[med-svn] [Git][med-team/htsjdk][master] 3 commits: Updating the classpath of the built jar
Pierre Gruet (@pgt)
gitlab at salsa.debian.org
Mon Dec 30 11:10:11 GMT 2024
Pierre Gruet pushed to branch master at Debian Med / htsjdk
Commits:
76286573 by Pierre Gruet at 2024-12-30T10:33:00+01:00
Updating the classpath of the built jar
- - - - -
2f30530a by Pierre Gruet at 2024-12-30T10:33:29+01:00
Updating the installed POM file
- - - - -
3d2e35c2 by Pierre Gruet at 2024-12-30T10:33:58+01:00
Upload to unstable
- - - - -
4 changed files:
- debian/changelog
- debian/htsjdk.pom
- debian/htsjdk.pom.asc
- debian/libhtsjdk-java.classpath
Changes:
=====================================
debian/changelog
=====================================
@@ -1,3 +1,10 @@
+htsjdk (4.1.3+dfsg-2) unstable; urgency=medium
+
+ * Updating the classpath of the built jar
+ * Updating the installed POM file (Closes: #1091589)
+
+ -- Pierre Gruet <pgt at debian.org> Mon, 30 Dec 2024 10:33:32 +0100
+
htsjdk (4.1.3+dfsg-1) unstable; urgency=medium
* New upstream version 4.1.3+dfsg
=====================================
debian/htsjdk.pom
=====================================
@@ -1,10 +1,15 @@
<?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"
+<project xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 https://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">
+ <!-- This module was also published with a richer model, Gradle metadata, -->
+ <!-- which should be used instead. Do not delete the following line which -->
+ <!-- is to indicate to Gradle or any Gradle module metadata file consumer -->
+ <!-- that they should prefer consuming it instead. -->
+ <!-- do_not_remove: published-with-gradle-metadata -->
<modelVersion>4.0.0</modelVersion>
<groupId>com.github.samtools</groupId>
<artifactId>htsjdk</artifactId>
- <version>3.0.2</version>
+ <version>4.1.3</version>
<name>HTSJDK</name>
<description>A Java API for high-throughput sequencing data (HTS) formats</description>
<url>https://samtools.github.io/htsjdk/</url>
@@ -28,52 +33,40 @@
</scm>
<dependencies>
<dependency>
- <groupId>org.apache.commons</groupId>
- <artifactId>commons-jexl</artifactId>
- <version>2.1.1</version>
+ <groupId>gov.nih.nlm.ncbi</groupId>
+ <artifactId>ngs-java</artifactId>
+ <version>2.9.0</version>
<scope>compile</scope>
</dependency>
<dependency>
- <groupId>commons-logging</groupId>
- <artifactId>commons-logging</artifactId>
- <version>1.1.1</version>
+ <groupId>org.apache.commons</groupId>
+ <artifactId>commons-jexl</artifactId>
+ <version>2.1.1</version>
<scope>compile</scope>
</dependency>
<dependency>
<groupId>org.xerial.snappy</groupId>
<artifactId>snappy-java</artifactId>
- <version>1.1.8.4</version>
- <scope>compile</scope>
+ <version>1.1.10.5</version>
+ <scope>runtime</scope>
</dependency>
<dependency>
<groupId>org.apache.commons</groupId>
<artifactId>commons-compress</artifactId>
- <version>1.19</version>
- <scope>compile</scope>
+ <version>1.25.0</version>
+ <scope>runtime</scope>
</dependency>
<dependency>
- <groupId>org.tukaani</groupId>
- <artifactId>xz</artifactId>
- <version>1.8</version>
- <scope>compile</scope>
+ <groupId>org.kordamp.json</groupId>
+ <artifactId>json-lib-core</artifactId>
+ <version>3.1.0</version>
+ <scope>runtime</scope>
</dependency>
<dependency>
- <groupId>gov.nih.nlm.ncbi</groupId>
- <artifactId>ngs-java</artifactId>
- <version>2.9.0</version>
- <scope>compile</scope>
- </dependency>
- <dependency>
- <groupId>org.sharegov</groupId>
- <artifactId>mjson</artifactId>
- <version>1.4.1</version>
- <scope>compile</scope>
- <exclusions>
- <exclusion>
- <artifactId>*</artifactId>
- <groupId>junit</groupId>
- </exclusion>
- </exclusions>
+ <groupId>org.mozilla</groupId>
+ <artifactId>rhino</artifactId>
+ <version>1.7.14</version>
+ <scope>runtime</scope>
</dependency>
</dependencies>
</project>
=====================================
debian/htsjdk.pom.asc
=====================================
@@ -1,17 +1,17 @@
-----BEGIN PGP SIGNATURE-----
-Version: BCPG v1.60
+Version: BCPG v1.68
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+=79IZ
-----END PGP SIGNATURE-----
=====================================
debian/libhtsjdk-java.classpath
=====================================
@@ -1 +1 @@
-usr/share/java/htsjdk.jar /usr/share/java/commons-compress.jar /usr/share/java/commons-jexl2.jar /usr/share/java/mjson.jar /usr/share/java/ngs-java.jar /usr/share/java/rhino.jar /usr/share/java/snappy-java.jar
+usr/share/java/htsjdk.jar /usr/share/java/commons-compress.jar /usr/share/java/commons-jexl2.jar /usr/share/java/json-lib.jar /usr/share/java/ngs-java.jar /usr/share/java/rhino.jar /usr/share/java/snappy-java.jar
View it on GitLab: https://salsa.debian.org/med-team/htsjdk/-/compare/4a58db4251b844adac96f61ee2c8dd6d2767318d...3d2e35c2655284e59778d89ae578ba4ab989cd8b
--
View it on GitLab: https://salsa.debian.org/med-team/htsjdk/-/compare/4a58db4251b844adac96f61ee2c8dd6d2767318d...3d2e35c2655284e59778d89ae578ba4ab989cd8b
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