sand_compress_reads(1)

💖 sand_compress_reads(1) 💖

okay bestie, welcome to the sand_compress_reads manual page — it lives in section 1 of the Cooperative Computing Tools and it's literally the glow-up your FASTA files have been waiting for ✨

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🌸 NAME 🌸

sand_compress_reads — compress sequence data 💅

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🎀 SYNOPSIS 🎀

sand_compress_reads [-qcivh] [infile] [outfile]

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🦋 DESCRIPTION 🦋

so here's the vibe: sand_compress_reads reads your sequence data in standard FASTA format and spits out output in the compressed FASTA (cfa) format. and who uses that cfa format? sand_filter_master(1) and sand_align_master(1), that's who. they're the ones sliding into your DMs for it 😌

no outfile? no problem — it just uses standard output. no infile? also fine — standard input it is. main character energy either way 💫

and once the compression is done, the program prints a lil summary line with the sequences and bytes compressed. like a little receipt, but make it cute 🧾✨

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✨ OPTIONS ✨

• -q — quiet mode, aka mute the summary line. shhh 🤫
• -c — remove Celera read ids, but only if the data came from the Celera gatekeeper.
• -i — remove Celera read ids but keep the internal ids, if the data came from the Celera gatekeeper.
• -h — display version information. (yes, -h. we know. we're not gonna talk about it 🙈)
• -v — show help text.

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💀 EXIT STATUS 💀

• success? returns zero. iconic, flawless, no notes 👑
• failure? returns non-zero. we don't talk about that era 😭

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🌈 EXAMPLES 🌈

say you wanna compress mydata.fasta into mydata.cfa. the move is literally:

% sand_compress_reads mydata.fasta mydata.cfa

ate. no crumbs. 🔥

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💜 COPYRIGHT 💜

The Cooperative Computing Tools are Copyright (C) 2005-2019 The University of Notre Dame. This software is distributed under the GNU General Public License. See the file COPYING for details.

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🫶 SEE ALSO 🫶

• Cooperative Computing Tools Documentation
• SAND User Manual
• sand_filter_master(1) sand_filter_kernel(1) sand_align_master(1) sand_align_kernel(1) sand_compress_reads(1) sand_uncompress_reads(1) work_queue_worker(1)

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and that's the whole page bestie, you're fully caught up 🍓 this was CCTools 8.0.0 DEVELOPMENT — go compress something, fr fr, iykyk 💖✨🎀