy).  White boxes are GPC1 cells which have
-  been masked due to poor response.  Superpixels representing regions
-  of $10\times10$ pixels are used to determine the median deviation
-  for measurements at the given chip pixel location compared with the
-  average astrometry for the given
-  object. } \label{fig:astrom.by.filter}}
-\end{center}
-\end{figure*}
+%% % astrometry radial term
+%% \begin{figure*}[htbp]
+%% \begin{center}
+%% \parbox[b]{\figwidth}{\includegraphics[width=\figwidth]{\picdir/drad.\plotext}}
+%% \hspace{\jumpleft}
+%% \parbox[b]{\capwidth}{
+%% \caption{Astrometric residuals of the displacement in the radial
+%%   direction, relative to the chip coordinate -5,4960 (upper left
+%%   corner), by filter (\grizy).  White boxes are GPC1 cells which have
+%%   been masked due to poor response.  Superpixels representing regions
+%%   of $10\times10$ pixels are used to determine the median deviation
+%%   for measurements at the given chip pixel location compared with the
+%%   average astrometry for the given
+%%   object. } \label{fig:astrom.by.filter}}
+%% \end{center}
+%% \end{figure*}
 
 Figure~\ref{fig:astrom.by.filter} shows a similar type of measurement
@@ -557,17 +564,17 @@
 
 % flat-field residual
-\begin{figure*}[htbp]
-\begin{center}
-\parbox[b]{\figwidth}{\includegraphics[width=\figwidth]{\picdir/dflat.\plotext}}
-\hspace{\jumpleft}
-\parbox[b]{\capwidth}{
-\caption{Flat-field high-frequency structues, by filter (\grizy).
-  White boxes are GPC1 cells which have been masked due to poor
-  response.  Flat-field images generated using a tunable laser have
-  been combined (see text); a smoothed version has been subtracted to
-  high-pass the response.  Flat-field pixels are averaged for
-  $10\times10$ superpixels. } \label{fig:flats.by.filter}}
-\end{center}
-\end{figure*}
+%% \begin{figure*}[htbp]
+%% \begin{center}
+%% \parbox[b]{\figwidth}{\includegraphics[width=\figwidth]{\picdir/dflat.\plotext}}
+%% \hspace{\jumpleft}
+%% \parbox[b]{\capwidth}{
+%% \caption{Flat-field high-frequency structues, by filter (\grizy).
+%%   White boxes are GPC1 cells which have been masked due to poor
+%%   response.  Flat-field images generated using a tunable laser have
+%%   been combined (see text); a smoothed version has been subtracted to
+%%   high-pass the response.  Flat-field pixels are averaged for
+%%   $10\times10$ superpixels. } \label{fig:flats.by.filter}}
+%% \end{center}
+%% \end{figure*}
 
 % 2012ApJ...750...99T = Tonry et al PS1 phot system
@@ -621,32 +628,32 @@
 
 % Smear Images
-\begin{figure*}[htbp]
-\begin{center}
-\parbox[b]{\figwidth}{\includegraphics[width=\figwidth]{\picdir/smear.\plotext}}
-\hspace{\jumpleft}
-\parbox[b]{\capwidth}{
-\caption{Average residual smear variations, by filter (\grizy).  White
-  boxes are GPC1 cells which have been masked due to poor response.
-  The residual smear ($\sigma^2_{\mbox{major}} + \sigma^2_{\mbox{minor}}$) has been
-  determined after the after PSF second moments have been subtracted
-  for each image; these values are averaged for each $10\times10$
-  superpixels.  } \label{fig:smear.by.filter}}
-\end{center}
-\end{figure*}
+%% \begin{figure*}[htbp]
+%% \begin{center}
+%% \parbox[b]{\figwidth}{\includegraphics[width=\figwidth]{\picdir/smear.\plotext}}
+%% \hspace{\jumpleft}
+%% \parbox[b]{\capwidth}{
+%% \caption{Average residual smear variations, by filter (\grizy).  White
+%%   boxes are GPC1 cells which have been masked due to poor response.
+%%   The residual smear ($\sigma^2_{\mbox{major}} + \sigma^2_{\mbox{minor}}$) has been
+%%   determined after the after PSF second moments have been subtracted
+%%   for each image; these values are averaged for each $10\times10$
+%%   superpixels.  } \label{fig:smear.by.filter}}
+%% \end{center}
+%% \end{figure*}
 
