[med-svn] [Git][med-team/pilon-non-free][master] 3 commits: Typo

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Med / pilon-non-free


Commits:
9f715bf8 by Andreas Tille at 2018-06-12T14:43:17+02:00
Typo

- - - - -
52c96edc by Andreas Tille at 2018-07-16T16:26:40+02:00
Document bug that is responsible why we can not build pilon

- - - - -
97d870df by Andreas Tille at 2018-07-16T16:46:15+02:00
Upload to new

- - - - -


5 changed files:

- debian/changelog
- debian/control
- debian/copyright
- debian/createmanpages
- debian/pilon.1


Changes:

=====================================
debian/changelog
=====================================
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,5 +1,5 @@
-pilon-non-free (1.22-1) UNRELEASED; urgency=medium
+pilon-non-free (1.22-1) unstable; urgency=medium
 
-  * Initial release (Closes: #<bug>)
+  * Initial release (Closes: #903911)
 
- -- Andreas Tille <tille at debian.org>  Thu, 23 Feb 2017 16:48:18 +0100
+ -- Andreas Tille <tille at debian.org>  Mon, 16 Jul 2018 16:46:04 +0200


=====================================
debian/control
=====================================
--- a/debian/control
+++ b/debian/control
@@ -4,7 +4,7 @@ Uploaders: Andreas Tille <tille at debian.org>
 Section: science
 Priority: optional
 Build-Depends: debhelper (>= 11~),
-Standards-Version: 4.1.4
+Standards-Version: 4.1.5
 Vcs-Browser: https://salsa.debian.org/med-team/pilon-non-free
 Vcs-Git: https://salsa.debian.org/med-team/pilon-non-free.git
 Homepage: https://github.com/broadinstitute/pilon/wiki
@@ -36,5 +36,5 @@ Description: automated genome assembly improvement and variant detection tool
  The code of pilon is actually free but currently there is no method
  to build the JAR from the scala source in Debian.  This package is
  supposed to be replaced by a pilon package once it can be build from
- source.
+ source (see bug #873341).
 


=====================================
debian/copyright
=====================================
--- a/debian/copyright
+++ b/debian/copyright
@@ -3,7 +3,7 @@ Upstream-Name: pilon
 Upstream-Contact: https://github.com/broadinstitute/pilon/issues
 Source: https://github.com/broadinstitute/pilon/releases
 Comment: The code is actually free but currently there is no method
-         to build
+         to build (see bug #873341)
 
 Files: *
 Copyright: Copyright 2012-2017 Broad Institute, Inc.


=====================================
debian/createmanpages
=====================================
--- a/debian/createmanpages
+++ b/debian/createmanpages
@@ -18,7 +18,10 @@ help2man --no-info --no-discard-stderr --help-option=" --help" \
             --version-string="$VERSION" ${progname} > $MANDIR/${progname}.1
 echo $AUTHOR >> $MANDIR/${progname}.1
 
-sed -i 's/specifed/specified/' $MANDIR/${progname}.1
+sed -i \
+	-e 's/specifed/specified/' \
+	-e 's/minumum/minimum/' \
+	$MANDIR/${progname}.1
 
 cat <<EOT
 Please enhance the help2man output.


=====================================
debian/pilon.1
=====================================
--- a/debian/pilon.1
+++ b/debian/pilon.1
@@ -187,7 +187,7 @@ Kmer size used by internal assembler (default 47).
 Variants (snps and indels) will only be called if there is coverage of good pairs
 at this depth or more; if this value is >= 1, it is an absolute depth, if it is a
 fraction < 1, then minimum depth is computed by multiplying this value by the mean
-coverage for the region, with a minumum value of 5 (default 0.1: min depth to call
+coverage for the region, with a minimum value of 5 (default 0.1: min depth to call
 is 10% of mean coverage or 5, whichever is greater).
 .IP
 \fB\-\-mingap\fR



View it on GitLab: https://salsa.debian.org/med-team/pilon-non-free/compare/664bae39d91bf2c6380218b899559c33ba743ac5...97d870df6484d8e2ad8755c720bcc6e852428de0

-- 
View it on GitLab: https://salsa.debian.org/med-team/pilon-non-free/compare/664bae39d91bf2c6380218b899559c33ba743ac5...97d870df6484d8e2ad8755c720bcc6e852428de0
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