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Merge remote-tracking branch 'origin/main' into timeline-bin
2 parents 0c5a436 + 09015b8 commit 97b64d9

7 files changed

Lines changed: 298 additions & 1 deletion

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‎bin/thyme-analysis‎

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@@ -213,6 +213,7 @@ echo "}"
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# output detector subdirectories
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detDirs=(
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alert
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band
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bmtbst
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central

‎libexec/environ.sh‎

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@@ -12,7 +12,7 @@ log_config=logging # set to 'logging' for quiet, or to 'debug' for verbose
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export TIMELINESRC=$(realpath $(dirname $this_env)/..)
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# database URIs
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[ -z "${RCDB_CONNECTION-}" ] && export RCDB_CONNECTION=mysql://rcdb@clasdb.jlab.org/rcdb
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[ -z "${RCDB_CONNECTION-}" ] && export RCDB_CONNECTION=mysql://rcdb@clasdb-farm.jlab.org/rcdb
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[ -z "${CCDB_CONNECTION-}" ] && export CCDB_CONNECTION=mysql://clas12reader@clasdb-farm.jlab.org/clas12
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# overrides for CI
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if ${GITHUB_ACTIONS:-false}; then

‎src/main/java/org/jlab/clas/timeline/analysis/alert/alert_atof_tdc.groovy‎

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package org.jlab.clas.timeline.analysis
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import java.util.concurrent.ConcurrentHashMap
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import org.jlab.groot.data.TDirectory
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import org.jlab.groot.data.GraphErrors
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import org.jlab.clas.timeline.fitter.ALERTFitter
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class alert_atof_tdc {
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def data = new ConcurrentHashMap()
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def processRun(dir, run) {
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data[run] = [run:run]
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def trigger = dir.getObject('/TRIGGER/bits')
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def reference_trigger_bit = 0
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data[run].put('bits', trigger)
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(0..<720).collect{index->
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int sector = index / (12 * 4);
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int layer = (index % (12 * 4)) / 12;
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int component = index % 12;
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def file_index = '';
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if (component <= 10) file_index = String.format('sector%d_layer%d_component%d_order0', sector, layer, component)
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else file_index = String.format('sector%d_layer%d_component%d_order1', sector, layer, component-1)
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def h1 = dir.getObject(String.format('/ALERT/TDC_%s', file_index))
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data[run].put(String.format('atof_tdc_%s', file_index), h1)
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def f1 = ALERTFitter.tdcfitter(h1)
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data[run].put(String.format('fit_atof_tdc_%s', file_index), f1)
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data[run].put(String.format('peak_location_atof_tdc_%s', file_index), f1.getParameter(1))
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data[run].put(String.format('sigma_atof_tdc_%s', file_index), f1.getParameter(2))
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data[run].put(String.format('integral_normalized_to_trigger_atof_tdc_%s', file_index), Math.sqrt(2*3.141597f) * f1.getParameter(0) * f1.getParameter(2)/trigger.getBinContent(reference_trigger_bit) )
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}
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}
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def write() {
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['peak_location', 'sigma', 'integral_normalized_to_trigger'].each{variable->
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(0..<15).collect{sector->
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(0..<4).collect{layer->
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def names = []
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TDirectory out = new TDirectory()
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out.mkdir('/timelines')
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(0..<12).collect{component->
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def file_index = ''
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if (component <= 10) file_index = String.format('sector%d_layer%d_component%d_order0', sector, layer, component)
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else file_index = String.format('sector%d_layer%d_component%d_order1', sector, layer, component-1)
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names << String.format('atof_tdc_%s', file_index)
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}
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names.each{ name ->
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def gr = new GraphErrors(name)
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gr.setTitle("ATOF TDC peak " + variable.replace('_', ' '))
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gr.setTitleY("ATOF TDC peak " + variable.replace('_', ' '))
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gr.setTitleX("run number")
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data.sort{it.key}.each{run,it->
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out.mkdir('/'+it.run)
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out.cd('/'+it.run)
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out.addDataSet(it[name])
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out.addDataSet(it['fit_'+name])
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gr.addPoint(it.run, it[variable + '_' + name], 0, 0)
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}
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out.cd('/timelines')
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out.addDataSet(gr)
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}
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out.writeFile(String.format('alert_atof_tdc_%s_sector%d_layer%d.hipo', variable, sector, layer))
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}
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}
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}
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}
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}

