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py-cutadapt: Update to 4.7 (minor update)

Send error message to stderr
Add support for single-ended uBAM
Drop Python 3.7

Changes: https://cutadapt.readthedocs.io/en/stable/changes.html

biology/py-cutadapt: Update to 4.6

Numerous bug fixes and enhancements since 3.5
Changes: https://github.com/marcelm/cutadapt/tags

Also replaced ALTERNATIVES with PYTHON_SELF_CONFLICT
ALTERNATIVES does not work automatically and there is no reason
to have more than one installation of py-cutadapt

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.

biology: Replace RMD160 checksums with BLAKE2s checksums

All checksums have been double-checked against existing RMD160 and
SHA512 hashes

biology: Remove SHA1 hashes for distfiles

py-cutadapt: updated to 3.4

v3.4 (2021-03-30)
-----------------
* :issue:`481`: An experimental single-file Windows executable of Cutadapt
  is `available for download on the GitHub "releases"
  page <https://github.com/marcelm/cutadapt/releases>`_.
* :issue:`517`: Report correct sequence in info file if read was reverse complemented
* :issue:`517`: Added a column to the info file that shows whether the read was
  reverse-complemented (if ``--revcomp`` was used)
* :issue:`320`: Fix (again) "Too many open files" when demultiplexing

py-cutadapt: updated to 3.3

v3.3:
* :issue:`504`: Fix a crash on Windows.
* :issue:`490`: When ``--rename`` is used with ``--revcomp``, disable adding the
  ``rc`` suffix to reads that were reverse-complemented.
* Also, there is now a ``{rc}` template variable for the ``--rename`` option, which
  is replaced with "rc" if the read was reverse-complemented (and the empty string if not).
* :issue:`512`: Fix issue :issue:`128` once more (the “Reads written” figure in the report
  incorrectly included both trimmed and untrimmed reads if ``--untrimmed-output`` was used).
* :issue:`515`: The report is now send to stderr if any output file is
  written to stdout

biology/py-cutadapt: import py38-cutadapt-3.2

Cutadapt finds and removes adapter sequences, primers, poly-A tails and other
types of unwanted sequence from your high-throughput sequencing reads.