.\" Automatically generated by Pod::Man 4.14 (Pod::Simple 3.40) .\" .\" Standard preamble: .\" ======================================================================== .de Sp \" Vertical space (when we can't use .PP) .if t .sp .5v .if n .sp .. .de Vb \" Begin verbatim text .ft CW .nf .ne \\$1 .. .de Ve \" End verbatim text .ft R .fi .. .\" Set up some character translations and predefined strings. \*(-- will .\" give an unbreakable dash, \*(PI will give pi, \*(L" will give a left .\" double quote, and \*(R" will give a right double quote. \*(C+ will .\" give a nicer C++. Capital omega is used to do unbreakable dashes and .\" therefore won't be available. \*(C` and \*(C' expand to `' in nroff, .\" nothing in troff, for use with C<>. .tr \(*W- .ds C+ C\v'-.1v'\h'-1p'\s-2+\h'-1p'+\s0\v'.1v'\h'-1p' .ie n \{\ . ds -- \(*W- . ds PI pi . if (\n(.H=4u)&(1m=24u) .ds -- \(*W\h'-12u'\(*W\h'-12u'-\" diablo 10 pitch . if (\n(.H=4u)&(1m=20u) .ds -- \(*W\h'-12u'\(*W\h'-8u'-\" diablo 12 pitch . ds L" "" . ds R" "" . ds C` "" . ds C' "" 'br\} .el\{\ . ds -- \|\(em\| . ds PI \(*p . ds L" `` . ds R" '' . ds C` . ds C' 'br\} .\" .\" Escape single quotes in literal strings from groff's Unicode transform. .ie \n(.g .ds Aq \(aq .el .ds Aq ' .\" .\" If the F register is >0, we'll generate index entries on stderr for .\" titles (.TH), headers (.SH), subsections (.SS), items (.Ip), and index .\" entries marked with X<> in POD. Of course, you'll have to process the .\" output yourself in some meaningful fashion. .\" .\" Avoid warning from groff about undefined register 'F'. .de IX .. .nr rF 0 .if \n(.g .if rF .nr rF 1 .if (\n(rF:(\n(.g==0)) \{\ . if \nF \{\ . de IX . tm Index:\\$1\t\\n%\t"\\$2" .. . if !\nF==2 \{\ . nr % 0 . nr F 2 . \} . \} .\} .rr rF .\" ======================================================================== .\" .IX Title "GO-EXPORT-GRAPH 1p" .TH GO-EXPORT-GRAPH 1p "2021-01-09" "perl v5.32.0" "User Contributed Perl Documentation" .\" For nroff, turn off justification. Always turn off hyphenation; it makes .\" way too many mistakes in technical documents. .if n .ad l .nh .SH "NAME" go\-export\-graph.pl \- exports a graph .SH "SYNOPSIS" .IX Header "SYNOPSIS" .Vb 1 \& go\-export\-graph.pl \-w png ontology/gene_ontology.obo | display \- \& \& go\-export\-graph.pl ontology/gene_ontology.obo \*(Aqacc\*(Aq GO:0007610 \& \& go\-export\-graph.pl ontology/so.obo \*(Aqname\*(Aq \*(Aqprotein\*(Aq .Ve .SH "DESCRIPTION" .IX Header "DESCRIPTION" exports a graph as an indented ascii tree, \s-1PNG\s0 or \s-1OBO\s0 file .SH "ARGUMENTS" .IX Header "ARGUMENTS" after the file name you can optionally specify query constraint pairs; eg .PP .Vb 2 \& acc GO:0007610 \& name \*(Aqcysteine biosynthesis\*(Aq .Ve .SH "OPTIONS" .IX Header "OPTIONS" \fI\-w \s-1EXPORT_FORMAT\s0\fR .IX Subsection "-w EXPORT_FORMAT" .PP one of \fBtext\fR, \fBobo\fR or \fBpng\fR .SS "\-use_cache" .IX Subsection "-use_cache" If this switch is specified, then caching mode is turned on. .PP With caching mode, the first time you parse a file, then an additional file will be exported in a special format that is fast to parse. This file will have the same filename as the original file, except it will have the \*(L".cache\*(R" suffix. .PP The next time you parse the file, this program will automatically check for the existence of the \*(L".cache\*(R" file. If it exists, and is more recent than the file you specified, this is parsed instead. If it does not exist, it is rebuilt. .SS "\s-1DOCUMENTATION\s0" .IX Subsection "DOCUMENTATION" .SS "\s-1SEE ALSO\s0" .IX Subsection "SEE ALSO" go2fmt.pl