SIMKAMERGE(1)

💖 SIMKAMERGE(1) 💖

okay bestie, so this is the manual page for simkaMerge — a comparative metagenomics method dedicated to NGS datasets ✨. It lives in section 1 of the manual, aka User Commands, which is the chill "these are programs you can just run" section. Pull up a chair, grab a boba 🧋, and let's get into it.

🎀 NAME 🎀

simkaMerge — comparative metagenomics method dedicated to NGS datasets. that's the whole vibe. 🦋

✨ DESCRIPTION ✨

so like, when you run this thing with the wrong energy (specifically with -h), it does NOT hold back. here's the literal receipts it hands you, and yes it's giving "I asked for one thing and got seven complaints" 😭:

ERROR: Unknown parameter '-h'
ERROR: Option '-nb-cores' is mandatory
ERROR: Option '-kmer-size' is mandatory
ERROR: Option '-in' is mandatory
ERROR: Option '-out-tmp-simka' is mandatory
ERROR: Option '-partition-id' is mandatory
ERROR: Option '-nb-cores' is mandatory
ERROR: Option '-max-memory' is mandatory
ERROR: Option '-kmer-shannon-index' is mandatory

lowkey important: notice that -nb-cores gets flagged as mandatory twice in that list. that's not me being extra, that's literally what the page says. 🙈

🌸 [SimkaMerge options] 🌸

every single one, no skips, no cuts, we're listing the whole roster 💅:

• -nb-cores — (1 arg) : number of cores [default '0']
• -verbose — (1 arg) : verbosity level [default '1']
• -version — (0 arg) : version
• -help — (0 arg) : help
• -nb-cores — (1 arg) : nb cores
• -kmer-size — (1 arg) : kmer size
• -in — (1 arg) : input filename
• -out-tmp-simka — (1 arg) : tmp output
• -partition-id — (1 arg) : bank name
• -nb-cores — (1 arg) : bank name
• -max-memory — (1 arg) : bank name
• -kmer-shannon-index — (1 arg) : bank name
• -simple-dist — (0 arg) : compute simple distances
• -complex-dist — (0 arg) : compute complex distances

not me pointing this out again but: -nb-cores is listed three whole times in this section — once as "number of cores", once as "nb cores", and once as "bank name". the other three "bank name" entries (-partition-id, -max-memory, -kmer-shannon-index) are just out here wearing the exact same description. iconic behavior, honestly. 👑

👑 AUTHOR 👑

This manpage was written by Shayan Doust for the Debian distribution, and it can be used for any other usage of the program. periodt. 💜

k that's the whole page bestie, you ate it, no crumbs left 🍓 this was simkaMerge version 1.5.1, dated September 2019, and you can find it filed under SIMKAMERGE(1). go forth and merge those datasets, main character 🫶✨