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Coverage Report

  1. Project Clover database Wed Nov 13 2024 18:27:33 GMT
  2. Package ext.vamsas

File MuscleWSSoapBindingStub.java

 

Coverage histogram

../../img/srcFileCovDistChart0.png
59% of files have more coverage

Code metrics

36
203
10
1
474
378
33
0.16
20.3
10
3.3

Classes

Class Line # Actions
MuscleWSSoapBindingStub 23 203 33
0.00%
 

Contributing tests

No tests hitting this source file were found.

Source view

1    /*
2    * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
3    * Copyright (C) $$Year-Rel$$ The Jalview Authors
4    *
5    * This file is part of Jalview.
6    *
7    * Jalview is free software: you can redistribute it and/or
8    * modify it under the terms of the GNU General Public License
9    * as published by the Free Software Foundation, either version 3
10    * of the License, or (at your option) any later version.
11    *
12    * Jalview is distributed in the hope that it will be useful, but
13    * WITHOUT ANY WARRANTY; without even the implied warranty
14    * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
15    * PURPOSE. See the GNU General Public License for more details.
16    *
17    * You should have received a copy of the GNU General Public License
18    * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
19    * The Jalview Authors are detailed in the 'AUTHORS' file.
20    */
21    package ext.vamsas;
22   
 
23    public class MuscleWSSoapBindingStub extends org.apache.axis.client.Stub
24    implements ext.vamsas.MuscleWS
25    {
26    static org.apache.axis.description.OperationDesc[] _operations;
27   
 
28  0 toggle static
29    {
30  0 _operations = new org.apache.axis.description.OperationDesc[4];
31  0 _initOperationDesc1();
32    }
33   
34    private java.util.Vector cachedSerClasses = new java.util.Vector();
35   
36    private java.util.Vector cachedSerQNames = new java.util.Vector();
37   
38    private java.util.Vector cachedSerFactories = new java.util.Vector();
39   
40    private java.util.Vector cachedDeserFactories = new java.util.Vector();
41   
 
42  0 toggle public MuscleWSSoapBindingStub() throws org.apache.axis.AxisFault
43    {
44  0 this(null);
45    }
46   
 
47  0 toggle public MuscleWSSoapBindingStub(java.net.URL endpointURL,
48    javax.xml.rpc.Service service) throws org.apache.axis.AxisFault
49    {
50  0 this(service);
51  0 super.cachedEndpoint = endpointURL;
52    }
53   
 
