[med-svn] [pbgenomicconsensus] 08/11: Update script names within manpages

[Afif Elghraoui]

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commit 0df2632f006c4a5652c7d62ef6390baef4ebead0
Author: Afif Elghraoui <afif at ghraoui.name>
Date:   Fri Feb 12 00:44:42 2016 -0800

    Update script names within manpages
---
 debian/man/gffToBed.1           |  4 ++--
 debian/man/gffToVcf.1           |  4 ++--
 debian/man/summarizeConsensus.1 |  4 ++--
 debian/patches/manpages.patch   | 17 ++++++++---------
 debian/rules                    |  2 +-
 5 files changed, 15 insertions(+), 16 deletions(-)

diff --git a/debian/man/gffToBed.1 b/debian/man/gffToBed.1
index d48dbf2..fa44e01 100644
--- a/debian/man/gffToBed.1
+++ b/debian/man/gffToBed.1
@@ -1,8 +1,8 @@
-.TH GFFTOBED.PY 1 "October 2015"
+.TH GFFTOBED 1 "February 2016"
 
 .SH NAME
 
-gffToBed.py \- converting PacBio variant GFF3 files to BED format
+gffToBed \- converting PacBio variant GFF3 files to BED format
 
 .SH OPTIONS
 
diff --git a/debian/man/gffToVcf.1 b/debian/man/gffToVcf.1
index f13da82..6899fcf 100644
--- a/debian/man/gffToVcf.1
+++ b/debian/man/gffToVcf.1
@@ -1,8 +1,8 @@
-.TH GFFTOVCF.PY 1 "October 2015"
+.TH GFFTOVCF 1 "February 2016"
 
 .SH NAME
 
-gffToVcf.py \- convert PacBio variant GFF3 files to 1000 Genomes VCF
+gffToVcf \- convert PacBio variant GFF3 files to 1000 Genomes VCF
 
 .SH OPTIONS
 
diff --git a/debian/man/summarizeConsensus.1 b/debian/man/summarizeConsensus.1
index 0c12f12..ea404be 100644
--- a/debian/man/summarizeConsensus.1
+++ b/debian/man/summarizeConsensus.1
@@ -1,8 +1,8 @@
-.TH SUMMARIZECONSENSUS.PY 1 "October 2015"
+.TH SUMMARIZECONSENSUS 1 "February 2016"
 
 .SH NAME
 
-summarizeConsensus.py \- augment the PacBio alignment_summary.gff with consensus and variants information
+summarizeConsensus \- augment the PacBio alignment_summary.gff with consensus and variants information
 
 .SH OPTIONS
 
diff --git a/debian/patches/manpages.patch b/debian/patches/manpages.patch
index 8e86641..26c441e 100644
--- a/debian/patches/manpages.patch
+++ b/debian/patches/manpages.patch
@@ -205,7 +205,7 @@ Last-Update: 2016-02-11
 + 
 +**quiver-faq**\ (7)
 +**plurality**\ (1)
-+**variantCaller.py**\ (1)
++**variantCaller**\ (1)
 +**pbgff**\ (5)
 --- pbgenomicconsensus.orig/doc/QuiverFAQ.rst
 +++ pbgenomicconsensus/doc/QuiverFAQ.rst
@@ -298,21 +298,20 @@ Last-Update: 2016-02-11
 -.. _HowToQuiver: https://github.com/PacificBiosciences/GenomicConsensus/blob/master/doc/HowToQuiver.rst
 +**quiver**\ (1)
 +**plurality**\ (1)
-+**variantCaller.py**\ (1)
++**variantCaller**\ (1)
 +**pbgff**\ (5)
 --- pbgenomicconsensus.orig/doc/VariantCallerFunctionalSpecification.rst
 +++ pbgenomicconsensus/doc/VariantCallerFunctionalSpecification.rst
-@@ -1,35 +1,17 @@
-+================
-+variantCaller.py
-+================
+@@ -1,35 +1,16 @@
++=============
++variantCaller
++=============
 +
 +-----------------------------------------------------
 +variant-calling algorithms for PacBio sequencing data
 +-----------------------------------------------------
 +
-+:Date: October 2015
-+:Version: 1.0.0
++:Date: February 2016
 +:Manual section: 1		 
  
 -
@@ -386,7 +385,7 @@ Last-Update: 2016-02-11
          ``cmpH5Sort.py``.
  
 -        The *quiver* algorithm in ``variantCaller.py`` requires its
-+        The **quiver**\ (1) algorithm in ``variantCaller.py`` requires its
++        The **quiver**\ (1) algorithm in ``variantCaller`` requires its
          input cmp.h5 file to have the following *pulse features*:
              - ``InsQV``,
              - ``SubsQV``,
diff --git a/debian/rules b/debian/rules
index 7473eed..a4347e8 100755
--- a/debian/rules
+++ b/debian/rules
@@ -17,6 +17,6 @@ override_dh_install:
 	dh_install
 	mkdir -p $(MANDIR)/man5 $(MANDIR)/man1 $(MANDIR)/man7
 	rst2man doc/VariantsGffSpecification.rst > $(MANDIR)/man5/pbgff.5
-	rst2man doc/VariantCallerFunctionalSpecification.rst > $(MANDIR)/man1/variantCaller.py.1
+	rst2man doc/VariantCallerFunctionalSpecification.rst > $(MANDIR)/man1/variantCaller.1
 	rst2man doc/HowToQuiver.rst > $(MANDIR)/man1/quiver.1
 	rst2man doc/QuiverFAQ.rst > $(MANDIR)/man7/quiver-faq.7

-- 
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