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s1kd-flatten: Remove "merging" behaviour of -a/-R
Removed the "merging" behaviour of the -R and recently added -a options, where the contents of the referenced PM would be copied into the main PM in an S1000D-compliant way. Instead, the tool will always use the non-S1000D-compliant format of including the whole <pm> element in place of the <pmRef>. There are too many different ways that merging can be done, so it's better to let projects decide how using a separate tool, such as an XSL transformation on the output of s1kd-flatten. For example, they can decide to make the output S1000D-compliant by turning the <pm> element into a <pmEntry>, or copying the contents directly into the main PM. The -a option has been removed since it no longer has any meaning with the new behaviour of -R.
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