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public int ZoomForPixelSize ( int pixelSize ) { for ( int i = 0 ; i < 30 ; i ++ ) { if ( pixelSize > Resolution ( i ) ) { if ( i != 0 ) { return i - 1 ; } else { return 0 ; // We don't want to scale up } } } return 0 ; }
Maximal scaledown zoom of the pyramid closest to the pixelSize
71
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17,001
public int [ ] GoogleTile ( double lat , double lon , int zoom ) { double [ ] meters = LatLonToMeters ( lat , lon ) ; int [ ] tile = MetersToTile ( meters [ 0 ] , meters [ 1 ] , zoom ) ; return this . GoogleTile ( tile [ 0 ] , tile [ 1 ] , zoom ) ; }
Converts a lat long coordinates to Google Tile Coordinates
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17,002
public String QuadTree ( int tx , int ty , int zoom ) { String quadKey = "" ; ty = ( int ) ( ( Math . pow ( 2 , zoom ) - 1 ) - ty ) ; for ( int i = zoom ; i < 0 ; i -- ) { int digit = 0 ; int mask = 1 << ( i - 1 ) ; if ( ( tx & mask ) != 0 ) { digit += 1 ; } if ( ( ty & mask ) != 0 ) { digit += 2 ; } quadKey += ( digit...
Converts TMS tile coordinates to Microsoft QuadTree
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private void net ( WritableRandomIter hacksIter , WritableRandomIter netIter ) { // calculates the max order of basin (max hackstream value) pm . beginTask ( "Extraction of rivers of chosen order..." , nRows ) ; for ( int r = 0 ; r < nRows ; r ++ ) { for ( int c = 0 ; c < nCols ; c ++ ) { double value = hacksIter . get...
Return the map of the network with only the river of the choosen order .
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17,004
public static ByteBuffer bytes ( String s , Charset charset ) { return ByteBuffer . wrap ( s . getBytes ( charset ) ) ; }
Encode a String in a ByteBuffer using the provided charset .
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17,005
public void write ( Writer writer ) throws IOException { GFF3Writer . writeVersionPragma ( writer ) ; GFF3Writer . writeRegionPragma ( writer , entry . getPrimaryAccession ( ) , windowBeginPosition , windowEndPosition ) ; int ID = 0 ; if ( show . contains ( SHOW_GENE ) ) { locusTagGeneMap = new HashMap < String , GFF3G...
Writes the GFF3 file .
556
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17,006
public static String trim ( String string , int pos ) { int len = string . length ( ) ; int leftPos = pos ; int rightPos = len ; for ( ; rightPos > 0 ; -- rightPos ) { char ch = string . charAt ( rightPos - 1 ) ; if ( ch != ' ' && ch != ' ' && ch != ' ' && ch != ' ' ) { break ; } } for ( ; leftPos < rightPos ; ++ leftP...
Removes all whitespace characters from the beginning and end of the string starting from the given position .
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17,007
public static String trimRight ( String string ) { for ( int i = string . length ( ) ; i > 0 ; -- i ) { if ( string . charAt ( i - 1 ) != ' ' && string . charAt ( i - 1 ) != ' ' && string . charAt ( i - 1 ) != ' ' && string . charAt ( i - 1 ) != ' ' ) { return i == string . length ( ) ? string : string . substring ( 0 ...
Removes all whitespace characters from the end of the string .
111
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17,008
public static String trimRight ( String string , int pos ) { int i = string . length ( ) ; for ( ; i > pos ; -- i ) { char charAt = string . charAt ( i - 1 ) ; if ( charAt != ' ' && charAt != ' ' && charAt != ' ' && charAt != ' ' ) { break ; } } if ( i <= pos ) { return "" ; } return ( 0 == pos && i == string . length ...
Removes all whitespace characters from the end of the string starting from the given position .
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17,009
public static String trimRight ( String string , char c ) { for ( int i = string . length ( ) ; i > 0 ; -- i ) { char charAt = string . charAt ( i - 1 ) ; if ( charAt != c && charAt != ' ' && charAt != ' ' && charAt != ' ' && charAt != ' ' ) { return i == string . length ( ) ? string : string . substring ( 0 , i ) ; } ...
Removes all whitespace characters and instances of the given character from the end of the string .
105
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17,010
public static String trimLeft ( String string ) { for ( int i = 0 ; i < string . length ( ) ; ++ i ) { char charAt = string . charAt ( i ) ; if ( charAt != ' ' && charAt != ' ' && charAt != ' ' && charAt != ' ' ) { return i == 0 ? string : string . substring ( i ) ; } } return string ; }
Removes all whitespace characters from the beginning of the string .
89
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17,011
public static Vector < String > split ( String string , String regex ) { Vector < String > strings = new Vector < String > ( ) ; for ( String value : string . split ( new String ( regex ) ) ) { value = value . trim ( ) ; if ( ! value . equals ( "" ) ) { strings . add ( shrink ( value ) ) ; } } return strings ; }
Split the string into values using the regular expression removes whitespace from the beginning and end of the resultant strings and replaces runs of whitespace with a single space .
