[med-svn] [pftools] 01/02: More spelling fixes

Wed Mar 22 14:35:25 UTC 2017

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tille pushed a commit to branch master
in repository pftools.

commit 72bf777750e08514c578729d089ddce3ddd50527
Author: Andreas Tille <tille at debian.org>
Date:   Wed Mar 22 15:32:35 2017 +0100

    More spelling fixes
---
 debian/patches/spelling.patch | 146 ++++++++++++++++++++++++++++++++++--------
 1 file changed, 118 insertions(+), 28 deletions(-)

diff --git a/debian/patches/spelling.patch b/debian/patches/spelling.patch
index d7db552..ee83b24 100644
--- a/debian/patches/spelling.patch
+++ b/debian/patches/spelling.patch
@@ -2,8 +2,8 @@ Description: Fix spelling in manpages
 Author: Andreas Tille <tille at debian.org>
 Last-Update: 2017-03-22
 
---- pftools-2.3.5.d.orig/man/2ft.1
-+++ pftools-2.3.5.d/man/2ft.1
+--- a/man/2ft.1
++++ b/man/2ft.1
 @@ -120,6 +120,6 @@ manual pages of pftools program
  .SH AUTHOR
  The
@@ -12,8 +12,8 @@ Last-Update: 2017-03-22
 +package was developed by Philipp Bucher.
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
---- pftools-2.3.5.d.orig/man/6ft.1
-+++ pftools-2.3.5.d/man/6ft.1
+--- a/man/6ft.1
++++ b/man/6ft.1
 @@ -122,6 +122,6 @@ manual pages of pftools program
  .SH AUTHOR
  The
@@ -22,8 +22,8 @@ Last-Update: 2017-03-22
 +package was developed by Philipp Bucher.
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
---- pftools-2.3.5.d.orig/man/gtop.1
-+++ pftools-2.3.5.d/man/gtop.1
+--- a/man/gtop.1
++++ b/man/gtop.1
 @@ -256,6 +256,6 @@ operations.
  .SH AUTHOR
  The
@@ -32,8 +32,8 @@ Last-Update: 2017-03-22
 +package was developed by Philipp Bucher.
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
---- pftools-2.3.5.d.orig/man/htop.1
-+++ pftools-2.3.5.d/man/htop.1
+--- a/man/htop.1
++++ b/man/htop.1
 @@ -370,6 +370,6 @@ documentation
  .SH AUTHOR
  The
@@ -42,8 +42,26 @@ Last-Update: 2017-03-22
 +package was developed by Philipp Bucher.
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
---- pftools-2.3.5.d.orig/man/pfmake.1
-+++ pftools-2.3.5.d/man/pfmake.1
+--- a/man/pfmake.1
++++ b/man/pfmake.1
+@@ -142,7 +142,7 @@ format.
+ Optional profile file.
+ .br
+ If a filename is specified, the profile will be parsed and
+-those parameters mentionned in the
++those parameters mentioned in the
+ .I description
+ section will be kept for the computation of the output profile.
+ .\" --- 0 ---
+@@ -341,7 +341,7 @@ Default: 0.333
+ .BI \-S\  matrix_multiplier
+ Score matrix multiplier.
+ .br
+-On input, the numbers of the score matrix are multipled by this factor.
++On input, the numbers of the score matrix are multiplied by this factor.
+ .br
+ Default: 0.1  
+ .\" --- T ---
 @@ -532,6 +532,6 @@ Comput. Appl. Biosci.
  .SH AUTHOR
  The
@@ -52,8 +70,8 @@ Last-Update: 2017-03-22
 +package was developed by Philipp Bucher.
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
---- pftools-2.3.5.d.orig/man/pfscale.1
-+++ pftools-2.3.5.d/man/pfscale.1
+--- a/man/pfscale.1
++++ b/man/pfscale.1
 @@ -319,6 +319,6 @@ Trends Biochem. Sci.
  .SH AUTHOR
  The
@@ -62,8 +80,26 @@ Last-Update: 2017-03-22
 +package was developed by Philipp Bucher.
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
---- pftools-2.3.5.d.orig/man/pfscan.1
-+++ pftools-2.3.5.d/man/pfscan.1
+--- a/man/pfscan.1
++++ b/man/pfscan.1
+@@ -49,7 +49,7 @@ pfscan \- scan a protein or DNA sequence
+ compares a protein or nucleic acid sequence against a profile library. 
+ The result is an unsorted list of profile-sequence matches written to
+ the standard output.
+-A variety of output formats containing different informations can be specified
++A variety of output formats containing different information can be specified
+ via the options
+ .BR \-l , \ \-L , \ \-r , \ \-k , \ \-s , \ \-x , \ \-y
+ and 
+@@ -222,7 +222,7 @@ Default: lowest priority mode defined in
+ .\" ------------------------------------------------
+ .\" Output modifiers subsection
+ .\" ------------------------------------------------
+-.SS Ouput modifiers
++.SS Output modifiers
+ .\" --- d ---
+ .TP
+ .B \-d
 @@ -411,6 +411,6 @@ the raw score is above or equal to the s
  .SH AUTHOR
  The
@@ -72,8 +108,35 @@ Last-Update: 2017-03-22
 +package was developed by Philipp Bucher.
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
---- pftools-2.3.5.d.orig/man/pfsearch.1
-+++ pftools-2.3.5.d/man/pfsearch.1
+--- a/man/pfsearch.1
++++ b/man/pfsearch.1
+@@ -49,7 +49,7 @@ matching a profile
+ .B pfsearch 
+ compares a query profile against a DNA or protein sequence library.
+ The result is an unsorted list of profile-sequence matches written to the standard output. 
+-A variety of output formats containing different informations can be specified 
++A variety of output formats containing different information can be specified 
+ via the options 
+ .BR \-l , \ \-L , \ \-r , \ \-k , \ \-s , \ \-x , \ \-y
+ and 
+@@ -95,7 +95,7 @@ This file should contain one or several
+ .SM EMBL/SWISS-PROT
+ (default) or Pearson/Fasta (option
+ .BR \-f )
+-formated DNA or protein sequences. The program
++formatted DNA or protein sequences. The program
+ .B pfsearch
+ tries to identify matches between the input profile and all individual
+ sequences of this library. If the filename is replaced by a
+@@ -219,7 +219,7 @@ Default: lowest priority mode defined in
+ .\" ------------------------------------------------
+ .\" Output modifiers subsection
+ .\" ------------------------------------------------
+-.SS Ouput modifiers
++.SS Output modifiers
+ .\" --- d ---
+ .TP
+ .B \-d
 @@ -410,6 +410,6 @@ problem.
  .SH AUTHOR
  The
@@ -82,8 +145,8 @@ Last-Update: 2017-03-22
 +package was developed by Philipp Bucher.
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
---- pftools-2.3.5.d.orig/man/pfw.1
-+++ pftools-2.3.5.d/man/pfw.1
+--- a/man/pfw.1
++++ b/man/pfw.1
 @@ -217,6 +217,6 @@ J. Mol. Biol.
  .SH AUTHOR
  The
@@ -92,8 +155,8 @@ Last-Update: 2017-03-22
 +package was developed by Philipp Bucher.
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
---- pftools-2.3.5.d.orig/man/psa.5
-+++ pftools-2.3.5.d/man/psa.5
+--- a/man/psa.5
++++ b/man/psa.5
 @@ -191,7 +191,7 @@ This manual page was originally written
  .br
  The
@@ -103,8 +166,8 @@ Last-Update: 2017-03-22
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
  
