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Help needed to build prottest

Hi,

when migrating prottest to Salsa[1] I was running into a FTBFS:

...
Buildfile: /build/prottest-3.4.2+dfsg/build.xml

compile:
    [mkdir] Created dir: /build/prottest-3.4.2+dfsg/build/classes
    [javac] Using javac -source 1.6 is no longer supported, switching to 7
    [javac] Using javac -target 1.6 is no longer supported, switching to 7
    [javac] Compiling 118 source files to /build/prottest-3.4.2+dfsg/build/classes
    [javac] warning: [options] bootstrap class path not set in conjunction with -source 7
    [javac] /build/prottest-3.4.2+dfsg/src/main/java/es/uvigo/darwin/prottest/util/fileio/AlignmentReader.java:20: error: package converter does not exist
    [javac] import converter.Converter;
    [javac]                 ^
    [javac] /build/prottest-3.4.2+dfsg/src/main/java/es/uvigo/darwin/prottest/util/fileio/AlignmentReader.java:21: error: package converter does not exist
    [javac] import converter.DefaultFactory;
    [javac]                 ^
    [javac] /build/prottest-3.4.2+dfsg/src/main/java/es/uvigo/darwin/prottest/util/fileio/AlignmentReader.java:22: error: package converter does not exist
    [javac] import converter.Factory;
    [javac]                 ^
    [javac] /build/prottest-3.4.2+dfsg/src/main/java/es/uvigo/darwin/prottest/util/fileio/AlignmentReader.java:47: error: package parser does not exist
    [javac] import parser.ParseException;
    [javac]              ^
    [javac] /build/prottest-3.4.2+dfsg/src/main/java/es/uvigo/darwin/prottest/util/fileio/AlignmentReader.java:115: error: cannot find symbol
    [javac]         Factory factory = new DefaultFactory();
    [javac]         ^
    [javac]   symbol:   class Factory
    [javac]   location: class AlignmentReader
    [javac] /build/prottest-3.4.2+dfsg/src/main/java/es/uvigo/darwin/prottest/util/fileio/AlignmentReader.java:115: error: cannot find symbol
    [javac]         Factory factory = new DefaultFactory();
    [javac]                               ^
    [javac]   symbol:   class DefaultFactory
    [javac]   location: class AlignmentReader
    [javac] /build/prottest-3.4.2+dfsg/src/main/java/es/uvigo/darwin/prottest/util/fileio/AlignmentReader.java:116: error: cannot find symbol
    [javac]         Converter converter;
    [javac]         ^
    [javac]   symbol:   class Converter
    [javac]   location: class AlignmentReader
    [javac] /build/prottest-3.4.2+dfsg/src/main/java/es/uvigo/darwin/prottest/util/fileio/AlignmentReader.java:133: error: cannot find symbol
    [javac]         } catch (ParseException ex) {
    [javac]                  ^
    [javac]   symbol:   class ParseException
    [javac]   location: class AlignmentReader
    [javac] /build/prottest-3.4.2+dfsg/src/main/java/es/uvigo/darwin/prottest/util/fileio/AlignmentReader.java:149: error: cannot find symbol
    [javac]             } catch (ParseException exP) {
    [javac]                      ^
    [javac]   symbol:   class ParseException
    [javac]   location: class AlignmentReader
    [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] 9 errors
    [javac] 1 warning

BUILD FAILED
/build/prottest-3.4.2+dfsg/build.xml:37: Compile failed; see the compiler error output for details.
...

Any idea how to fix this?

Kind regards

     Andreas.


[1] https://salsa.debian.org/med-team/prottest

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