81
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17,012
public static String shrink ( String string ) { if ( string == null ) { return null ; } string = string . trim ( ) ; return SHRINK . matcher ( string ) . replaceAll ( " " ) ; }
Trims the string and replaces runs of whitespace with a single space .
47
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17,013
public static String shrink ( String string , char c ) { if ( string == null ) { return null ; } string = string . trim ( ) ; Pattern pattern = Pattern . compile ( "\\" + String . valueOf ( c ) + "{2,}" ) ; return pattern . matcher ( string ) . replaceAll ( String . valueOf ( c ) ) ; }
Trims the string and replaces runs of whitespace with a single character .
78
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17,014
public static String remove ( String string , char c ) { return string . replaceAll ( String . valueOf ( c ) , "" ) ; }
Removes the characters from the string .
30
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17,015
public static Date getYear ( String string ) { if ( string == null ) { return null ; } Date date = null ; try { date = ( ( SimpleDateFormat ) year . clone ( ) ) . parse ( string ) ; } catch ( ParseException ex ) { return null ; } return date ; }
Returns the year given a string in format yyyy .
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17,016
private int getNeighbours ( int [ ] src1d , int i , int ox , int oy , int d_w , int d_h ) { int x , y , result ; x = ( i % d_w ) + ox ; // d_w and d_h are assumed to be set to the y = ( i / d_w ) + oy ; // width and height of scr1d if ( ( x < 0 ) || ( x >= d_w ) || ( y < 0 ) || ( y >= d_h ) ) { result = 0 ; } else { re...
getNeighbours will get the pixel value of i s neighbour that s ox and oy away from i if the point is outside the image then 0 is returned . This version gets from source image .
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private int reduce ( int a , int [ ] labels ) { if ( labels [ a ] == a ) { return a ; } else { return reduce ( labels [ a ] , labels ) ; } }
Reduces the number of labels .
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17,018
public static boolean playsAll ( Role role , String ... r ) { if ( role == null ) { return false ; } for ( String s : r ) { if ( ! role . value ( ) . contains ( s ) ) { return false ; } } return true ; }
Checks if all roles are played .
57
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17,019
public static boolean plays ( Role role , String r ) { if ( r == null ) { throw new IllegalArgumentException ( "null role" ) ; } if ( role == null ) { return false ; } return role . value ( ) . contains ( r ) ; }
Checks if one role is played .
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public static boolean inRange ( Range range , double val ) { return val >= range . min ( ) && val <= range . max ( ) ; }
Check if a certain value is in range
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17,021
public void close ( ) { entry . close ( ) ; getBlockCounter ( ) . clear ( ) ; getSkipTagCounter ( ) . clear ( ) ; getCache ( ) . resetOrganismCache ( ) ; getCache ( ) . resetReferenceCache ( ) ; }
Release resources used by the reader . Help the GC to cleanup the heap
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17,022
public static BufferedImage ByteBufferImage ( byte [ ] data , int width , int height ) { int [ ] bandoffsets = { 0 , 1 , 2 , 3 } ; DataBufferByte dbb = new DataBufferByte ( data , data . length ) ; WritableRaster wr = Raster . createInterleavedRaster ( dbb , width , height , width * 4 , 4 , bandoffsets , null ) ; int [...
create a buffered image from a set of color triplets
177
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17,023
public static Window getRectangleAroundPoint ( Window activeRegion , double x , double y ) { double minx = activeRegion . getRectangle ( ) . getBounds2D ( ) . getMinX ( ) ; double ewres = activeRegion . getWEResolution ( ) ; double snapx = minx + ( Math . round ( ( x - minx ) / ewres ) * ewres ) ; double miny = activeR...
return the rectangle of the cell of the active region that surrounds the given coordinates
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17,024
public static void rasterizePolygonGeometry ( Window active , Geometry polygon , RasterData raster , RasterData rasterToMap , double value , IHMProgressMonitor monitor ) { GeometryFactory gFactory = new GeometryFactory ( ) ; int rows = active . getRows ( ) ; int cols = active . getCols ( ) ; double delta = active . get...
Fill polygon areas mapping on a raster
496
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17,025
public static boolean removeGrassRasterMap ( String mapsetPath , String mapName ) throws IOException { // list of files to remove String mappaths [ ] = filesOfRasterMap ( mapsetPath , mapName ) ; // first delete the list above, which are just files for ( int j = 0 ; j < mappaths . length ; j ++ ) { File filetoremove = ...
Given the mapsetpath and the mapname the map is removed with all its accessor files
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17,026
public static double [ ] rowColToNodeboundCoordinates ( Window active , int row , int col ) { double anorth = active . getNorth ( ) ; double awest = active . getWest ( ) ; double nsres = active . getNSResolution ( ) ; double ewres = active . getWEResolution ( ) ; double [ ] nsew = new double [ 4 ] ; nsew [ 0 ] = anorth...
