[med-svn] [blasr] 07/12: Finalize samtom4 manpage

[Afif Elghraoui]

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commit 50c770fed84074e2ec9aa9153a0f3d36156d7b74
Author: Afif Elghraoui <afif at ghraoui.name>
Date:   Wed Jul 29 23:33:40 2015 -0700

    Finalize samtom4 manpage
---
 debian/samtom4.1 | 51 ++++++++++++++++++++++++++-------------------------
 1 file changed, 26 insertions(+), 25 deletions(-)

diff --git a/debian/samtom4.1 b/debian/samtom4.1
index 033e2ce..bf5f4fb 100644
--- a/debian/samtom4.1
+++ b/debian/samtom4.1
@@ -1,32 +1,33 @@
-.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.46.4.
 .TH SAMTOM4 "1" "July 2015" "samtom4 3ca7fe8" "User Commands"
 .SH NAME
-samtom4 \- description of program
-.SH DESCRIPTION
-samtom4 Converts a SAM file generated by blasr to M4 format.
-.PP
-usage: samtom4 [in.sam] [reference.fasta] [out.m4] [options]
-.IP
-in.sam
-.IP
+samtom4 \- Convert a SAM file generated by
+.BR blasr (1)
+to M4 format
+.SH SYNOPSIS
+.B samtom4
+.I in.sam
+.I reference.fasta
+.I out.m4
+.RI [ options ]
+.SH OPTIONS
+.TP
+.I in.sam
 Input SAM file, which is produced by blasr.
-.IP
-reference.fasta
-.IP
-Reference used to generate file.sam.
-.IP
-out.m4
-.IP
-Output in blasr M4 format.
-.HP
-\fB\-header\fR
-.IP
+.TP
+.I reference.fasta
+Reference used to generate \fIfile.sam\fR.
+.TP
+.I out.m4
+Output in
+.BR blasr (1)
+M4 format.
+.TP
+.B \-header
 Print M4 header.
-.HP
-\fB\-useShortRefName\fR
-.IP
-Use abbreviated reference names obtained from file.sam instead
-of using full names from reference.fasta.
+.TP
+.B \-useShortRefName
+Use abbreviated reference names obtained from \fIfile.sam\fR instead
+of using full names from \fIreference.fasta\fR.
 .SH SEE ALSO
 .BR blasr (1)
 .BR loadPulses (1)

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