CL Tools for Xcode 5.0.2 Update

After installing  this update from the App Store, when I run xcode-select --install, I get an error message that the command line tools cannot be installed because they are not available on the Software Update server. Did something change?

I am new to this (using xcode and CDT), so want to be sure what I should expect to see from `gcc --version`.  When I run this, it prints out
`Configured with: --prefix=/Applications/Xcode.app/Contents/Developer/usr --with-gxx-include-dir=/usr/include/c++/4.2.1
Apple LLVM version 5.0 (clang-500.2.79) (based on LLVM 3.3svn)
Target: x86_64-apple-darwin13.0.1
Thread model: posix`
While "Developer" is in the path, which seems reassuring, this is not what I expected from other discussions.  I did install via the .dmg file, and now I have a new path, `/Library/Developer/CommandLineTools` which was not there before (and what I expected from other discussions), and if I use the gcc found there, it actually points to the same output and prefix.
/Library/Developer/CommandLineTools/usr/bin/gcc --version
Configured with: --prefix=/Applications/Xcode.app/Contents/Developer/usr --with-gxx-include-dir=/usr/include/c++/4.2.1
Apple LLVM version 5.0 (clang-500.2.79) (based on LLVM 3.3svn)
Target: x86_64-apple-darwin13.0.1
Thread model: posix
What confuses me more, is before I installed the CDT from the dmg, I have used the `otool` trying to solve another problem, and it did not complain and tell me to install CDT.  If these report the same info, can I be certain everything is installed correctly?  I am having trouble installing some other code properly, and wondering if I have somehow goofed up my CDT install.

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