54  0 toggle public MuscleWSSoapBindingStub(javax.xml.rpc.Service service)
55    throws org.apache.axis.AxisFault
56    {
57  0 if (service == null)
58    {
59  0 super.service = new org.apache.axis.client.Service();
60    }
61    else
62    {
63  0 super.service = service;
64    }
65   
66  0 java.lang.Class cls;
67  0 javax.xml.namespace.QName qName;
68  0 java.lang.Class beansf = org.apache.axis.encoding.ser.BeanSerializerFactory.class;
69  0 java.lang.Class beandf = org.apache.axis.encoding.ser.BeanDeserializerFactory.class;
70    // java.lang.Class enumsf =
71    // org.apache.axis.encoding.ser.EnumSerializerFactory.class;
72    // java.lang.Class enumdf =
73    // org.apache.axis.encoding.ser.EnumDeserializerFactory.class;
74  0 java.lang.Class arraysf = org.apache.axis.encoding.ser.ArraySerializerFactory.class;
75  0 java.lang.Class arraydf = org.apache.axis.encoding.ser.ArrayDeserializerFactory.class;
76    // java.lang.Class simplesf =
77    // org.apache.axis.encoding.ser.SimpleSerializerFactory.class;
78    // java.lang.Class simpledf =
79    // org.apache.axis.encoding.ser.SimpleDeserializerFactory.class;
80    // java.lang.Class simplelistsf =
81    // org.apache.axis.encoding.ser.SimpleListSerializerFactory.class;
82    // java.lang.Class simplelistdf =
83    // org.apache.axis.encoding.ser.SimpleListDeserializerFactory.class;
84  0 qName = new javax.xml.namespace.QName("simple.objects.vamsas",
85    "Sequence");
86  0 cachedSerQNames.add(qName);
87  0 cls = vamsas.objects.simple.Sequence.class;
88  0 cachedSerClasses.add(cls);
89  0 cachedSerFactories.add(beansf);
90  0 cachedDeserFactories.add(beandf);
91   
92  0 qName = new javax.xml.namespace.QName("vamsas",
93    "ArrayOf_tns1_Sequence");
94  0 cachedSerQNames.add(qName);
95  0 cls = vamsas.objects.simple.Sequence[].class;
96  0 cachedSerClasses.add(cls);
97  0 cachedSerFactories.add(arraysf);
98  0 cachedDeserFactories.add(arraydf);
99   
100  0 qName = new javax.xml.namespace.QName("simple.objects.vamsas",
101    "MsaResult");
102  0 cachedSerQNames.add(qName);
103  0 cls = vamsas.objects.simple.MsaResult.class;
104  0 cachedSerClasses.add(cls);
105  0 cachedSerFactories.add(beansf);
106  0 cachedDeserFactories.add(beandf);
107   
108  0 qName = new javax.xml.namespace.QName("simple.objects.vamsas",
109    "SequenceSet");
110  0 cachedSerQNames.add(qName);
111  0 cls = vamsas.objects.simple.SequenceSet.class;
112  0 cachedSerClasses.add(cls);
113  0 cachedSerFactories.add(beansf);
114  0 cachedDeserFactories.add(beandf);
115   
116  0 qName = new javax.xml.namespace.QName("http://simple.objects.vamsas",
117    "Object");
118  0 cachedSerQNames.add(qName);
119  0 cls = vamsas.objects.simple.Object.class;
120  0 cachedSerClasses.add(cls);
121  0 cachedSerFactories.add(beansf);
122  0 cachedDeserFactories.add(beandf);
123   
124  0 qName = new javax.xml.namespace.QName("simple.objects.vamsas",
125    "Alignment");
126  0 cachedSerQNames.add(qName);
127  0 cls = vamsas.objects.simple.Alignment.class;
128  0 cachedSerClasses.add(cls);
129  0 cachedSerFactories.add(beansf);
130  0 cachedDeserFactories.add(beandf);
131   
132  0 qName = new javax.xml.namespace.QName("simple.objects.vamsas",
133    "WsJobId");
134  0 cachedSerQNames.add(qName);
135  0 cls = vamsas.objects.simple.WsJobId.class;
136  0 cachedSerClasses.add(cls);
137  0 cachedSerFactories.add(beansf);
138  0 cachedDeserFactories.add(beandf);
139   
140  0 qName = new javax.xml.namespace.QName("vamsas", "ArrayOf_xsd_string");
141  0 cachedSerQNames.add(qName);
142  0 cls = java.lang.String[].class;
143  0 cachedSerClasses.add(cls);
144  0 cachedSerFactories.add(arraysf);
145  0 cachedDeserFactories.add(arraydf);
146   
147  0 qName = new javax.xml.namespace.QName("simple.objects.vamsas",
148    "Result");
149  0 cachedSerQNames.add(qName);
150  0 cls = vamsas.objects.simple.Result.class;
151  0 cachedSerClasses.add(cls);
152  0 cachedSerFactories.add(beansf);
153  0 cachedDeserFactories.add(beandf);
154    }
155   
 
