Daniel,
   I see that I can build the desired fink with...

fink -k --trees=unstable build fink

but I seem unable to install it over the old version from fink cvs...

[MacPro:~] howarth% fink -k --trees=unstable install fink
Scanning package description files..........
Information about 9758 packages read in 1 seconds.
The following package will be installed or updated:
 fink
The following additional package will be installed:
 base-files
Do you want to continue? [Y/n] Y
Reading buildlock packages...
/sw/bin/dpkg-lockwait -i 
/sw/fink/dists/unstable/main/binary-darwin-x86_64/base/base-files_1.9.11-1_darwin-x86_64.deb
(Reading database ... 120966 files and directories currently installed.)
Preparing to replace base-files 1.9.11-1 (using 
.../base-files_1.9.11-1_darwin-x86_64.deb) ...
Unpacking replacement base-files ...
Setting up base-files (1.9.11-1) ...

Reading buildlock packages...
/sw/bin/dpkg-lockwait -i 
/sw/fink/dists/unstable/main/binary-darwin-x86_64/base/base-files_1.9.11-1_darwin-x86_64.deb
(Reading database ... 120966 files and directories currently installed.)
Preparing to replace base-files 1.9.11-1 (using 
.../base-files_1.9.11-1_darwin-x86_64.deb) ...
Unpacking replacement base-files ...
Setting up base-files (1.9.11-1) ...

Reading buildlock packages...
Could not resolve inconsistent dependencies!

Fink isn't sure how to install the above packages safely. You may be able to 
fix things by running:

  fink scanpackages
  sudo apt-get update
  sudo apt-get install fink=0.29.19-51

Failed: Fink::SysState: Could not resolve inconsistent dependencies

I was forced to manually install it with...

[MacPro:main/binary-darwin-x86_64/base] root# dpkg -i 
fink_0.29.19-51_darwin-x86_64.deb

This version seemed to work now when using 'fink cleanup --debs'. 

[MacPro:main/binary-darwin-x86_64/sci] howarth% ls ccp4*
ccp4-dev_6.1.1-9_darwin-x86_64.deb      ccp4-shlibs_6.1.1-9_darwin-x86_64.deb   
ccp4_6.1.1-9_darwin-x86_64.deb
ccp4-dev_6.1.13-1_darwin-x86_64.deb     ccp4-shlibs_6.1.13-1_darwin-x86_64.deb  
ccp4_6.1.13-1_darwin-x86_64.deb
ccp4-dev_6.1.2-1_darwin-x86_64.deb      ccp4-shlibs_6.1.2-1_darwin-x86_64.deb   
ccp4_6.1.2-1_darwin-x86_64.deb
ccp4-dev_6.1.2-4_darwin-x86_64.deb      ccp4-shlibs_6.1.2-4_darwin-x86_64.deb   
ccp4_6.1.2-4_darwin-x86_64.deb
ccp4-dev_6.1.3-1_darwin-x86_64.deb      ccp4-shlibs_6.1.3-1_darwin-x86_64.deb   
ccp4_6.1.3-1_darwin-x86_64.deb

was reduced to

[MacPro:main/binary-darwin-x86_64/sci] root# ls ccp4*
ccp4-dev_6.1.13-1_darwin-x86_64.deb     ccp4-shlibs_6.1.13-1_darwin-x86_64.deb  
ccp4_6.1.13-1_darwin-x86_64.deb
ccp4-dev_6.1.2-4_darwin-x86_64.deb      ccp4-shlibs_6.1.2-4_darwin-x86_64.deb   
ccp4_6.1.2-4_darwin-x86_64.deb

where both version/revision combinations currently exist in either stable or 
unstable.

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