charite.christo.metannogen
Class MetannogenStatics

java.lang.Object
  charite.christo.metannogen.MetannogenStatics

All Implemented Interfaces:

ChRunnable, TooltipProvider, ActionListener, FocusListener, MouseListener, MouseMotionListener, EventListener

public class MetannogenStatics
extends Object
implements ActionListener, MouseMotionListener, MouseListener, FocusListener, TooltipProvider, ChRunnable

Field Summary

static ByteArray	baNil
static Color	BG_notEditable
static String	BUT_LAB_Backup
static String	BUT_LAB_highlightInPubmed
static String	BUT_LAB_Save
static String	CMD_CHANGE_ORGANISM
static String	CMD_NEW_DATASET
static String	CMD_NEW_EMPTY_DATASET
static String	CMD_VIEW_PATHWAY
static long	DELETE_DATASETS_ASK_SERVER
static long	DELETE_DATASETS_SILENT
static String	DEMO_SERVER
static String	DEMO_URL_SINGLE
static String	DIR_GIF_COMPUNDS
static String	GIF_COMPOUNDS
static long	HIGHLIGHT_COMPARTMENTS
static long	HIGHLIGHT_LABELS_AND_ATTRIBUTES
static ImageIcon	ICON_REACTION_EXISTS
static ImageIcon	ICON_REACTION_EXISTS_NOT
static ImageIcon	ICON_REACTION_EXISTS_NOT_RO
static ImageIcon	ICON_REACTION_EXISTS_RO
static String[]	INNER_X_REFS
static MetannogenStatics[]	instance
static JLabel	LAB_COUNT_DATASETS
static char	LINE_BREAK
static Map<String,ByteArray>[]	mapAttributeTexts
static String	NETWORK_ID_PHM
static JLabel	NODE_DATASETS
static JLabel	NODE_DATASETS_KILL
static JLabel	NODE_MATCHING
static JLabel	NODE_ORPHAN_DATASETS
static JLabel	NODE_TRANSPORTER_DATASETS
static int	NUM_DATA_FILE
static String	ORGANISMS_LIST
static String[]	OUR_TEAM
static String[]	sCONFIDENCES
static int	SUBSTRATES_AND_PRODUCTS_ALL
static int	SUBSTRATES_AND_PRODUCTS_NO_WATER
static int	SUBSTRATES_AND_PRODUCTS_NO_WATER_MAPPED
static String	SWISS_EC
static String	SWISS_ORGANISMS_LIST
static int	TA_BOOKMARKS_M
static int	TA_BOOKMARKS_V
static int	TA_BOOKMARKS1
static int	TA_INFO
static int	TA_LOG
static int	TAB_CLICKED
static int	TAB_DATASETS
static int	TAB_MATCHING
static String	URL_EHM

