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compressed input/output for 'merge' #12

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meglecz opened this issue May 3, 2021 · 0 comments

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meglecz commented May 3, 2021

Modify merge to accept zipped input files (by default) and produce zipped output
Make option to use unzipped I/O.

vsearch detects automatically if its input is compressed or not. It is enough to put .gz filenames to fastqinfo.
zip output fasta files. It seems to me, that vsearch reads gz files, but produces only unzipped output.
pigz can be interesting for zipping with multi-threading, since files can be very large (several Gb for novaseq).

aitgon closed this as completed

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