Deprecate variable outside an auxillary item?

sbgn / process-descriptions

SBGN PD specification

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Deprecate variable outside an auxillary item? #218

Closed cannin closed 3 months ago

cannin commented 6 years ago

Remove the word instance? Also, in oldv2, having the variable outside of the state variable container is deprecated. Should we do the same? It would also simplify greatly the above text that is a bit messy (two boxes, @ is in none of them for example). Finally, the identity of state variables is not clear (we have to keep in mind Andreas' comment on the position of state variables.)

cannin commented 6 years ago

I believe it should be deprecated and then we deal with whether constitutes a level versus version change.

adrienrougny commented 6 years ago

I agree. We need to discuss the level vs version issue.

cannin commented 4 months ago

Example

cannin commented 4 months ago

L1V2.1: Similar to stadium chemical glyph explicitly say "deprecated"

Container: A state variable is represented by a “stadium” shape, that is two semicircles of the same radius joined by parallel segments, as shown in Figure 2.3. The centre of the shape should be placed on the border of the EPN. In previous versions of this specification, the state variable was represented by an elliptic shape. This symbol is now deprecated in favour of the stadium shape described above.

L2+: Remove example

hasanbalci commented 3 months ago

In Section 2.3.2 Glyph: State variable, I replaced

"Aternatively, the substring identifying the name of the state variable may be displayed using a second label, placed outside of the shape. This is, however, strongly discouraged." by

"In previous versions of this specification, the substring identifying the name of the state variable was allowed to be displayed using a second label, placed outside of the shape. This alternative approach is now deprecated with this version."

I also replaced "discouraged" by "deprecated" in the caption of Figure 2.3.