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Searched refs:htParams (Results 1 – 25 of 45) sorted by relevance

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/dports/science/jmol/jmol-14.32.7/src/org/jmol/adapter/smarter/
H A DAtomSetCollectionReader.java149 public Map<String, Object> htParams; field in AtomSetCollectionReader
255 this.htParams = htParams; in setupASCR()
464 htParams.get("pdbNoHydrogens")); in setIsPDB()
490 htParams.put("bsFilter", bsFilter); in finish()
564 fillRange = htParams.get("fillRange"); in initialize()
569 o = htParams.get("supercell"); in initialize()
580 int ptFile = (htParams.containsKey("ptFile") ? ((Integer) htParams in initialize()
618 symmetryRange = (htParams.containsKey("symmetryRange") ? ((Float) htParams in initialize()
647 unitCellOffsetFractional = htParams in initialize()
668 domains = htParams.get("domains"); in initialize()
[all …]
H A DSmarterJmolAdapter.java103 bufferedReader, htParams, -1); in staticGetAtomSetCollectionReader()
130 htParams, -1); in getAtomSetCollectionFromReader()
203 if (htParams.containsKey("concatenate")) { in getAtomSetCollectionReaders()
245 htParams.put("vwr", vwr); in getAtomSetCollectionReaders()
252 htParams.put("fullPathName", fullPathName); in getAtomSetCollectionReaders()
254 (types == null ? null : types[i]), reader, htParams, i); in getAtomSetCollectionReaders()
260 r.setup(names[i], htParams, in getAtomSetCollectionReaders()
263 r.setup(names[i], htParams, reader); in getAtomSetCollectionReaders()
323 if (htParams.containsKey("trajectorySteps")) { in getAtomSetCollectionFromSet()
332 (Lst<P3[]>) htParams.get("trajectorySteps"), in getAtomSetCollectionFromSet()
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H A DResolver.java107 Map<String, Object> htParams, int ptFile) in getAtomCollectionReader() argument
113 type = (String) htParams.get("filter"); in getAtomCollectionReader()
128 type = (String) htParams.get("defaultType"); in getAtomCollectionReader()
148 htParams.put("ptFile", Integer.valueOf(ptFile)); in getAtomCollectionReader()
150 htParams.put("readerName", readerName); in getAtomCollectionReader()
153 return getReader(readerName, htParams); in getAtomCollectionReader()
162 public static Object getReader(String readerName, Map<String, Object> htParams) { in getReader() argument
204 public static Object DOMResolve(Map<String, Object> htParams) in DOMResolve() argument
206 String rdrName = getXmlType((String) htParams in DOMResolve()
211 htParams.put("readerName", rdrName); in DOMResolve()
[all …]
/dports/science/jmol/jmol-14.32.7/src/org/jmol/util/
H A DJmolAudio.java69 public void playAudio(Viewer vwr, Map<String, Object> htParams) { in playAudio() argument
71 id = (String) htParams.get("id"); in playAudio()
74 htParams.put("id", id = "audio" + ++idCount); in playAudio()
77 params = htParams; in playAudio()
79 fileName = (String) htParams.get("audioFile"); in playAudio()
80 vwr.sm.registerAudio(id, htParams); in playAudio()
86 jmol.playAudio(applet, htParams); in playAudio()
89 if (htParams.containsKey("action")) in playAudio()
90 action((String) htParams.get("action")); in playAudio()
91 else if (htParams.containsKey("loop")) { in playAudio()
/dports/science/jmol/jmol-14.32.7/src/org/jmol/io/
H A DDOMReader.java38 private Map<String, Object> htParams; field in DOMReader
42 void set(FileManager fileManager, Viewer vwr, Object DOMNode, Map<String, Object> htParams) { in set() argument
46 this.htParams = htParams; in set()
65 htParams.put("nameSpaceInfo", info); in run()
69 aDOMNode, htParams); in run()
H A DFilesReader.java33 private Map<String, Object> htParams; field in FilesReader
42 Map<String, Object> htParams, boolean isAppend) { in set() argument
49 this.htParams = htParams; in set()
61 this, fullPathNamesIn, fileTypesIn, htParams, getReadersOnly); in run()
65 atomSetCollection, null, htParams); in run()
101 forceBinary, false, true, htParams); in getBufferedReaderOrBinaryDocument()
109 (BufferedInputStream) t, name, zipDirectory, htParams, 1, true); in getBufferedReaderOrBinaryDocument()
H A DFileReader.java56 private Map<String, Object> htParams; field in FileReader
73 Map<String, Object> htParams, boolean isAppend) { in FileReader() argument
91 this.htParams = htParams; in FileReader()
