Host biojava-legacy release jars from Maven Central

[heuermh]

Companion issue to biojava/biojava#130; do the same for biojava-legacy.

[heuermh]

One issue is that the das module has a dependency on a jar only in the biojava maven repository

    <dependency>
      <groupId>org.biojava</groupId>
      <artifactId>biojava3-structure</artifactId>
      <version>3.0-alpha1</version>
      <scope>compile</scope>
    </dependency>

I propose removing the das module in version 1.9, which will be the first on Maven Central. If any bug fixes are required to the das module from version 1.8.5, then they can be released to the biojava maven repo as version 1.8.6.

[heuermh]

From this branch

https://github.com/heuermh/biojava-legacy/tree/maven-central-repo

I was able to deploy a snapshot successfully

$ mvn deploy
...
[INFO] --- maven-deploy-plugin:2.8.1:deploy (default-deploy) @ phylo ---
Downloading: https://oss.sonatype.org/content/repositories/snapshots/org/biojava/phylo/1.8.6-SNAPSHOT/maven-metadata.xml
Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/biojava/phylo/1.8.6-SNAPSHOT/phylo-1.8.6-20140613.170227-1.jar
Uploaded: https://oss.sonatype.org/content/repositories/snapshots/org/biojava/phylo/1.8.6-SNAPSHOT/phylo-1.8.6-20140613.170227-1.jar (76 KB at 91.0 KB/sec)
Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/biojava/phylo/1.8.6-SNAPSHOT/phylo-1.8.6-20140613.170227-1.pom
Uploaded: https://oss.sonatype.org/content/repositories/snapshots/org/biojava/phylo/1.8.6-SNAPSHOT/phylo-1.8.6-20140613.170227-1.pom (2 KB at 7.5 KB/sec)
Downloading: https://oss.sonatype.org/content/repositories/snapshots/org/biojava/phylo/maven-metadata.xml
Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/biojava/phylo/1.8.6-SNAPSHOT/maven-metadata.xml
Uploaded: https://oss.sonatype.org/content/repositories/snapshots/org/biojava/phylo/1.8.6-SNAPSHOT/maven-metadata.xml (766 B at 2.3 KB/sec)
Uploading: https://oss.sonatype.org/content/repositories/snapshots/org/biojava/phylo/maven-metadata.xml
Uploaded: https://oss.sonatype.org/content/repositories/snapshots/org/biojava/phylo/maven-metadata.xml (276 B at 1.6 KB/sec)
[INFO] ------------------------------------------------------------------------
[INFO] Reactor Summary:
[INFO] 
[INFO] biojava-legacy .................................... SUCCESS [  2.603 s]
[INFO] bytecode .......................................... SUCCESS [  3.184 s]
[INFO] core .............................................. SUCCESS [ 17.153 s]
[INFO] alignment ......................................... SUCCESS [  2.354 s]
[INFO] biosql ............................................ SUCCESS [  1.999 s]
[INFO] blast ............................................. SUCCESS [  9.845 s]
[INFO] sequencing ........................................ SUCCESS [  2.564 s]
[INFO] gui ............................................... SUCCESS [  1.719 s]
[INFO] phylo ............................................. SUCCESS [  2.103 s]
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 43.734 s
[INFO] Finished at: 2014-06-13T12:02:28-06:00
[INFO] Final Memory: 30M/518M
[INFO] ------------------------------------------------------------------------

See
https://oss.sonatype.org/content/repositories/snapshots/org/biojava/

Snapshot deploys don't trigger any validation though, that happens when you attempt to close a release staging repository. I would like to try that next with a version 1.9-rc1 release candidate, but I believe I have to merge this branch upstream first. Please comment here if you do not think that is a good idea.

[heuermh]

Version 1.9.0-rc1 release candidate was promoted to the releases repository, it should be up on Maven Central in a few hours for review.

[heuermh]

Version 1.9.0 was released to Maven Central on June 25, 2014.