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Coverage Report

  1. Project Clover database Thu Nov 28 2024 18:06:40 GMT
  2. Package jalview.xml.binding.jalview

File SequenceSet.java

 

Coverage histogram

../../../../img/srcFileCovDistChart10.png
0% of files have more coverage

Code metrics

10
23
13
2
334
113
18
0.78
1.77
6.5
1.38

Classes

Class Line # Actions
SequenceSet 59 19 14
0.9210526392.1%
SequenceSet.SequenceSetProperties 277 4 4
1.0100%
 

Contributing tests

This file is covered by 32 tests. .

Source view

1    //
2    // This file was generated by the Eclipse Implementation of JAXB, v2.3.3
3    // See https://eclipse-ee4j.github.io/jaxb-ri
4    // Any modifications to this file will be lost upon recompilation of the source schema.
5    // Generated on: 2023.11.01 at 07:03:09 PM GMT
6    //
7   
8    package jalview.xml.binding.jalview;
9   
10    import java.util.ArrayList;
11    import java.util.List;
12    import javax.xml.bind.annotation.XmlAccessType;
13    import javax.xml.bind.annotation.XmlAccessorType;
14    import javax.xml.bind.annotation.XmlAttribute;
15    import javax.xml.bind.annotation.XmlElement;
16    import javax.xml.bind.annotation.XmlRootElement;
17    import javax.xml.bind.annotation.XmlType;
18   
19    /**
20    * <p>Java class for anonymous complex type.
21    *
22    * <p>The following schema fragment specifies the expected content
23    * contained within this class.
24    *
25    * <pre> <complexType> <complexContent>
26    * <restriction base="{http://www.w3.org/2001/XMLSchema}anyType">
27    * <sequence> <element
28    * ref="{www.vamsas.ac.uk/jalview/version2}Sequence" maxOccurs="unbounded"
29    * minOccurs="0"/> <element
30    * ref="{www.vamsas.ac.uk/jalview/version2}Annotation" maxOccurs="unbounded"
31    * minOccurs="0"/> <element name="sequenceSetProperties"
32    * maxOccurs="unbounded" minOccurs="0"> <complexType>
33    * <complexContent> <restriction
34    * base="{http://www.w3.org/2001/XMLSchema}anyType"> <attribute
35    * name="key" type="{http://www.w3.org/2001/XMLSchema}string" />
36    * <attribute name="value"
37    * type="{http://www.w3.org/2001/XMLSchema}string" />
38    * </restriction> </complexContent>
39    * </complexType> </element> <element
40    * ref="{www.vamsas.ac.uk/jalview/version2}AlcodonFrame" maxOccurs="unbounded"
41    * minOccurs="0"/> <element name="Matrix"
42    * type="{www.vamsas.ac.uk/jalview/version2}MatrixType" maxOccurs="unbounded"
43    * minOccurs="0"/> </sequence> <attribute
44    * name="gapChar" use="required" type="{http://www.w3.org/2001/XMLSchema}string"
45    * /> <attribute name="datasetId"
46    * type="{http://www.w3.org/2001/XMLSchema}string" />
47    * </restriction> </complexContent>
48    * </complexType> </pre>
49    *
50    *
51    */
52    @XmlAccessorType(XmlAccessType.FIELD)
53    @XmlType(
54    name = "",
55    propOrder =
56    { "sequence", "annotation", "sequenceSetProperties", "alcodonFrame",
57    "matrix" })
58    @XmlRootElement(name = "SequenceSet")
 