Transforms row and column index of the active region into an array of the coordinates of the edgaes i . e . n s e w
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17,027
public static double [ ] CalculateAcadExtrusion ( double [ ] coord_in , double [ ] xtru ) { double [ ] coord_out ; double dxt0 = 0D , dyt0 = 0D , dzt0 = 0D ; double dvx1 , dvx2 , dvx3 ; double dvy1 , dvy2 , dvy3 ; double dmod , dxt , dyt , dzt ; double aux = 1D / 64D ; double aux1 = Math . abs ( xtru [ 0 ] ) ; double a...
Method that allows to apply the extrusion transformation of Autocad
649
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17,028
public void deleteGeoTable ( String tableName ) throws Exception { String sql = "SELECT DropGeoTable('" + tableName + "');" ; try ( IHMStatement stmt = mConn . createStatement ( ) ) { stmt . execute ( sql ) ; } }
Delete a geo - table with all attached indexes and stuff .
60
12
17,029
public void runRawSqlToCsv ( String sql , File csvFile , boolean doHeader , String separator ) throws Exception { try ( BufferedWriter bw = new BufferedWriter ( new FileWriter ( csvFile ) ) ) { SpatialiteWKBReader wkbReader = new SpatialiteWKBReader ( ) ; try ( IHMStatement stmt = mConn . createStatement ( ) ; IHMResul...
Execute a query from raw sql and put the result in a csv file .
526
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17,030
public void read ( ) throws IOException { System . out . println ( "DwgFile.read() executed ..." ) ; setDwgVersion ( ) ; if ( dwgVersion . equals ( "R13" ) ) { dwgReader = new DwgFileV14Reader ( ) ; dwgReader . read ( this ) ; } else if ( dwgVersion . equals ( "R14" ) ) { dwgReader = new DwgFileV14Reader ( ) ; dwgReade...
Reads a DWG file and put its objects in the dwgObjects Vector This method is version independent
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17,031
public void blockManagement ( ) { Vector dwgObjectsWithoutBlocks = new Vector ( ) ; boolean addingToBlock = false ; for ( int i = 0 ; i < dwgObjects . size ( ) ; i ++ ) { try { DwgObject entity = ( DwgObject ) dwgObjects . get ( i ) ; if ( entity instanceof DwgArc && ! addingToBlock ) { dwgObjectsWithoutBlocks . add ( ...
Modify the geometry of the objects contained in the blocks of a DWG file and add these objects to the DWG object list .
717
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17,032
public void initializeLayerTable ( ) { layerTable = new Vector ( ) ; layerNames = new Vector ( ) ; for ( int i = 0 ; i < dwgObjects . size ( ) ; i ++ ) { DwgObject obj = ( DwgObject ) dwgObjects . get ( i ) ; if ( obj instanceof DwgLayer ) { Vector layerTableRecord = new Vector ( ) ; layerTableRecord . add ( new Intege...
Initialize a new Vector that contains the DWG file layers . Each layer have three parameters . These parameters are handle name and color
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17,033
public int getColorByLayer ( DwgObject entity ) { int colorByLayer = 0 ; int layer = entity . getLayerHandle ( ) ; for ( int j = 0 ; j < layerTable . size ( ) ; j ++ ) { Vector layerTableRecord = ( Vector ) layerTable . get ( j ) ; int lHandle = ( ( Integer ) layerTableRecord . get ( 0 ) ) . intValue ( ) ; if ( lHandle...
Returns the color of the layer of a DWG object
129
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17,034
public void addDwgSectionOffset ( String key , int seek , int size ) { DwgSectionOffset dso = new DwgSectionOffset ( key , seek , size ) ; dwgSectionOffsets . add ( dso ) ; }
Add a DWG section offset to the dwgSectionOffsets vector
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17,035
public int getDwgSectionOffset ( String key ) { int offset = 0 ; for ( int i = 0 ; i < dwgSectionOffsets . size ( ) ; i ++ ) { DwgSectionOffset dso = ( DwgSectionOffset ) dwgSectionOffsets . get ( i ) ; String ikey = dso . getKey ( ) ; if ( key . equals ( ikey ) ) { offset = dso . getSeek ( ) ; break ; } } return offse...
Returns the offset of DWG section given by its key
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17,036
public void addDwgObjectOffset ( int handle , int offset ) { DwgObjectOffset doo = new DwgObjectOffset ( handle , offset ) ; dwgObjectOffsets . add ( doo ) ; }
Add a DWG object offset to the dwgObjectOffsets vector
47
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17,037
protected void initValidator ( ) throws SQLException , IOException { EmblEntryValidationPlanProperty emblEntryValidationPlanProperty = new EmblEntryValidationPlanProperty ( ) ; emblEntryValidationPlanProperty . validationScope . set ( ValidationScope . getScope ( fileType ) ) ; emblEntryValidationPlanProperty . isDevMo...
Inits the validator .
