You must use Java 1.5 or later, and soon we will require java 1.6.
Jari
Sergio Contrino wrote:
> dear base,
> i am trying to compile (with the distributed make) a slightly modified
> (Plier.java) affy plugin (v 0.7) and i get a long (69) list of errors,
> mostly
>
> Syntax error, annotations are only available if source level is 5.0
>
> any suggestion? apologies if in the wrong list
> thanks
> sergio
>
>
> javac -cp /usr/local/base/www/WEB-INF/lib/BASE2Core.jar:.build
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> ----------
> 1. ERROR in .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 87)
> @SuppressWarnings("unchecked")
> ^^^^^^^^^^^^^^^^^
> Syntax error, annotations are only available if source level is 5.0
> ----------
> 2. ERROR in .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 92)
> List<Throwable> errors = validateRequestParameters
> ^^^^
> The type List is not generic; it cannot be parameterized with arguments
> <Throwable>
> ----------
> 3. ERROR in .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 92)
> List<Throwable> errors = validateRequestParameters
> ^^^^^^^^^
> Syntax error, parameterized types are only available if source level is
> 5.0
> ----------
> 4. ERROR in .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 110)
> List<RawBioAssay> rawBioAssays =
> ^^^^
> The type List is not generic; it cannot be parameterized with arguments
> <RawBioAssay>
> ----------
> 5. ERROR in .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 110)
> List<RawBioAssay> rawBioAssays =
> ^^^^^^^^^^^
> Syntax error, parameterized types are only available if source level is
> 5.0
> ----------
> 6. ERROR in .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 111)
> (List<RawBioAssay>)request.getParameterValues("rawBioAssays");
> ^^^^^^^^^^^^^^^^^
> The type List is not generic; it cannot be parameterized with arguments
> <RawBioAssay>
> ----------
> 7. ERROR in .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 111)
> (List<RawBioAssay>)request.getParameterValues("rawBioAssays");
> ^^^^^^^^^^^
> Syntax error, parameterized types are only available if source level is
> 5.0
> ----------
> 8. ERROR in .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 112)
> for (RawBioAssay rba : rawBioAssays)
> ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
> Syntax error, 'for each' statements are only available if source level is
> 5.0
> ----------
> 9. ERROR in .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 123)
> storeValue(job, request, nameParameter);
> ^^^^^^^^^^^^^
> nameParameter cannot be resolved
> ----------
> 10. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 124)
> storeValue(job, request, experimentParameter);
> ^^^^^^^^^^^^^^^^^^^
> experimentParameter cannot be resolved
> ----------
> 11. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 125)
> storeValues(job, request, rawBioAssaysParameter);
> ^^^^^^^^^^^^^^^^^^^^^
> rawBioAssaysParameter cannot be resolved
> ----------
> 12. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 135)
> response.setError(e.getMessage(), Arrays.asList(e));
> ^^^^^^
> The method asList(Object[]) in the type Arrays is not applicable for the
> arguments (Throwable)
> ----------
> 13. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 155)
> List<PluginParameter<?>> parameters = new
> ArrayList<PluginParameter<?>>();
> ^^^^^^^^^^^^^^^
> Syntax error, parameterized types are only available if source level is
> 5.0
> ----------
> 14. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 155)
> List<PluginParameter<?>> parameters = new
> ArrayList<PluginParameter<?>>();
> ^^^^^^^^^^^^^^^
> The type PluginParameter is not generic; it cannot be parameterized with
> arguments <?>
> ----------
> 15. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 155)
> List<PluginParameter<?>> parameters = new
> ArrayList<PluginParameter<?>>();
>
> ^^^^^^^^^^^^^^^
> The type PluginParameter is not generic; it cannot be parameterized with
> arguments <?>
> ----------
> 16. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 155)
> List<PluginParameter<?>> parameters = new
> ArrayList<PluginParameter<?>>();
>
> ^^^^^^^^^^^^^^^
> Syntax error, parameterized types are only available if source level is
> 5.0
> ----------
> 17. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 157)
> experimentType = new
> ItemParameterType<Experiment>(Experiment.class, null,
> ^^^^^^^^^^^^^^
> experimentType cannot be resolved
> ----------