‎src/main/java/org/jlab/clas/timeline/fitter/ALERTFitter.groovy‎

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/**
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*
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* Fitter package for CND
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*
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* Writer: Sangbaek Lee
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*
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**/
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package org.jlab.clas.timeline.fitter
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import org.jlab.groot.fitter.DataFitter
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import org.jlab.groot.data.H1F
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import org.jlab.groot.math.F1D
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class ALERTFitter{
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static F1D tdcfitter(H1F h1){
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def f1 =new F1D("fit:"+h1.getName(),"[amp]*gaus(x,[mean],[sigma])+[cst]", -5.0, 5.0);
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f1.setLineColor(33);
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f1.setLineWidth(10);
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f1.setOptStat("1111");
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double maxz = h1.getBinContent(h1.getMaximumBin());
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f1.setRange(h1.getMaximumBin() + 350.5 - 50, h1.getMaximumBin() + 350.5 + 50);
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f1.setParameter(0,maxz);
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f1.setParameter(1, h1.getMaximumBin() + 350.5);
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f1.setParameter(2, 20);
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f1.setParameter(3, 0.0);
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if (maxz>0) f1.setParLimits(0, maxz*0.9,maxz*1.1);
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f1.setParLimits(3, 0.0, 0.1*maxz);
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30+
double hMean, hRMS
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32+
DataFitter.fit(f1, h1, "");
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34+
def makefit = {func->
35+
hMean = func.getParameter(1)
36+
hRMS = func.getParameter(2).abs()
37+
func.setRange(Math.max(hMean-2.5*hRMS, 350.0),Math.min(hMean+2.5*hRMS, 550.0))
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func.setParLimits(0, func.getParameter(0)*0.9,func.getParameter(0)*1.1);
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f1.setParLimits(3, 0.0, 0.1*func.getParameter(0));
40+
DataFitter.fit(func,h1,"Q")
41+
return [func.getChiSquare(), (0..<func.getNPars()).collect{func.getParameter(it)}]
42+
}
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44+
def fits1 = (0..20).collect{makefit(f1)}
45+
def bestfit = fits1.sort()[0]
46+
f1.setParameters(*bestfit[1])
47+
//makefit(f1)
48+
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return f1
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}
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}