400
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17,038
protected void initWriters ( ) throws IOException { String summarywriter = prefix == null ? "VAL_SUMMARY.txt" : prefix + "_" + "VAL_SUMMARY.txt" ; String infowriter = prefix == null ? "VAL_INFO.txt" : prefix + "_" + "VAL_INFO.txt" ; String errorwriter = prefix == null ? "VAL_ERROR.txt" : prefix + "_" + "VAL_ERROR.txt" ...
separate method to instantiate so unit tests can call this
256
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17,039
private List < ValidationPlanResult > validateFile ( File file , Writer writer ) throws IOException { List < ValidationPlanResult > messages = new ArrayList < ValidationPlanResult > ( ) ; ArrayList < Object > entryList = new ArrayList < Object > ( ) ; BufferedReader fileReader = null ; try { fileReader = new BufferedRe...
Validate file .
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17,040
private void prepareReader ( BufferedReader fileReader , String fileId ) { switch ( fileType ) { case EMBL : EmblEntryReader emblReader = new EmblEntryReader ( fileReader , EmblEntryReader . Format . EMBL_FORMAT , fileId ) ; emblReader . setCheckBlockCounts ( lineCount ) ; reader = emblReader ; break ; case GENBANK : r...
Prepare reader .
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17,041
private void writeResultsToFile ( ValidationPlanResult planResult ) throws IOException { /** * first set any report messages (probably exceptional that the * translation report needs to get set outside the embl-api-core package * due to the need for embl-ff writers **/ for ( ValidationResult result : planResult . getRe...
Write results to file .
353
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17,042
protected Object getNextEntryFromReader ( Writer writer ) { try { parseError = false ; ValidationResult parseResult = reader . read ( ) ; if ( parseResult . getMessages ( "FT.10" ) . size ( ) >= 1 && ( fixMode || fixDiagnoseMode ) ) { parseResult . removeMessage ( "FT.10" ) ; // writer fixes automatically if quotes are...
Gets the next entry from reader .
209
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17,043
private void setNetworkPipes ( boolean isAreaNotAllDry ) throws Exception { int length = inPipes . size ( ) ; networkPipes = new Pipe [ length ] ; SimpleFeatureIterator stationsIter = inPipes . features ( ) ; boolean existOut = false ; int tmpOutIndex = 0 ; try { int t = 0 ; while ( stationsIter . hasNext ( ) ) { Simpl...
Initializating the array .
640
6
17,044
public boolean joinLine ( ) { if ( ! isCurrentLine ( ) ) { return false ; } if ( ! isNextLine ( ) ) { return false ; } if ( ! isNextTag ( ) ) { return true ; // no next tag -> continue block } if ( ! isCurrentTag ( ) ) { return false ; // no current tag -> new block } // compare current and next tag return getCurrentTa...
Returns true if the next and current lines can be joined together either because they have the same tag or because the next line does not have a tag .
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17,045
public String getCurrentLine ( ) { if ( ! isCurrentLine ( ) ) { return null ; } if ( isTag ( currentLine ) ) return FlatFileUtils . trimRight ( currentLine , getTagWidth ( currentLine ) ) ; else return currentLine . trim ( ) ; }
Return current line without tag .
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17,046
public String getNextLine ( ) { if ( ! isNextLine ( ) ) { return null ; } if ( isTag ( nextLine ) ) return FlatFileUtils . trimRight ( nextLine , getTagWidth ( nextLine ) ) ; else return nextLine . trim ( ) ; }
Return next line without tag .
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17,047
public String getCurrentMaskedLine ( ) { if ( ! isCurrentLine ( ) ) { return null ; } StringBuilder str = new StringBuilder ( ) ; int tagWidth = getTagWidth ( currentLine ) ; for ( int i = 0 ; i < tagWidth ; ++ i ) { str . append ( " " ) ; } if ( currentLine . length ( ) > tagWidth ) { str . append ( currentLine . subs...
Return current line with tag masked with whitespace .
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17,048
public String getNextMaskedLine ( ) { if ( ! isNextLine ( ) ) { return null ; } StringBuilder str = new StringBuilder ( ) ; int tagWidth = getTagWidth ( nextLine ) ; for ( int i = 0 ; i < tagWidth ; ++ i ) { str . append ( " " ) ; } if ( nextLine . length ( ) > tagWidth ) { str . append ( nextLine . substring ( tagWidt...
Return next line with tag masked with whitespace .
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17,049
public String getCurrentShrinkedLine ( ) { if ( ! isCurrentLine ( ) ) { return null ; } String string = FlatFileUtils . trim ( currentLine , getTagWidth ( currentLine ) ) ; if ( string . equals ( "" ) ) { return null ; } return FlatFileUtils . shrink ( string ) ; }
Shrink and return the current line without tag .
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17,050
public void propertyChange ( PropertyChangeEvent evt ) { if ( "progress" == evt . getPropertyName ( ) ) { int progress = ( Integer ) evt . getNewValue ( ) ; progressMonitor . setProgress ( progress ) ; // String message = String.format("Completed %d%%.\n", progress); // progressMonitor.setNote(message); if ( progressMo...
