Jdpd Version 1.2.0.0

zielesny · Jul 12, 2019 · a97b616 · a97b616
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diff --git a/JdpdVersionHistory.txt b/JdpdVersionHistory.txt
@@ -18,6 +18,35 @@
  * along with this program.  If not, see <http://www.gnu.org/licenses/>.
  */
 
+--------------------------------------------------------------------------------
+Jdpd 1.2.0.0 (Jdpd.jar)
+--------------------------------------------------------------------------------
+for Java 8 or higher
+
+Dependencies:
+  - commons-rng-client-api-1.1.jar
+    commons-rng-core-1.1.jar
+    commons-rng-sampling-1.1.jar
+    commons-rng-simple-1.1.jar
+      Apache Commons RNG 1.1 (http://commons.apache.org/proper/commons-rng/)
+      Version 1.1
+  - Pcg32.java
+      PCG pseudorandom generator implementation for Java 
+      (https://github.com/alexeyr/pcg-java)
+      Version 0.9.1
+
+Unit tests: 
+  - Package src.de.gnwi.jdpd.tests
+
+Simulation input file description:  
+  - File Input.txt in package src.de.gnwi.jdpd.tests.test_Water_GWMVV              
+--------------------------------------------------------------------------------
+- Improvements:
+  - Settings for molecule acceleration now contain a maximum time step for the
+    acceleration to be applied. Job definitions of older versions are still 
+    compatible.
+
+
 --------------------------------------------------------------------------------
 Jdpd 1.1.1.0 (Jdpd.jar)
 --------------------------------------------------------------------------------

diff --git a/jar/Jdpd.jar b/jar/Jdpd.jar
diff --git a/javadoc/allclasses-frame.html b/javadoc/allclasses-frame.html
@@ -2,10 +2,10 @@
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-<!-- Generated by javadoc (1.8.0_162) on Tue Mar 06 11:45:00 CET 2018 -->
+<!-- Generated by javadoc (1.8.0_192) on Fri Jul 12 15:18:13 CEST 2019 -->
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diff --git a/javadoc/allclasses-noframe.html b/javadoc/allclasses-noframe.html
@@ -2,10 +2,10 @@
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-<!-- Generated by javadoc (1.8.0_162) on Tue Mar 06 11:45:00 CET 2018 -->
+<!-- Generated by javadoc (1.8.0_192) on Fri Jul 12 15:18:13 CEST 2019 -->
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 <title>All Classes (Jdpd - An open Java Simulation Kernel for Molecular Fragment Dissipative Particle Dynamics)</title>
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+<meta name="date" content="2019-07-12">
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diff --git a/javadoc/constant-values.html b/javadoc/constant-values.html
@@ -2,10 +2,10 @@
 <!-- NewPage -->
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-<!-- Generated by javadoc (1.8.0_162) on Tue Mar 06 11:44:59 CET 2018 -->
+<!-- Generated by javadoc (1.8.0_192) on Fri Jul 12 15:18:12 CEST 2019 -->
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+<meta name="date" content="2019-07-12">
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@@ -217,6 +217,13 @@ <h2 title="de.gnwi">de.gnwi.*</h2>
 <td><code><a href="de/gnwi/jdpd/utilities/Constants.html#BUFFER_SIZE">BUFFER_SIZE</a></code></td>
 <td class="colLast"><code>65536</code></td>
 </tr>
+<tr class="rowColor">
+<td class="colFirst"><a name="de.gnwi.jdpd.utilities.Constants.MAXIMUM_NUMBER_OF_TIME_STEPS">
+<!--   -->
+</a><code>public&nbsp;static&nbsp;final&nbsp;int</code></td>
+<td><code><a href="de/gnwi/jdpd/utilities/Constants.html#MAXIMUM_NUMBER_OF_TIME_STEPS">MAXIMUM_NUMBER_OF_TIME_STEPS</a></code></td>
+<td class="colLast"><code>100000000</code></td>
+</tr>
 </tbody>
 </table>
 </li>