---- pftools-2.3.5.d.orig/man/psa2msa.1
-+++ pftools-2.3.5.d/man/psa2msa.1
+--- a/man/psa2msa.1
++++ b/man/psa2msa.1
 @@ -242,6 +242,6 @@ will be issued on standard error.
  .SH AUTHOR
  The
@@ -113,8 +176,8 @@ Last-Update: 2017-03-22
 +package was developed by Philipp Bucher.
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
---- pftools-2.3.5.d.orig/man/ptof.1
-+++ pftools-2.3.5.d/man/ptof.1
+--- a/man/ptof.1
++++ b/man/ptof.1
 @@ -312,6 +312,6 @@ will be issued on standard error.
  .SH AUTHOR
  The
@@ -123,8 +186,8 @@ Last-Update: 2017-03-22
 +package was developed by Philipp Bucher.
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
---- pftools-2.3.5.d.orig/man/ptoh.1
-+++ pftools-2.3.5.d/man/ptoh.1
+--- a/man/ptoh.1
++++ b/man/ptoh.1
 @@ -290,6 +290,6 @@ Comput. Chem.
  .SH AUTHOR
  The
@@ -133,8 +196,35 @@ Last-Update: 2017-03-22
 +package was developed by Philipp Bucher.
  .br
  Any comments or suggestions should be addressed to <pftools at isb-sib.ch>.
---- pftools-2.3.5.d.orig/man/xpsa.5
-+++ pftools-2.3.5.d/man/xpsa.5
+--- a/man/xpsa.5
++++ b/man/xpsa.5
+@@ -43,7 +43,7 @@ Nevertheless the keywords defined here c
+ to store and transfer information.
+ .PP
+ None of the defined keywords are mandatory and analysis tools have often a length limit imposed
+-on the header line. In order to keep the header line reasonnably short and user readable,
++on the header line. In order to keep the header line reasonably short and user readable,
+ these tools can easily remove individual
+ .IR keyword = value
+ pairs which are not important to the specific task at hand.
+@@ -241,7 +241,7 @@ negative offset from the end of the alig
+ .br
+ In combination with the information given by 
+ .I seq_pos
+-this allows to deduce the length of the query sequence.
++this allows one to deduce the length of the query sequence.
+ .\" --- strand ---
+ .TP
+ .I strand
+@@ -354,7 +354,7 @@ The total circular motif has at least 2
+ .RI ' PEX7 '
+ sequence, because this single repeat is part of the second match as described by the
+ .I match_parent
+-keyword. The parental matches have been ommited from this example, they would be numbered using the
++keyword. The parental matches have been omitted from this example, they would be numbered using the
+ .I match_nb
+ keyword.
+ .br
 @@ -390,7 +390,7 @@ This manual page was originally written
  .br
  The

-- 
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