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

[Michael Heuer]

Hello Andreas,

Even if you ran the release plugin from a clone of your fork
andreasprlic/biojava, it appears that the commits and tags were pushed
to biojava/biojava, which would make sense since the scm settings in
pom.xml are defined as such.

Compare

https://github.com/andreasprlic/biojava/commits/master
https://github.com/biojava/biojava/commits/master

   michael


On Wed, Jul 17, 2013 at 5:29 PM, Andreas Prlic <andreas at sdsc.edu> wrote:
> 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
>> >>
>> >>
>> >>
>> >>
>
>
>
>
> --
> -----------------------------------------------------------------------
> Dr. Andreas Prlic
> Senior Scientist, RCSB PDB Protein Data Bank
> University of California, San Diego
> (+1) 858.246.0526
> -----------------------------------------------------------------------