[Biojava-dev] new release(s) before BOSC/ISMB conferences

[Andreas Prlic]

Hi Michael,

It should be quite similar to
http://www.biojava.org/wiki/BioJava:Make_release . I did a github based
release in a checkout of my own fork, but it did everything correctly for
me out of the box. The only thing which required some manual work was to
set up our custom release-branch. Thanks to Douglas for doing that for us.

Probably good to verify that the pom.xml in biojava-legacy has a similar
distributionManagement settings as the pom.xml in the main branch.

Andreas


On Tue, Jul 16, 2013 at 4:14 PM, Michael Heuer <heuermh at gmail.com> wrote:

> Hello Andreas,
>
> Appears that I'm going to need some walkthough docs for the release
> process on github.
>
> The scm elements in biojava/biojava pom.xml point to the
> biojava/biojava repo; does that mean I need to perform the release
> from a cloned biojava/biojava repo or it is possible to perform the
> release from my fork?
>
> Then I'm still confused by the different accounts; I can ssh via key
> to cloudportal.open-bio.org, but on deploy maven is asking for a ssh
> password for portal.open-bio.org
>
> $ mvn deploy
> ...
> [INFO] --- maven-deploy-plugin:2.7:deploy (default-deploy) @ core ---
> Downloading: scp://
> portal.open-bio.org/home/websites/biojava.org/html/static/download/maven/org/biojava/core/1.8.3-SNAPSHOT/maven-metadata.xml
> Password for mheuer at portal.open-bio.org: ********
> [WARNING] Could not transfer metadata
> org.biojava:core:1.8.3-SNAPSHOT/maven-metadata.xml from/to
> biojava-maven-repo
> (scp://
> portal.open-bio.org/home/websites/biojava.org/html/static/download/maven/
> ):
> Cannot connect. Reason: Auth fail
> [INFO]
> ------------------------------------------------------------------------
> [INFO] Reactor Summary:
> [INFO]
> [INFO] biojava-legacy .................................... SUCCESS
> [13.426s]
> [INFO] bytecode .......................................... SUCCESS
> [19.947s]
> [INFO] core .............................................. FAILURE
> [3:05.411s]
> [INFO] alignment ......................................... SKIPPED
> [INFO] biosql ............................................ SKIPPED
> [INFO] blast ............................................. SKIPPED
> [INFO] das ............................................... SKIPPED
> [INFO] sequencing ........................................ SKIPPED
> [INFO] gui ............................................... SKIPPED
> [INFO] phylo ............................................. SKIPPED
> [INFO]
> ------------------------------------------------------------------------
> [INFO] BUILD FAILURE
> [INFO]
> ------------------------------------------------------------------------
> [INFO] Total time: 3:39.378s
> [INFO] Finished at: Tue Jul 16 18:11:11 CDT 2013
> [INFO] Final Memory: 20M/331M
> [INFO]
> ------------------------------------------------------------------------
> [ERROR] Failed to execute goal
> org.apache.maven.plugins:maven-deploy-plugin:2.7:deploy
> (default-deploy) on project core: Failed to retrieve remote metadata
> org.biojava:core:1.8.3-SNAPSHOT/maven-metadata.xml: Could not transfer
> metadata org.biojava:core:1.8.3-SNAPSHOT/maven-metadata.xml from/to
> biojava-maven-repo
> (scp://
> portal.open-bio.org/home/websites/biojava.org/html/static/download/maven/
> ):
> Cannot connect. Reason: Auth fail -> [Help 1]
> [ERROR]
> [ERROR] To see the full stack trace of the errors, re-run Maven with
> the -e switch.
> [ERROR] Re-run Maven using the -X switch to enable full debug logging.
> [ERROR]
> [ERROR] For more information about the errors and possible solutions,
> please read the following articles:
> [ERROR] [Help 1]
> http://cwiki.apache.org/confluence/display/MAVEN/MojoExecutionException
> [ERROR]
> [ERROR] After correcting the problems, you can resume the build with the
> command
> [ERROR]   mvn <goals> -rf :core
>
> Feel free to take this off list if more appropriate.
>
>    michael
>
>
> On Mon, Jul 15, 2013 at 10:59 PM, Michael Heuer <heuermh at gmail.com> wrote:
> > Well done, Andreas.
> >
> > I'll try to get one out for biojava-legacy tomorrow evening.
> >
> >    michael
> >
> >
> > On Mon, Jul 15, 2013 at 9:53 AM, Andreas Prlic <andreas at sdsc.edu> wrote:
> >> Hi Michael,
> >>
> >> In the spirit of release early and release often, I'll try to squeeze
> in a
> >> release later today...
> >>
> >> Andreas
> >>
> >>
> >> On Fri, Jul 12, 2013 at 1:04 PM, Michael Heuer <heuermh at gmail.com>
> wrote:
> >>>
> >>> Hello,
> >>>
> >>> I would like to cut a new release of biojava-legacy (version 1.8.3,
> >>> which contains a few bug fixes and new minor features) before the
> >>> BOSC/ISMB conferences and hackathon next week.
> >>>
> >>> Anyone willing to do the same for biojava proper (version 3.0.6)?
> >>>
> >>>    michael
> >>> _______________________________________________
> >>> biojava-dev mailing list
> >>> biojava-dev at lists.open-bio.org
> >>> http://lists.open-bio.org/mailman/listinfo/biojava-dev
> >>
> >>
> >>
> >>
>



-- 
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Dr. Andreas Prlic
Senior Scientist, RCSB PDB Protein Data Bank
University of California, San Diego
(+1) 858.246.0526
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