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Mention deprecation of Bio.utils.ungap and fixing some long lines in …

…the DEPRECATED file (aiming for max 78 chars)
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commit ae3349dd482b6f0d0edb4dc8d7834c526771ebd7 1 parent 999d2e4
@peterjc peterjc authored
Showing with 9 additions and 9 deletions.
  1. +9 −9 DEPRECATED
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18 DEPRECATED
@@ -9,8 +9,9 @@ Release 1.50, with a mention in the release notes for Release 1.49.
Bio.Blast.NCBIStandalone.blastall, blastpgp and rpsblast
========================================================
-These command line tools were declared obsolete in Release 1.53, please use
-the BLAST+ wrappers in Bio.Blast.Applications and the subprocess module instead.
+These command line tools calling functions were declared obsolete in Release
+1.53, please use the BLAST+ wrappers in Bio.Blast.Applications and the Python
+subprocess module instead.
Bio.Blast.Applications
======================
@@ -283,11 +284,10 @@ This was deprecated in Release 1.43 and removed in Release 1.44.
Bio.SeqUtils
============
-The functions 'complement' and 'antiparallel' in Bio.SeqUtils have been
-deprecated as of Release 1.31, and removed in Release 1.43.
-Use the functions 'complement' and 'reverse_complement' in Bio.Seq instead.
-The function 'translate' was deprecated in Release 1.49, and removed in Release
-1.53.
+Functions 'complement' and 'antiparallel' in Bio.SeqUtils were deprecated
+in Release 1.31, and removed in Release 1.43. Function 'translate' was
+deprecated in Release 1.49, and removed in Release 1.53. Use the functions
+and methods in Bio.Seq instead.
Bio.GFF
=======
@@ -332,6 +332,6 @@ Release 1.53.
Bio.utils
=========
-The functions 'translate', 'translate_to_stop', 'back_translate', 'transcribe',
+Functions 'translate', 'translate_to_stop', 'back_translate', 'transcribe',
and 'back_transcribe' were deprecated in Release 1.49, and removed in Release
-1.53.
+1.53. Function 'ungap' was deprecated in Release 1.53.
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