PetCtCSVParser - Code Metrics - salimkanoun/GaelO - Measure and Improve Code Quality continuously with Scrutinizer

PetCtCSVParser A
last analyzed 2021-07-04 22:07 UTC

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Complexity

Total Complexity

Size/Duplication

Total Lines	73
Duplicated Lines	0 %

Importance

Changes

Metric	Value
wmc	19
eloc	41
dl	0
loc	73
rs	10
c	0
b	0
f	0

12 Functions

Rating	Name	Size	Complexity
A	getAcquisitionDate	5	1
A	parseCSV	12	4
A	getSuvLow	3	1
A	_extractLineOfInterest	14	4
A	checkTMTVThreshold	5	2
A	isUseCT	3	1
A	getPatientId	3	1
A	isUseSUV	3	1
A	getTmtvValue	3	1
A	checkAcquisition	3	1
A	constructor	3	1
A	getsuvHigh	3	1

/**
 Copyright (C) 2018-2020 KANOUN Salim
 This program is free software; you can redistribute it and/or modify
 it under the terms of the Affero GNU General Public v.3 License as published by
 the Free Software Foundation;
 This program is distributed in the hope that it will be useful,
 but WITHOUT ANY WARRANTY; without even the implied warranty of
 MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
 Affero GNU General Public Public for more details.
 You should have received a copy of the Affero GNU General Public Public along
 with this program; if not, write to the Free Software Foundation, Inc.,
 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA
 */
 class PetCtCSVParser {

    constructor(csvFile){
        this.csvFile = csvFile
    }

    parseCSV(){
        let self = this

        return new Promise(function(complete, error) {
            Papa.parse(self.csvFile, {complete, error});

        }).then(results => {
            self.papaResultArray = results.data
        }).then( () => {
            self._extractLineOfInterest()
        });

    }

    _extractLineOfInterest(){
        let parsedCSV = this.papaResultArray

        for(let i = 0 ; i < parsedCSV.length ; i++){
            //Search for empty line, the patient identification is just the line before
            if( parsedCSV[i].length>1 && parsedCSV[i][1].includes(" sum") ) {
                this.patientIdentificationLine = (i+1)
            }
            if( parsedCSV[i][0]=="SUVlo" ) {
                this.roiThresholdLine = (i+1)
            }
        }
        console.log(this.papaResultArray)

    }

    getTmtvValue(){
        return this.papaResultArray[(this.patientIdentificationLine - 1)][3]
    }
    getPatientId(){
        return this.papaResultArray[this.patientIdentificationLine][13]
    }

    getAcquisitionDate(){
        let dateString = this.papaResultArray[this.patientIdentificationLine][1].trim()
        let date = moment(dateString, "MMM D_YYYY").toDate();
        return date
    }

    getSuvLow(){
        return this.papaResultArray[this.roiThresholdLine][0]
    }

    getsuvHigh(){
        return this.papaResultArray[this.roiThresholdLine][1]
    }

    isUseSUV(){
        return Boolean(parseInt(this.papaResultArray[this.roiThresholdLine][4]))
    }

    isUseCT(){
        return Boolean(parseInt(this.papaResultArray[this.roiThresholdLine][5]))
    }

    checkAcquisition(patientId, date){
        return (this.getPatientId() == patientId && this.getAcquisitionDate().getTime() === date.getTime())
    }

    checkTMTVThreshold(suvLo, suvHigh=100){
        let checkSuvLo = true
        if(suvLo != null) checkSuvLo = (this.getSuvLow() == suvLo)
if (a > 0)
    b = 42;
        return ( checkSuvLo && this.getsuvHigh()>=suvHigh && !this.isUseCT() && this.isUseSUV() )
    }
}



