I had the following entry in my rc.data:

f.a file://balefire.isi.edu/home/voeckler/Pegasus/futuregrid/shell-staging/f.a pool="local"

which planned for a stage-in job with this entry:

#local
file://balefire.isi.edu/home/voeckler/Pegasus/futuregrid/shell-staging/f.a
#local
file:///home/voeckler/Pegasus/futuregrid/shell-staging/work/outputs/voeckler/pegasus/diamond/20100916T103630-0700/f.a

which led the shell planner to invoke pegasus-transfer that then failed like this:

2010-09-16 10:40:32,176 INFO: PATH=/opt/globus/default/bin:/opt/pegasus/latest/bin:/opt/globus/default/sbin:/sbin:/usr/sbin:/home/voeckler/bin:/usr/kerberos/bin:/usr/local/bin:/bin:/usr/bin
2010-09-16 10:40:32,176 INFO: LD_LIBRARY_PATH=/opt/globus/default/bin:/opt/pegasus/latest/bin:/opt/globus/default/sbin:/sbin:/usr/sbin:/home/voeckler/bin:/usr/kerberos/bin:/usr/local/bin:/bin:/usr/bin
2010-09-16 10:40:32,582 INFO: globus-version Version: 5.0.2 Path: /opt/globus/default/bin/globus-version
2010-09-16 10:40:34,439 INFO: globus-url-copy Version: 5.7 Path: /opt/globus/default/bin/globus-url-copy
2010-09-16 10:40:34,442 WARNING: uberftp Not found (but maybe not required)
2010-09-16 10:40:34,490 INFO: wget Version: 1.11 Path: /usr/bin/wget
2010-09-16 10:40:34,493 WARNING: lcg-cp Not found (but maybe not required)
2010-09-16 10:40:34,493 INFO: Reading URL pairs from stdin
2010-09-16 10:40:34,494 INFO: Executing: /bin/cp /home/voeckler/Pegasus/futuregrid/shell-staging/work/voeckler/pegasus/diamond/20100916T103630-0700/balefire.isi.edu/home/voeckler/Pegasus/futuregrid/shell-staging/f.a /home/voeckler/Pegasus/futuregrid/shell-staging/work/outputs/voeckler/pegasus/diamond/20100916T103630-0700/f.a
/bin/cp: cannot stat `/home/voeckler/Pegasus/futuregrid/shell-staging/work/voeckler/pegasus/diamond/20100916T103630-0700/balefire.isi.edu/home/voeckler/Pegasus/futuregrid/shell-staging/f.a': No such file or directory
2010-09-16 10:40:34,506 CRITICAL: Command '/bin/cp /home/voeckler/Pegasus/futuregrid/shell-staging/work/voeckler/pegasus/diamond/20100916T103630-0700/balefire.isi.edu/home/voeckler/Pegasus/futuregrid/shell-staging/f.a /home/voeckler/Pegasus/futuregrid/shell-staging/work/outputs/voeckler/pegasus/diamond/20100916T103630-0700/f.a' failed with error code 1