Subject: CVS commit: pkgsrc/biology/py-cutadapt
From: Adam Ciarcinski
Date: 2022-01-17 10:03:10
Message id: 20220117090310.4AD61FB24@cvs.NetBSD.org

Log Message:
py-cutadapt: updated to 3.5

v3.5 (2021-09-29)
-----------------

* :issue:`555`: Add support for dumping statistics in JSON format using ``--json``.
* :issue:`541`: Add a "Read fate breakdown" section heading to the \ 
report, and also
  add statistics for reads discarded because of ``--discard-untrimmed`` and
  ``--discard-trimmed``. With this, the numbers in that section should add up to \ 
100%.
* Add option ``-Q``, which allows to specify a quality-trimming threshold for R2 \ 
that is
  different from the one for R1.
* :issue:`567`: Add ``noindels`` adapter-trimming parameter. You can now write
  ``-a "ADAPTER;noindels"`` to disallow indels for a single adapter only.
* :issue:`570`: Fix ``--pair-adapters`` not finding some pairs when reads contain
  more than one adapter.
* :issue:`524`: Fix a memory leak when using ``--info-file`` with multiple cores.
* :issue:`559`: Fix adjacent base statistics not being shown for linked adapters.

Files:
RevisionActionfile
1.9modifypkgsrc/biology/py-cutadapt/Makefile
1.3modifypkgsrc/biology/py-cutadapt/PLIST
1.6modifypkgsrc/biology/py-cutadapt/distinfo