Fields inherited from interface charite.christo.interfaces.ChRunnable

APPEND, DOWNLOAD_FINISHED, INTERPRET_LINE, LOG, SET_ICON_IMAGE

Method Summary

void	actionPerformed(ActionEvent ev)
static void	addDatasetView(DatasetView... cc)
static void	addNetwork(MReactionCollection n)
static void	addToBookmarks(Object o, int num)
static String	applyDictionary(String s0, Map<String,String> m)
static String	applyDictMetabolites(String m0)
static void	createDatasets(MReaction[] rr)
static void	createDatasets(MReaction[] rr, String[] reportFailure)
static Customize	customAttributes()
static Customize	customAttributeValues()
static String[]	customMetaboliteNames()
static void	deleteDatasets(Dataset[] dd, long options)
static File	dirData()
static File	dirKeggData()
static File	dirMetannogen()
static File	dirMetannogenLog()
static JComponent	docuMetannogenDatasetView()
static void	enableDisable()
static void	enableReferences(JComponent c, long options)
void	focusGained(FocusEvent ev)
void	focusLost(FocusEvent ev)
static <T> T[]	fromIDs(String[] ss, Map<String,T> m, Class<T> clazz) ID list in list of instances
static String[]	getAllSpeciesNamesLC()
static ChFrame	getApplicationFrame()
static File	getBackupFile(boolean onExit)
JPopupMenu	getContextmenu(JComponent jc_, AWTEvent ev)
static ChRunnable	getContextmenuProvider()
static String[]	getDatasetForms()
static int	getDatasets_modificationCount()
static Dataset[]	getDatasets()
static Dataset[]	getDatasetsForID(String id) (i) Add the Dataset with this ID (ii) Add all Datasets where the String it is a part of the dataset id using vertical bar as separator.
static JComponent	getDatasetViewPanel()
static Map<String,String[]>	getDictionaryAffymetrixToRid()
static Map<String,String>	getDictionaryCompartments()
static Map<String,String>	getDictionaryReplaceWhileTyping()
static Map<String,String>	getDictionarySimilarSpecies()
static Map<String,String>	getDictionarySpecies()
static Map<String,String>	getDictionarySpeciesNames()
static File	getFileDatasets()
static File	getFileInfoText()
static Dataset	getFocusedDataset()
static DatasetView	getFocusedDatasetView()
static String[]	getListOfCompartments()
static String[]	getListOfCompartmentsABC()
static Map<String,EC_Class>	getMapEC2EC_Class()
static Map<String,Pathway>	getMapId2Pathway()
static Map<String,MReaction>	getMapId2Reaction()
static Map<String,MSpecies>	getMapId2Species()
static Map<String,MSpecies[]>	getMapTextLC2Species() Any metabolite names or ids to MSpecies
static String[]	getMetaboliteNames()
static String	getNameForID(String id0)
static MReactionCollection	getNetwork(String id)
static MReactionCollection	getNetworkKegg()
static MReactionCollection	getNetworkMapIdenticalMetabolites(MReactionCollection networkOrig)
static MReactionCollection[]	getNetworks()
static MReactionCollection	getNetworkTranslated(ReactionCollection networkOrig)
static Object[]	getObjectsForText(String wordUnderMouse)
static PathwayViews	getPathwayView(String id)
static String	getProjectName()
static String[]	getReactionAttributesForSbml()
static String	getScientistName()
static String[]	getSpeciesAttributesForSbml()
String	getToolTipText(JComponent c, MouseEvent ev)
static TooltipProvider	getToolTipTextProvider()
static Dataset[]	getTransporterDatasetsForMetabolite(String id)
static URL	getUrlForDataset(Dataset d)
static URL	getUrlForDatasetID(String id)
static URL[]	getUrlsDatasets()
static Dataset[]	getViewedDatasets()
static Object[]	getWordcompletionLists(boolean isFirst)
static Customize	highlightInPubmed()
static Dataset[]	importDatasets(File f, char reportError)
static Dataset[]	importDatasets(InputStream is)
static Dataset[]	importDatasets(String[] lines)
static void	intoTextArea(Object o)
static void	intoTextArea(Object o, File f)
static boolean	intoTreeClicked(Object[] objectsOrIds)
static void	intoTreeClickedAndUpdate(Object[] oo)
static boolean	isHergosGroup()
static boolean	isWithGUI()
static JLabel	jLabel(String l)
static JLabel	jLabel(String l, ImageIcon i, int ali)
static boolean	looksLikeCID(String id)
static boolean	looksLikeHRID(String s)
static boolean	looksLikeRID(String id)
static void	main(String... argv)
static Map<String,Dataset[]>	mapId2Dataset()
static Map<String,String>	mapMetaboliteNameToID()
static String	mayConvert(String id0, Map<String,String> m)
void	mouseClicked(MouseEvent ev)
void	mouseDragged(MouseEvent ev)
void	mouseEntered(MouseEvent ev)
void	mouseExited(MouseEvent ev)
void	mouseMoved(MouseEvent ev)
void	mousePressed(MouseEvent ev)
void	mouseReleased(MouseEvent ev)
static MReactionCollection	newReactionCollection(ReactionCollection network, Map<String,String> mapMetab, Map<String,String> mapCompart, long options)
static MReactionCollection	newReactionCollectionDatasets(long options)
static MReactionCollection	newReactionCollectionDatasets(Map<String,String> meta, Map<String,String> comp, long options)
static List	pathwayTreeNodes()
static boolean	reactionIdShouldBeExported(String id)
static ReloadableClass	reloadableDatasetView()
static void	removeAllDatasetViews()
static void	removeDatasetView(Object... cc)
Object	run(String id, Object arg)
static void	setDatasetForms(String[] ff)
static void	setDirMetannogen(File dir)
static void	setFileDatasets(File f)
static void	setFocusedDatasetView(DatasetView v)
static void	setListOfCompartments(String[] cc)
static void	setReactionAttributesForSbml(String[] ss)
static void	setScientistName(String s)
static void	setSpeciesAttributesForSbml(String[] ss)
static void	setUrlsDatasets(URL[] uu)
static void	setUrlSingleDataset(String urlMask)
static void	setWithGUI(boolean b)
static AsciiView	show(ByteArray ba)
static boolean	showContextmenu(JComponent c, AWTEvent ev)
static JComponent	showMetaboliteStructure(MSpecies c)
static void	sortDatasets(Comparator c)
static ChButton	togAutoreplace()
static ChButton	togLayoutView()
static MReaction[]	toReactions(Object[] oo)
static MReaction[]	toReactions(Object[] oo, List<String> vNotFound)
static void	undelDatasets(Dataset[] dd)
static UniqueList<Dataset>	vDatasets()
static DatasetView	viewDataset(boolean removeOthers, boolean togPermanent, Dataset... ll)
static DatasetView	viewDataset(boolean removeOthers, boolean togPermanent, Dataset[]... lll)
static JComponent	viewText(Object o, String title)
static JComponent	viewText(Object o, String title, long mode)

