scn2xml1
Xmlify
Part of csv2xml(1).
Usage
csv2xml { | scn2xml | tbl2xml
[-set
tag]
[-rec
tag]
[-skip
N]
[-header]
[{-lower | -upper}]
[{-indent | -flush}]
columnName1 ...}
fsa2xml
gbf2ref
gbf2xml
ini2xml
json2xml [-set
tag]
[-rec
tag]
[{-nest
flat | recurse | plural | singular | depth | element}]
toml2xml
yaml2xml
Overview
These commands all simply invoke corresponding transmute(1) modes; each reads a stream of data from standard input, converts it to XML suitable for -path navigation, and writes the result to standard output. Specifically:
csv2xml-
corresponds to transmute -c2x, converting comma-separated values to XML.
fsa2xml-
corresponds to transmute -f2x, converting FASTA streams to XML.
gbf2ref-
corresponds to transmute -g2r, converting from GenBank/GenPept flatfile format to Reference Index XML.
gbf2xml-
corresponds to transmute -g2x, converting from GenBank/GenPept flatfile format to INSDSeq XML.
ini2xml-
corresponds to transmute -i2x, converting from
.iniconfiguration file format to XML.
json2xml-
corresponds to transmute -j2x, converting JSON to XML.
scn2xml-
corresponds to transmute -s2x, converting a semicolon-delimited table to XML.
tbl2xml-
corresponds to transmute -t2x, converting a tab-delimited table to XML.
toml2xml-
corresponds to transmute -m2x, converting from TOML format to XML.
yaml2xml-
corresponds to transmute -y2x, converting from YAML format to XML.
There is also an analogous asn2xml wrapper corresponding to transmute -a2x (converting text ASN.1 to XML), but Debian systems install it to /usr/lib/ncbi-entrez-direct/bin to avoid conflicting with the ncbi-tools-bin package's asn2xml(1).
Options
See transmute(1).
History
- Debian 13 (Trixie): the text shown here
- Debian 12 (Bookworm)