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Given the line

[Errno 13] Permission denied: '/opt/sage-4.6.1-linux-64bit-ubuntu_10.04.1_lts-x86_64-Linux/tmp/list'

it seems as if the user you are running Sage as does not have permission to write into that directory. Is /opt/sage-4.6.1-linux-64bit-ubuntu_10.04.1_lts-x86_64-Linux/tmp owned by root? You should try changing the permissions on that directory or run the command as a user with the appropriate permissions.