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

NETWORK_ID_PHM

public static final String NETWORK_ID_PHM

See Also:

Constant Field Values

URL_EHM

public static final String URL_EHM

See Also:

Constant Field Values

BUT_LAB_highlightInPubmed

public static final String BUT_LAB_highlightInPubmed

See Also:

Constant Field Values

BUT_LAB_Save

public static final String BUT_LAB_Save

See Also:

Constant Field Values

BUT_LAB_Backup

public static final String BUT_LAB_Backup

See Also:

Constant Field Values

CMD_VIEW_PATHWAY

public static final String CMD_VIEW_PATHWAY

See Also:

Constant Field Values

CMD_NEW_DATASET

public static final String CMD_NEW_DATASET

See Also:

Constant Field Values

CMD_NEW_EMPTY_DATASET

public static final String CMD_NEW_EMPTY_DATASET

See Also:

Constant Field Values

CMD_CHANGE_ORGANISM

public static final String CMD_CHANGE_ORGANISM

See Also:

Constant Field Values

DEMO_SERVER

public static final String DEMO_SERVER

See Also:

Constant Field Values

DEMO_URL_SINGLE

public static final String DEMO_URL_SINGLE

See Also:

Constant Field Values

sCONFIDENCES

public static final String[] sCONFIDENCES

GIF_COMPOUNDS

public static final String GIF_COMPOUNDS

See Also:

Constant Field Values

DIR_GIF_COMPUNDS

public static final String DIR_GIF_COMPUNDS

See Also:

Constant Field Values

SWISS_EC

public static final String SWISS_EC

See Also:

Constant Field Values

ORGANISMS_LIST

public static final String ORGANISMS_LIST

See Also:

Constant Field Values

SWISS_ORGANISMS_LIST

public static final String SWISS_ORGANISMS_LIST

See Also:

Constant Field Values

INNER_X_REFS

public static final String[] INNER_X_REFS

OUR_TEAM

public static final String[] OUR_TEAM

SUBSTRATES_AND_PRODUCTS_ALL

public static final int SUBSTRATES_AND_PRODUCTS_ALL

See Also:

Constant Field Values

SUBSTRATES_AND_PRODUCTS_NO_WATER

public static final int SUBSTRATES_AND_PRODUCTS_NO_WATER

See Also:

Constant Field Values

SUBSTRATES_AND_PRODUCTS_NO_WATER_MAPPED

public static final int SUBSTRATES_AND_PRODUCTS_NO_WATER_MAPPED

See Also:

Constant Field Values

LINE_BREAK

public static final char LINE_BREAK

See Also:

Constant Field Values

TAB_MATCHING

public static final int TAB_MATCHING

See Also:

Constant Field Values

TAB_CLICKED

public static final int TAB_CLICKED

See Also:

Constant Field Values

TAB_DATASETS

public static final int TAB_DATASETS

See Also:

Constant Field Values

NUM_DATA_FILE

public static final int NUM_DATA_FILE

See Also:

Constant Field Values

TA_INFO

public static final int TA_INFO

See Also:

