From: W. Trevor King <wking@tremily.us>
Date: Mon, 27 May 2013 22:04:52 +0000 (-0400)
Subject: Add histograms comparing PBS unfolding with PBS + 0.5 M CaCl2
X-Git-Tag: thesis-v1.0~15
X-Git-Url: http://git.tremily.us/?a=commitdiff_plain;h=64dfefa6b45dbcd79567b847bda860e8cae4f209;p=reveal.js.git

Add histograms comparing PBS unfolding with PBS + 0.5 M CaCl2

These are the histograms (and the unfolding force series from which
they are constructed) used in the sawsim fits on the following slide.
`diff --git a/Makefile b/Makefile
index 3e7e510..6fa0f2c 100644
--- a/Makefile
+++ b/Makefile
@@ -53,7 +53,8 @@ THUMBNAILS = \
 	$(DEST)/fit-valley-fw-fh.png \
 	$(DEST)/1TIT-hbond-fw-fh.png \
 	$(DEST)/fit-valley-PBS-hw-hh.png \
-	$(DEST)/fit-valley-PBS-0.5M-CaCl2-hw-hh.png
+	$(DEST)/fit-valley-PBS-0.5M-CaCl2-hw-hh.png \
+	$(DEST)/pbs-0.5M-CaCl2-hist-fw-fh.png

 #	$(DEST)/landscape-cant-hw-hh.png
---

diff --git a/Makefile b/Makefile
index 3e7e510..6fa0f2c 100644
--- a/Makefile
+++ b/Makefile
@@ -53,7 +53,8 @@ THUMBNAILS = \
 	$(DEST)/fit-valley-fw-fh.png \
 	$(DEST)/1TIT-hbond-fw-fh.png \
 	$(DEST)/fit-valley-PBS-hw-hh.png \
-	$(DEST)/fit-valley-PBS-0.5M-CaCl2-hw-hh.png
+	$(DEST)/fit-valley-PBS-0.5M-CaCl2-hw-hh.png \
+	$(DEST)/pbs-0.5M-CaCl2-hist-fw-fh.png
 
 #	$(DEST)/landscape-cant-hw-hh.png
 
diff --git a/index.html.itex b/index.html.itex
index 8d7e7cd..4f5c7bf 100644
--- a/index.html.itex
+++ b/index.html.itex
@@ -834,6 +834,12 @@ index 60741c6..e76b118 100644
 							<img src="media/build/1TIT-hbond-fw-fh.png" />
 						</p>
 					</section>
+					<section>
+						<h2>Salt: Reduced stability in CaCl₂</h2>
+						<p>
+							<img src="media/build/pbs-0.5M-CaCl2-hist-fw-fh.png" />
+						</p>
+					</section>
 					<section>
 						<h2>Salt: Sawsim fits</h2>
 						<p>
diff --git a/media/src/asy/pbs-0.5M-CaCl2-hist.asy b/media/src/asy/pbs-0.5M-CaCl2-hist.asy
new file mode 100644
index 0000000..9fada9f
--- /dev/null
+++ b/media/src/asy/pbs-0.5M-CaCl2-hist.asy
@@ -0,0 +1,22 @@
+import wtk_graph;
+
+
+size(6cm, 4cm, IgnoreAspect);
+
+scale(Linear, Log);
+real fscale=1e12;
+
+pen p_pbs = blue;
+pen p_CaCl = red;
+
+histFile("pbs.hist", bin_scale=fscale, fillpen=(p_pbs+opacity(0.3)),
+    drawpen=p_pbs);
+histFile("pbs-0.5M-CaCl2.hist", bin_scale=fscale,
+    fillpen=(p_CaCl+opacity(0.3)), drawpen=p_CaCl);
+
+//set xrange [100:400]
+//#set yrange [0.0001:1]
+//xlimits(pic, xmin, xmax);
+//ylimits(pic, ymin, ymax);
+xaxis(sLabel("Force (pN)"), BottomTop, LeftTicks, above=true);
+yaxis(sLabel("Frequency"), LeftRight, RightTicks, above=true);
diff --git a/media/src/asy/pbs-0.5M-CaCl2.dat b/media/src/asy/pbs-0.5M-CaCl2.dat
new file mode 100644
index 0000000..a11f317
--- /dev/null
+++ b/media/src/asy/pbs-0.5M-CaCl2.dat
@@ -0,0 +1,257 @@
+2.24069714089e-10
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diff --git a/media/src/asy/pbs-0.5M-CaCl2.hist b/media/src/asy/pbs-0.5M-CaCl2.hist
new file mode 100644
index 0000000..9c925ad
--- /dev/null
+++ b/media/src/asy/pbs-0.5M-CaCl2.hist
@@ -0,0 +1,20 @@
+#HISTOGRAM: -v 1e-6
+# (stock PBS + 0.5M CaCl2)
+#Force (N)	Unfolding events
+8e-11	6
+1e-10	15
+1.2e-10	19
+1.4e-10	36
+1.6e-10	43
+1.8e-10	47
+2e-10	31
+2.2e-10	35
+2.4e-10	10
+2.6e-10	3
+2.8e-10	7
+3e-10	2
+3.2e-10	0
+3.4e-10	1
+3.6e-10	1
+3.8e-10	0
+4e-10	1
diff --git a/media/src/asy/pbs-hist.asy b/media/src/asy/pbs-hist.asy
index 8603a09..bc8cee3 100644
--- a/media/src/asy/pbs-hist.asy
+++ b/media/src/asy/pbs-hist.asy
@@ -6,10 +6,10 @@ size(6cm, 4cm, IgnoreAspect);
 scale(Linear, Log);
 real fscale=1e12;
 
-pen p = psoft;
+pen p_pbs = blue;
 
-histFile("pbs-hist.hist", bin_scale=fscale, fillpen=(p+opacity(0.3)),
-    drawpen=p);
+histFile("pbs.hist", bin_scale=fscale, fillpen=(p_pbs+opacity(0.3)),
+    drawpen=p_pbs);
 
 //set xrange [100:400]
 //#set yrange [0.0001:1]
diff --git a/media/src/asy/pbs-hist.dat b/media/src/asy/pbs.dat
similarity index 100%
rename from media/src/asy/pbs-hist.dat
rename to media/src/asy/pbs.dat
diff --git a/media/src/asy/pbs-hist.hist b/media/src/asy/pbs.hist
similarity index 73%
rename from media/src/asy/pbs-hist.hist
rename to media/src/asy/pbs.hist
index a037bbc..10e01fb 100644
--- a/media/src/asy/pbs-hist.hist
+++ b/media/src/asy/pbs.hist
@@ -1,3 +1,6 @@
+#HISTOGRAM: -v 1e-6
+# (stock PBS)
+#Force (N)	Unfolding events
 4e-11	1
 6e-11	1
 8e-11	4