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If click on a node in the search results window while a search is still running the line numbers are displayed. But at the end of that search the line numbers are removed and the "position within file" pane is blank. Obviously one needs to search a large tree to see this happen.
I tried to reproduce it and found that the line numbers may get lost even while before the search is finished. It does not happen immediately (immediately another matching file is found) but only after several files are added to the list of found files. The cause is probably that the left panel of the Search Results window loses information about selected node.
Fixed in the trunk. The Search Results window is no longer split into to parts since 11 May 2004. Since then, list of occurences within a file is displayed as subnodes of the node representing the file. When these subnodes are displayed, they do not hide as searching continues. The new behaviour was introduced by CVS revision 1.17 of file utilities/src/org/netbeans/modules/search/ResultView.java.