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Coverage Report

  1. Project Clover database Thu Dec 4 2025 14:43:25 GMT
  2. Package jalview.ws2.actions

File BaseJob.java

 

Coverage histogram

../../../img/srcFileCovDistChart8.png
20% of files have more coverage

Code metrics

0
20
14
1
195
87
14
0.7
1.43
14
1

Classes

Class Line # Actions
BaseJob 29 20 14
0.764705976.5%
 

Contributing tests

This file is covered by 65 tests. .

Source view

1    package jalview.ws2.actions;
2   
3    import java.beans.PropertyChangeListener;
4    import java.beans.PropertyChangeSupport;
5    import java.util.List;
6   
7    import jalview.datamodel.SequenceI;
8    import jalview.util.MathUtils;
9    import jalview.ws2.actions.api.JobI;
10    import jalview.ws2.actions.api.TaskEventListener;
11    import jalview.ws2.api.JobStatus;
12    import jalview.ws2.api.WebServiceJobHandle;
13   
14    /**
15    * Basic implementation of the {@link JobI} interface which stores internal job
16    * id, status, log and error log and provides getters to those fields.
17    * Additionally, it stores sequences that will be submitted as job input and the
18    * handle to the job on the server. Extending classes can add extra fields in
19    * order to associate additional data with the job.
20    *
21    * Observers can be registered with this bean-like object to listen to changes
22    * to {@code status}, {@code log}, and {@code errorLog} properties. Typically,
23    * the events are delegated to the {@link TaskEventListener} objects observing
24    * the task that created this job.
25    *
26    * @author mmwarowny
27    */
28    // TODO: make class non-abstract by removing isInputValid()
 
29    public abstract class BaseJob implements JobI
30    {
31    protected final long internalId = MathUtils.getUID();
32   
33    protected final List<SequenceI> inputSeqs;
34   
35    protected JobStatus status = JobStatus.CREATED;
36   
37    protected String log = "";
38   
39    protected String errorLog = "";
40   
41    /* FIXME: server job is not specific to the BaseJob and should preferably
42    * be managed by classes using clients (tasks). */
43    protected WebServiceJobHandle serverJob;
44   
 
45  65 toggle public BaseJob(List<SequenceI> inputSeqs)
46    {
47  65 this.inputSeqs = inputSeqs;
48    }
49   
50    /**
51    * {@inheritDoc}
52    */
 
53  0 toggle @Override
54    public final long getInternalId()
55    {
56  0 return internalId;
57    }
58   
59    /**
60    * Return the list of input sequences associated with this job.
61    *
62    * @return input sequences
63    */
 
64  65 toggle public List<SequenceI> getInputSequences()
65    {
66  65 return inputSeqs;
67    }
68   
69    /**
70    * Check if inputs make a valid job.
71    *
72    * @return {@code true} if the input is valid.
73    */
74    // FIXME: method not necessary, may incorporate into task#prepare()
75    public abstract boolean isInputValid();
76   
77    /**
78    * Check if the job is completed, This includes jobs with invalid input,
79    * successful and unsuccessful termination.
80    *
81    * @return {@code true} if job is completed successfully or not
82    */
 
83  66 toggle public boolean isCompleted()
84    {
85  66 return !isInputValid() || getStatus().isDone();
86    }
87   
 
88  225 toggle @Override
89    public final JobStatus getStatus()
90    {
91  225 return status;
92    }
93   
94    /**
95    * Set new status of the job and notify listeners of the change. Job status is
96    * managed internally by tasks and should not be modified outside the task
97    * which created this job.
98    *
99    * @param status
100    * new job status
101    */
 
102  107 toggle public final void setStatus(JobStatus status)
103    {
104  106 JobStatus oldStatus = this.status;
105  106 this.status = status;
106  106 pcs.firePropertyChange("status", oldStatus, status);
107    }
108   
 
109  0 toggle @Override
110    public final String getLog()
111    {
112  0 return log;
113    }
114   
115    /**
116    * Set log text and notify listeners of the change. Log is managed by tasks
117    * which created the job and should not be modified by other classes.
118    *
119    * @param log
120    * new log
121    */
 
122  37 toggle public final void setLog(String log)
123    {
124  37 String oldLog = this.log;
125  37 this.log = log;
126  37 pcs.firePropertyChange("log", oldLog, log);
127    }
128   
 
129  0 toggle @Override
130    public final String getErrorLog()
131    {
132  0 return errorLog;
133    }
134   
135    /**
136    * Set error log text and notify listeners of the change. Error log is managed
137    * by tasks which created the job and should not be modified by other classes.
138    *
139    * @param errorLog
140    */
 
141  37 toggle public final void setErrorLog(String errorLog)
142    {
143  37 String oldLog = this.errorLog;
144  37 this.errorLog = errorLog;
145  37 pcs.firePropertyChange("errorLog", oldLog, errorLog);
146    }
147   
148    /**
149    * Return the job handle that identifies this job running on the server or
150    * {@code null} if the job was not submitted.
151    *
152    * @return server job handle
153    */
 
154  64 toggle public final WebServiceJobHandle getServerJob()
155    {
156  64 return serverJob;
157    }
158   
159    /**
160    * Set the server job handle once the job was submitted to the server. The
161    * handler is managed by the task which created this job and should not be
162    * modified by other classes.
163    *
164    * @param job
165    */
 
166  29 toggle public final void setServerJob(WebServiceJobHandle job)
167    {
168  29 this.serverJob = job;
169    }
170   
171    private final PropertyChangeSupport pcs = new PropertyChangeSupport(this);
172   
173    /**
174    * Register an observer that will be notified of changes to status, log and
175    * error log.
176    *
177    * @param listener
178    * property change listener
179    */
 
180  29 toggle public final void addPropertyChangeListener(PropertyChangeListener listener)
181    {
182  29 pcs.addPropertyChangeListener(listener);
183    }
184   
185    /**
186    * Remove the property listener from this object.
187    *
188    * @param listener
189    * listener to remove
190    */
 
191  0 toggle public final void removePropertyChangeListener(PropertyChangeListener listener)
192    {
193  0 pcs.removePropertyChangeListener(listener);
194    }
195    }
  • Report generated by OpenClover v 4.4.1 on Thu Dec 4 2025 14:53:28 GMT using coverage data from Thu Dec 4 2025 14:53:14 GMT.
  • OpenClover is free and open-source software.