59    public class SequenceSet
60    {
61   
62    @XmlElement(name = "Sequence")
63    protected List<Sequence> sequence;
64   
65    @XmlElement(name = "Annotation")
66    protected List<Annotation> annotation;
67   
68    protected List<SequenceSet.SequenceSetProperties> sequenceSetProperties;
69   
70    @XmlElement(name = "AlcodonFrame")
71    protected List<AlcodonFrame> alcodonFrame;
72   
73    @XmlElement(name = "Matrix")
74    protected List<MatrixType> matrix;
75   
76    @XmlAttribute(name = "gapChar", required = true)
77    protected String gapChar;
78   
79    @XmlAttribute(name = "datasetId")
80    protected String datasetId;
81   
82    /**
83    * Gets the value of the sequence property.
84    *
85    * &lt;p&gt; This accessor method returns a reference to the live list, not a
86    * snapshot. Therefore any modification you make to the returned list will be
87    * present inside the JAXB object. This is why there is not a
88    * &lt;CODE&gt;set&lt;/CODE&gt; method for the sequence property.
89    *
90    * &lt;p&gt; For example, to add a new item, do as follows: &lt;pre&gt;
91    * getSequence().add(newItem); &lt;/pre&gt;
92    *
93    *
94    * &lt;p&gt; Objects of the following type(s) are allowed in the list
95    * {@link Sequence }
96    *
97    *
98    */
 
99  1867 toggle public List<Sequence> getSequence()
100    {
101  1867 if (sequence == null)
102    {
103  103 sequence = new ArrayList<Sequence>();
104    }
105  1867 return this.sequence;
106    }
107   
108    /**
109    * Gets the value of the annotation property.
110    *
111    * &lt;p&gt; This accessor method returns a reference to the live list, not a
112    * snapshot. Therefore any modification you make to the returned list will be
113    * present inside the JAXB object. This is why there is not a
114    * &lt;CODE&gt;set&lt;/CODE&gt; method for the annotation property.
115    *
116    * &lt;p&gt; For example, to add a new item, do as follows: &lt;pre&gt;
117    * getAnnotation().add(newItem); &lt;/pre&gt;
118    *
119    *
120    * &lt;p&gt; Objects of the following type(s) are allowed in the list
121    * {@link Annotation }
122    *
123    *
124    */
 
125  643 toggle public List<Annotation> getAnnotation()
126    {
127  643 if (annotation == null)
128    {
129  75 annotation = new ArrayList<Annotation>();
130    }
131  643 return this.annotation;
132    }
133   
134    /**
135    * Gets the value of the sequenceSetProperties property.
136    *
137    * &lt;p&gt; This accessor method returns a reference to the live list, not a
138    * snapshot. Therefore any modification you make to the returned list will be
139    * present inside the JAXB object. This is why there is not a
140    * &lt;CODE&gt;set&lt;/CODE&gt; method for the sequenceSetProperties property.
141    *
142    * &lt;p&gt; For example, to add a new item, do as follows: &lt;pre&gt;
143    * getSequenceSetProperties().add(newItem); &lt;/pre&gt;
144    *
145    *
146    * &lt;p&gt; Objects of the following type(s) are allowed in the list
147    * {@link SequenceSet.SequenceSetProperties }
148    *
149    *
150    */
 
151  173 toggle public List<SequenceSet.SequenceSetProperties> getSequenceSetProperties()
152    {
153  173 if (sequenceSetProperties == null)
154    {
155  110 sequenceSetProperties = new ArrayList<SequenceSet.SequenceSetProperties>();
156    }
157  173 return this.sequenceSetProperties;
158    }
159   
160    /**
161    * Gets the value of the alcodonFrame property.
162    *
163    * &lt;p&gt; This accessor method returns a reference to the live list, not a
164    * snapshot. Therefore any modification you make to the returned list will be
165    * present inside the JAXB object. This is why there is not a
166    * &lt;CODE&gt;set&lt;/CODE&gt; method for the alcodonFrame property.
167    *
168    * &lt;p&gt; For example, to add a new item, do as follows: &lt;pre&gt;
169    * getAlcodonFrame().add(newItem); &lt;/pre&gt;
170    *
171    *
172    * &lt;p&gt; Objects of the following type(s) are allowed in the list
173    * {@link AlcodonFrame }
174    *
175    *
176    */
 
