Package pymontecarlo.util.hdf5

Examples of pymontecarlo.util.hdf5.HDF5Group

83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
    @Override
    public void saveResults(HDF5Group root, String key) throws IOException {
        super.saveResults(root, key);

        HDF5Group group = root.requireSubgroup(key);

        String transitionName;
        double[][] gnf, gt, enf, et;
        HDF5Group transitionGroup;
        for (XRayTransition trans : przCharac.getTransitions()) {
            if (!trans.isWellKnown())
                continue;

            transitionName = trans.getIUPACName();
            transitionGroup = group.createSubgroup(transitionName);

            gnf = new double[2][channels];
            gt = new double[2][channels];
            enf = new double[2][channels];
            et = new double[2][channels];

            gnf[0] = zs;
            gnf[1] = przCharac.getGenerated(trans);

            gt[0] = zs;
            gt[1] = gnf[1].clone();

            enf[0] = zs;
            enf[1] = przCharac.getEmitted(trans);

            et[0] = zs;
            et[1] = enf[1].clone();

            transitionGroup.createDataset("gnf", transpose(gnf));
            transitionGroup.createDataset("gt", transpose(gt));
            transitionGroup.createDataset("enf", transpose(enf));
            transitionGroup.createDataset("et", transpose(et));
        }
    }
View Full Code Here
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
    @Override
    public void saveResults(HDF5Group root, String key) throws IOException {
        super.saveResults(root, key);

        HDF5Group group = root.requireSubgroup(key);

        Trajectory trajectory;
        String name;
        double[][] data;
        int interactionsSize;
        Double[] interaction;
        HDF5Dataset dataset;
        for (int i = 0; i < trajectories.size(); i++) {
            trajectory = trajectories.get(i);

            name = "trajectory" + i;

            interactionsSize = trajectory.interactions.size();
            data = new double[interactionsSize][6];
            for (int j = 0; j < interactionsSize; j++) {
                interaction = trajectory.interactions.get(j);
                data[j][0] = interaction[0];
                data[j][1] = interaction[1];
                data[j][2] = interaction[2];
                data[j][3] = interaction[3];
                data[j][4] = interaction[4];
                data[j][5] = interaction[5];
            }

            dataset = group.createDataset(name, data);

            dataset.setAttribute("primary", trajectory.primary ? 1 : 0);
            dataset.setAttribute("particle", 1); // Electron
            dataset.setAttribute("collision", trajectory.collision);
            dataset.setAttribute("exit_state", trajectory.exitState);
View Full Code Here
36
37
38
39
40
41
42
43
44


    @Test
    public void testSaveResults() throws Exception {
        HDF5Group root = HDF5Group.createRoot();
        det.saveResults(root, "det1");
        HDF5FileWriter.write(root, resultsFile, true);
    }
View Full Code Here
42
43
44
45
46
47
48
49
50


    @Test
    public void testSaveResults() throws Exception {
        HDF5Group root = HDF5Group.createRoot();
        det.saveResults(root, "det1");
        HDF5FileWriter.write(root, resultsFile, true);
    }
View Full Code Here
66
67
68
69
70
71
72
73
74
75
76
77
78
79
    @Override
    public void saveResults(HDF5Group root, String key) throws IOException {
        super.saveResults(root, key);

        HDF5Group group = root.requireSubgroup(key);

        long elapsedTime = System.currentTimeMillis() - startSimulationTime;
        group.setAttribute("simulation_time_s", elapsedTime / 1000.0);

        double mean = sum / count;
        double std = Math.sqrt(sumSquare / count - Math.pow(mean, 2.0));
        group.setAttribute("simulation_speed_s", mean / 1000.0, std / 1000.0);
    }
View Full Code Here
107
108
109
110
111
112
113
114
115


    @Test
    public void testSaveResults() throws Exception {
        HDF5Group root = HDF5Group.createRoot();
        det.saveResults(root, "det1");
        HDF5FileWriter.write(root, resultsFile, true);
    }
View Full Code Here
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
    @Override
    public void saveResults(HDF5Group root, String key) throws IOException {
        super.saveResults(root, key);

        HDF5Group group = root.requireSubgroup(key);