Invoked when task s progress property changes .
209
9
17,051
public double [ ] positionAt ( int col , int row ) { if ( isInRaster ( col , row ) ) { GridGeometry2D gridGeometry = getGridGeometry ( ) ; Coordinate coordinate = CoverageUtilities . coordinateFromColRow ( col , row , gridGeometry ) ; return new double [ ] { coordinate . x , coordinate . y } ; } return null ; }
Get world position from col row .
85
7
17,052
public int [ ] gridAt ( double x , double y ) { if ( isInRaster ( x , y ) ) { GridGeometry2D gridGeometry = getGridGeometry ( ) ; int [ ] colRowFromCoordinate = CoverageUtilities . colRowFromCoordinate ( new Coordinate ( x , y ) , gridGeometry , null ) ; return colRowFromCoordinate ; } return null ; }
Get grid col and row from a world coordinate .
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17,053
public void setValueAt ( int col , int row , double value ) { if ( makeNew ) { if ( isInRaster ( col , row ) ) { ( ( WritableRandomIter ) iter ) . setSample ( col , row , 0 , value ) ; } else { throw new RuntimeException ( "Setting value outside of raster." ) ; } } else { throw new RuntimeException ( "Writing not allow...
Sets a raster value if the raster is writable .
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17,054
public double [ ] surrounding ( int col , int row ) { GridNode node = new GridNode ( iter , cols , rows , xRes , yRes , col , row ) ; List < GridNode > surroundingNodes = node . getSurroundingNodes ( ) ; double [ ] surr = new double [ 8 ] ; for ( int i = 0 ; i < surroundingNodes . size ( ) ; i ++ ) { GridNode gridNode ...
Get the values of the surrounding cells .
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17,055
public void write ( String path ) throws Exception { if ( makeNew ) { RasterWriter . writeRaster ( path , buildRaster ( ) ) ; } else { throw new RuntimeException ( "Only new rasters can be dumped." ) ; } }
Write the raster to file .
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17,056
public static Raster read ( String path ) throws Exception { GridCoverage2D coverage2d = RasterReader . readRaster ( path ) ; Raster raster = new Raster ( coverage2d ) ; return raster ; }
Read a raster from file .
51
7
17,057
private void checkDuplicateTokens ( MutableTemplateInfo templateInfo ) throws TemplateException { List < String > allTokenNames = new ArrayList < String > ( ) ; for ( TemplateTokenInfo tokenInfo : templateInfo . tokenInfos ) { if ( allTokenNames . contains ( tokenInfo . getName ( ) ) ) { throw new TemplateException ( "...
throws error if a token name appears twice - will bail as soon as one duplicate is hit
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17,058
private void processGroups ( MutableTemplateInfo template ) throws TemplateException { List < TemplateTokenGroupInfo > groupInfos = template . groupInfo ; List < String > allGroupTokens = new ArrayList < String > ( ) ; for ( TemplateTokenGroupInfo groupInfo : groupInfos ) { for ( String newToken : groupInfo . getContai...
creates a group containing all tokens not contained in any other sections - an all others group
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17,059
public void shrink ( ) { if ( c . length == length ) { return ; } char [ ] newc = new char [ length ] ; System . arraycopy ( c , 0 , newc , 0 , length ) ; c = newc ; }
Shrinks the capacity of the buffer to the current length if necessary . This method involves copying the data once!
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17,060
public StringBuffer toStringBuffer ( ) { StringBuffer sb = new StringBuffer ( length ) ; sb . append ( c , 0 , length ) ; return sb ; }
Converts the contents of the buffer into a StringBuffer . This method involves copying the new data once!
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17,061
public static GridCoverage2D createSubCoverageFromTemplate ( GridCoverage2D template , Envelope2D subregion , Double value , WritableRaster [ ] writableRasterHolder ) { RegionMap regionMap = getRegionParamsFromGridCoverage ( template ) ; double xRes = regionMap . getXres ( ) ; double yRes = regionMap . getYres ( ) ; do...
Create a subcoverage given a template coverage and an envelope .
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17,062
public static int [ ] getRegionColsRows ( GridCoverage2D gridCoverage ) { GridGeometry2D gridGeometry = gridCoverage . getGridGeometry ( ) ; GridEnvelope2D gridRange = gridGeometry . getGridRange2D ( ) ; int height = gridRange . height ; int width = gridRange . width ; int [ ] params = new int [ ] { width , height } ; ...
Get the array of rows and cols .
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17,063
public static int [ ] getLoopColsRowsForSubregion ( GridCoverage2D gridCoverage , Envelope2D subregion ) throws Exception { GridGeometry2D gridGeometry = gridCoverage . getGridGeometry ( ) ; GridEnvelope2D subRegionGrid = gridGeometry . worldToGrid ( subregion ) ; int minCol = subRegionGrid . x ; int maxCol = subRegion...