1			/**
2			Copyright (C) 2018-2020 KANOUN Salim
3			This program is free software; you can redistribute it and/or modify
4			it under the terms of the Affero GNU General Public v.3 License as published by
5			the Free Software Foundation;
6			This program is distributed in the hope that it will be useful,
7			but WITHOUT ANY WARRANTY; without even the implied warranty of
8			MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
9			Affero GNU General Public Public for more details.
10			You should have received a copy of the Affero GNU General Public Public along
11			with this program; if not, write to the Free Software Foundation, Inc.,
12			51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA
13			*/
14			class PetCtCSVParser {
15
16			constructor(csvFile){
17			this.csvFile = csvFile
18			}
19
20			parseCSV(){
21			let self = this
22
23			return new Promise(function(complete, error) {
24			Papa.parse(self.csvFile, {complete, error});
			0 ignored issues – show Bug introduced 2020-04-12 11:21 UTC by Report Bug Copy Issue Report The variable `Papa` seems to be never declared. If this is a global, consider adding a `/** global: Papa */` comment. This checks looks for references to variables that have not been declared. This is most likey a typographical error or a variable has been renamed. To learn more about declaring variables in Javascript, see the MDN. Loading history...
25			}).then(results => {
26			self.papaResultArray = results.data
27			}).then( () => {
28			self._extractLineOfInterest()
29			});
30
31			}
32
33			_extractLineOfInterest(){
34			let parsedCSV = this.papaResultArray
35
36			for(let i = 0 ; i < parsedCSV.length ; i++){
37			//Search for empty line, the patient identification is just the line before
38			if( parsedCSV[i].length>1 && parsedCSV[i][1].includes(" sum") ) {
39			this.patientIdentificationLine = (i+1)
40			}
41			if( parsedCSV[i][0]=="SUVlo" ) {
42			this.roiThresholdLine = (i+1)
43			}
44			}
45			console.log(this.papaResultArray)
			0 ignored issues – show Debugging Code introduced 2020-04-12 11:21 UTC by Report Bug Copy Issue Report `console.log` looks like debug code. Are you sure you do not want to remove it? Loading history...
46			}
47
48			getTmtvValue(){
49			return this.papaResultArray[(this.patientIdentificationLine - 1)][3]
50			}
51			getPatientId(){
52			return this.papaResultArray[this.patientIdentificationLine][13]
53			}
54
55			getAcquisitionDate(){
56			let dateString = this.papaResultArray[this.patientIdentificationLine][1].trim()
57			let date = moment(dateString, "MMM D_YYYY").toDate();
58			return date
59			}
60
61			getSuvLow(){
62			return this.papaResultArray[this.roiThresholdLine][0]
63			}
64
65			getsuvHigh(){
66			return this.papaResultArray[this.roiThresholdLine][1]
67			}
68
69			isUseSUV(){
70			return Boolean(parseInt(this.papaResultArray[this.roiThresholdLine][4]))
71			}
72
73			isUseCT(){
74			return Boolean(parseInt(this.papaResultArray[this.roiThresholdLine][5]))
75			}
76
77			checkAcquisition(patientId, date){
78			return (this.getPatientId() == patientId && this.getAcquisitionDate().getTime() === date.getTime())
79			}
80
81			checkTMTVThreshold(suvLo, suvHigh=100){
82			let checkSuvLo = true
83			if(suvLo != null) checkSuvLo = (this.getSuvLow() == suvLo)
			0 ignored issues – show Coding Style Best Practice introduced 2020-04-12 11:21 UTC by Report Bug Copy Issue Report Curly braces around statements make for more readable code and help prevent bugs when you add further statements. Consider adding curly braces around all statements when they are executed conditionally. This is optional if there is only one statement, but leaving them out can lead to unexpected behaviour if another statement is added later. Consider: if (a > 0) b = 42; If you or someone else later decides to put another statement in, only the first statement will be executed. if (a > 0) console.log("a > 0"); b = 42; In this case the statement `b = 42` will always be executed, while the logging statement will be executed conditionally. if (a > 0) { console.log("a > 0"); b = 42; } ensures that the proper code will be executed conditionally no matter how many statements are added or removed. Loading history... Best Practice introduced 2020-04-12 11:21 UTC by Report Bug Copy Issue Report Comparing `suvLo` to `null` using the `!=` operator is not safe. Consider using `!==` instead. Loading history...
84			return ( checkSuvLo && this.getsuvHigh()>=suvHigh && !this.isUseCT() && this.isUseSUV() )
85			}
86			}
87
88

salimkanoun / GaelO

PetCtCSVParser A last analyzed 2021-07-04 22:07 UTC

Complexity

Size/Duplication

Importance

12 Functions

Duplication Side-by-Side

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PetCtCSVParser A
last analyzed 2021-07-04 22:07 UTC