[Debian-med-packaging] Bug#963430: Any volunteer to spent some time on the new version of artemis (Was: Bug#963430: artemis: FTBFS: /bin/sh: 1: /usr/share/java/j2ssh-core.jar: Permission denied)

[Emmanuel Arias]

Hi Andreas,

I would be happy to help on artemis. Obviously I will need
a more experienced developer helping me. :)

Cheers!
Emmanuel





Cheers,
Arias Emmanuel
@eamanu
yaerobi.com


On Mon, Jun 22, 2020 at 9:17 AM Andreas Tille <andreas at an3as.eu> wrote:

> Hi,
>
> we are lagging several upstream versions behind due to new dependencies
> and other build issues.  I wonder whether somebody might volunteer to
> update artemis.  It would be great to get the latest version at least
> before the freeze starts.  While this takes some time I guess having
> latest artemis is time consuming as well - thus I'm asking here.
>
> Any takers?  Despite I'm the only remaining Uploader this exceeds my
> current time capacity.
>
> Kind regards
>
>       Andreas.
>
> On Sun, Jun 21, 2020 at 10:26:05PM +0200, Lucas Nussbaum wrote:
> > Source: artemis
> > Version: 17.0.1+dfsg-2
> > Severity: serious
> > Justification: FTBFS on amd64
> > Tags: bullseye sid ftbfs
> > Usertags: ftbfs-20200620 ftbfs-bullseye
> >
> > Hi,
> >
> > During a rebuild of all packages in sid, your package failed to build
> > on amd64.
> >
> > Relevant part (hopefully):
> > >  debian/rules build
> > > dh build --with javahelper
> > >    dh_update_autotools_config
> > >    dh_autoreconf
> > >    dh_auto_configure
> > >    jh_linkjars
> > >    debian/rules override_dh_auto_build
> > > make[1]: Entering directory '/<<PKGBUILDDIR>>'
> > > dh_auto_build -- jar
> > >     make -j4 "INSTALL=install --strip-program=true" jar
> > > make[2]: Entering directory '/<<PKGBUILDDIR>>'
> > > CLASSPATH=/usr/share/java/biojava.jar /usr/share/java/j2ssh-core.jar
> /usr/share/java/ibatis.jar /usr/share/java/log4j-1.2.jar
> /usr/share/java/postgresql-jdbc3.jar /usr/share/java/picard.jar
> /usr/share/java/htsjdk.jar /usr/share/java/commons-net.jar
> /usr/share/java/commons-lang3.jar /usr/share/java/batik-all.jar
> /usr/share/java/batik-awt-util.jar /usr/share/java/batik-dom.jar
> /usr/share/java/batik-ext.jar /usr/share/java/batik-svggen.jar
> /usr/share/java/batik-util.jar /usr/share/java/batik-xml.jar
> /usr/share/EMBOSS/jemboss/lib/jemboss.jar /<<PKGBUILDDIR>>: javac -source
> 1.8 -target 1.8   uk/ac/sanger/artemis/Action.java
> > > CLASSPATH=/usr/share/java/biojava.jar /usr/share/java/j2ssh-core.jar
> /usr/share/java/ibatis.jar /usr/share/java/log4j-1.2.jar
> /usr/share/java/postgresql-jdbc3.jar /usr/share/java/picard.jar
> /usr/share/java/htsjdk.jar /usr/share/java/commons-net.jar
> /usr/share/java/commons-lang3.jar /usr/share/java/batik-all.jar
> /usr/share/java/batik-awt-util.jar /usr/share/java/batik-dom.jar
> /usr/share/java/batik-ext.jar /usr/share/java/batik-svggen.jar
> /usr/share/java/batik-util.jar /usr/share/java/batik-xml.jar
> /usr/share/EMBOSS/jemboss/lib/jemboss.jar /<<PKGBUILDDIR>>: javac -source
> 1.8 -target 1.8   uk/ac/sanger/artemis/ActionController.java
> > > /bin/sh: 1: /usr/share/java/j2ssh-core.jar: Permission denied
> > > make[2]: *** [Makefile:48: uk/ac/sanger/artemis/Action.class] Error 126
> >
> > The full build log is available from:
> >
> http://qa-logs.debian.net/2020/06/20/artemis_17.0.1+dfsg-2_unstable.log
> >
> > A list of current common problems and possible solutions is available at
> > http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to
> contribute!
> >
> > About the archive rebuild: The rebuild was done on EC2 VM instances from
> > Amazon Web Services, using a clean, minimal and up-to-date chroot. Every
> > failed build was retried once to eliminate random failures.
> >
> > _______________________________________________
> > Debian-med-packaging mailing list
> > Debian-med-packaging at alioth-lists.debian.net
> >
> https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-packaging
>
> --
> http://fam-tille.de
>
>
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