From 9ce870373944258385a2dca39237901b1c36d9cd Mon Sep 17 00:00:00 2001
From: Sasha Sherstnev <a.sherstnev@dundee.ac.uk>
Date: Tue, 10 Sep 2013 16:06:14 +0100
Subject: [PATCH] Add "safe type casting" warnings

---
 .../compbio/ws/server/SequenceAnnotationService.java        |   11 ++++++-----
 1 file changed, 6 insertions(+), 5 deletions(-)

diff --git a/webservices/compbio/ws/server/SequenceAnnotationService.java b/webservices/compbio/ws/server/SequenceAnnotationService.java
index 0b450d1..641c745 100644
--- a/webservices/compbio/ws/server/SequenceAnnotationService.java
+++ b/webservices/compbio/ws/server/SequenceAnnotationService.java
@@ -60,15 +60,16 @@ public abstract class SequenceAnnotationService<T> extends GenericMetadataServic
 		return WSUtil.getAnnotation(jobId, log);
 	}
 
+	@SuppressWarnings("unchecked")
 	public String analize(List<FastaSequence> sequences)
 			throws UnsupportedRuntimeException, LimitExceededException,
 			JobSubmissionException {
 		WSUtil.validateFastaInput(sequences);
 		ConfiguredExecutable<T> confIUPred = init(sequences);
-		return WSUtil.analize(sequences, confIUPred, log, "analize",
-				getLimit(""));
+		return WSUtil.analize(sequences, confIUPred, log, "analize", getLimit(""));
 	}
 
+	@SuppressWarnings("unchecked")
 	public String customAnalize(List<FastaSequence> sequences,
 			List<Option<T>> options) throws UnsupportedRuntimeException,
 			LimitExceededException, JobSubmissionException,
@@ -81,8 +82,7 @@ public abstract class SequenceAnnotationService<T> extends GenericMetadataServic
 		List<String> params = WSUtil.getCommands(options,
 				AACon.KEY_VALUE_SEPARATOR);
 		confAACon.addParameters(params);
-		return WSUtil.analize(sequences, confAACon, log, "customAnalize",
-				getLimit(""));
+		return WSUtil.analize(sequences, confAACon, log, "customAnalize", getLimit(""));
 	}
 
 	public String presetAnalize(List<FastaSequence> sequences, Preset<T> preset)
@@ -92,11 +92,12 @@ public abstract class SequenceAnnotationService<T> extends GenericMetadataServic
 		if (preset == null) {
 			throw new WrongParameterException("Preset must be provided!");
 		}
+		@SuppressWarnings("unchecked")
 		ConfiguredExecutable<T> confAAcon = init(sequences);
 		confAAcon.addParameters(preset.getOptions());
+		@SuppressWarnings("unchecked")
 		Limit<T> limit = getLimit(preset.getName());
 		return WSUtil
 				.analize(sequences, confAAcon, log, "presetAnalize", limit);
 	}
-
 }
-- 
1.7.10.2