[MacPorts] #56644: Broken ports after upgrade to macports 2.5

[MacPorts]

#56644: Broken ports after upgrade to macports 2.5
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 Reporter:  letaage      |      Owner:  (none)
     Type:  defect       |     Status:  new
 Priority:  Normal       |  Milestone:
Component:  ports        |    Version:  2.5.2
 Keywords:  Broken       |       Port:  HandBrakeCLI, AtomicParsley, p5.26
  ports                  |  -encode-detect.
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 After upgrading to macports 2.5 my installation is left with 3 broken
 ports, despite them recompiling without any apparatus errors.  The ports
 in question are HandBrakeCLI, AtomicParsley and p5.26-encode-detect.

 Macports detected them as broken after upgrading to 2.5.0 despite the
 affected ports not being upgraded at the time. It then tried to recompile
 them 3 times without success.  They all seem to work despite this problem.

 But now every time I upgrade or install anything macports finds the same 3
 broken ports and goes through the whole process of recompiling them all 3
 times, ultimately not resolving the problem.

 I have upgraded to macports 2.5.2 but the problem still persists.

 The ports were not broken before upgrading to 2.5, is there a bug in the
 new version, or in the portfile?

 Attached is a debug log of what I see, zipped due to size.

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Ticket URL: <https://trac.macports.org/ticket/56644>
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