105 bytesOrStream, true, false, false, true, htParams); in run()
125 htParams.put("subFileList", subFileList); in run()
128 …zu().getAtomSetCollectionOrBufferedReaderFromZip(vwr, zis, name, zipDirectory, htParams, 1, false); in run()
138 …util.BinaryDocument", vwr, "file")).setStream((BufferedInputStream) t, !htParams.containsKey("isLi… in run()
141 fullPathNameIn, fileTypeIn, readerOrDocument, htParams); in run()
H A DJmolUtil.java158 Map<String, Object> htParams, in getAtomSetCollectionOrBufferedReaderFromZip() argument
167 htParams.put("zipSet", fileName); in getAtomSetCollectionOrBufferedReaderFromZip()
168 String[] subFileList = (String[]) htParams.get("subFileList"); in getAtomSetCollectionOrBufferedReaderFromZip()
177 if (subFileName == null && htParams.containsKey("modelNumber")) { in getAtomSetCollectionOrBufferedReaderFromZip()
178 selectedFile = ((Integer) htParams.get("modelNumber")).intValue(); in getAtomSetCollectionOrBufferedReaderFromZip()
180 htParams.remove("modelNumber"); in getAtomSetCollectionOrBufferedReaderFromZip()
184 String manifest = (String) htParams.get("manifest"); in getAtomSetCollectionOrBufferedReaderFromZip()
220 .getAtomSetCollectionFromReader(fileName, reader, htParams); in getAtomSetCollectionOrBufferedReaderFromZip()
250 htParams.put("subFileName", subFileName); in getAtomSetCollectionOrBufferedReaderFromZip()
265 vwr, bis, fileName + "|" + thisEntry, zipDir2, htParams, in getAtomSetCollectionOrBufferedReaderFromZip()
[all …]
/dports/science/jmol/jmol-14.32.7/src/org/jmol/api/
H A DJmolAdapter.java130 Object bufferedReader, Map<String, Object> htParams); in getAtomSetCollectionReader() argument
159 Map<String, Object> htParams, boolean getReadersOnly); in getAtomSetCollectionReaders() argument
161 … Object getAtomSetCollectionFromSet(Object readers, Object atomSets, Map<String, Object> htParams); in getAtomSetCollectionFromSet() argument
164 … Object reader, Map<String, Object> htParams) throws Exception; in getAtomSetCollectionFromReader() argument
178 Map<String, Object> htParams) { in getAtomSetCollectionFromReaderType() argument
182 htParams, false)); in getAtomSetCollectionFromReaderType()
196 Map<String, Object> htParams) { in openBufferedReader() argument
197 return getAtomSetCollectionFromReaderType(name, null, bufferedReader, htParams); in openBufferedReader()
205 abstract public Object getAtomSetCollectionFromDOM(Object DOMNode, Map<String, Object> htParams); in getAtomSetCollectionFromDOM() argument
H A DJmolDomReaderInterface.java10 …public void set(FileManager fileManager, Viewer vwr, Object DOMNode, Map<String, Object> htParams); in set() argument
H A DJmolFilesReaderInterface.java17 Map<String, Object> htParams, boolean isAppend); in set() argument
H A DJmolJDXMOLParser.java12 Map<String, Object> htParams); in set() argument
/dports/science/jmol/jmol-14.32.7/src/org/jmol/viewer/
H A DFileManager.java102 htParams.put("loadState", vwr.g.getLoadState(htParams)); in setLoadState()
209 setLoadState(htParams); in createAtomSetCollectionFromFile()
214 htParams.put("dbName", name0); in createAtomSetCollectionFromFile()
245 setLoadState(htParams); in createAtomSetCollectionFromFiles()
263 htParams.put("fileTypes", fileTypes); in createAtomSetCollectionFromFiles()
273 setLoadState(htParams); in createAtomSetCollectionFromString()
295 if (!htParams.containsKey("isData")) { in createAtomSeCollectionFromStrings()
309 setLoadState(htParams); in createAtomSeCollectionFromStrings()
318 null, readers, htParams, isAppend); in createAtomSeCollectionFromStrings()
385 reader, htParams, false); in createAtomSetCollectionFromReader()
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H A DStatusManager.java813 if (htParams == null) in registerAudio()
827 public void playAudio(Map<String, Object> htParams) { in playAudio() argument
829 if (htParams == null) in playAudio()
831 htParams.put("status", "close"); in playAudio()
833 notifyAudioStatus(htParams); in playAudio()
837 String action = (htParams == null ? "close" : (String) htParams in playAudio()
839 String id = (htParams == null ? null : (String) htParams.get("id")); in playAudio()
860 "script")).playAudio(vwr, htParams); in playAudio()
875 String status = (String) htParams.get("status"); in notifyAudioStatus()
