[med-svn] r22083 - trunk/packages/garli/trunk/debian

[Andreas Tille]

Author: tille
Date: 2016-06-03 15:21:55 +0000 (Fri, 03 Jun 2016)
New Revision: 22083

Added:
   trunk/packages/garli/trunk/debian/garli.1
   trunk/packages/garli/trunk/debian/manpages
Modified:
   trunk/packages/garli/trunk/debian/changelog
   trunk/packages/garli/trunk/debian/rules
Log:
Add manpage and upload


Modified: trunk/packages/garli/trunk/debian/changelog
===================================================================
--- trunk/packages/garli/trunk/debian/changelog	2016-06-03 14:42:56 UTC (rev 22082)
+++ trunk/packages/garli/trunk/debian/changelog	2016-06-03 15:21:55 UTC (rev 22083)
@@ -1,5 +1,5 @@
-garli (2.1-1) UNRELEASED; urgency=low
+garli (2.1-1) unstable; urgency=low
 
-  * Initial release (Closes: #<bug>)
+  * Initial release (Closes: #826236)
 
- -- Andreas Tille <tille at debian.org>  Fri, 23 Oct 2015 08:41:45 +0200
+ -- Andreas Tille <tille at debian.org>  Fri, 03 Jun 2016 16:57:40 +0200

Added: trunk/packages/garli/trunk/debian/garli.1
===================================================================
--- trunk/packages/garli/trunk/debian/garli.1	                        (rev 0)
+++ trunk/packages/garli/trunk/debian/garli.1	2016-06-03 15:21:55 UTC (rev 22083)
@@ -0,0 +1,42 @@
+.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.47.4.
+.TH GARLI "1" "June 2016" "garli 2.1" "User Commands"
+.SH NAME
+garli \- phylogenetic analysis of molecular sequence data using maximum-likelihood
+.SH SYNOPSIS
+.B garli
+[\fI\,OPTION\/\fR] [\fI\,config filename\/\fR]
+.SH DESCRIPTION
+GARLI, Genetic Algorithm for Rapid Likelihood Inference is a program for
+inferring phylogenetic trees. Using an approach similar to a classical
+genetic algorithm, it rapidly searches the space of evolutionary trees
+and model parameters to find the solution maximizing the likelihood
+score. It implements nucleotide, amino acid and codon-based models of
+sequence evolution, and runs on all platforms. The latest version adds
+support for partitioned models and morphology-like datatypes.
+.SH OPTIONS
+.TP
+\fB\-i\fR, \fB\-\-interactive\fR
+interactive mode (allow and/or expect user feedback)
+.TP
+\fB\-b\fR, \fB\-\-batch\fR
+batch mode (do not expect user input)
+(batch is the default for the version you are running)
+.TP
+\fB\-v\fR, \fB\-\-version\fR
+print version information and exit
+.TP
+\fB\-h\fR, \fB\-\-help\fR
+print this help and exit
+.TP
+\fB\-t\fR
+run internal tests (requires dataset and config file)
+.TP
+\fB\-V\fR
+validate: load config file and data, validate config file, data, starting trees
+and constraint files, print required memory and selected model, then exit
+.P
+NOTE: If no config filename is passed on the command line the program
+will look in the current directory for a file named "garli.conf"
+.PP
+.SH AUTHOR
+This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.

Added: trunk/packages/garli/trunk/debian/manpages
===================================================================
--- trunk/packages/garli/trunk/debian/manpages	                        (rev 0)
+++ trunk/packages/garli/trunk/debian/manpages	2016-06-03 15:21:55 UTC (rev 22083)
@@ -0,0 +1 @@
+debian/*.1

Modified: trunk/packages/garli/trunk/debian/rules
===================================================================
--- trunk/packages/garli/trunk/debian/rules	2016-06-03 14:42:56 UTC (rev 22082)
+++ trunk/packages/garli/trunk/debian/rules	2016-06-03 15:21:55 UTC (rev 22083)
@@ -1,6 +1,6 @@
 #!/usr/bin/make -f
 
-DEBPKGNAME     := $(shell dpkg-parsechangelog | awk '/^Source:/ {print $$2}')
+export DEB_BUILD_MAINT_OPTIONS = hardening=+all
 
 %:
 	dh $@ --with autoreconf