gnu-toolchain: Set correct sysconfdir for stage2-glibc

We install the ld.so config to /etc/ld.so.conf in the stage2-glibc element,
but the ldconfig tool would look for /tools/etc/ld.so.conf. This caused no
problems for a long time, I suppose because we always built on top of
sysroots that had an existing /etc/ld.so.cache file. But if `ldconfig`
hadn't already been run in the sysroot, builds depending on stage2-glibc
would fail as various things would no longer be able to find libz.so due
the ldconfig command failing to find its config file.

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