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SUMMARY: INNER | FIELD | CONSTR | METHOD | DETAIL: FIELD | CONSTR | METHOD |
java.lang.Object | +--MJAbase | +--MJAproperty
MAExplorer Open Java API class to access MJAproperty methods and data structures. Access get and put individual properties
List of methods available to Plugin-writers
-------------------- GET STATE VARIABLES -------------------- getUserName() - get current user login name if exists getPassword() - get current user password name if exists getProject() - get current project associated with database getRatioString() - get "F1/F2", "Cy3/Cy5" or "Cy5/Cy3", etc. string getMaeCurProjectPath() - get path of current project MAExplorer getMaeBrowserTitle() - get current browser MAExplorer title. getMaeDatabaseTitle() - get current MAExplorer database title. getMaeDbSubsetTitle() - get current MAExplorer DB subset title. getFlourescentLabel1Name() - get current fluorescent label 1 name. getFlourescentLabel2Name() - get current fluorescent label 2 name. getReportFontSize() - get current Report font size getReportFontFamily() - get current Report font family getGEOplatformID() - get current GEO platform ID for this database getListOfGEOplatformsURL() - get URL for list of current GEO platforms getFullGEOplatformDataTableURL() - get URL for current full GEO platform data table -------------------- SET STATE VARIABLES -------------------- setGEOplatformID() - set current GEO platform ID for this database setListOfGEOplatformsURL() - set URL for list of current GEO platforms setFullGEOplatformDataTableURL() - set URL for current full GEO platform data table -------------------- GET MODES ------------------------------ getPosQuantTestMode() - get positive Quant data test mode getSpotIntensTestMode() - get spot intensity test mode getCVtestMode() - get Coefficient of Variation (CV) test mode getGoodSpotTestMode() - get Good Spot (QualCheck) test mode getReportTestMode() - get Report type mode getTblFmtMode() - get Report table format mode getSpotIntensRangeMode() - get Spot intensity range mode for filter getSpotIntensCompareMode() - get Spot Intensity compare mode for filter getSampleIntensRangeMode() - get Sample intensity range restriction getRatioRangeMode() - get Ratio range for threshold mode getRatioCy3Cy5RangeMode() - get Cy3/Cy5 range mode for threshold filter getPlotModeImage() - get pseudoarray image plot mode getEditMode() - get EGL mode for 'edited gene list' getHierClustMode() - get hierarchical clustering linkage mode lookupRangeModeName() - lookup the inside/outside range Mode Name lookupompareModeName() - lookup the compare-criteria Mode Name lookupFilterSampleSubsetModeName() - lookup the sample-subset Mode Name
This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.
Method Summary | |
int |
getCVtestMode()
getCVtestMode() - get Coefficient of Variation (CV) test mode: SS_MODE_xxxx |
int |
getEditMode()
getEditMode() - get EGL mode for 'edited gene list': EDIT_xxxx |
java.lang.String |
getFlourescentLabel1Name()
getFlourescentLabel1Name() - get current fluorescent label 1 name. |
java.lang.String |
getFlourescentLabel2Name()
getFlourescentLabel2Name() - get current fluorescent label 1 name. |
java.lang.String |
getFullGEOplatformDataTableURL()
getFullGEOplatformDataTableURL() - get URL for current full GEO platform data table |
java.lang.String |
getGEOplatformID()
getGEOplatformID() - get current GEO platform ID for this database |
int |
getGoodSpotTestMode()
getGoodSpotTestMode() - get Good Spot (QualCheck) test mode: SS_MODE_xxxx |
int |
getHierClustMode()
getHierClustMode() - get hierarchical clustering linkage mode: HIER_CLUST_xxxxx |
java.lang.String |
getListOfGEOplatformsURL()
getListOfGEOplatformsURL() - get URL for list of current GEO platforms |
java.lang.String |
getMaeBrowserTitle()
getMaeBrowserTitle() - get current browser MAExplorer title. |
java.lang.String |
getMaeCurProjectPath()
getMaeCurProjectPath() - get path of current project MAExplorer session. |
java.lang.String |
getMaeDatabaseTitle()
getMaeDatabaseTitle() - get current MAExplorer database title. |
java.lang.String |
getMaeDbSubsetTitle()
getMaeDbSubsetTitle() - get current MAExplorer DB subset title. |
java.lang.String |
getPassword()
getPassword() - get current user password name if exists |
int |
getPlotModeImage()
getPlotModeImage() - get pseudoarray image plot mode: PLOT_xxxx_IMAGE |
int |
getPosQuantTestMode()
getPosQuantTestMode() - get positive Quant data test mode: SS_MODE_xxxx |
java.lang.String |
getProject()
getProject() - get current project associated with database |
int |
getRatioCy3Cy5RangeMode()