877 String script = (String) htParams.get(status); in notifyAudioStatus()
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H A DViewer.java2481 if (htParams == null) in setLoadParameters()
2483 htParams.put("vwr", this); in setLoadParameters()
2510 return htParams; in setLoadParameters()
2673 if (htParams == null) in loadModelFromFile()
2767 htParams); in loadModelFromFile()
2904 htParams = setLoadParameters(htParams, isAppend); in openFileFull()
2941 htParams, isAppend); in openFileFull()
3151 htParams = setLoadParameters(htParams, isAppend); in openStringInlineParamsAppend()
3162 htParams, isAppend); in openStringInlineParamsAppend()
3164 htParams); in openStringInlineParamsAppend()
[all …]
/dports/science/jmol/jmol-14.32.7/src/org/jmol/adapter/readers/more/
H A DMdCrdReader.java44 protected void setup(String fullPath, Map<String, Object> htParams, Object readerOrDocument) { in setup() argument
46 setupASCR(fullPath, htParams, readerOrDocument); in setup()
64 int ac = (bsFilter == null ? templateAtomCount : ((Integer) htParams in readCoordinates()
66 boolean isPeriodic = htParams.containsKey("isPeriodic"); in readCoordinates()
H A DMdTopReader.java125 htParams.put("defaultType", "mdcrd"); in finalizeSubclassReader()
204 htParams.put("isPeriodic", Boolean.TRUE); in getPointers()
207 htParams.put("templateAtomCount", Integer.valueOf(ac)); in getPointers()
H A DBinaryDcdReader.java54 protected void setup(String fullPath, Map<String, Object> htParams, Object reader) { in setup() argument
57 setupASCR(fullPath, htParams, reader); in setup()
266 int ac = (bsFilter == null ? templateAtomCount : ((Integer) htParams in readCoordinates()
/dports/science/jmol/jmol-14.32.7/src/jspecview/common/
H A DScriptToken.java165 private static Map<String, ScriptToken> htParams; field in ScriptToken
168 if (htParams == null) { in getParams()
169 htParams = new Hashtable<String, ScriptToken>(); in getParams()
171 htParams.put(item.name(), item); in getParams()
173 return htParams; in getParams()
/dports/science/jmol/jmol-14.32.7/src/org/jmol/jsv/
H A DJDXMOLParser.java44 Map<String, Object> htParams) { in set() argument
48 if (htParams != null) { in set()
49 htParams.remove("modelNumber"); in set()
52 if (htParams.containsKey("zipSet")) { in set()
53 peakIndex = (int[]) htParams.get("peakIndex"); in set()
56 htParams.put("peakIndex", peakIndex); in set()
58 if (!htParams.containsKey("subFileName")) in set()
/dports/science/jmol/jmol-14.32.7/src/org/jmol/appletjs/
H A DJmol.java49 private Map<String, Object> htParams; field in Jmol
57 htParams = new Hashtable<String, Object>(); in Jmol()
62 htParams.put(entry.getKey().toLowerCase(), entry.getValue()); in Jmol()
94 Object o = htParams.get(paramName.toLowerCase()); in getJmolParameter()
/dports/science/jmol/jmol-14.32.7/src/jspecview/appletjs/
H A DJSVApplet.java95 private Map<String, Object> htParams; field in JSVApplet
101 htParams = new Hashtable<String, Object>(); in JSVApplet()
103 htParams.put(entry.getKey().toLowerCase(), entry.getValue()); in JSVApplet()
148 Object o = htParams.get(paramName.toLowerCase()); in getParameter()
/dports/science/jmol/jmol-14.32.7/src/org/jmol/script/
H A DScriptEval.java4364 htParams.put("value", m); in cmdLoad()
4683 htParams.put("filter", filter); in cmdLoad()
4712 htParams.put("fileData", o); in cmdLoad()
4824 vwr.sm.playAudio(htParams); in cmdLoad()
4838 htParams.put("eval", this); in cmdLoad()
4923 htParams.put(key, val); in addFilterAttribute()
4936 htParams.put("fileData", strModel); in addLoadData()
4951 htParams.put("outputChannel", out); in loadPNGJVar()
5075 htParams.remove("firstLastStep"); in getLoadModelIndex()
5076 htParams.remove("bsModel"); in getLoadModelIndex()
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/dports/science/jmol/jmol-14.32.7/src/org/jmol/adapter/readers/simple/
H A DFAHReader.java177 && !"xyz".equals(htParams.get("dataType"))) { in readVnnCoords()
232 String fileName = FileManager.stripTypePrefix((String) htParams.get("fullPathName")); in getTopData()
/dports/science/jmol/jmol-14.32.7/src/org/jmol/api/js/
H A DJmolToJSmolInterface.java31 void playAudio(JSmolAppletObject applet, Map<String, Object> htParams); in playAudio() argument

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