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JAL-3210 Barebones gradle/buildship/eclipse. See README
[jalview.git]
/
src
/
jalview
/
io
/
TCoffeeScoreFile.java
diff --git
a/src/jalview/io/TCoffeeScoreFile.java
b/src/jalview/io/TCoffeeScoreFile.java
index
d069e5e
..
7e963d5
100644
(file)
--- a/
src/jalview/io/TCoffeeScoreFile.java
+++ b/
src/jalview/io/TCoffeeScoreFile.java
@@
-109,7
+109,7
@@
public class TCoffeeScoreFile extends AlignFile
public final static String TCOFFEE_SCORE = "TCoffeeScore";
public final static String TCOFFEE_SCORE = "TCoffeeScore";
- private final static Pattern SCORES_WITH_RESIDUE_NUMS = Pattern
+ static Pattern SCORES_WITH_RESIDUE_NUMS = Pattern
.compile("^\\d+\\s([^\\s]+)\\s+\\d+$");
/** The {@link Header} structure holder */
.compile("^\\d+\\s([^\\s]+)\\s+\\d+$");
/** The {@link Header} structure holder */
@@
-198,7
+198,7
@@
public class TCoffeeScoreFile extends AlignFile
{
return null;
}
{
return null;
}
- List<String> result = new ArrayList<>(scores.size());
+ List<String> result = new ArrayList<String>(scores.size());
for (Map.Entry<String, StringBuilder> it : scores.entrySet())
{
result.add(it.getValue().toString());
for (Map.Entry<String, StringBuilder> it : scores.entrySet())
{
result.add(it.getValue().toString());
@@
-250,7
+250,7
@@
public class TCoffeeScoreFile extends AlignFile
error = true;
return;
}
error = true;
return;
}
- scores = new LinkedHashMap<>();
+ scores = new LinkedHashMap<String, StringBuilder>();
/*
* initilize the structure
/*
* initilize the structure
@@
-503,7
+503,7
@@
public class TCoffeeScoreFile extends AlignFile
int score;
int score;
- LinkedHashMap<String, Integer> scores = new LinkedHashMap<>();
+ LinkedHashMap<String, Integer> scores = new LinkedHashMap<String, Integer>();
public int getScoreAvg()
{
public int getScoreAvg()
{
@@
-530,7
+530,7
@@
public class TCoffeeScoreFile extends AlignFile
public Block(int size)
{
this.size = size;
public Block(int size)
{
this.size = size;
- this.items = new HashMap<>(size);
+ this.items = new HashMap<String, String>(size);
}
String getScoresFor(String id)
}
String getScoresFor(String id)