getRatioCy3Cy5RangeMode() - get Cy3/Cy5 range restriction mode for threshold filter: RANGE_xxxx |
int |
getRatioRangeMode()
getRatioRangeMode() - get Ratio range restriction for threshold mode: RANGE_xxxx |
java.lang.String |
getRatioString()
getRatioString() - get "F1/F2", "Cy3/Cy5" or "Cy5/Cy3", or user-defined channels "channel1/channel2" etc. |
java.lang.String |
getReportFontFamily()
getReportFontFamily() - get current Report font family |
java.lang.String |
getReportFontSize()
getReportFontSize() - get current Report font size |
int |
getReportTestMode()
getReportTestMode() - get Report type mode: 'RPT_xxxx' |
int |
getSampleIntensRangeMode()
getSampleIntensRangeMode() - get Sample intensity range restriction mode for filter: RANGE_xxxx |
int |
getSpotIntensCompareMode()
getSpotIntensCompareMode() - get Spot Intensity compare restriction mode for filter: COMPARE_xxxx |
int |
getSpotIntensRangeMode()
getSpotIntensRangeMode() - get Spot intensity range restriction mode for filter: RANGE_xxxx |
int |
getSpotIntensTestMode()
getSpotIntensTestMode() - get spot intensity test mode: SS_MODE_xxxx |
int |
getTblFmtMode()
getTblFmtMode() - get Report table format mode: RPT_FMT_xxxx |
java.lang.String |
getUserName()
getUserName() - get current user login name if exists |
java.lang.String |
lookupCompareModeName(int mode)
lookupCompareModeName() - lookup the compare-criteria Mode Name for values COMPARE-xxxx. |
java.lang.String |
lookupFilterSampleSubsetModeName(int mode)
lookupFilterSampleSubsetModeName() - lookup the sample-subset Mode Name for values SS_MODE-xxxx. |
java.lang.String |
lookupRangeModeName(int mode)
lookupRangeModeName() - lookup the inside/outside range Mode Name for values RANGE-xxxx. |
boolean |
setFullGEOplatformDataTableURL(java.lang.String newFullGEOplatformDataTableURL)
setFullGEOplatformDataTableURL() - set URL for current full GEO platform data table |
boolean |
setGEOplatformID(java.lang.String newGeoPlatformID)
setGEOplatformID() - set current GEO platform ID for this database. |
boolean |
setListOfGEOplatformsURL(java.lang.String newListOfGEOplatformsURL)
setListOfGEOplatformsURL() - set URL for list of current GEO platforms |
Methods inherited from class MJAbase |
cvtHashtable2SimpleTable, cvtTable2Hashtable |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Method Detail |
public final java.lang.String getUserName()
null
if not found.public final java.lang.String getPassword()
null
if not found.public final java.lang.String getProject()
null
if not found.public final java.lang.String getRatioString()
null
if not found.public final java.lang.String getMaeCurProjectPath()
public final java.lang.String getMaeBrowserTitle()
public final java.lang.String getMaeDatabaseTitle()
public final java.lang.String getMaeDbSubsetTitle()
public final java.lang.String getFlourescentLabel1Name()
public final java.lang.String getFlourescentLabel2Name()
public final java.lang.String getReportFontSize()
public final java.lang.String getReportFontFamily()
public final java.lang.String getGEOplatformID()
public final java.lang.String getListOfGEOplatformsURL()
public final java.lang.String getFullGEOplatformDataTableURL()
public final boolean setGEOplatformID(java.lang.String newGeoPlatformID)
newGeoPlatformID
- is the new valuepublic final boolean setListOfGEOplatformsURL(java.lang.String newListOfGEOplatformsURL)
newListOfGEOplatformsURL
- is the new URL of list of GEO platformspublic final boolean setFullGEOplatformDataTableURL(java.lang.String newFullGEOplatformDataTableURL)
newFullGEOplatformDataTableURL
- is the new URL for current full GEO platform
data tablepublic final int getPosQuantTestMode()
null
if not found.public final int getSpotIntensTestMode()
null
if not found.public final int getCVtestMode()
null
if not found.public final int getGoodSpotTestMode()
null
if not found.public final int getReportTestMode()
null
if not found.public final int getTblFmtMode()
null
if not found.public final int getSpotIntensRangeMode()
null
if not found.public final int getSpotIntensCompareMode()
null
if not found.public final int getSampleIntensRangeMode()
null
if not found.public final int getRatioRangeMode()
null
if not found.public final int getRatioCy3Cy5RangeMode()
null
if not found.public final int getPlotModeImage()
null
if not found.public final int getEditMode()
null
if not found.public final int getHierClustMode()
null
if not found.public final java.lang.String lookupRangeModeName(int mode)
mode
- to look uppublic final java.lang.String lookupCompareModeName(int mode)
mode
- to look uppublic final java.lang.String lookupFilterSampleSubsetModeName(int mode)
mode
- to look up
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