Get the cols and rows ranges to use to loop the original gridcoverage .
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17,064
public static int [ ] renderedImage2IntegerArray ( RenderedImage renderedImage , double multiply ) { int width = renderedImage . getWidth ( ) ; int height = renderedImage . getHeight ( ) ; int [ ] values = new int [ width * height ] ; RandomIter imageIter = RandomIterFactory . create ( renderedImage , null ) ; int inde...
Transform a double values rendered image in its integer array representation by scaling the values .
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public static byte [ ] renderedImage2ByteArray ( RenderedImage renderedImage , boolean doRowsThenCols ) { int width = renderedImage . getWidth ( ) ; int height = renderedImage . getHeight ( ) ; byte [ ] values = new byte [ width * height ] ; RandomIter imageIter = RandomIterFactory . create ( renderedImage , null ) ; i...
Transform a double values rendered image in its byte array .
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17,066
public static void setNovalueBorder ( WritableRaster raster ) { int width = raster . getWidth ( ) ; int height = raster . getHeight ( ) ; for ( int c = 0 ; c < width ; c ++ ) { raster . setSample ( c , 0 , 0 , doubleNovalue ) ; raster . setSample ( c , height - 1 , 0 , doubleNovalue ) ; } for ( int r = 0 ; r < height ;...
Creates a border of novalues .
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17,067
public static WritableRaster replaceNovalue ( RenderedImage renderedImage , double newValue ) { WritableRaster tmpWR = ( WritableRaster ) renderedImage . getData ( ) ; RandomIter pitTmpIterator = RandomIterFactory . create ( renderedImage , null ) ; int height = renderedImage . getHeight ( ) ; int width = renderedImage...
Replace the current internal novalue with a given value .
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17,068
public static ROI prepareROI ( Geometry roi , AffineTransform mt2d ) throws Exception { // transform the geometry to raster space so that we can use it as a ROI source Geometry rasterSpaceGeometry = JTS . transform ( roi , new AffineTransform2D ( mt2d . createInverse ( ) ) ) ; // simplify the geometry so that it's as p...
Utility method for transforming a geometry ROI into the raster space using the provided affine transformation .
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17,069
public static boolean isGrass ( String path ) { File file = new File ( path ) ; File cellFolderFile = file . getParentFile ( ) ; File mapsetFile = cellFolderFile . getParentFile ( ) ; File windFile = new File ( mapsetFile , "WIND" ) ; return cellFolderFile . getName ( ) . toLowerCase ( ) . equals ( "cell" ) && windFile...
Checks if the given path is a GRASS raster file .
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17,070
public static GridCoverage2D mergeCoverages ( GridCoverage2D valuesMap , GridCoverage2D onMap ) { RegionMap valuesRegionMap = getRegionParamsFromGridCoverage ( valuesMap ) ; int cs = valuesRegionMap . getCols ( ) ; int rs = valuesRegionMap . getRows ( ) ; RegionMap onRegionMap = getRegionParamsFromGridCoverage ( onMap ...
Coverage merger .
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4
17,071
public static double [ ] [ ] calculateHypsographic ( GridCoverage2D elevationCoverage , int bins , IHMProgressMonitor pm ) { if ( pm == null ) { pm = new DummyProgressMonitor ( ) ; } RegionMap regionMap = getRegionParamsFromGridCoverage ( elevationCoverage ) ; int cols = regionMap . getCols ( ) ; int rows = regionMap ....
Calculates the hypsographic curve for the given raster using the supplied bins .
638
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17,072
static public void zipFolder ( String srcFolder , String destZipFile , boolean addBaseFolder ) throws IOException { if ( new File ( srcFolder ) . isDirectory ( ) ) { try ( FileOutputStream fileWriter = new FileOutputStream ( destZipFile ) ; ZipOutputStream zip = new ZipOutputStream ( fileWriter ) ) { addFolderToZip ( "...
Compress a folder and its contents .
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17,073
public static String unzipFolder ( String zipFile , String destFolder , boolean addTimeStamp ) throws IOException { String newFirstName = null ; try ( ZipFile zf = new ZipFile ( zipFile ) ) { Enumeration < ? extends ZipEntry > zipEnum = zf . entries ( ) ; String firstName = null ; while ( zipEnum . hasMoreElements ( ) ...
Uncompress a compressed file to the contained structure .
542
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17,074
public void setWorkingDirectory ( File dir ) { if ( ! dir . exists ( ) ) { throw new IllegalArgumentException ( dir + " doesn't exist." ) ; } pb . directory ( dir ) ; }
Set the working directory where the process get executed .
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public int exec ( ) throws IOException { int exitValue = 0 ; List < String > argl = new ArrayList < String > ( ) ; argl . add ( executable . toString ( ) ) ; for ( Object a : args ) { if ( a != null ) { if ( a . getClass ( ) == String . class ) { argl . add ( a . toString ( ) ) ; } else if ( a . getClass ( ) == String ...