Constant Field Values

TA_BOOKMARKS1

public static final int TA_BOOKMARKS1

See Also:

Constant Field Values

TA_BOOKMARKS_V

public static final int TA_BOOKMARKS_V

See Also:

Constant Field Values

TA_BOOKMARKS_M

public static final int TA_BOOKMARKS_M

See Also:

Constant Field Values

TA_LOG

public static final int TA_LOG

See Also:

Constant Field Values

HIGHLIGHT_LABELS_AND_ATTRIBUTES

public static final long HIGHLIGHT_LABELS_AND_ATTRIBUTES

See Also:

Constant Field Values

HIGHLIGHT_COMPARTMENTS

public static final long HIGHLIGHT_COMPARTMENTS

See Also:

Constant Field Values

BG_notEditable

public static final Color BG_notEditable

baNil

public static final ByteArray baNil

NODE_DATASETS

public static final JLabel NODE_DATASETS

NODE_DATASETS_KILL

public static final JLabel NODE_DATASETS_KILL

NODE_ORPHAN_DATASETS

public static final JLabel NODE_ORPHAN_DATASETS

NODE_MATCHING

public static final JLabel NODE_MATCHING

NODE_TRANSPORTER_DATASETS

public static final JLabel NODE_TRANSPORTER_DATASETS

LAB_COUNT_DATASETS

public static final JLabel LAB_COUNT_DATASETS

ICON_REACTION_EXISTS

public static final ImageIcon ICON_REACTION_EXISTS

ICON_REACTION_EXISTS_NOT

public static final ImageIcon ICON_REACTION_EXISTS_NOT

ICON_REACTION_EXISTS_RO

public static final ImageIcon ICON_REACTION_EXISTS_RO

ICON_REACTION_EXISTS_NOT_RO

public static final ImageIcon ICON_REACTION_EXISTS_NOT_RO

instance

public static final MetannogenStatics[] instance

mapAttributeTexts

public static final Map<String,ByteArray>[] mapAttributeTexts

DELETE_DATASETS_ASK_SERVER

public static final long DELETE_DATASETS_ASK_SERVER

See Also:

Constant Field Values

DELETE_DATASETS_SILENT

public static final long DELETE_DATASETS_SILENT

See Also:

Constant Field Values

Method Detail

main

public static void main(String... argv)

jLabel

public static JLabel jLabel(String l,
                            ImageIcon i,
                            int ali)

jLabel

public static JLabel jLabel(String l)

setWithGUI

public static void setWithGUI(boolean b)

isWithGUI

public static boolean isWithGUI()

isHergosGroup

public static boolean isHergosGroup()

setListOfCompartments

public static void setListOfCompartments(String[] cc)

getListOfCompartments

public static String[] getListOfCompartments()

getListOfCompartmentsABC

public static String[] getListOfCompartmentsABC()

customAttributes

public static Customize customAttributes()

customAttributeValues

public static Customize customAttributeValues()

addToBookmarks

public static void addToBookmarks(Object o,
                                  int num)

getFileInfoText

public static File getFileInfoText()

intoTextArea

public static void intoTextArea(Object o)

intoTextArea

public static void intoTextArea(Object o,
                                File f)

highlightInPubmed

public static Customize highlightInPubmed()

enableReferences

public static void enableReferences(JComponent c,
                                    long options)

viewText

public static JComponent viewText(Object o,
                                  String title)

viewText

public static JComponent viewText(Object o,
                                  String title,
                                  long mode)

show

public static AsciiView show(ByteArray ba)

getToolTipTextProvider

public static TooltipProvider getToolTipTextProvider()

getToolTipText

public String getToolTipText(JComponent c,
                             MouseEvent ev)

Specified by:

getToolTipText in interface TooltipProvider

getContextmenuProvider

public static ChRunnable getContextmenuProvider()

run

public Object run(String id,
                  Object arg)

