}
public static String[][] file22dArray( final File file ) throws IOException {
- final List<String> list = new ArrayList<>();
+ final List<String> list = new ArrayList<String>();
final BufferedReader in = new BufferedReader( new FileReader( file ) );
String str;
while ( ( str = in.readLine() ) != null ) {
}
final public static List<String> file2list( final File file ) throws IOException {
- final List<String> list = new ArrayList<>();
+ final List<String> list = new ArrayList<String>();
final BufferedReader in = new BufferedReader( new FileReader( file ) );
String str;
while ( ( str = in.readLine() ) != null ) {
}
final public static SortedSet<String> file2set( final File file ) throws IOException {
- final SortedSet<String> set = new TreeSet<>();
+ final SortedSet<String> set = new TreeSet<String>();
final BufferedReader in = new BufferedReader( new FileReader( file ) );
String str;
while ( ( str = in.readLine() ) != null ) {
}
final public static SortedMap<Object, Integer> listToSortedCountsMap( final List<?> list ) {
- final SortedMap<Object, Integer> map = new TreeMap<>();
+ final SortedMap<Object, Integer> map = new TreeMap<Object, Integer>();
for( final Object key : list ) {
if ( !map.containsKey( key ) ) {
map.put( key, 1 );
//urlc.setRequestProperty( "User-Agent", "" );
final BufferedReader in = new BufferedReader( new InputStreamReader( urlc.getInputStream() ) );
String line;
- final List<String> result = new ArrayList<>();
+ final List<String> result = new ArrayList<String>();
while ( ( line = in.readLine() ) != null ) {
result.add( line );
}
protein.getSpecies().getSpeciesId(),
protein.getLength() );
final List<Domain> sorted = SurfacingUtil.sortDomainsWithAscendingConfidenceValues( protein );
- final List<Boolean> covered_positions = new ArrayList<>();
+ final List<Boolean> covered_positions = new ArrayList<Boolean>();
for( final Domain domain : sorted ) {
if ( ( ( max_allowed_overlap < 0 )
|| ( ForesterUtil.calculateOverlap( domain, covered_positions ) <= max_allowed_overlap ) )
public static List<String> spliIntoPrefixes( final String prefix, final String separator ) {
final String[] a = prefix.split( Pattern.quote( separator ) );
- final List<String> l = new ArrayList<>();
+ final List<String> l = new ArrayList<String>();
for( int i = 0; i < a.length; ++i ) {
final StringBuilder sb = new StringBuilder();
for( int j = 0; j <= i; ++j ) {