updating poms for 3.8.0 branch with snapshot versions
[taxeditor.git] / eu.etaxonomy.taxeditor.molecular / plugin.xml
1 <?xml version="1.0" encoding="UTF-8"?>
2 <?eclipse version="3.4"?>
3 <plugin>
4 <extension
5 point="org.eclipse.ui.editors">
6 <editor
7 class="eu.etaxonomy.taxeditor.molecular.editor.AlignmentEditor"
8 default="false"
9 id="eu.etaxonomy.taxeditor.molecular.AlignmentEditor"
10 name="Alignment Editor">
11 </editor>
12 </extension>
13 <extension
14 point="org.eclipse.ui.views">
15 <view
16 allowMultiple="true"
17 class="eu.etaxonomy.taxeditor.molecular.editor.PherogramViewPart"
18 id="eu.etaxonomy.taxeditor.molecular.PherogramView"
19 name="PherogramView"
20 restorable="true">
21 </view>
22 </extension>
23 <extension
24 point="org.eclipse.ui.commands">
25 <command
26 defaultHandler="eu.etaxonomy.taxeditor.molecular.handler.EditSequenceHandler"
27 id="eu.etaxonomy.taxeditor.molecular.editSequence"
28 name="Edit Sequence">
29 </command>
30 <command
31 defaultHandler="eu.etaxonomy.taxeditor.molecular.handler.ShowPherogramHandler"
32 id="eu.etaxonomy.taxeditor.molecular.showPherogram"
33 name="Show Pherogram">
34 </command>
35 <command
36 id="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.cutPherogramLeft"
37 name="Cut pherogram left">
38 </command>
39 <command
40 id="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.cutPherogramRight"
41 name="Cut pherogram right">
42 </command>
43 <command
44 id="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.reverseComplementRows"
45 name="Reverse complement selected rows">
46 </command>
47 <command
48 id="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.createConsensus"
49 name="(Re)create consensus sequence">
50 </command>
51 <command
52 id="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.updateConsensus"
53 name="Update consensus sequence">
54 </command>
55 <command
56 id="eu.etaxonomy.taxeditor.molecular.pherogramComponent.toggleShowProbabilities"
57 name="Toggle show probability values">
58 </command>
59 <command
60 id="eu.etaxonomy.taxeditor.molecular.pherogramComponent.toggleShowBaseCallLines"
61 name="Toggle show base call lines">
62 </command>
63 <command
64 id="eu.etaxonomy.taxeditor.molecular.pherogramComponent.changeQualityOutput"
65 name="Change quality output">
66 </command>
67 <command
68 id="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.loadPherogram"
69 name="Load Pherogram">
70 </command>
71 <command
72 id="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.toggleInsertOverwrite"
73 name="Toggle insert/overwrite">
74 </command>
75 <command
76 id="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.toggleLeftRightInsertion"
77 name="Toggle left/right insertion in base call sequence">
78 </command>
79 </extension>
80 <extension
81 point="org.eclipse.ui.menus">
82 <menuContribution
83 locationURI="toolbar:org.eclipse.ui.main.toolbar?after=eu.etaxonomy.taxeditor.navigation.search.toolbar">
84 <toolbar
85 id="eu.etaxonomy.taxeditor.molecular.alignmentToolbar">
86 <command
87 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.toggleInsertOverwrite"
88 label="Toggle insert/overwrite"
89 style="push">
90 <visibleWhen
91 checkEnabled="true">
92 <with
93 variable="activePartId">
94 <equals
95 value="eu.etaxonomy.taxeditor.molecular.AlignmentEditor">
96 </equals>
97 </with>
98 </visibleWhen>
99 </command>
100 <command
101 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.toggleLeftRightInsertion"
102 icon="icons/pherogram-insert-left-16x16.png"
103 style="push">
104 <visibleWhen
105 checkEnabled="true">
106 <with
107 variable="activePartId">
108 <equals
109 value="eu.etaxonomy.taxeditor.molecular.AlignmentEditor">
110 </equals>
111 </with>
112 </visibleWhen>
113 </command>
114 </toolbar>
115 </menuContribution>
116 <menuContribution
117 allPopups="false"
118 locationURI="menu:org.eclipse.ui.main.menu">
119 <menu
120 label="Alignment Editor">
121 <command
122 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.loadPherogram"
123 style="push">
124 </command>
125 <command
126 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.cutPherogramLeft"
127 id="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.cutPherogramLeft"
128 name="Cut pherogram left">
129 </command>
130 <command
131 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.cutPherogramRight"
132 id="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.cutPherogramRight"
133 style="push">
134 </command>
135 <command
136 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.reverseComplementRows"
137 mnemonic="r"
138 style="push">
139 </command>
140 <command
