package jalview.analysis;
import java.util.Locale;
-
-import jalview.bin.Cache;
-
import java.io.BufferedReader;
import java.io.IOException;
import java.io.InputStream;
import java.util.Map;
import java.util.StringTokenizer;
+import jalview.bin.Console;
+
/**
* A singleton that provides instances of genetic code translation tables
*
}
} catch (IOException | NullPointerException e)
{
- Cache.error(
+ Console.error(
"Error reading genetic codes data file " + fileName + ": "
+ e.getMessage());
}
}
} catch (IOException e)
{
- Cache.error(
+ Console.error(
"Error reading nucleotide ambiguity codes data file: "
+ e.getMessage());
}
line.lastIndexOf(QUOTE));
if (aminos.length() != NUCS_COUNT_CUBED) // 4 * 4 * 4 combinations
{
- Cache.error("wrong data length in code table: " + line);
+ Console.error("wrong data length in code table: " + line);
}
else
{