[med-svn] [seqtk] 05/05: Add manpage initially created by help2man and edited afterwards

[Andreas Tille]

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tille pushed a commit to branch master
in repository seqtk.

commit f986d36e2a730eb0baa49b04ef2fe8b3c1189fd4
Author: Andreas Tille <tille at debian.org>
Date:   Sat Feb 1 15:34:05 2014 +0100

    Add manpage initially created by help2man and edited afterwards
---
 debian/manpages |  1 +
 debian/rules    |  4 ++++
 debian/seqtk.1  | 48 ++++++++++++++++++++++++++++++++++++++++++++++++
 3 files changed, 53 insertions(+)

diff --git a/debian/manpages b/debian/manpages
new file mode 100644
index 0000000..0f65186
--- /dev/null
+++ b/debian/manpages
@@ -0,0 +1 @@
+debian/*.1
diff --git a/debian/rules b/debian/rules
index 440a381..c35d9b5 100755
--- a/debian/rules
+++ b/debian/rules
@@ -5,3 +5,7 @@
 %:
 	dh $@
 
+createmanpage:
+	help2man --no-info --help-option=" " --no-discard-stderr \
+         --name='sampling, trimming, fastq2fasta, subsequence, reverse complement' \
+            --version-string="1.0" seqtk > seqtk.1
diff --git a/debian/seqtk.1 b/debian/seqtk.1
new file mode 100644
index 0000000..7cf9fcb
--- /dev/null
+++ b/debian/seqtk.1
@@ -0,0 +1,48 @@
+.TH SEQTK "1" "February 2014" "seqtk 1.0" "User Commands"
+.SH NAME
+seqtk \- sampling, trimming, fastq2fasta, subsequence, reverse complement
+.SH SYNOPSIS
+.B seqtk
+\fI<command> <arguments>\fR
+.SH DESCRIPTION
+.P
+Currently, seqtk supports quality based trimming with the phred
+algorithm, converting fastq to fasta, reverse complementing sequences,
+extracting or masking subsequences in regions given in a BED/name list
+file, and more.  It contains a subsampling module to sample exactly n
+sequences or a fraction of sequences.
+.P
+Seqtk supports both fasta and fastq input files, which can be
+optionally gzip compressed.
+.SH COMMANDS
+Command: seq       common transformation of FASTA/Q
+.TP
+\fIcomp\fR
+get the nucleotide composition of FASTA/Q
+.TP
+\fIsample\fR
+subsample sequences
+.TP
+\fIsubseq\fR
+extract subsequences from FASTA/Q
+.TP
+\fItrimfq\fR
+trim FASTQ using the Phred algorithm
+.TP
+\fIhety\fR
+regional heterozygosity
+.TP
+\fImutfa\fR
+point mutate FASTA at specified positions
+.TP
+\fImergefa\fR
+merge two FASTA/Q files
+.TP
+\fIrandbase\fR
+choose a random base from hets
+.TP
+\fIcutN\fR
+cut sequence at long N
+.TP
+\fIlisthet\fR
+extract the position of each het

-- 
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