141 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.createConsensus"
142 style="push">
143 </command>
144 <command
145 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.updateConsensus"
146 style="push">
147 </command>
148 <visibleWhen
149 checkEnabled="true">
150 <with
151 variable="activePartId">
152 <equals
153 value="eu.etaxonomy.taxeditor.molecular.AlignmentEditor">
154 </equals>
155 </with>
156 </visibleWhen>
157 </menu>
158 <menu
159 label="Pherogram View">
160 <command
161 commandId="eu.etaxonomy.taxeditor.molecular.pherogramComponent.changeQualityOutput"
162 style="push">
163 </command>
164 <command
165 commandId="eu.etaxonomy.taxeditor.molecular.pherogramComponent.toggleShowProbabilities"
166 style="push">
167 </command>
168 <command
169 commandId="eu.etaxonomy.taxeditor.molecular.pherogramComponent.toggleShowBaseCallLines"
170 style="push">
171 </command>
172 <visibleWhen
173 checkEnabled="true">
174 <with
175 variable="activePartId">
176 <equals
177 value="eu.etaxonomy.taxeditor.molecular.PherogramView">
178 </equals>
179 </with>
180 </visibleWhen>
181 </menu>
182 </menuContribution>
183 <menuContribution
184 locationURI="popup:eu.etaxonomy.taxeditor.editor.view.derivate.DerivateView?before=eu.etaxonomy.taxeditor.editor.view.derivate.DerivateContextMenu">
185 <command
186 commandId="eu.etaxonomy.taxeditor.molecular.editSequence"
187 label="Edit Sequence"
188 style="push">
189 <visibleWhen
190 checkEnabled="true">
191 <reference
192 definitionId="isSequence">
193 </reference>
194 </visibleWhen>
195 </command>
196 <command
197 commandId="eu.etaxonomy.taxeditor.molecular.showPherogram"
198 label="Show Pherogram"
199 style="push">
200 <visibleWhen
201 checkEnabled="true">
202 <reference
203 definitionId="isSingleRead">
204 </reference>
205 </visibleWhen>
206 </command>
207 </menuContribution>
208 </extension>
209 <extension
210 point="org.eclipse.ui.handlers">
211 <handler
212 class="eu.etaxonomy.taxeditor.molecular.handler.LoadPherogramHandler"
213 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.loadPherogram">
214 <activeWhen>
215 <with
216 variable="activePartId">
217 <equals
218 value="eu.etaxonomy.taxeditor.molecular.AlignmentEditor">
219 </equals>
220 </with>
221 </activeWhen>
222 </handler>
223 <handler
224 class="eu.etaxonomy.taxeditor.molecular.handler.ToggleInsertOverwriteHandler"
225 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.toggleInsertOverwrite">
226 </handler>
227 <handler
228 class="eu.etaxonomy.taxeditor.molecular.handler.ToggleLeftRightInsertionHandler"
229 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.toggleLeftRightInsertion">
230 </handler>
231 <handler
232 class="eu.etaxonomy.taxeditor.molecular.handler.CutPherogramLeftHandler"
233 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.cutPherogramLeft">
234 </handler>
235 <handler
236 class="eu.etaxonomy.taxeditor.molecular.handler.CutPherogramRightHandler"
237 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.cutPherogramRight">
238 </handler>
239 <handler
240 class="eu.etaxonomy.taxeditor.molecular.handler.ReverseComplementHandler"
241 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.reverseComplementRows">
242 </handler>
243 <handler
244 class="eu.etaxonomy.taxeditor.molecular.handler.CreateConsensusSequenceHandler"
245 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.createConsensus">
246 </handler>
247 <handler
248 class="eu.etaxonomy.taxeditor.molecular.handler.UpdateConsensusSequenceHandler"
249 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.updateConsensus">
250 </handler>
251 <handler
252 class="eu.etaxonomy.taxeditor.molecular.handler.ToggleShowPherogramProbabilitiesHandler"
253 commandId="eu.etaxonomy.taxeditor.molecular.pherogramComponent.toggleShowProbabilities">
254 </handler>
255 <handler
256 class="eu.etaxonomy.taxeditor.molecular.handler.ToggleShowPherogramBaseCallLinesHandler"
257 commandId="eu.etaxonomy.taxeditor.molecular.pherogramComponent.toggleShowBaseCallLines">
258 </handler>
259 <handler
260 class="eu.etaxonomy.taxeditor.molecular.handler.ChangePherogramQualityOutputType"
261 commandId="eu.etaxonomy.taxeditor.molecular.pherogramComponent.changeQualityOutput">
262 </handler>
263 </extension>
264 <extension
265 point="org.eclipse.ui.bindings">
266 <scheme
267 description="%scheme.description"
268 id="eu.etaxonomy.taxeditor.bindings.scheme.default"
269 name="%scheme.name">
270 </scheme>
271 <key
272 commandId="eu.etaxonomy.taxeditor.molecular.AlignmentEditor.loadPherogram"
273 schemeId="eu.etaxonomy.taxeditor.bindings.scheme.default"
274 sequence="M1+O">
275 </key>
276 </extension>
277
278 </plugin>