[Debian-med-packaging] Bug#912643: biojava-live (1.7) does not build with OpenJDK 11: package com.sun.corba.se.spi.legacy.connection does not exist

[Andreas Tille]

Control: tags -1 help

Hi 

On Fri, Nov 02, 2018 at 12:25:20AM +0100, Emmanuel Bourg wrote:
> Hi Andreas,
> 
> On 01/11/2018 07:20, Andreas Tille wrote:
> 
> >     [javac] /build/biojava-live-1.7.1/src/org/biojava/bio/structure/PDBHeader.java:10: error: package com.sun.corba.se.spi.legacy.connection does not exist
> >     [javac] import com.sun.corba.se.spi.legacy.connection.GetEndPointInfoAgainException;
> >     [javac]                                              ^
> >     [javac] Note: Some input files use or override a deprecated API.
> > 
> > 
> > Any hint how to fix this?
> 
> Either patch out the CORBA classes (removed in Java 11, and no
> replacement available in Debian), or try setting the release attribute
> to 8 on the <javac> task of the Ant build.

I tried to implement this in

    https://salsa.debian.org/med-team/biojava-live/blob/master/debian/patches/java8_instead_of_11.patch

Unfortunately this does not help.  Here is the full build log:

compile-biojava:
    [javac] /build/biojava-live-1.7.1/build.xml:247: warning: 'includeantruntime' was not set, defaulting to build.sysclasspath=last; set to false for repeatable builds
    [javac] Compiling 1444 source files to /build/biojava-live-1.7.1/ant-build/classes/biojava
    [javac] Support for javac --release has been added in Java9 ignoring it
    [javac] warning: [options] bootstrap class path not set in conjunction with -source 8
    [javac] /build/biojava-live-1.7.1/src/org/biojava/bio/proteomics/StructureTools.java:37: warning: as of release 9, '_' is a keyword, and may not be used as an identifier
    [javac]   private static final AtomicSymbol _;
    [javac]                                     ^
    [javac] /build/biojava-live-1.7.1/src/org/biojava/bio/proteomics/StructureTools.java:53: warning: as of release 9, '_' is a keyword, and may not be used as an identifier
    [javac]       _ = (AtomicSymbol) sTok.parseToken(" ");
    [javac]       ^
    [javac] /build/biojava-live-1.7.1/src/org/biojava/bio/proteomics/StructureTools.java:72: warning: as of release 9, '_' is a keyword, and may not be used as an identifier
    [javac]     return _;
    [javac]            ^
    [javac] /build/biojava-live-1.7.1/src/org/biojava/bio/structure/PDBHeader.java:10: error: package com.sun.corba.se.spi.legacy.connection does not exist
    [javac] import com.sun.corba.se.spi.legacy.connection.GetEndPointInfoAgainException;
    [javac]                                              ^
    [javac] Note: Some input files use or override a deprecated API.
    [javac] Note: Recompile with -Xlint:deprecation for details.
    [javac] Note: Some input files use unchecked or unsafe operations.
    [javac] Note: Recompile with -Xlint:unchecked for details.
    [javac] 1 error


I obviously did not understand your hint correctly. :-(

Kind regards

        Andreas. 

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