 % Shear Images
-\begin{figure*}[htbp]
-\begin{center}
-\parbox[b]{\figwidth}{\includegraphics[width=\figwidth]{\picdir/shear.\plotext}}
-\hspace{\jumpleft}
-\parbox[b]{\capwidth}{
-\caption{Average residual shear variations, by filter (\grizy).  White
-  boxes are GPC1 cells which have been masked due to poor response.
-  The residual shear ($\sigma^2_{\mbox{major}} - \sigma^2_{\mbox{minor}}$) has been
-  determined after the after PSF second moments have been subtracted
-  for each image; these values are averaged for each $10\times10$
-  superpixels.  } \label{fig:shear.by.filter}}
-\end{center}
-\end{figure*}
+%% \begin{figure*}[htbp]
+%% \begin{center}
+%% \parbox[b]{\figwidth}{\includegraphics[width=\figwidth]{\picdir/shear.\plotext}}
+%% \hspace{\jumpleft}
+%% \parbox[b]{\capwidth}{
+%% \caption{Average residual shear variations, by filter (\grizy).  White
+%%   boxes are GPC1 cells which have been masked due to poor response.
+%%   The residual shear ($\sigma^2_{\mbox{major}} - \sigma^2_{\mbox{minor}}$) has been
+%%   determined after the after PSF second moments have been subtracted
+%%   for each image; these values are averaged for each $10\times10$
+%%   superpixels.  } \label{fig:shear.by.filter}}
+%% \end{center}
+%% \end{figure*}
 
 During the image analysis, the second moments are measured for all
@@ -793,49 +800,49 @@
 
 % smear trends by filter
-\def\figwidth{6.5in}
-\begin{figure*}[htbp]
-\begin{center}
-\includegraphics[width=\figwidth]{\picdir/smear_trends.\plotext}
-\caption{Correlation of the smear ($\sigma^2_{\mbox{major}} +
-  \sigma^2_{\mbox{minor}}$) signal in \gps\ with the other 4 bands:
-  \rps\ (upper-left),  \ips\ (upper-right), \zps\ (lower-left), \yps\ (lower-right).
-} \label{fig:smear.trends}
-\end{center}
-\end{figure*}
+%% \def\figwidth{6.5in}
+%% \begin{figure*}[htbp]
+%% \begin{center}
+%% \includegraphics[width=\figwidth]{\picdir/smear_trends.\plotext}
+%% \caption{Correlation of the smear ($\sigma^2_{\mbox{major}} +
+%%   \sigma^2_{\mbox{minor}}$) signal in \gps\ with the other 4 bands:
+%%   \rps\ (upper-left),  \ips\ (upper-right), \zps\ (lower-left), \yps\ (lower-right).
+%% } \label{fig:smear.trends}
+%% \end{center}
+%% \end{figure*}
 
 % psfmag trends by filter
-\def\figwidth{6.5in}
-\begin{figure*}[htbp]
-\begin{center}
-\includegraphics[width=\figwidth]{\picdir/psfmag_trends.\plotext}
-\caption{Correlation of the PSF magnitude residuals ($\delta m_{psf}$)
-  in \gps\ with the other 4 bands: \rps\ (upper-left), \ips\
-  (upper-right), \zps\ (lower-left), \yps\ (lower-right).
-} \label{fig:psfmag.trends}
-\end{center}
-\end{figure*}
+%% \def\figwidth{6.5in}
+%% \begin{figure*}[htbp]
+%% \begin{center}
+%% \includegraphics[width=\figwidth]{\picdir/psfmag_trends.\plotext}
+%% \caption{Correlation of the PSF magnitude residuals ($\delta m_{psf}$)
+%%   in \gps\ with the other 4 bands: \rps\ (upper-left), \ips\
+%%   (upper-right), \zps\ (lower-left), \yps\ (lower-right).
+%% } \label{fig:psfmag.trends}
+%% \end{center}
+%% \end{figure*}
 
