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Commit 75ad2d07 authored by David Parsons's avatar David Parsons
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Update extract man page

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./"test with man -l <file>
.TH AEVOL "1" "July 2014" "aevol 4.4" "User Manual"
.TH AEVOL "1" "May 2016" "aevol 5.0" "User Manual"
.SH NAME
aevol \- an in silico experimental evolution platform
Aevol \- an in silico experimental evolution platform
.SH SYNOPSIS
.B aevol_misc_extract \-h
|
......@@ -11,7 +11,7 @@ aevol \- an in silico experimental evolution platform
|
.B \-\-version
.br
.B aevol_misc_extract \fR[\fB\-r\fI GENER\fR | \fB\-p\fI POP_FILE\fR] \fR[\fB\-t\fI PHEN_FILE\fR] \fR[\fB\-s\fI SEQ_FILE\fR] \fR[\fB\-g\fI NUM_GU\fR] \fR[\fB\-b\fR]
.B aevol_misc_extract \fR[\fB\-t\fI TIMESTEP\fR] \fR[\fB\-S\fI SEQ_FILE\fR] \fR[\fB\-T\fI TRIANGLE_FILE\fR] \fR[\fB\-U\fI NUM_GU\fR] \fR[\fB\-a\fR]
.SH DESCRIPTION
.B Aevol
is a simulation platform that allows one to let populations of digital organisms evolve in different conditions and study experimentally the mechanisms responsible for the structuration of the genome and the transcriptome.
......@@ -26,33 +26,32 @@ print help, then exit
.B \-V, \-\-version
print version number, then exit
.HP
.B \-r
.I GENER
.B \-t
.I TIMESTEP
.br
read generation GENER from a full aevol backup
specify timestep of the individual(s) of interest
.HP
.B \-p
.I POP_FILE
.B \-S
.I SEQ_FILE
.br
read the population saved in population file POP_FILE
extract sequences into file SEQ_FILE
.HP
.B \-t
.I PHEN_FILE
.B \-T
.I TRIANGLE_FILE
.br
extract and save some infos about the phenotypes of the individuals to file PHEN_FILE
extract phenotypic data into file TRIANGLE_FILE
.HP
.B \-s
.I SEQ_FILE
.B \-U
.I NUM_GU
.br
extract and save the sequences of the individuals to file SEQ_FILE
.HP
.B \-g
.I num_gu
only treat genetic unit #NUM_GU
.br
only treat this genetic unit (by default: treat all genetic units)
default: treat all genetic units
.HP
.B \-b
.B \-a
.br
treat all the individuals
.br
only treat the best individual
default: treat only the best
.SH "SEE ALSO"
.B ae_misc_lineage, aevol_create, aevol_modify, aevol_propagate, aevol_run
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