bowtie-inspect-debug(1)

Usage

bowtie-inspect [options] * <ebwt_base>

Overview

<ebwt_base>: ebwt filename minus trailing .1.ebwt/.2.ebwt

: By default, prints FASTA records of the indexed nucleotide sequences to standard out. With -n, just prints names. With -s, just prints a summary of the index parameters and sequences. With -e, preserves colors if applicable.

Options

--large-index: force inspection of the 'large' index, even if a 'small' one is present.

`-a/--across <int>`	Number of characters across in FASTA output (default: 60)
`-n/--names`	Print reference sequence names only
`-s/--summary`	Print summary incl. ref names, lengths, index properties
`-e/--ebwt-ref`	Reconstruct reference from ebwt (slow, preserves colors)
`-v/--verbose`	Verbose output (for debugging)
`-h/--help`	print detailed description of tool and its options

--help: print this usage message

64-bit Built on Debian-reproducible Thu, 25 Jan 2024 12:27:31 +0100 Compiler: gcc version 13.2.0 Options: -O3 -Wl,--hash-style=both -DPOPCNT_CAPABILITY -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=.=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=.=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=c++03 -Wl,-z,relro -Wl,-z,now Sizeof {int, long, long long, void*, size_t, off_t}: {4, 8, 8, 8, 8, 8}

Releases

7 releases since Debian 7 (Wheezy); the text changed 6 times.

7
8
9
10
11
12
13

--large-index since Debian 8 (Jessie).