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PeakelGrowerTest.cpp File Reference
#include "PeakelGrower.hpp"
#include "pwiz/utility/misc/unit.hpp"
#include "pwiz/utility/misc/Std.hpp"
#include <cstring>

Go to the source code of this file.

Functions

vector< vector< Peak > > createToyPeaks ()
 
void testToyExample ()
 
void test ()
 
int main (int argc, char *argv[])
 

Variables

ostream * os_ = 0
 

Function Documentation

◆ createToyPeaks()

vector< vector< Peak > > createToyPeaks ( )

Definition at line 38 of file PeakelGrowerTest.cpp.

39{
40 // rt\mz 1000 1001 1002
41 // 0 x x
42 // 1 x x x
43 // 2 x x
44 // 3 x x x
45 // 4 x x
46
47 vector< vector<Peak> > peaks(5);
48 Peak peak;
49
50 peak.retentionTime = 0;
51 peak.mz = 1000; peaks[0].push_back(peak);
52 peak.mz = 1002; peaks[0].push_back(peak);
53
54 peak.retentionTime = 1;
55 peak.mz = 1000.01; peaks[1].push_back(peak);
56 peak.mz = 1001; peaks[1].push_back(peak);
57 peak.mz = 1002.01; peaks[1].push_back(peak);
58
59 peak.retentionTime = 2;
60 peak.mz = 1001.01; peaks[2].push_back(peak);
61 peak.mz = 1002-.01; peaks[2].push_back(peak);
62
63 peak.retentionTime = 3;
64 peak.mz = 1000; peaks[3].push_back(peak);
65 peak.mz = 1001-.01; peaks[3].push_back(peak);
66 peak.mz = 1002.02; peaks[3].push_back(peak);
67
68 peak.retentionTime = 4;
69 peak.mz = 1000.01; peaks[4].push_back(peak);
70 peak.mz = 1002-.02; peaks[4].push_back(peak);
71
72 return peaks;
73}
represents some generic metadata about a peak detected in a signal

Referenced by testToyExample().

◆ testToyExample()

void testToyExample ( )

Definition at line 76 of file PeakelGrowerTest.cpp.

77{
78 vector< vector<Peak> > peaks = createToyPeaks();
79
81 config.mzTolerance = .1;
82 config.rtTolerance = 1.5;
83
84 PeakelGrower_Proximity peakelGrower(config);
85
86 PeakelField field;
87 peakelGrower.sowPeaks(field, peaks);
88
89 const double epsilon = .1;
90 unit_assert(field.size() == 4);
91
92 PeakelField::const_iterator it = field.begin();
93
94 unit_assert_equal((*it)->mz, 1000, epsilon);
95 unit_assert_equal((*it)->retentionTime, 0, epsilon);
96
97 ++it;
98 unit_assert_equal((*it)->mz, 1000, epsilon);
99 unit_assert_equal((*it)->retentionTime, 3, epsilon);
100
101 ++it;
102 unit_assert_equal((*it)->mz, 1001, epsilon);
103 unit_assert_equal((*it)->retentionTime, 1, epsilon);
104
105 ++it;
106 unit_assert_equal((*it)->mz, 1002, epsilon);
107 unit_assert_equal((*it)->retentionTime, 0, epsilon);
108}
vector< vector< Peak > > createToyPeaks()
simple PeakelGrower implementation, based on proximity of Peaks
const double epsilon
Definition DiffTest.cpp:41
MZRTField is a std::set of boost::shared_ptrs, stored as a binary tree ordered by LessThan_MZRT.
Definition MZRTField.hpp:95
#define unit_assert(x)
Definition unit.hpp:85
#define unit_assert_equal(x, y, epsilon)
Definition unit.hpp:99

References createToyPeaks(), epsilon, pwiz::analysis::PeakelGrower_Proximity::Config::mzTolerance, pwiz::analysis::PeakelGrower_Proximity::Config::rtTolerance, pwiz::analysis::PeakelGrower::sowPeaks(), unit_assert, and unit_assert_equal.

Referenced by test().

◆ test()

void test ( )

Definition at line 111 of file PeakelGrowerTest.cpp.

112{
114}
void testToyExample()

References testToyExample().

Referenced by main().

◆ main()

int main ( int  argc,
char *  argv[] 
)

Definition at line 117 of file PeakelGrowerTest.cpp.

118{
119 TEST_PROLOG(argc, argv)
120
121 try
122 {
123 if (argc>1 && !strcmp(argv[1],"-v")) os_ = &cout;
124 test();
125 }
126 catch (exception& e)
127 {
128 TEST_FAILED(e.what())
129 }
130 catch (...)
131 {
132 TEST_FAILED("Caught unknown exception.")
133 }
134
136}
ostream * os_
void test()
#define TEST_EPILOG
Definition unit.hpp:183
#define TEST_FAILED(x)
Definition unit.hpp:177
#define TEST_PROLOG(argc, argv)
Definition unit.hpp:175

References os_, test(), TEST_EPILOG, TEST_FAILED, and TEST_PROLOG.

Variable Documentation

◆ os_

ostream* os_ = 0

Definition at line 35 of file PeakelGrowerTest.cpp.

Referenced by main().