Feature: gzip support #12
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This PR adds support for gzip-compressed .fastq files. To use it, just index and consensus call a .fastq.gz file as if it were a normal .fastq file — no extra flags needed.
Gzip-compressed file support and new abstractions:
SequentialIndexedReaderabstraction to transparently handle both uncompressed and gzip-compressed FASTQ files during indexingGzippedFileReaderwith both sequential and random-access reading capabilities for gzipped files, using theindexed_deflatecrate for efficient access and requiring a.gzi2index file