Process execution . This call blocks until the process is done .
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private void addResult ( ValidationResult result ) { if ( result == null || result . count ( ) == 0 ) { return ; } this . results . add ( result ) ; }
Adds a validationResult to the results - if there are any messages
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public List < ValidationMessage < Origin > > getMessages ( String messageKey , Severity severity ) { List < ValidationMessage < Origin >> messages = new ArrayList < ValidationMessage < Origin > > ( ) ; for ( ValidationResult result : results ) { for ( ValidationMessage < Origin > message : result . getMessages ( ) ) { ...
Finds validation messages by the message key and severity .
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public static byte [ ] serialize ( Object obj ) throws IOException { try ( ByteArrayOutputStream bos = new ByteArrayOutputStream ( ) ) { ObjectOutputStream out = new ObjectOutputStream ( bos ) ; out . writeObject ( obj ) ; out . close ( ) ; return bos . toByteArray ( ) ; } }
Serialize an Object to disk .
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public static < T > T deSerialize ( byte [ ] bytes , Class < T > adaptee ) throws Exception { ObjectInputStream in = new ObjectInputStream ( new ByteArrayInputStream ( bytes ) ) ; Object readObject = in . readObject ( ) ; return adaptee . cast ( readObject ) ; }
Deserialize a byte array to a given object .
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public static void serializeToDisk ( File file , Object obj ) throws IOException { byte [ ] serializedObj = serialize ( obj ) ; try ( RandomAccessFile raFile = new RandomAccessFile ( file , "rw" ) ) { raFile . write ( serializedObj ) ; } }
Serialize an object to disk .
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public static < T > T deSerializeFromDisk ( File file , Class < T > adaptee ) throws Exception { try ( RandomAccessFile raf = new RandomAccessFile ( file , "r" ) ) { long length = raf . length ( ) ; // System.out.println(length + "/" + (int) length); byte [ ] bytes = new byte [ ( int ) length ] ; int read = raf . read ...
Deserialize a file to a given object .
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private void checkParametersAndRunEnergyBalance ( double [ ] rain , double [ ] [ ] T , double [ ] [ ] V , double [ ] [ ] P , double [ ] [ ] RH , double month , double day , double hour , double [ ] Abasin , double [ ] [ ] [ ] A , double [ ] [ ] [ ] EI , double [ ] [ ] DTd , double [ ] [ ] DTm , double [ ] [ ] canopy ) ...
Method to check the input parameters .
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public static BufferedReader getBufferedXMLReader ( InputStream stream , int xmlLookahead ) throws IOException { // create a buffer so we can reset the input stream BufferedInputStream input = new BufferedInputStream ( stream ) ; input . mark ( xmlLookahead ) ; // create object to hold encoding info EncodingInfo encodi...
Wraps an xml input xstream in a buffered reader specifying a lookahead that can be used to preparse some of the xml document resetting it back to its original state for actual parsing .
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public static BufferedReader getBufferedXMLReader ( Reader reader , int xmlLookahead ) throws IOException { // ensure the reader is a buffered reader if ( ! ( reader instanceof BufferedReader ) ) { reader = new BufferedReader ( reader ) ; } // mark the input stream reader . mark ( xmlLookahead ) ; return ( BufferedRead...
Wraps an xml reader in a buffered reader specifying a lookahead that can be used to preparse some of the xml document resetting it back to its original state for actual parsing .
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private void validateCoefficients ( ) { if ( coefsValid ) return ; if ( n >= 2 ) { double xBar = ( double ) sumX / n ; double yBar = ( double ) sumY / n ; a1 = ( double ) ( ( n * sumXY - sumX * sumY ) / ( n * sumXX - sumX * sumX ) ) ; a0 = ( double ) ( yBar - a1 * xBar ) ; } else { a0 = a1 = Double . NaN ; } coefsValid...
Validate the coefficients .
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public static synchronized void initializeDXF_SCHEMA ( CoordinateReferenceSystem crs ) { if ( DXF_POINTSCHEMA != null && DXF_POINTSCHEMA . getAttributeCount ( ) != 0 ) return ; SimpleFeatureTypeBuilder b = new SimpleFeatureTypeBuilder ( ) ; b . setName ( "dxfpointfile" ) ; b . setCRS ( crs ) ; b . add ( "the_geom" , Po...
Initialize a JUMP FeatureSchema to load dxf data keeping some graphic attributes .
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private byte [ ] readClassData ( JavaFileObject classFile ) throws IOException { ByteArrayOutputStream bos = new ByteArrayOutputStream ( ) ; byte [ ] buf = new byte [ 4096 ] ; InputStream classStream = classFile . openInputStream ( ) ; int n = classStream . read ( buf ) ; while ( n > 0 ) { bos . write ( buf , 0 , n ) ;...
Reads all class file data into a byte array from the given file object .
