The error,

DEBUG> Filer 'org.apache.xindice.core.filer.BTreeFiler' not available

was caused because linux has a default maximum of 1024 open files.
Seems like the more collections and indexers you have, the more open files.

I solved the problem by setting the value for open files higher.
this can be done (on linux) by the command.

#ulimit -n 5000

don't know yet what the downside on other processes or system-load is, or could be.

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