177  110 toggle public List<AlcodonFrame> getAlcodonFrame()
178    {
179  110 if (alcodonFrame == null)
180    {
181  110 alcodonFrame = new ArrayList<AlcodonFrame>();
182    }
183  110 return this.alcodonFrame;
184    }
185   
186    /**
187    * Gets the value of the matrix property.
188    *
189    * &lt;p&gt; This accessor method returns a reference to the live list, not a
190    * snapshot. Therefore any modification you make to the returned list will be
191    * present inside the JAXB object. This is why there is not a
192    * &lt;CODE&gt;set&lt;/CODE&gt; method for the matrix property.
193    *
194    * &lt;p&gt; For example, to add a new item, do as follows: &lt;pre&gt;
195    * getMatrix().add(newItem); &lt;/pre&gt;
196    *
197    *
198    * &lt;p&gt; Objects of the following type(s) are allowed in the list
199    * {@link MatrixType }
200    *
201    *
202    */
 
203  224 toggle public List<MatrixType> getMatrix()
204    {
205  224 if (matrix == null)
206    {
207  110 matrix = new ArrayList<MatrixType>();
208    }
209  224 return this.matrix;
210    }
211   
212    /**
213    * Gets the value of the gapChar property.
214    *
215    * @return possible object is {@link String }
216    *
217    */
 
218  0 toggle public String getGapChar()
219    {
220  0 return gapChar;
221    }
222   
223    /**
224    * Sets the value of the gapChar property.
225    *
226    * @param value
227    * allowed object is {@link String }
228    *
229    */
 
230  73 toggle public void setGapChar(String value)
231    {
232  73 this.gapChar = value;
233    }
234   
235    /**
236    * Gets the value of the datasetId property.
237    *
238    * @return possible object is {@link String }
239    *
240    */
 
241  399 toggle public String getDatasetId()
242    {
243  399 return datasetId;
244    }
245   
246    /**
247    * Sets the value of the datasetId property.
248    *
249    * @param value
250    * allowed object is {@link String }
251    *
252    */
 
253  73 toggle public void setDatasetId(String value)
254    {
255  73 this.datasetId = value;
256    }
257   
258    /**
259    * &lt;p&gt;Java class for anonymous complex type.
260    *
261    * &lt;p&gt;The following schema fragment specifies the expected content
262    * contained within this class.
263    *
264    * &lt;pre&gt; &amp;lt;complexType&amp;gt; &amp;lt;complexContent&amp;gt;
265    * &amp;lt;restriction
266    * base="{http://www.w3.org/2001/XMLSchema}anyType"&amp;gt; &amp;lt;attribute
267    * name="key" type="{http://www.w3.org/2001/XMLSchema}string" /&amp;gt;
268    * &amp;lt;attribute name="value"
269    * type="{http://www.w3.org/2001/XMLSchema}string" /&amp;gt;
270    * &amp;lt;/restriction&amp;gt; &amp;lt;/complexContent&amp;gt;
271    * &amp;lt;/complexType&amp;gt; &lt;/pre&gt;
272    *
273    *
274    */
275    @XmlAccessorType(XmlAccessType.FIELD)
276    @XmlType(name = "")
 
277    public static class SequenceSetProperties
278    {
279   
280    @XmlAttribute(name = "key")
281    protected String key;
282   
283    @XmlAttribute(name = "value")
284    protected String value;
285   
286    /**
287    * Gets the value of the key property.
288    *
289    * @return possible object is {@link String }
290    *
291    */
 
292  21 toggle public String getKey()
293    {
294  21 return key;
295    }
296   
297    /**
298    * Sets the value of the key property.
299    *
300    * @param value
301    * allowed object is {@link String }
302    *
303    */
 
304  21 toggle public void setKey(String value)
305    {
306  21 this.key = value;
307    }
308   
309    /**
310    * Gets the value of the value property.
311    *
312    * @return possible object is {@link String }
313    *
314    */
 
315  21 toggle public String getValue()
316    {
317  21 return value;
318    }
319   
320    /**
321    * Sets the value of the value property.
322    *
323    * @param value
324    * allowed object is {@link String }
325    *
326    */
 
327  21 toggle public void setValue(String value)
328    {
329  21 this.value = value;
330    }
331   
332    }
333   
334    }
  • Report generated by OpenClover v 4.4.1 on Thu Nov 28 2024 18:14:23 GMT using coverage data from Thu Nov 28 2024 18:14:06 GMT.
  • OpenClover is free and open-source software.