 % astrom trends by filter
-\def\figwidth{6.5in}
-\begin{figure*}[htbp]
-\begin{center}
-\includegraphics[width=\figwidth]{\picdir/astrom_trends.\plotext}
-\caption{Correlation of the radial astrometric residual displacement ($\delta R$)
-  in \gps\ with the other 4 bands: \rps\ (upper-left), \ips\
-  (upper-right), \zps\ (lower-left), \yps\ (lower-right).
-} \label{fig:astrom.trends}
-\end{center}
-\end{figure*}
+%% \def\figwidth{6.5in}
+%% \begin{figure*}[htbp]
+%% \begin{center}
+%% \includegraphics[width=\figwidth]{\picdir/astrom_trends.\plotext}
+%% \caption{Correlation of the radial astrometric residual displacement ($\delta R$)
+%%   in \gps\ with the other 4 bands: \rps\ (upper-left), \ips\
+%%   (upper-right), \zps\ (lower-left), \yps\ (lower-right).
+%% } \label{fig:astrom.trends}
+%% \end{center}
+%% \end{figure*}
 
 % flat trends by filter
-\def\figwidth{6.5in}
-\begin{figure*}[htbp]
-\begin{center}
-\includegraphics[width=\figwidth]{\picdir/flat_trends.\plotext}
-\caption{Correlation of the flat-field tree-ring structures in \gps\
-  with the other 4 bands: \rps\ (upper-left), \ips\ (upper-right), \zps\
-  (lower-left), \yps\ (lower-right).  } \label{fig:flat.trends}
-\end{center}
-\end{figure*}
+%% \def\figwidth{6.5in}
+%% \begin{figure*}[htbp]
+%% \begin{center}
+%% \includegraphics[width=\figwidth]{\picdir/flat_trends.\plotext}
+%% \caption{Correlation of the flat-field tree-ring structures in \gps\
+%%   with the other 4 bands: \rps\ (upper-left), \ips\ (upper-right), \zps\
+%%   (lower-left), \yps\ (lower-right).  } \label{fig:flat.trends}
+%% \end{center}
+%% \end{figure*}
 
 An important question is the relationship of the tree-ring
@@ -846,4 +853,43 @@
 filter: the radial variations do not all follow the same patterns.
 Instead, we find the following relationships hold:
+
+% tangentially-averaged patterns vs  radial position 
+\def\figwidth{6.5in}
+\begin{figure*}[htbp]
+\begin{center}
+\includegraphics[width=\figwidth]{\picdir/radial_p1_r.\plotext}
+\caption{Correlation of the PSF magnitude residuals ($\delta m_{PSF}$)
+  with the smear ($\sigma^2_{\mbox{major}} + \sigma^2_{\mbox{minor}}$)
+  signal for \gps\ (upper-left), \rps\ (upper-right), \ips\ (lower-left),
+  \zps\ (lower-right).
+} \label{fig:smear.vs.psfmag}
+\end{center}
+\end{figure*}
+
+% tangentially-averaged patterns vs  radial position 
+\def\figwidth{6.5in}
+\begin{figure*}[htbp]
+\begin{center}
+\includegraphics[width=\figwidth]{\picdir/radial_p2_r.\plotext}
+\caption{Correlation of the PSF magnitude residuals ($\delta m_{PSF}$)
+  with the smear ($\sigma^2_{\mbox{major}} + \sigma^2_{\mbox{minor}}$)
+  signal for \gps\ (upper-left), \rps\ (upper-right), \ips\ (lower-left),
+  \zps\ (lower-right).
+} \label{fig:smear.vs.psfmag}
+\end{center}
+\end{figure*}
+
+% tangentially-averaged patterns vs  radial position 
+\def\figwidth{6.5in}
+\begin{figure*}[htbp]
+\begin{center}
+\includegraphics[width=\figwidth]{\picdir/radial_p3_r.\plotext}
+\caption{Correlation of the PSF magnitude residuals ($\delta m_{PSF}$)
+  with the smear ($\sigma^2_{\mbox{major}} + \sigma^2_{\mbox{minor}}$)
+  signal for \gps\ (upper-left), \rps\ (upper-right), \ips\ (lower-left),
+  \zps\ (lower-right).
+} \label{fig:smear.vs.psfmag}
+\end{center}
+\end{figure*}
 
 First, the PSF magnitude residuals and the second-moment smear trends
@@ -893,44 +939,44 @@
 
