Dark-matter

Latest version: v4.0.89

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3.0.48

Fixed `flake8` warnings about single backslashes in strings.

3.0.47

Make `fasta-diff.sh` use GNU parallel, if installed.

3.0.46

Not secure
Make `fasta-diff.sh` handle compressed files, exit with diff's status,
and make it possible to pass command line options through to diff.

3.0.45

Not secure
Added `bin/fasta-diff.sh` as a quick diff function that knows about
FASTA/FASTQ files. Added `bin/fasta-join.py` as a helper function for
`bin/fasta-diff.sh`.

3.0.44

Not secure
Fix [636](https://github.com/acorg/dark-matter/issues/636) in which SAM file
parsing threw an exception when an unmapped sequence with no CIGAR string
occurred in a SAM file (this can happen when running `bowtie2 --all`).

3.0.43

Not secure
Fixed thinko in 3.0.42.

Page 37 of 44

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