since I was renewing my certificate I added a small script (p12topem.sh) to the subversion repository to convert users p12 certificates into pem format and set their unix permission correctly. i lnked it from here:
https://www.sysadmin.hep.ac.uk/wiki/CA_Certificates_Maintenance
It assumes $HOME/.globus/user*.pem names. it doesn't therefore handle host certificates but could be easily extended.
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