 % smear vs psfmag
-\def\figwidth{6.5in}
-\begin{figure*}[htbp]
-\begin{center}
-\includegraphics[width=\figwidth]{\picdir/smear_vs_psfmag.\plotext}
-\caption{Correlation of the PSF magnitude residuals ($\delta m_{PSF}$)
-  with the smear ($\sigma^2_{\mbox{major}} + \sigma^2_{\mbox{minor}}$)
-  signal for \gps\ (upper-left), \rps\ (upper-right), \ips\ (lower-left),
-  \zps\ (lower-right).
-} \label{fig:smear.vs.psfmag}
-\end{center}
-\end{figure*}
+%% \def\figwidth{6.5in}
+%% \begin{figure*}[htbp]
+%% \begin{center}
+%% \includegraphics[width=\figwidth]{\picdir/smear_vs_psfmag.\plotext}
+%% \caption{Correlation of the PSF magnitude residuals ($\delta m_{PSF}$)
+%%   with the smear ($\sigma^2_{\mbox{major}} + \sigma^2_{\mbox{minor}}$)
+%%   signal for \gps\ (upper-left), \rps\ (upper-right), \ips\ (lower-left),
+%%   \zps\ (lower-right).
+%% } \label{fig:smear.vs.psfmag}
+%% \end{center}
+%% \end{figure*}
 
 % dsmear vs astrom
-\def\figwidth{6.5in}
-\begin{figure*}[htbp]
-\begin{center}
-\includegraphics[width=\figwidth]{\picdir/dsmear_vs_astrom.\plotext}
-\caption{
-Correlation of the radial astrometric residual displacement ($\delta
-R$) with the derivative of the smear ($\partial
-\sigma^2_{\mbox{major}} + \sigma^2_{\mbox{minor}}$) signal with
-respect to the radial postion for \gps\ (upper-left), \rps\
-(upper-right), \ips\ (lower-left), \zps\ (lower-right).
-} \label{fig:dsmear.vs.astrom}
-\end{center}
-\end{figure*}
+%% \def\figwidth{6.5in}
+%% \begin{figure*}[htbp]
+%% \begin{center}
+%% \includegraphics[width=\figwidth]{\picdir/dsmear_vs_astrom.\plotext}
+%% \caption{
+%% Correlation of the radial astrometric residual displacement ($\delta
+%% R$) with the derivative of the smear ($\partial
+%% \sigma^2_{\mbox{major}} + \sigma^2_{\mbox{minor}}$) signal with
+%% respect to the radial postion for \gps\ (upper-left), \rps\
+%% (upper-right), \ips\ (lower-left), \zps\ (lower-right).
+%% } \label{fig:dsmear.vs.astrom}
+%% \end{center}
+%% \end{figure*}
 
 % dastrom vs flat
-\def\figwidth{6.5in}
-\begin{figure*}[htbp]
-\begin{center}
-\includegraphics[width=\figwidth]{\picdir/dastrom_vs_flat.\plotext}
-\caption{
-Correlation of the derivative of the radial astrometric residual
-displacement ($\delta R$) with respect to the radial position with the
-flat-field tree-ring signal for \gps\ (upper-left), \rps\ (upper-right),
-\ips\ (lower-left), \zps\ (lower-right).
-} \label{fig:dastrom.vs.flat}
-\end{center}
-\end{figure*}
+%% \def\figwidth{6.5in}
+%% \begin{figure*}[htbp]
+%% \begin{center}
+%% \includegraphics[width=\figwidth]{\picdir/dastrom_vs_flat.\plotext}
+%% \caption{
+%% Correlation of the derivative of the radial astrometric residual
+%% displacement ($\delta R$) with respect to the radial position with the
+%% flat-field tree-ring signal for \gps\ (upper-left), \rps\ (upper-right),
+%% \ips\ (lower-left), \zps\ (lower-right).
+%% } \label{fig:dastrom.vs.flat}
+%% \end{center}
+%% \end{figure*}
 
 \section{Discussion}
@@ -1166,6 +1212,6 @@
 
 \bibliographystyle{apj}
-%\bibliography{lib}{}
-\input{diffusion.bbl}
+\bibliography{lib}{}
+%\input{diffusion.bbl}
 
 \end{document}