156  0 toggle private static void _initOperationDesc1()
157    {
158  0 org.apache.axis.description.OperationDesc oper;
159  0 oper = new org.apache.axis.description.OperationDesc();
160  0 oper.setName("align");
161  0 oper.addParameter(new javax.xml.namespace.QName("", "seqSet"),
162    new javax.xml.namespace.QName("simple.objects.vamsas",
163    "SequenceSet"),
164    vamsas.objects.simple.SequenceSet.class,
165    org.apache.axis.description.ParameterDesc.IN, false, false);
166  0 oper.setReturnType(new javax.xml.namespace.QName(
167    "simple.objects.vamsas", "WsJobId"));
168  0 oper.setReturnClass(vamsas.objects.simple.WsJobId.class);
169  0 oper.setReturnQName(new javax.xml.namespace.QName("", "alignReturn"));
170  0 oper.setStyle(org.apache.axis.constants.Style.RPC);
171  0 oper.setUse(org.apache.axis.constants.Use.ENCODED);
172  0 _operations[0] = oper;
173   
174  0 oper = new org.apache.axis.description.OperationDesc();
175  0 oper.setName("getalign");
176  0 oper.addParameter(new javax.xml.namespace.QName("", "job_id"),
177    new javax.xml.namespace.QName(
178    "http://www.w3.org/2001/XMLSchema", "string"),
179    java.lang.String.class,
180    org.apache.axis.description.ParameterDesc.IN, false, false);
181  0 oper.setReturnType(new javax.xml.namespace.QName(
182    "simple.objects.vamsas", "Alignment"));
183  0 oper.setReturnClass(vamsas.objects.simple.Alignment.class);
184  0 oper.setReturnQName(
185    new javax.xml.namespace.QName("", "getalignReturn"));
186  0 oper.setStyle(org.apache.axis.constants.Style.RPC);
187  0 oper.setUse(org.apache.axis.constants.Use.ENCODED);
188  0 _operations[1] = oper;
189   
190  0 oper = new org.apache.axis.description.OperationDesc();
191  0 oper.setName("getResult");
192  0 oper.addParameter(new javax.xml.namespace.QName("", "job_id"),
193    new javax.xml.namespace.QName(
194    "http://www.w3.org/2001/XMLSchema", "string"),
195    java.lang.String.class,
196    org.apache.axis.description.ParameterDesc.IN, false, false);
197  0 oper.setReturnType(new javax.xml.namespace.QName(
198    "simple.objects.vamsas", "MsaResult"));
199  0 oper.setReturnClass(vamsas.objects.simple.MsaResult.class);
200  0 oper.setReturnQName(
201    new javax.xml.namespace.QName("", "getResultReturn"));
202  0 oper.setStyle(org.apache.axis.constants.Style.RPC);
203  0 oper.setUse(org.apache.axis.constants.Use.ENCODED);
204  0 _operations[2] = oper;
205   
206  0 oper = new org.apache.axis.description.OperationDesc();
207  0 oper.setName("cancel");
208  0 oper.addParameter(new javax.xml.namespace.QName("", "jobId"),
209    new javax.xml.namespace.QName(
210    "http://www.w3.org/2001/XMLSchema", "string"),
211    java.lang.String.class,
212    org.apache.axis.description.ParameterDesc.IN, false, false);
213  0 oper.setReturnType(new javax.xml.namespace.QName(
214    "simple.objects.vamsas", "WsJobId"));
215  0 oper.setReturnClass(vamsas.objects.simple.WsJobId.class);
216  0 oper.setReturnQName(new javax.xml.namespace.QName("", "cancelReturn"));
217  0 oper.setStyle(org.apache.axis.constants.Style.RPC);
218  0 oper.setUse(org.apache.axis.constants.Use.ENCODED);
219  0 _operations[3] = oper;
220    }
221   
 