        String transitionName;
        double[][][] gnf, gt, enf, et;
        HDF5Group transitionGroup;
        for (XRayTransition trans : mapTotal.getTransitions()) {
            if (!trans.isWellKnown())
                continue;

            transitionName = trans.getIUPACName();
            transitionGroup = group.createSubgroup(transitionName);

            gnf = mapCharac.getGeneratedDistribution(trans).getArray();
            gt = mapTotal.getGeneratedDistribution(trans).getArray();
            enf = mapCharac.getEmittedDistribution(trans).getArray();
            et = mapTotal.getGeneratedDistribution(trans).getArray();

            transitionGroup.createDataset("gnf", gnf);
            transitionGroup.createDataset("gt", gt);
            transitionGroup.createDataset("enf", enf);
            transitionGroup.createDataset("et", et);
        }
    }
View Full Code Here
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
    @Override
    public void saveResults(HDF5Group root, String key) throws IOException {
        super.saveResults(root, key);

        HDF5Group group = root.requireSubgroup(key);

        String transitionName;
        double[][] gnf, enf;
        HDF5Group transitionGroup;
        for (XRayTransition trans : transitions) {
            transitionName = trans.getIUPACName();
            transitionGroup = group.createSubgroup(transitionName);

            gnf = new double[2][channels];
            enf = new double[2][channels];

            gnf[0] = zPZS.get(trans);
            gnf[1] = gnfPZs.get(trans);

            enf[0] = zPZS.get(trans);
            enf[1] = enfPZs.get(trans);

            transitionGroup.createDataset("gnf", transpose(gnf));
            transitionGroup.createDataset("enf", transpose(enf));
        }
    }
View Full Code Here
82
83
84
85
86
87
88
89
90
91
92
            detector.run();
        }

        // Save results
        report(1.0, "Saving results");
        HDF5Group rootGroup =
                createHDF5Group(props, detectors, rootElement, name);
        File resultsH5 = new File(resultsDir, name + ".h5");
        HDF5FileWriter.write(rootGroup, resultsH5, true);
        report(1.0, "Complete");
    }
View Full Code Here
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134

    private HDF5Group createHDF5Group(SpectrumProperties props,
            Map<String, Detector> detectors,
            Element rootElement, String name) throws IOException {
        HDF5Group rootGroup = HDF5Group.createRoot();

        // Save version, class
        rootGroup.setAttribute("version", VERSION);
        rootGroup.setAttribute("_class", "Results");

        // Create results group
        String identifier = rootElement.getAttributeValue("uuid");
        rootGroup.setAttribute("identifiers", new String[] { identifier });

        HDF5Group resultsGroup =
                rootGroup.createSubgroup("result-" + identifier);

        // Save results from detectors
        String key;
        Detector detector;
        for (Entry<String, Detector> entry : detectors.entrySet()) {
            key = entry.getKey();
            detector = entry.getValue();
            detector.saveResults(resultsGroup, key);
        }

        // Save overall log
        Properties logProps = new Properties();
        logProps.putAll(props.getPropertyMap());
        createLog(logProps);
        resultsGroup.setAttribute("log", props.toString());

        // Save options
        XMLOutputter outputter = new XMLOutputter(Format.getCompactFormat());
        String optionsStr = outputter.outputString(rootElement);
        resultsGroup.setAttribute("options", optionsStr);
        rootGroup.setAttribute("options", optionsStr);

        return rootGroup;
    }
View Full Code Here
TOP

Related Classes of pymontecarlo.util.hdf5.HDF5Group

  • edu.ucar.ral.nujan.hdf.HdfFileWriter
  • edu.ucar.ral.nujan.hdf.HdfGroup
  • pymontecarlo.program._analytical.AbstractAnalyticalWorker
  • pymontecarlo.program._analytical.options.detector.AbstractDetector
  • pymontecarlo.program._analytical.options.detector.PhiZDetector
  • pymontecarlo.program._analytical.options.detector.PhotonIntensityDetector
  • pymontecarlo.program.nistmonte.options.detector.AbstractDetector
  • pymontecarlo.program.nistmonte.options.detector.AbstractPhotonDetectorTest
  • pymontecarlo.program.nistmonte.options.detector.BackscatteredElectronRadialDetector
  • pymontecarlo.program.nistmonte.options.detector.PhiZDetector
    • Copyright © 2018 www.massapicom. All rights reserved.
    All source code are property of their respective owners. Java is a trademark of Sun Microsystems, Inc and owned by ORACLE Inc. Contact coftware#gmail.com.