BOWTIE-INSPECT(1)

🎀 NAME 🎀

okay so bestie, welcome to bowtie-inspect 💖 literally the tool that extracts information from a bowtie index. that's it. that's the whole job. no cap.

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🌸 SYNOPSIS 🌸

bowtie-inspect [options]* <ebwt_base>

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💅 DESCRIPTION 💅

🦋 <ebwt_base>

this is ur ebwt filename minus the trailing .1.ebwt/.2.ebwt. yeah. you just hand it the base name and it figures the rest out, iconic behavior tbh 👑

so here's the vibe check on what comes out:

• by default? it prints FASTA records of the indexed nucleotide sequences straight to standard out 💅
• with -n? just the names. short and sweet, we respect that.
• with -s? just a summary of the index parameters and sequences 📋
• with -e? it preserves colors if applicable 🌈 (yes queen, colors)

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✨ OPTIONS ✨

• --large-index — forces inspection of the 'large' index, even if a 'small' one is sitting right there. like, we're not settling today 🔥
• -a/--across <int> — how many characters across in the FASTA output. default is 60 📏
• -n/--names — print reference sequence names only. that's it, just the names, no extras ✨
• -s/--summary — print a summary including ref names, lengths, and index properties. the full tea ☕
• -e/--ebwt-ref — reconstruct the reference from ebwt. heads up bestie, this is slow 😭 but it preserves colors 🌈
• -v/--verbose — verbose output (for debugging). for when u need to see everything 🐛
• -h/--help — print a detailed description of the tool and its options 🫶
• --help — print this usage message

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🛠️ the build deets, preserved exactly bc ur girl does not edit facts 💀

64-bit Built on Debian-reproducible Tue, 09 Dec 2025 23:19:38 +0000
Compiler: gcc version 15.2.0 Options: -O3 -Wl,--hash-style=both
-DPOPCNT_CAPABILITY -Wdate-time -D_FORTIFY_SOURCE=3 -g -O2
-Werror=implicit-function-declaration -fno-omit-frame-pointer
-mno-omit-leaf-frame-pointer -ffile-prefix-map=.=. -flto=auto
-ffat-lto-objects -fstack-protector-strong -fstack-clash-protection
-Wformat -Werror=format-security -fcf-protection
-fdebug-prefix-map=.=/usr/src/bowtie-1.3.1-3build1  -g -O2
-fno-omit-frame-pointer -mno-omit-leaf-frame-pointer
-ffile-prefix-map=.=. -flto=auto -ffat-lto-objects
-fstack-protector-strong -fstack-clash-protection -Wformat
-Werror=format-security -fcf-protection
-fdebug-prefix-map=.=/usr/src/bowtie-1.3.1-3build1 -std=c++03
-Wl,-Bsymbolic-functions
-Wl,--package-metadata={%22type%22:%22deb%22%2C%22os%22:%22ubuntu%22%2C%22name%22:%22bowtie%22%2C%22version%22:%221.3.1-3build1%22%2C%22architecture%22:%22amd64%22}
-flto=auto -ffat-lto-objects -Wl,-z,relro -Wl,-z,now Sizeof {int, long,
long long, void*, size_t, off_t}: {4, 8, 8, 8, 8, 8}

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💖 and that's the whole page, bestie! go inspect something. slay. periodt. 💅✨

ur girl was running bowtie-inspect version 1.3.1, dated December 2025 🎀 mwah, bye 🫶