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public static String [ ] getAllMarksArray ( ) { Set < String > keySet = markNamesToDef . keySet ( ) ; return ( String [ ] ) keySet . toArray ( new String [ keySet . size ( ) ] ) ; }
Getter for an array of all available marks .
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public static void substituteMark ( Rule rule , String wellKnownMarkName ) { PointSymbolizer pointSymbolizer = StyleUtilities . pointSymbolizerFromRule ( rule ) ; Mark oldMark = SLD . mark ( pointSymbolizer ) ; Graphic graphic = SLD . graphic ( pointSymbolizer ) ; graphic . graphicalSymbols ( ) . clear ( ) ; Mark mark ...
Change the mark shape in a rule .
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public static void substituteExternalGraphics ( Rule rule , URL externalGraphicsUrl ) { String urlString = externalGraphicsUrl . toString ( ) ; String format = "" ; if ( urlString . toLowerCase ( ) . endsWith ( ".png" ) ) { format = "image/png" ; } else if ( urlString . toLowerCase ( ) . endsWith ( ".jpg" ) ) { format ...
Change the external graphic in a rule .
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public static void changeMarkSize ( Rule rule , int newSize ) { PointSymbolizer pointSymbolizer = StyleUtilities . pointSymbolizerFromRule ( rule ) ; Graphic graphic = SLD . graphic ( pointSymbolizer ) ; graphic . setSize ( ff . literal ( newSize ) ) ; // Mark oldMark = SLDs.mark(pointSymbolizer); // oldMark.setSize(ff...
Changes the size of a mark inside a rule .
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public static void changeRotation ( Rule rule , int newRotation ) { PointSymbolizer pointSymbolizer = StyleUtilities . pointSymbolizerFromRule ( rule ) ; Graphic graphic = SLD . graphic ( pointSymbolizer ) ; graphic . setRotation ( ff . literal ( newRotation ) ) ; // Mark oldMark = SLDs.mark(pointSymbolizer); // oldMar...
Changes the rotation value inside a rule .
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@ SuppressWarnings ( { "rawtypes" , "unchecked" } ) public static void setOffset ( Symbolizer symbolizer , String text ) { if ( text . indexOf ( ' ' ) == - 1 ) { return ; } String [ ] split = text . split ( "," ) ; if ( split . length != 2 ) { return ; } double xOffset = Double . parseDouble ( split [ 0 ] ) ; double yO...
Sets the offset in a symbolizer .
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public static String styleToString ( Style style ) throws Exception { StyledLayerDescriptor sld = sf . createStyledLayerDescriptor ( ) ; UserLayer layer = sf . createUserLayer ( ) ; layer . setLayerFeatureConstraints ( new FeatureTypeConstraint [ ] { null } ) ; sld . addStyledLayer ( layer ) ; layer . addUserStyle ( st...
Converts a style to its string representation to be written to file .
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public static StyleWrapper createStyleFromGraphic ( File graphicsPath ) throws IOException { String name = graphicsPath . getName ( ) ; ExternalGraphic exGraphic = null ; if ( name . toLowerCase ( ) . endsWith ( ".png" ) ) { exGraphic = sf . createExternalGraphic ( graphicsPath . toURI ( ) . toURL ( ) , "image/png" ) ;...
Generates a style based on a graphic .
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public static float [ ] getDash ( String dashStr ) { if ( dashStr == null ) { return null ; } String [ ] dashSplit = dashStr . split ( "," ) ; //$NON-NLS-1$ int size = dashSplit . length ; float [ ] dash = new float [ size ] ; try { for ( int i = 0 ; i < dash . length ; i ++ ) { dash [ i ] = Float . parseFloat ( dashSp...
Returns a dash array from a dash string .
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public static String getDashString ( float [ ] dashArray ) { StringBuilder sb = null ; for ( float f : dashArray ) { if ( sb == null ) { sb = new StringBuilder ( String . valueOf ( f ) ) ; } else { sb . append ( "," ) ; sb . append ( String . valueOf ( f ) ) ; } } return sb . toString ( ) ; }
Converts teh array to string .
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public static int sld2awtJoin ( String sldJoin ) { if ( sldJoin . equals ( lineJoinNames [ 1 ] ) ) { return BasicStroke . JOIN_BEVEL ; } else if ( sldJoin . equals ( "" ) || sldJoin . equals ( lineJoinNames [ 2 ] ) ) { return BasicStroke . JOIN_MITER ; } else if ( sldJoin . equals ( lineJoinNames [ 3 ] ) ) { return Bas...
Convert a sld line join definition to the java awt value .
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public static int sld2awtCap ( String sldCap ) { if ( sldCap . equals ( "" ) || sldCap . equals ( lineCapNames [ 1 ] ) ) { return BasicStroke . CAP_BUTT ; } else if ( sldCap . equals ( lineCapNames [ 2 ] ) ) { return BasicStroke . CAP_ROUND ; } else if ( sldCap . equals ( lineCapNames [ 3 ] ) ) { return BasicStroke . C...
Convert a sld line cap definition to the java awt value .
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