diff --git a/javadoc/de/gnwi/jdpd/DpdSimulationTask.html b/javadoc/de/gnwi/jdpd/DpdSimulationTask.html
@@ -2,10 +2,10 @@
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diff --git a/javadoc/de/gnwi/jdpd/accumulators/ForceAccumulator.html b/javadoc/de/gnwi/jdpd/accumulators/ForceAccumulator.html
@@ -2,10 +2,10 @@
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diff --git a/javadoc/de/gnwi/jdpd/accumulators/PotentialAccumulator.html b/javadoc/de/gnwi/jdpd/accumulators/PotentialAccumulator.html
@@ -2,10 +2,10 @@
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diff --git a/javadoc/de/gnwi/jdpd/accumulators/class-use/ForceAccumulator.html b/javadoc/de/gnwi/jdpd/accumulators/class-use/ForceAccumulator.html
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-<meta name="date" content="2018-03-06">
+<meta name="date" content="2019-07-12">
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diff --git a/javadoc/de/gnwi/jdpd/accumulators/class-use/PotentialAccumulator.html b/javadoc/de/gnwi/jdpd/accumulators/class-use/PotentialAccumulator.html
@@ -2,10 +2,10 @@
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+<!-- Generated by javadoc (1.8.0_192) on Fri Jul 12 15:18:12 CEST 2019 -->
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-<meta name="date" content="2018-03-06">
+<meta name="date" content="2019-07-12">
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diff --git a/javadoc/de/gnwi/jdpd/accumulators/package-frame.html b/javadoc/de/gnwi/jdpd/accumulators/package-frame.html
@@ -2,10 +2,10 @@
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-<!-- Generated by javadoc (1.8.0_162) on Tue Mar 06 11:44:59 CET 2018 -->
+<!-- Generated by javadoc (1.8.0_192) on Fri Jul 12 15:18:12 CEST 2019 -->
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diff --git a/javadoc/de/gnwi/jdpd/accumulators/package-summary.html b/javadoc/de/gnwi/jdpd/accumulators/package-summary.html
@@ -2,10 +2,10 @@
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+<!-- Generated by javadoc (1.8.0_192) on Fri Jul 12 15:18:12 CEST 2019 -->
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diff --git a/javadoc/de/gnwi/jdpd/accumulators/package-tree.html b/javadoc/de/gnwi/jdpd/accumulators/package-tree.html
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diff --git a/javadoc/de/gnwi/jdpd/accumulators/package-use.html b/javadoc/de/gnwi/jdpd/accumulators/package-use.html
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+<!-- Generated by javadoc (1.8.0_192) on Fri Jul 12 15:18:12 CEST 2019 -->
 <meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
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-<meta name="date" content="2018-03-06">
+<meta name="date" content="2019-07-12">
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diff --git a/javadoc/de/gnwi/jdpd/class-use/DpdSimulationTask.html b/javadoc/de/gnwi/jdpd/class-use/DpdSimulationTask.html
@@ -2,10 +2,10 @@
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-<!-- Generated by javadoc (1.8.0_162) on Tue Mar 06 11:44:59 CET 2018 -->
+<!-- Generated by javadoc (1.8.0_192) on Fri Jul 12 15:18:12 CEST 2019 -->
 <meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
 <title>Uses of Class de.gnwi.jdpd.DpdSimulationTask (Jdpd - An open Java Simulation Kernel for Molecular Fragment Dissipative Particle Dynamics)</title>
-<meta name="date" content="2018-03-06">
+<meta name="date" content="2019-07-12">
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/ICalculator.html b/javadoc/de/gnwi/jdpd/interfaces/ICalculator.html
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-<!-- Generated by javadoc (1.8.0_162) on Tue Mar 06 11:44:58 CET 2018 -->
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/ICalculatorPnhln.html b/javadoc/de/gnwi/jdpd/interfaces/ICalculatorPnhln.html
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/IHarmonicBondForceCalculator.html b/javadoc/de/gnwi/jdpd/interfaces/IHarmonicBondForceCalculator.html
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 <title>IHarmonicBondForceCalculator (Jdpd - An open Java Simulation Kernel for Molecular Fragment Dissipative Particle Dynamics)</title>
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+<meta name="date" content="2019-07-12">
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/IHarmonicBondPropertyCalculator.html b/javadoc/de/gnwi/jdpd/interfaces/IHarmonicBondPropertyCalculator.html
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 <title>IHarmonicBondPropertyCalculator (Jdpd - An open Java Simulation Kernel for Molecular Fragment Dissipative Particle Dynamics)</title>
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/IInput.html b/javadoc/de/gnwi/jdpd/interfaces/IInput.html
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/ILogger.LogLevel.html b/javadoc/de/gnwi/jdpd/interfaces/ILogger.LogLevel.html
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-<meta name="date" content="2018-03-06">
+<meta name="date" content="2019-07-12">
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/ILogger.html b/javadoc/de/gnwi/jdpd/interfaces/ILogger.html
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+<meta name="date" content="2019-07-12">
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/IOutput.html b/javadoc/de/gnwi/jdpd/interfaces/IOutput.html
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/IParticlePairForceCalculator.html b/javadoc/de/gnwi/jdpd/interfaces/IParticlePairForceCalculator.html
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-<meta name="date" content="2018-03-06">
+<meta name="date" content="2019-07-12">
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/IParticlePairInteractionCalculator.html b/javadoc/de/gnwi/jdpd/interfaces/IParticlePairInteractionCalculator.html
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-<meta name="date" content="2018-03-06">
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/IParticlePairInteractionPnhlnCalculator.html b/javadoc/de/gnwi/jdpd/interfaces/IParticlePairInteractionPnhlnCalculator.html
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 <title>IParticlePairInteractionPnhlnCalculator (Jdpd - An open Java Simulation Kernel for Molecular Fragment Dissipative Particle Dynamics)</title>
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/IProgressMonitor.SimulationState.html b/javadoc/de/gnwi/jdpd/interfaces/IProgressMonitor.SimulationState.html
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+<meta name="date" content="2019-07-12">
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diff --git a/javadoc/de/gnwi/jdpd/interfaces/IProgressMonitor.html b/javadoc/de/gnwi/jdpd/interfaces/IProgressMonitor.html
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