Your message dated Mon, 11 Jul 2016 09:50:47 +0000
with message-id <[email protected]>
and subject line Bug#830746: fixed in jaligner 1.0+dfsg-4
has caused the Debian Bug report #830746,
regarding jaligner: please provide maven coordinates
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--
830746: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=830746
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: jaligner
Severity: wishlist
Tags: patch
Dear Debian Med Team,
Please consider providing maven artifact information with
maven-repo-helper to allow other the maven-based build systems
of other packages that depend upon jaligner to automatically resolve
dependency information.
The attached patch(es) can be applied with 'git am' accomplish this.
(You can ignore the second patch and modify the debian/changelog as
you deem fit. Alternately, I can perform an NMU upload if you would
prefer.)
NB: The mhap pom.xml refers to jaligner with groupId 'com.jaligner'.
However, the groupId for jaligner should simply be 'jaligner',
which corresponds to the actual classpath (and is how others [1]
resolve it). Therefore, the mhap source package should be modified
to auto-resolve jaligner by adding the following to debian/maven.rules:
s/com.jaligner/jaligner/ jaligner * * * *
Cheers,
tony
From a300a8975fc2c8dae8240bcce9b505b337fd001d Mon Sep 17 00:00:00 2001
From: tony mancill <[email protected]>
Date: Sun, 10 Jul 2016 18:28:59 -0700
Subject: [PATCH 1/2] install maven coordinates for jaligner.jar
This commit modifies the package build to use maven-repo-helper
to install a POM file beneath /usr/share/maven-repo/jaligner/.
---
debian/control | 3 ++-
debian/jaligner-1.0.pom | 8 ++++++++
debian/jaligner.poms | 1 +
debian/rules | 2 +-
4 files changed, 12 insertions(+), 2 deletions(-)
create mode 100644 debian/jaligner-1.0.pom
create mode 100644 debian/jaligner.poms
diff --git a/debian/control b/debian/control
index 70175bc..21d762f 100644
--- a/debian/control
+++ b/debian/control
@@ -9,7 +9,8 @@ Build-Depends: debhelper (>= 9),
Build-Depends-Indep: junit4,
javahelper,
icedtea-netx-common,
- asciidoctor
+ asciidoctor,
+ maven-repo-helper
Standards-Version: 3.9.8
Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/jaligner.git
Vcs-Git: https://anonscm.debian.org/git/debian-med/jaligner.git
diff --git a/debian/jaligner-1.0.pom b/debian/jaligner-1.0.pom
new file mode 100644
index 0000000..2e3bd6a
--- /dev/null
+++ b/debian/jaligner-1.0.pom
@@ -0,0 +1,8 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<project xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd"; xmlns="http://maven.apache.org/POM/4.0.0";
+ xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance";>
+ <modelVersion>4.0.0</modelVersion>
+ <groupId>jaligner</groupId>
+ <artifactId>jaligner</artifactId>
+ <version>1.0</version>
+</project>
diff --git a/debian/jaligner.poms b/debian/jaligner.poms
new file mode 100644
index 0000000..04220ac
--- /dev/null
+++ b/debian/jaligner.poms
@@ -0,0 +1 @@
+debian/jaligner-1.0.pom --usj-name=jaligner
diff --git a/debian/rules b/debian/rules
index 844b6be..054ed1c 100755
--- a/debian/rules
+++ b/debian/rules
@@ -7,7 +7,7 @@
export CLASSPATH=/usr/share/icedtea-web/netx.jar
%:
- dh $@ --with javahelper
+ dh $@ --with javahelper --with jh_maven_repo_helper
override_dh_auto_build:
#cp -a debian/images/*.gif src/jaligner/ui/images/gifs
--
2.8.1
From 8de1687c08982ba1867bad8610fd4d37b8b3c124 Mon Sep 17 00:00:00 2001
From: tony mancill <[email protected]>
Date: Sun, 10 Jul 2016 18:29:20 -0700
Subject: [PATCH 2/2] interim changelog
---
debian/changelog | 10 ++++++++++
1 file changed, 10 insertions(+)
diff --git a/debian/changelog b/debian/changelog
index a2b3cf3..e11014f 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,3 +1,13 @@
+jaligner (1.0+dfsg-3.1) UNRELEASED; urgency=medium
+
+ * Non-maintainer upload.
+ * Add maven coordinates:
+ - Add build-dependency upon maven-repo-helper
+ - Add debian/jaligner.pom
+ - Update debian/rules to build with jh_maven_repo_helper
+
+ -- tony mancill <[email protected]> Sun, 10 Jul 2016 18:23:34 -0700
+
jaligner (1.0+dfsg-3) unstable; urgency=medium
* flip the reproducible switch for asciidoctor
--
2.8.1
signature.asc
Description: PGP signature
--- End Message ---
--- Begin Message ---
Source: jaligner
Source-Version: 1.0+dfsg-4
We believe that the bug you reported is fixed in the latest version of
jaligner, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
tony mancill <[email protected]> (supplier of updated jaligner package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Sun, 10 Jul 2016 18:23:34 -0700
Source: jaligner
Binary: jaligner
Architecture: source
Version: 1.0+dfsg-4
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: tony mancill <[email protected]>
Description:
jaligner - Smith-Waterman algorithm with Gotoh's improvement
Closes: 830746
Changes:
jaligner (1.0+dfsg-4) unstable; urgency=medium
.
* Team upload
* Add maven coordinates:
- Add build-dependency upon maven-repo-helper
- Add debian/jaligner.pom
- Update debian/rules to build with jh_maven_repo_helper
Closes: #830746
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