BaseTools: Correct report the line number in INF file issue

BaseTools: Correct report the line number in INF file issue

REF: https://bugzilla.tianocore.org/show_bug.cgi?id=3127

If one protocol is not found in package dec file, Build will report the
error message that module.inf(-1): error 4000: Value of Protocol
[gXxxProtocolGuid] is not found under [Protocols] section in MdePkg.dec.

Here, -1 should be the line number of this protocol in module INF file.

Cc: Bob Feng <bob.c.feng@intel.com>
Cc: Liming Gao <gaoliming@byosoft.com.cn>
Cc: Yuwei Chen <yuwei.chen@intel.com>
Signed-off-by: Yunhua Feng <fengyunhua@byosoft.com.cn>
Reviewed-by: Liming Gao <gaoliming@byosoft.com.cn>
Reviewed-by: Bob Feng <bob.c.feng@intel.com>