Version 1.1

README.rst

@@ -8,7 +8,7 @@ Nanometer-scale pores have demonstrated potential use in biotechnology applicati
 
 **If you use MOSAIC in your work, please cite:**
 
-A. Balijepalli, J., Ettedgui, A. T. Cornio, J. W. F. Robertson K. P. Cheung, J. J. Kasianowicz & C. Vaz, "`Quantifying Short-Lived Events in Multistate Ionic Current Measurements. <http://pubs.acs.org/doi/abs/10.1021/nn405761y>`_" *ACS Nano* 2014, **8**, 1547–1553.
+\A. Balijepalli, J., Ettedgui, A. T. Cornio, J. W. F. Robertson K. P. Cheung, J. J. Kasianowicz & C. Vaz, "`Quantifying Short-Lived Events in Multistate Ionic Current Measurements. <http://pubs.acs.org/doi/abs/10.1021/nn405761y>`_" *ACS Nano* 2014, **8**, 1547–1553.
 
 
 Installation
@@ -25,6 +25,13 @@ You can `contact MOSAIC developers <http://www.nist.gov/cgi-bin/wwwph/cso.nist.g
 Change Log
 =================================
 
+**v1.1**
+
+- [Addons] IGOR_ support.
+- PyPi package automatically installs MOSAIC dependencies.
+- Miscellaneous bug fixes.
+- *Known Issues:* See #8 and #10.
+
 **v1.0**
 
 - Fixed a bug in multistate code that constrained the RC constant resulting in systematic fitting errors (pull request #25).

data/README.rst

@@ -0,0 +1,51 @@
+PEG 28 Reference Data
+=================================
+
+Sample
+----------------------------
+
+Analyte: PEG28, PolyPure Norway
+Electrolyte: 4 M KCl, 10 mM TRIS, pH 7.0
+
+Instrumentation
+----------------------------
+
+Electronic Biosciences AC Amplifier
+Bandwidth=100 kHz
+Sampling Frequency=500 kHz
+
+Analysis
+----------------------------
+
+Algorithm: MOSAIC StepResponse
+OutputDB: eventMD-PEG28-Reference.sqlite
+Settings:
+
+{
+    "stepResponseAnalysis": {
+        "FitTol": 1e-07,
+        "BlockRejectRatio": 0.9,
+        "FitIters": 50000
+    },
+    "qdfTrajIO": {
+        "filter": "*.qdf",
+        "start": 0.0,
+        "Cfb": 1.07e-12,
+        "dcOffset": 0.0,
+        "Rfb": 9100000000.0
+    },
+    "eventSegment": {
+        "meanOpenCurr": -1.0,
+        "slopeOpenCurr": -1.0,
+        "eventPad": 50,
+        "driftThreshold": 999.0,
+        "maxDriftRate": 999.0,
+        "eventThreshold": 3.9373285666187976,
+        "writeEventTS": 1,
+        "minEventLength": 5,
+        "sdOpenCurr": -1.0,
+        "reserveNCPU": 3,
+        "parallelProc": 0,
+        "blockSizeSec": 0.5
+    }
+}

mosaic/settings.py

@@ -91,13 +91,12 @@ def getSettings(self, section):
 		},
 		"stepResponseAnalysis" : {
 			"FitTol"				: "1.e-7",
-			"FitIters"				: "50000",
-			"BlockRejectRatio"		: "0.9"
+			"FitIters"				: "50000"
 		},
 		"multiStateAnalysis" : {
 	                "FitTol"		: "1.e-7",
 	                "FitIters"		: "50000",
-	                "InitThreshold"	: "5.0"
+	                "InitThreshold"	: "3.0"
 	        },
 		"besselLowpassFilter" : {
 			"filterOrder"			: "6",