‎src/main/java/org/jlab/clas/timeline/histograms/ALERT.java‎

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package org.jlab.clas.timeline.histograms;
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import java.util.*;
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// import org.jlab.clas.pdg.PhysicsConstants;
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import org.jlab.groot.data.H1F;
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// import org.jlab.groot.data.H2F;
8+
import org.jlab.groot.math.F1D;
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// import org.jlab.groot.fitter.DataFitter;
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import org.jlab.io.base.DataBank;
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import org.jlab.io.base.DataEvent;
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import org.jlab.groot.data.TDirectory;
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// import org.jlab.clas.physics.Particle;
14+
import org.jlab.utils.groups.IndexedTable;
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// import org.jlab.detector.calib.utils.CalibrationConstants;
16+
import org.jlab.detector.calib.utils.ConstantsManager;
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/**
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*
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* @author sangbaek
20+
*/
21+
public class ALERT {
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boolean userTimeBased;
24+
public int runNum, trigger;
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public long trigger_word;
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public String outputDir;
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public boolean hasRF;
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public double startTime, rfTime;
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public double rfPeriod;
32+
public int rf_large_integer;
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//Hodoscope
35+
public H1F[] TDC;
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private H1F bits;
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public IndexedTable rfTable;
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public ConstantsManager ccdb;
41+
private float tdc_bin_time = 0.015625f; // ns/bin
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public ALERT(int reqrunNum, String reqOutputDir, float reqEb, boolean reqTimeBased) {
44+
runNum = reqrunNum;
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outputDir = reqOutputDir;
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userTimeBased = reqTimeBased;
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startTime = -1000;
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rfTime = -1000;
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trigger = 0;
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rfPeriod = 4.008;
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ccdb = new ConstantsManager();
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ccdb.init(Arrays.asList(new String[]{"/daq/tt/fthodo", "/calibration/eb/rf/config"}));
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rfTable = ccdb.getConstants(runNum, "/calibration/eb/rf/config");
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if (rfTable.hasEntry(1, 1, 1)) {
57+
System.out.println(String.format("RF period from ccdb for run %d: %f", runNum, rfTable.getDoubleValue("clock", 1, 1, 1)));
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rfPeriod = rfTable.getDoubleValue("clock", 1, 1, 1);
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}
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rf_large_integer = 1000;
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//Hodoscope Histograms
63+
TDC = new H1F[720];
64+
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for (int index = 0; index < 720; index++) {
66+
int sector = 0;
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int layer = 0;
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int component = 0;
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int order = 0;
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sector = index / (12 * 4);
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layer = (index % (12 * 4)) / 12;
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component = index % 12;
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order = 0;
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if (component == 11){
76+
component = 10;
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order = 1;
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}
79+
80+
TDC[index] = new H1F(String.format("TDC_sector%d_layer%d_component%d_order%d", sector, layer, component, order), String.format("TDC sector%d layer%d component%d order%d", sector, layer, component, order), 200, 350.0, 550.0);
81+
TDC[index].setTitleX("TDC (ns)");
82+
TDC[index].setTitleY("Counts");
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TDC[index].setFillColor(4);
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}
85+
bits = new H1F("bits", "bits",65,0,65);
86+
bits.getDataX(0);
87+
bits.getEntries();
88+
bits.getMaximumBin();
89+
bits.getAxis().getNBins();
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}
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// public void fillAHDC(DataBank HodoHits) {
94+
// }
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public void fillATOF(DataBank atof_tdc) {
97+
int rows = atof_tdc.rows();
98+
for (int loop = 0; loop < rows; loop++) {
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int sector = atof_tdc.getInt("sector", loop);
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int layer = atof_tdc.getInt("layer", loop);
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int component = atof_tdc.getInt("component", loop);
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int order = atof_tdc.getInt("order", loop);
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int tdc = atof_tdc.getInt("TDC", loop);
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int index = sector * 48 + layer * 12 + component + order;
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TDC[index].fill(tdc*tdc_bin_time);
107+
}
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}
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public void processEvent(DataEvent event) {
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112+
DataBank recBankEB = null;
113+
DataBank recEvenEB = null;
114+
DataBank runConfig = null;
115+
DataBank atof_tdc = null;
116+
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if (event.hasBank("REC::Particle")) {
118+
recBankEB = event.getBank("REC::Particle");
119+
}
120+
if (event.hasBank("REC::Event")) {
121+
recEvenEB = event.getBank("REC::Event");
122+
}
123+
if (event.hasBank("RUN::config")) {
124+
runConfig = event.getBank("RUN::config");
125+
}
126+
if (event.hasBank("ATOF::tdc")) {
127+
atof_tdc = event.getBank("ATOF::tdc");
128+
}
129+
130+
if (runConfig!= null){
131+
trigger_word = runConfig.getLong("trigger", 0);
132+
bits.fill(64);
133+
for (int i=0; i<64; ++i){
134+
if ( 1 == ((trigger_word>>i)&1) ) {
135+
bits.fill(i);
136+
}
137+
}
138+
}
139+
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if (recEvenEB != null) {
141+
startTime = recEvenEB.getFloat("startTime", 0);
142+
rfTime = recEvenEB.getFloat("RFTime", 0);
143+
}
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//Get trigger particle
146+
if (recBankEB != null) {
147+
trigger = recBankEB.getInt("pid", 0);
148+
}
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if (atof_tdc != null) {
151+
fillATOF(atof_tdc);
152+
}
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}
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public void write() {
157+
TDirectory dirout = new TDirectory();
158+
dirout.mkdir("/ALERT/");
159+
dirout.cd("/ALERT/");
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for (int index = 0; index < 720; index++) {
161+
dirout.addDataSet(TDC[index]);
162+
}
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dirout.mkdir("/TRIGGER/");
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dirout.cd("/TRIGGER/");
165+
dirout.addDataSet(bits);
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if(runNum>0) dirout.writeFile(outputDir+"/out_ALERT_"+runNum+".hipo");
167+
else dirout.writeFile(outputDir+"/out_ALERT.hipo");
168+
}
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}

‎src/main/java/org/jlab/clas/timeline/run_analysis.groovy‎

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@@ -3,6 +3,8 @@ package org.jlab.clas.timeline.analysis
33
import org.jlab.groot.data.TDirectory
44

55
def engines = [
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out_ALERT: [new alert_atof_tdc(),
7+
],
68
out_BAND: [new band_adccor(),
79
new band_lasertime(),
810
new band_meantimeadc(),

‎src/main/java/org/jlab/clas/timeline/run_histograms.java‎

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CND ana_cnd = new CND(runNum,outputDir,useTB);
4242
FT ana_ft = new FT(runNum,outputDir,useTB);
4343
BAND ana_band = new BAND(runNum,outputDir,EB,useTB);
44+
ALERT ana_alert = new ALERT(runNum,outputDir,EB,useTB);
4445
helicity helicity = new helicity();
4546
trigger trigger = new trigger();
4647

@@ -88,6 +89,7 @@ public static void main(String[] args) {
8889
ana_cnd.processEvent(event);
8990
ana_ft.processEvent(event);
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ana_band.processEvent(event);
92+
ana_alert.processEvent(event);
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ana_rich.processEvent(event);
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helicity.processEvent(event);
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trigger.processEvent(event);
@@ -117,6 +119,7 @@ public static void main(String[] args) {
117119
ana_cnd.write();
118120
ana_ft.write();
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ana_band.write();
122+
ana_alert.write();
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ana_rich.write();
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helicity.write(outputDir, runNum);
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trigger.write(outputDir, runNum);

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