Specified by:

run in interface ChRunnable

showContextmenu

public static boolean showContextmenu(JComponent c,
                                      AWTEvent ev)

getContextmenu

public JPopupMenu getContextmenu(JComponent jc_,
                                 AWTEvent ev)

dirKeggData

public static File dirKeggData()

dirData

public static File dirData()

dirMetannogenLog

public static File dirMetannogenLog()

dirMetannogen

public static File dirMetannogen()

setDirMetannogen

public static void setDirMetannogen(File dir)

getBackupFile

public static File getBackupFile(boolean onExit)

setFileDatasets

public static void setFileDatasets(File f)

getFileDatasets

public static File getFileDatasets()

setScientistName

public static void setScientistName(String s)

getScientistName

public static String getScientistName()

getProjectName

public static String getProjectName()

setUrlSingleDataset

public static void setUrlSingleDataset(String urlMask)

setUrlsDatasets

public static void setUrlsDatasets(URL[] uu)

getUrlsDatasets

public static URL[] getUrlsDatasets()

getUrlForDatasetID

public static URL getUrlForDatasetID(String id)

getUrlForDataset

public static URL getUrlForDataset(Dataset d)

getDictionarySpeciesNames

public static Map<String,String> getDictionarySpeciesNames()

getDictionarySpecies

public static Map<String,String> getDictionarySpecies()

getDictionarySimilarSpecies

public static Map<String,String> getDictionarySimilarSpecies()

getDictionaryCompartments

public static Map<String,String> getDictionaryCompartments()

getDictionaryReplaceWhileTyping

public static Map<String,String> getDictionaryReplaceWhileTyping()

getDictionaryAffymetrixToRid

public static Map<String,String[]> getDictionaryAffymetrixToRid()

applyDictionary

public static String applyDictionary(String s0,
                                     Map<String,String> m)

applyDictMetabolites

public static String applyDictMetabolites(String m0)

getMapId2Reaction

public static Map<String,MReaction> getMapId2Reaction()

getMapEC2EC_Class

public static Map<String,EC_Class> getMapEC2EC_Class()

getMapId2Species

public static Map<String,MSpecies> getMapId2Species()

getMapId2Pathway

public static Map<String,Pathway> getMapId2Pathway()

getMapTextLC2Species

public static Map<String,MSpecies[]> getMapTextLC2Species()

Any metabolite names or ids to MSpecies

getAllSpeciesNamesLC

public static String[] getAllSpeciesNamesLC()

pathwayTreeNodes

public static List pathwayTreeNodes()

docuMetannogenDatasetView

public static JComponent docuMetannogenDatasetView()

getPathwayView

public static PathwayViews getPathwayView(String id)

showMetaboliteStructure

public static JComponent showMetaboliteStructure(MSpecies c)

actionPerformed

public void actionPerformed(ActionEvent ev)

Specified by:

actionPerformed in interface ActionListener

focusLost

public void focusLost(FocusEvent ev)

Specified by:

focusLost in interface FocusListener

focusGained

public void focusGained(FocusEvent ev)

Specified by:

focusGained in interface FocusListener

mouseExited

public void mouseExited(MouseEvent ev)

Specified by:

mouseExited in interface MouseListener

mouseEntered

public void mouseEntered(MouseEvent ev)

Specified by:

mouseEntered in interface MouseListener

mouseReleased

public void mouseReleased(MouseEvent ev)

Specified by:

mouseReleased in interface MouseListener

mouseClicked

public void mouseClicked(MouseEvent ev)

Specified by:

mouseClicked in interface MouseListener

mousePressed

public void mousePressed(MouseEvent ev)

Specified by:

mousePressed in interface MouseListener

mouseDragged

public void mouseDragged(MouseEvent ev)

Specified by:

mouseDragged in interface MouseMotionListener

mouseMoved

public void mouseMoved(MouseEvent ev)

Specified by:

mouseMoved in interface MouseMotionListener

getApplicationFrame

public static ChFrame getApplicationFrame()

enableDisable

public static void enableDisable()

customMetaboliteNames

public static String[] customMetaboliteNames()

getObjectsForText

public static Object[] getObjectsForText(String wordUnderMouse)

getNameForID

public static String getNameForID(String id0)

mapMetaboliteNameToID

public static Map<String,String> mapMetaboliteNameToID()

getMetaboliteNames

public static String[] getMetaboliteNames()

looksLikeHRID

public static boolean looksLikeHRID(String s)

looksLikeRID

public static boolean looksLikeRID(String id)

looksLikeCID

public static boolean looksLikeCID(String id)

fromIDs

public static <T> T[] fromIDs(String[] ss,
                              Map<String,T> m,
                              Class<T> clazz)

