Author: tille Date: 2016-01-11 10:55:08 +0000 (Mon, 11 Jan 2016) New Revision: 21090
Added: trunk/packages/exonerate/trunk/debian/manpages/esd2esi.1 Modified: trunk/packages/exonerate/trunk/debian/changelog trunk/packages/exonerate/trunk/debian/exonerate.manpages trunk/packages/exonerate/trunk/debian/patches/manpagesyntax.patch Log: fix spelling and manpage syntax issues, add missing manpage, upload to unstable Modified: trunk/packages/exonerate/trunk/debian/changelog =================================================================== --- trunk/packages/exonerate/trunk/debian/changelog 2016-01-11 10:54:18 UTC (rev 21089) +++ trunk/packages/exonerate/trunk/debian/changelog 2016-01-11 10:55:08 UTC (rev 21090) @@ -1,4 +1,4 @@ -exonerate (2.2.0-7) UNRELEASED; urgency=low +exonerate (2.2.0-7) unstable; urgency=low [ Charles Plessy ] * renamed debian/upstream-metadata.yaml to debian/upstream/metadata @@ -19,7 +19,7 @@ * fix spelling and manpage syntax issues * remove outdated README.Debian - -- Andreas Tille <[email protected]> Fri, 09 May 2014 13:17:32 +0200 + -- Andreas Tille <[email protected]> Mon, 11 Jan 2016 09:54:39 +0100 exonerate (2.2.0-6) unstable; urgency=low Modified: trunk/packages/exonerate/trunk/debian/exonerate.manpages =================================================================== --- trunk/packages/exonerate/trunk/debian/exonerate.manpages 2016-01-11 10:54:18 UTC (rev 21089) +++ trunk/packages/exonerate/trunk/debian/exonerate.manpages 2016-01-11 10:55:08 UTC (rev 21090) @@ -1,2 +1,2 @@ doc/man/man1/*.1 -debian/manpages/fastaoverlap.1 +debian/manpages/*.1 Added: trunk/packages/exonerate/trunk/debian/manpages/esd2esi.1 =================================================================== --- trunk/packages/exonerate/trunk/debian/manpages/esd2esi.1 (rev 0) +++ trunk/packages/exonerate/trunk/debian/manpages/esd2esi.1 2016-01-11 10:55:08 UTC (rev 21090) @@ -0,0 +1,14 @@ +.TH ESD2ESI "1" "January 2016" "esd2esi 2.2.0" "User Commands" +.SH NAME +esd2esi \- generate an exonerate sequence index file +.SH SYNOPSIS: +esd2esi <path> <path> +.SH DESCRIPTION +esd2esi from exonerate version 2.2.0 +.PP +esd2esi: generate an exonerate sequence index file +.PP +.SH AUTHOR +The author of this software is Guy St.C. Slater. [email protected]. 2007. +.P +This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program. Modified: trunk/packages/exonerate/trunk/debian/patches/manpagesyntax.patch =================================================================== --- trunk/packages/exonerate/trunk/debian/patches/manpagesyntax.patch 2016-01-11 10:54:18 UTC (rev 21089) +++ trunk/packages/exonerate/trunk/debian/patches/manpagesyntax.patch 2016-01-11 10:55:08 UTC (rev 21090) @@ -13,6 +13,42 @@ 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. +@@ -130,7 +130,7 @@ are reported by the server about what is + + .RE + .SH INTERFACE +-.T ++.TP + This section documents the communication interface between + the client and server. + The interface is documented for people wishing to write their own +@@ -369,7 +369,7 @@ reply line. + .P + .PP + .nf +-.SP ++.sp + + % telnet localhost 12886 + Trying 127.0.0.1... +@@ -416,7 +416,7 @@ hspset: 25849 15 445 22 + hspset: 93938 26 265 34 + % exit + Connection closed by foreign host. +-.SP ++.sp + .fi + + .\" +@@ -445,7 +445,7 @@ 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/exonerate.1 +++ b/doc/man/man1/exonerate.1 @@ -45,13 +45,13 @@ rather than on the symbols. @@ -31,6 +67,15 @@ .fi .\" Hence the subsequence "CG" would have start=1, +@@ -86,7 +86,7 @@ and the gap penalties. + + .RE + .SH GENERAL OPTIONS +-.T ++.TP + Most arguments have short and long forms. The long forms + are more likely to be stable over time, and hence should + be used in scripts which call exonerate. @@ -1194,7 +1194,7 @@ show the observed relative frequencies o the splice sites in the chosen organism (in ACGT order). @@ -63,6 +108,15 @@ .fi .TP +@@ -1338,7 +1338,7 @@ 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/fastautils.1 +++ b/doc/man/man1/fastautils.1 @@ -72,7 +72,7 @@ This documentation accompanies version 2 @@ -76,7 +130,7 @@ .SH AVAILABILITY --- a/doc/man/man1/ipcress.1 +++ b/doc/man/man1/ipcress.1 -@@ -67,11 +67,11 @@ Maximum product length to report +@@ -67,16 +67,16 @@ Maximum product length to report .RE .P Here is an example line in this format: @@ -90,3 +144,27 @@ .fi .\" .RE + .SH OUTPUT FORMAT +-.T ++.TP + The output format describes one PCR product per-line, + and is prefixed by "ipcress:", followed by the following 11 fields: + .\" +@@ -159,7 +159,7 @@ is not designed for parsing (see: --pret + .\" + .RE + .SH GENERAL OPTIONS +-.T ++.TP + Most arguments have short and long forms. The long forms + are more likely to be stable over time, and hence should + be used in scripts which call ipcress. +@@ -257,7 +257,7 @@ 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 _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