222  0 toggle protected org.apache.axis.client.Call createCall()
223    throws java.rmi.RemoteException
224    {
225  0 try
226    {
227  0 org.apache.axis.client.Call _call = (org.apache.axis.client.Call) super.service
228    .createCall();
229   
230  0 if (super.maintainSessionSet)
231    {
232  0 _call.setMaintainSession(super.maintainSession);
233    }
234   
235  0 if (super.cachedUsername != null)
236    {
237  0 _call.setUsername(super.cachedUsername);
238    }
239   
240  0 if (super.cachedPassword != null)
241    {
242  0 _call.setPassword(super.cachedPassword);
243    }
244   
245  0 if (super.cachedEndpoint != null)
246    {
247  0 _call.setTargetEndpointAddress(super.cachedEndpoint);
248    }
249   
250  0 if (super.cachedTimeout != null)
251    {
252  0 _call.setTimeout(super.cachedTimeout);
253    }
254   
255  0 if (super.cachedPortName != null)
256    {
257  0 _call.setPortName(super.cachedPortName);
258    }
259   
260  0 java.util.Enumeration keys = super.cachedProperties.keys();
261   
262  0 while (keys.hasMoreElements())
263    {
264  0 java.lang.String key = (java.lang.String) keys.nextElement();
265  0 _call.setProperty(key, super.cachedProperties.get(key));
266    }
267   
268    // All the type mapping information is registered
269    // when the first call is made.
270    // The type mapping information is actually registered in
271    // the TypeMappingRegistry of the service, which
272    // is the reason why registration is only needed for the first call.
273  0 synchronized (this)
274    {
275  0 if (firstCall())
276    {
277    // must set encoding style before registering serializers
278  0 _call.setSOAPVersion(
279    org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
280  0 _call.setEncodingStyle(org.apache.axis.Constants.URI_SOAP11_ENC);
281   
282  0 for (int i = 0; i < cachedSerFactories.size(); ++i)
283    {
284  0 java.lang.Class cls = (java.lang.Class) cachedSerClasses.get(i);
285  0 javax.xml.namespace.QName qName = (javax.xml.namespace.QName) cachedSerQNames
286    .get(i);
287  0 java.lang.Class sf = (java.lang.Class) cachedSerFactories
288    .get(i);
289  0 java.lang.Class df = (java.lang.Class) cachedDeserFactories
290    .get(i);
291  0 _call.registerTypeMapping(cls, qName, sf, df, false);
292    }
293    }
294    }
295   
296  0 return _call;
297    } catch (java.lang.Throwable _t)
298    {
299  0 throw new org.apache.axis.AxisFault(
300    "Failure trying to get the Call object", _t);
301    }
302    }
303   
 
304  0 toggle public vamsas.objects.simple.WsJobId align(
305    vamsas.objects.simple.SequenceSet seqSet)
306    throws java.rmi.RemoteException
307    {
308  0 if (super.cachedEndpoint == null)
309    {
310  0 throw new org.apache.axis.NoEndPointException();
311    }
312   
313  0 org.apache.axis.client.Call _call = createCall();
314  0 _call.setOperation(_operations[0]);
315  0 _call.setUseSOAPAction(true);
316  0 _call.setSOAPActionURI("");
317  0 _call.setSOAPVersion(
318    org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
319  0 _call.setOperationName(
320    new javax.xml.namespace.QName("vamsas", "align"));
321   
322  0 setRequestHeaders(_call);
323  0 setAttachments(_call);
324   
325  0 java.lang.Object _resp = _call
326    .invoke(new java.lang.Object[]
327    { seqSet });
328   
329  0 if (_resp instanceof java.rmi.RemoteException)
330    {
331  0 throw (java.rmi.RemoteException) _resp;
332    }
333    else
334    {
335  0 extractAttachments(_call);
336   
337  0 try
338    {
339  0 return (vamsas.objects.simple.WsJobId) _resp;
340    } catch (java.lang.Exception _exception)
341    {
342  0 return (vamsas.objects.simple.WsJobId) org.apache.axis.utils.JavaUtils
343    .convert(_resp, vamsas.objects.simple.WsJobId.class);
344    }
345    }
346    }
347   
 
