The PerlTidy manpage doesn't mention chained methods so I guess it doesn't handle them.
As a workaround you could format the code manually and then tell it to ignore that block with PerlTidy --format-skipping (#<<< #>>>) comments:
#<<<
my $res = SOAP::Lite
->autotype(0)
->uri('http:....')
->proxy('http:...')
->function_call();
#>>>
Of course if you have hundreds of instances like this then that will quickly become a pain.
You can also force alignment by using comments at the end of each line or newlines between them (but neither of those has much advantage over the above):
my $res = SOAP::Lite #
->autotype( 0 ) #
->uri( 'http:....' ) #
->proxy( 'http:...' ) #
->function_call(); #
--
John.
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