[med-svn] r23380 - in trunk/packages/snap/trunk/debian: . bin mans

[Andreas Tille]

Author: tille
Date: 2016-12-23 11:38:12 +0000 (Fri, 23 Dec 2016)
New Revision: 23380

Added:
   trunk/packages/snap/trunk/debian/bin/snap-hmm
   trunk/packages/snap/trunk/debian/mans/snap-hmm.1
Removed:
   trunk/packages/snap/trunk/debian/bin/snap
   trunk/packages/snap/trunk/debian/mans/snap.1
Modified:
   trunk/packages/snap/trunk/debian/changelog
   trunk/packages/snap/trunk/debian/snap.install
Log:
Rename /usr/bin/snap to /usr/bin/snap-hmm (TODO: documentation in NEWS.Debian, README.Debian)


Deleted: trunk/packages/snap/trunk/debian/bin/snap
===================================================================
--- trunk/packages/snap/trunk/debian/bin/snap	2016-12-23 11:28:42 UTC (rev 23379)
+++ trunk/packages/snap/trunk/debian/bin/snap	2016-12-23 11:38:12 UTC (rev 23380)
@@ -1,2 +0,0 @@
-#!/bin/sh
-ZOE=/usr/share/snap/Zoe /usr/lib/snap/snap $@

Copied: trunk/packages/snap/trunk/debian/bin/snap-hmm (from rev 23379, trunk/packages/snap/trunk/debian/bin/snap)
===================================================================
--- trunk/packages/snap/trunk/debian/bin/snap-hmm	                        (rev 0)
+++ trunk/packages/snap/trunk/debian/bin/snap-hmm	2016-12-23 11:38:12 UTC (rev 23380)
@@ -0,0 +1,2 @@
+#!/bin/sh
+ZOE=/usr/share/snap/Zoe /usr/lib/snap/snap $@

Modified: trunk/packages/snap/trunk/debian/changelog
===================================================================
--- trunk/packages/snap/trunk/debian/changelog	2016-12-23 11:28:42 UTC (rev 23379)
+++ trunk/packages/snap/trunk/debian/changelog	2016-12-23 11:38:12 UTC (rev 23380)
@@ -2,6 +2,8 @@
 
   * debhelper 10
   * d/watch: version=4
+  * Rename /usr/bin/snap to /usr/bin/snap-hmm
+    Closes: #849161, #849162
 
  -- Andreas Tille <tille at debian.org>  Fri, 23 Dec 2016 12:27:28 +0100
 

Copied: trunk/packages/snap/trunk/debian/mans/snap-hmm.1 (from rev 23379, trunk/packages/snap/trunk/debian/mans/snap.1)
===================================================================
--- trunk/packages/snap/trunk/debian/mans/snap-hmm.1	                        (rev 0)
+++ trunk/packages/snap/trunk/debian/mans/snap-hmm.1	2016-12-23 11:38:12 UTC (rev 23380)
@@ -0,0 +1,41 @@
+.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.43.3.
+.TH SNAP "1" "October 2013" "snap 2010-07-28" "User Commands"
+.SH NAME
+snap-hmm \- Semi-HMM-based Nucleic Acid Parser
+.SH SYNOPSIS
+.B snap
+[\fIoptions\fR] <\fBHMM file\fR> <\fBFASTA file\fR> [\fIoptions\fR]
+.SH OPTIONS
+.TP
+\fB\-help\fR
+report useful information
+.TP
+\fB\-lcmask\fR
+treat lowercase as N
+.TP
+\fB\-plus\fR
+predict on plus strand only
+.TP
+\fB\-minus\fR
+predict on minus strand only
+.TP
+\fB\-gff\fR
+output annotation as GFF
+.TP
+\fB\-ace\fR
+output annotation as ACED
+.TP
+\fB\-quiet\fR
+do not send progress to STDERR
+.TP
+\fB\-aa\fR <file>
+create FASTA file of proteins
+.TP
+\fB\-tx\fR <file>
+create FASTA file of transcripts
+.TP
+\fB\-xdef\fR <file>
+external definitions
+.TP
+\fB\-name\fR <string>
+name for the gene [default snap]

Deleted: trunk/packages/snap/trunk/debian/mans/snap.1
===================================================================
--- trunk/packages/snap/trunk/debian/mans/snap.1	2016-12-23 11:28:42 UTC (rev 23379)
+++ trunk/packages/snap/trunk/debian/mans/snap.1	2016-12-23 11:38:12 UTC (rev 23380)
@@ -1,41 +0,0 @@
-.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.43.3.
-.TH SNAP "1" "October 2013" "snap 2010-07-28" "User Commands"
-.SH NAME
-snap \- Semi-HMM-based Nucleic Acid Parser
-.SH SYNOPSIS
-.B snap
-[\fIoptions\fR] <\fBHMM file\fR> <\fBFASTA file\fR> [\fIoptions\fR]
-.SH OPTIONS
-.TP
-\fB\-help\fR
-report useful information
-.TP
-\fB\-lcmask\fR
-treat lowercase as N
-.TP
-\fB\-plus\fR
-predict on plus strand only
-.TP
-\fB\-minus\fR
-predict on minus strand only
-.TP
-\fB\-gff\fR
-output annotation as GFF
-.TP
-\fB\-ace\fR
-output annotation as ACED
-.TP
-\fB\-quiet\fR
-do not send progress to STDERR
-.TP
-\fB\-aa\fR <file>
-create FASTA file of proteins
-.TP
-\fB\-tx\fR <file>
-create FASTA file of transcripts
-.TP
-\fB\-xdef\fR <file>
-external definitions
-.TP
-\fB\-name\fR <string>
-name for the gene [default snap]

Modified: trunk/packages/snap/trunk/debian/snap.install
===================================================================
--- trunk/packages/snap/trunk/debian/snap.install	2016-12-23 11:28:42 UTC (rev 23379)
+++ trunk/packages/snap/trunk/debian/snap.install	2016-12-23 11:38:12 UTC (rev 23380)
@@ -3,7 +3,7 @@
 forge			usr/bin
 fathom			usr/bin
 snap			usr/lib/snap
-debian/bin/snap		usr/bin
+debian/bin/*		usr/bin
 cds-trainer.pl		usr/bin
 hmm-assembler.pl	usr/bin
 noncoding-trainer.pl	usr/bin