I've just tried:

va...@sinus:~/sgdn/verona$ ctags-exuberant -e -a ./mediastreamer2/src/msconf.c 
va...@sinus:~/sgdn/verona$ mv TAGS TAGS.safe
va...@sinus:~/sgdn/verona$ ctags-exuberant -e -a mediastreamer2/src/msconf.c 
va...@sinus:~/sgdn/verona$ diff TAGS TAGS.safe
2c2
< mediastreamer2/src/msconf.c,3688
---
> mediastrmer2/2/src/msconf.c,3688
va...@sinus:~/sgdn/verona$

-- 
etags screw filenames starting with ./
https://bugs.launchpad.net/bugs/582347
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