> 18. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 157)
> experimentType = new
> ItemParameterType<Experiment>(Experiment.class, null,
> ^^^^^^^^^^^^^^^^^
> The type ItemParameterType is not generic; it cannot be parameterized with
> arguments <Experiment>
> ----------
> 19. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 157)
> experimentType = new
> ItemParameterType<Experiment>(Experiment.class, null,
> ^^^^^^^^^^
> Syntax error, parameterized types are only available if source level is
> 5.0
> ----------
> 20. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 159)
> experimentParameter = new PluginParameter<Experiment>(
> ^^^^^^^^^^^^^^^^^^^
> experimentParameter cannot be resolved
> ----------
> 21. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 159)
> experimentParameter = new PluginParameter<Experiment>(
> ^^^^^^^^^^^^^^^
> The type PluginParameter is not generic; it cannot be parameterized with
> arguments <Experiment>
> ----------
> 22. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 159)
> experimentParameter = new PluginParameter<Experiment>(
> ^^^^^^^^^^
> Syntax error, parameterized types are only available if source level is
> 5.0
> ----------
> 23. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 161)
> experimentType);
> ^^^^^^^^^^^^^^
> experimentType cannot be resolved
> ----------
> 24. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 162)
> parameters.add(experimentParameter);
> ^^^^^^^^^^^^^^^^^^^
> experimentParameter cannot be resolved
> ----------
> 25. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 163)
> parameters.add(nameParameter);
> ^^^^^^^^^^^^^
> nameParameter cannot be resolved
> ----------
> 26. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 168)
> ItemQuery<RawBioAssay> rawBioAssayQuery =
> experiment.getRawBioAssays();
> ^^^^^^^^^
> The type ItemQuery is not generic; it cannot be parameterized with
> arguments <RawBioAssay>
> ----------
> 27. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 168)
> ItemQuery<RawBioAssay> rawBioAssayQuery =
> experiment.getRawBioAssays();
> ^^^^^^^^^^^
> Syntax error, parameterized types are only available if source level is
> 5.0
> ----------
> 28. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 172)
> List<RawBioAssay> rawBioAssays = new ArrayList<RawBioAssay>(
> ^^^^
> The type List is not generic; it cannot be parameterized with arguments
> <RawBioAssay>
> ----------
> 29. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 172)
> List<RawBioAssay> rawBioAssays = new ArrayList<RawBioAssay>(
> ^^^^^^^^^^^
> Syntax error, parameterized types are only available if source level is
> 5.0
> ----------
> 30. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 172)
> List<RawBioAssay> rawBioAssays = new ArrayList<RawBioAssay>(
> ^^^^^^^^^
> The type ArrayList is not generic; it cannot be parameterized with
> arguments <RawBioAssay>
> ----------
> 31. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 172)
> List<RawBioAssay> rawBioAssays = new ArrayList<RawBioAssay>(
> ^^^^^^^^^^^
> Syntax error, parameterized types are only available if source level is
> 5.0
> ----------
> 32. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 174)
> rawBioAssaysType = new
> ItemParameterType<RawBioAssay>(RawBioAssay.class,
> ^^^^^^^^^^^^^^^^
> rawBioAssaysType cannot be resolved
> ----------
> 33. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 174)
> rawBioAssaysType = new
> ItemParameterType<RawBioAssay>(RawBioAssay.class,
> ^^^^^^^^^^^^^^^^^
> The type ItemParameterType is not generic; it cannot be parameterized with
> arguments <RawBioAssay>
> ----------
> 34. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 174)
> rawBioAssaysType = new
> ItemParameterType<RawBioAssay>(RawBioAssay.class,
> ^^^^^^^^^^^
> Syntax error, parameterized types are only available if source level is
> 5.0
> ----------
> 35. ERROR in
> .build/se/lu/thep/affymetrix/AbstractExternalBinaryPlugin.java
> (at line 177)
> rawBioAssaysParameter = new PluginParameter<RawBioAssay>(
> ^^^^^^^^^^^^^^^^^^^^^
> rawBioAssaysParameter cannot be resolved
> .................
>
>
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--
Jari Hakkinen, PhD
Complex Systems Division mailto:[EMAIL PROTECTED]
Department of Theoretical Physics phone: +46 (0)46 2229347
Lund University fax: +46 (0)46 2229686
Solvegatan 14a, SE-223 62 Lund, Sweden http://www.thep.lu.se
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