ID list in list of instances

intoTreeClicked

public static boolean intoTreeClicked(Object[] objectsOrIds)

intoTreeClickedAndUpdate

public static void intoTreeClickedAndUpdate(Object[] oo)

vDatasets

public static UniqueList<Dataset> vDatasets()

getDatasets_modificationCount

public static int getDatasets_modificationCount()

getDatasets

public static Dataset[] getDatasets()

deleteDatasets

public static void deleteDatasets(Dataset[] dd,
                                  long options)

undelDatasets

public static void undelDatasets(Dataset[] dd)

sortDatasets

public static void sortDatasets(Comparator c)

mapId2Dataset

public static Map<String,Dataset[]> mapId2Dataset()

getDatasetsForID

public static Dataset[] getDatasetsForID(String id)

(i) Add the Dataset with this ID (ii) Add all Datasets where the String it is a part of the dataset id using vertical bar as separator. (iii) For all reactions in all loaded networks with this ID, add all Datasets where the reaction equals to the dataset reaction.

getTransporterDatasetsForMetabolite

public static Dataset[] getTransporterDatasetsForMetabolite(String id)

createDatasets

public static void createDatasets(MReaction[] rr)

createDatasets

public static void createDatasets(MReaction[] rr,
                                  String[] reportFailure)

importDatasets

public static Dataset[] importDatasets(File f,
                                       char reportError)

importDatasets

public static Dataset[] importDatasets(InputStream is)

importDatasets

public static Dataset[] importDatasets(String[] lines)

setDatasetForms

public static void setDatasetForms(String[] ff)

getDatasetForms

public static String[] getDatasetForms()

getDatasetViewPanel

public static JComponent getDatasetViewPanel()

togLayoutView

public static ChButton togLayoutView()

togAutoreplace

public static ChButton togAutoreplace()

setFocusedDatasetView

public static void setFocusedDatasetView(DatasetView v)

getFocusedDatasetView

public static DatasetView getFocusedDatasetView()

getFocusedDataset

public static Dataset getFocusedDataset()

addDatasetView

public static void addDatasetView(DatasetView... cc)

removeDatasetView

public static void removeDatasetView(Object... cc)

removeAllDatasetViews

public static void removeAllDatasetViews()

getViewedDatasets

public static Dataset[] getViewedDatasets()

viewDataset

public static DatasetView viewDataset(boolean removeOthers,
                                      boolean togPermanent,
                                      Dataset... ll)

viewDataset

public static DatasetView viewDataset(boolean removeOthers,
                                      boolean togPermanent,
                                      Dataset[]... lll)

reloadableDatasetView

public static ReloadableClass reloadableDatasetView()

getWordcompletionLists

public static Object[] getWordcompletionLists(boolean isFirst)

getNetworks

public static MReactionCollection[] getNetworks()

getNetworkKegg

public static MReactionCollection getNetworkKegg()

getNetworkMapIdenticalMetabolites

public static MReactionCollection getNetworkMapIdenticalMetabolites(MReactionCollection networkOrig)

getNetworkTranslated

public static MReactionCollection getNetworkTranslated(ReactionCollection networkOrig)

newReactionCollectionDatasets

public static MReactionCollection newReactionCollectionDatasets(long options)

newReactionCollectionDatasets

public static MReactionCollection newReactionCollectionDatasets(Map<String,String> meta,
                                                                Map<String,String> comp,
                                                                long options)

newReactionCollection

public static MReactionCollection newReactionCollection(ReactionCollection network,
                                                        Map<String,String> mapMetab,
                                                        Map<String,String> mapCompart,
                                                        long options)

getNetwork

public static MReactionCollection getNetwork(String id)

addNetwork

public static void addNetwork(MReactionCollection n)

getReactionAttributesForSbml

public static String[] getReactionAttributesForSbml()

getSpeciesAttributesForSbml

public static String[] getSpeciesAttributesForSbml()

setReactionAttributesForSbml

public static void setReactionAttributesForSbml(String[] ss)

setSpeciesAttributesForSbml

public static void setSpeciesAttributesForSbml(String[] ss)

toReactions

public static MReaction[] toReactions(Object[] oo)

toReactions

public static MReaction[] toReactions(Object[] oo,
                                      List<String> vNotFound)

reactionIdShouldBeExported

public static boolean reactionIdShouldBeExported(String id)

mayConvert

public static String mayConvert(String id0,
                                Map<String,String> m)