Author: tille Date: 2016-01-11 08:49:48 +0000 (Mon, 11 Jan 2016) New Revision: 21084
Added: trunk/packages/exonerate/trunk/debian/patches/manpagesyntax.patch trunk/packages/exonerate/trunk/debian/patches/spelling.patch Modified: trunk/packages/exonerate/trunk/debian/changelog trunk/packages/exonerate/trunk/debian/patches/series Log: fix spelling and manpage syntax issues Modified: trunk/packages/exonerate/trunk/debian/changelog =================================================================== --- trunk/packages/exonerate/trunk/debian/changelog 2016-01-11 08:18:56 UTC (rev 21083) +++ trunk/packages/exonerate/trunk/debian/changelog 2016-01-11 08:49:48 UTC (rev 21084) @@ -16,6 +16,7 @@ * cme fix dpkg-control * debhelper 9 * DEP5 + * fix spelling and manpage syntax issues -- Andreas Tille <[email protected]> Fri, 09 May 2014 13:17:32 +0200 Added: trunk/packages/exonerate/trunk/debian/patches/manpagesyntax.patch =================================================================== --- trunk/packages/exonerate/trunk/debian/patches/manpagesyntax.patch (rev 0) +++ trunk/packages/exonerate/trunk/debian/patches/manpagesyntax.patch 2016-01-11 08:49:48 UTC (rev 21084) @@ -0,0 +1,92 @@ +Author: Andreas Tille <[email protected]> +Last-Update: Fri, 09 May 2014 13:17:32 +0200 +Description: Fix manpage syntax + +--- a/doc/man/man1/exonerate-server.1 ++++ b/doc/man/man1/exonerate-server.1 +@@ -75,7 +75,7 @@ The default port number for the exonerat + + .RE + .SH OPTIONS +-.T ++.TP + Some of the command line options for the exonerate-server are the same as for the + exonerate client, and these are documented in the man page for + .B exonerate. +--- a/doc/man/man1/exonerate.1 ++++ b/doc/man/man1/exonerate.1 +@@ -45,13 +45,13 @@ rather than on the symbols. + This numbering scheme starts from zero. + This numbering is shown below for the sequence "ACGT": + .\" +-.SP ++.sp + .nf + + A C G T + 0 1 2 3 4 + +-.SP ++.sp + .fi + .\" + Hence the subsequence "CG" would have start=1, +@@ -1194,7 +1194,7 @@ show the observed relative frequencies o + the splice sites in the chosen organism (in ACGT order). + + .B Example 5' splice data file: +-.SP ++.sp + .nf + + # start of example 5' splice data +@@ -1210,11 +1210,11 @@ the splice sites in the chosen organism + 5 6 85 4 + 16 18 21 45 + # end of test 5' splice data +-.SP ++.sp + .fi + + .B Example 3' splice data file: +-.SP ++.sp + .nf + + # start of example 3' splice data +@@ -1236,7 +1236,7 @@ the splice sites in the chosen organism + splice + 28 14 47 11 + # end of example 3' splice data +-.SP ++.sp + .fi + + .TP +--- a/doc/man/man1/fastautils.1 ++++ b/doc/man/man1/fastautils.1 +@@ -72,7 +72,7 @@ This documentation accompanies version 2 + .\" + .SH AUTHOR + Guy St.C. Slater. <[email protected]>. +-.L ++.P + See the AUTHORS file accompanying the source code + for a list of contributors. + .SH AVAILABILITY +--- a/doc/man/man1/ipcress.1 ++++ b/doc/man/man1/ipcress.1 +@@ -67,11 +67,11 @@ Maximum product length to report + .RE + .P + Here is an example line in this format: +-.SP ++.sp + .nf + + ID0001 CATGCATGCATGC CGATGCANGCATGCT 900 1100 +-.SP ++.sp + .fi + .\" + .RE Modified: trunk/packages/exonerate/trunk/debian/patches/series =================================================================== --- trunk/packages/exonerate/trunk/debian/patches/series 2016-01-11 08:18:56 UTC (rev 21083) +++ trunk/packages/exonerate/trunk/debian/patches/series 2016-01-11 08:49:48 UTC (rev 21084) @@ -1,3 +1,4 @@ -autoreconf.patch fix_build-as-needed.patch manpages.patch +spelling.patch +manpagesyntax.patch Added: trunk/packages/exonerate/trunk/debian/patches/spelling.patch =================================================================== --- trunk/packages/exonerate/trunk/debian/patches/spelling.patch (rev 0) +++ trunk/packages/exonerate/trunk/debian/patches/spelling.patch 2016-01-11 08:49:48 UTC (rev 21084) @@ -0,0 +1,46 @@ +Author: Andreas Tille <[email protected]> +Last-Update: Fri, 09 May 2014 13:17:32 +0200 +Description: Fix spelling + +--- a/src/database/dataset.c ++++ b/src/database/dataset.c +@@ -114,7 +114,7 @@ static Dataset_Header *Dataset_Header_re + g_error("Bad magic number in dataset file"); + header->version = BitArray_read_int(fp); + if(header->version != DATASET_HEADER_VERSION) +- g_error("Incompatable dataset file version"); ++ g_error("Incompatible dataset file version"); + header->type = BitArray_read_int(fp); + header->line_length = BitArray_read_int(fp); + /**/ +--- a/doc/man/man1/exonerate-server.1 ++++ b/doc/man/man1/exonerate-server.1 +@@ -261,7 +261,7 @@ the external id (eg. from fasta header) + .TP 16 + .B <def> + a description line for the sequence (also from the fasta header), +-this field is optional an may be ommitted. ++this field is optional an may be omitted. + .RE + + .TP 10 +--- a/doc/man/man1/exonerate.1 ++++ b/doc/man/man1/exonerate.1 +@@ -357,7 +357,7 @@ It is currently only available when usin + This model allows alignment of a protein sequence to genomic + DNA. This is similar to the protein2dna model, + with the addition of modelling of introns and intron phases. +-This model is simliar to those used by genewise. ++This model is similar to those used by genewise. + .\" + .TP + .B protein2genome:bestfit +@@ -737,7 +737,7 @@ subject to alignment during refinement b + .\" + .RE + +-.SH VITERBI ALGORITM OPTIONS ++.SH VITERBI ALGORITHM OPTIONS + .TP + .B "\-D | \--dpmemory" <Mb> + The exhaustive alignment traceback routines use a Hughey-style _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