348  0 toggle public vamsas.objects.simple.Alignment getalign(java.lang.String job_id)
349    throws java.rmi.RemoteException
350    {
351  0 if (super.cachedEndpoint == null)
352    {
353  0 throw new org.apache.axis.NoEndPointException();
354    }
355   
356  0 org.apache.axis.client.Call _call = createCall();
357  0 _call.setOperation(_operations[1]);
358  0 _call.setUseSOAPAction(true);
359  0 _call.setSOAPActionURI("");
360  0 _call.setSOAPVersion(
361    org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
362  0 _call.setOperationName(
363    new javax.xml.namespace.QName("vamsas", "getalign"));
364   
365  0 setRequestHeaders(_call);
366  0 setAttachments(_call);
367   
368  0 java.lang.Object _resp = _call
369    .invoke(new java.lang.Object[]
370    { job_id });
371   
372  0 if (_resp instanceof java.rmi.RemoteException)
373    {
374  0 throw (java.rmi.RemoteException) _resp;
375    }
376    else
377    {
378  0 extractAttachments(_call);
379   
380  0 try
381    {
382  0 return (vamsas.objects.simple.Alignment) _resp;
383    } catch (java.lang.Exception _exception)
384    {
385  0 return (vamsas.objects.simple.Alignment) org.apache.axis.utils.JavaUtils
386    .convert(_resp, vamsas.objects.simple.Alignment.class);
387    }
388    }
389    }
390   
 
391  0 toggle public vamsas.objects.simple.MsaResult getResult(java.lang.String job_id)
392    throws java.rmi.RemoteException
393    {
394  0 if (super.cachedEndpoint == null)
395    {
396  0 throw new org.apache.axis.NoEndPointException();
397    }
398   
399  0 org.apache.axis.client.Call _call = createCall();
400  0 _call.setOperation(_operations[2]);
401  0 _call.setUseSOAPAction(true);
402  0 _call.setSOAPActionURI("");
403  0 _call.setSOAPVersion(
404    org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
405  0 _call.setOperationName(
406    new javax.xml.namespace.QName("vamsas", "getResult"));
407   
408  0 setRequestHeaders(_call);
409  0 setAttachments(_call);
410   
411  0 java.lang.Object _resp = _call
412    .invoke(new java.lang.Object[]
413    { job_id });
414   
415  0 if (_resp instanceof java.rmi.RemoteException)
416    {
417  0 throw (java.rmi.RemoteException) _resp;
418    }
419    else
420    {
421  0 extractAttachments(_call);
422   
423  0 try
424    {
425  0 return (vamsas.objects.simple.MsaResult) _resp;
426    } catch (java.lang.Exception _exception)
427    {
428  0 return (vamsas.objects.simple.MsaResult) org.apache.axis.utils.JavaUtils
429    .convert(_resp, vamsas.objects.simple.MsaResult.class);
430    }
431    }
432    }
433   
 
434  0 toggle public vamsas.objects.simple.WsJobId cancel(java.lang.String jobId)
435    throws java.rmi.RemoteException
436    {
437  0 if (super.cachedEndpoint == null)
438    {
439  0 throw new org.apache.axis.NoEndPointException();
440    }
441   
442  0 org.apache.axis.client.Call _call = createCall();
443  0 _call.setOperation(_operations[3]);
444  0 _call.setUseSOAPAction(true);
445  0 _call.setSOAPActionURI("");
446  0 _call.setSOAPVersion(
447    org.apache.axis.soap.SOAPConstants.SOAP11_CONSTANTS);
448  0 _call.setOperationName(
449    new javax.xml.namespace.QName("vamsas", "cancel"));
450   
451  0 setRequestHeaders(_call);
452  0 setAttachments(_call);
453   
454  0 java.lang.Object _resp = _call.invoke(new java.lang.Object[] { jobId });
455   
456  0 if (_resp instanceof java.rmi.RemoteException)
457    {
458  0 throw (java.rmi.RemoteException) _resp;
459    }
460    else
461    {
462  0 extractAttachments(_call);
463   
464  0 try
465    {
466  0 return (vamsas.objects.simple.WsJobId) _resp;
467    } catch (java.lang.Exception _exception)
468    {
469  0 return (vamsas.objects.simple.WsJobId) org.apache.axis.utils.JavaUtils
470    .convert(_resp, vamsas.objects.simple.WsJobId.class);
471    }
472    }
473    }
474    }
  • Report generated by OpenClover v 4.4.1 on Wed Nov 13 2024 18:35:04 GMT using coverage data from Wed Nov 13 2024 18:34:45 GMT.
  • OpenClover is free and open-source software.