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fr.orsay.* |
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fr.orsay.lri.varna.VARNAPanel | ||
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private static final long |
serialVersionUID |
8194421570308956001L |
fr.orsay.lri.varna.components.ActionRenderer | ||
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private static final long |
serialVersionUID |
1L |
fr.orsay.lri.varna.components.AnnotationTableModel | ||
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private static final long |
serialVersionUID |
1L |
fr.orsay.lri.varna.components.BaseSpecialColorEditor | ||
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protected static final String |
EDIT |
"edit" |
private static final long |
serialVersionUID |
1L |
fr.orsay.lri.varna.components.BaseTableModel | ||
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private static final long |
serialVersionUID |
1L |
fr.orsay.lri.varna.components.ColorRenderer | ||
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private static final long |
serialVersionUID |
1L |
fr.orsay.lri.varna.components.GradientEditorPanel | ||
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private static final int |
GAP |
4 |
private static final int |
PALETTE_HEIGHT |
11 |
private static final int |
REMOVE_HEIGHT |
11 |
private static final int |
TOLERANCE |
5 |
private static final int |
TRIGGERS_SEMI_WIDTH |
2 |
fr.orsay.lri.varna.models.FullBackup | ||
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private static final long |
serialVersionUID |
-5468893731117925140L |
fr.orsay.lri.varna.models.VARNAConfig | ||
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public static final double |
DEFAULT_AMOUNT |
1.2 |
public static final double |
DEFAULT_BASE_OUTLINE_THICKNESS |
1.5 |
public static final double |
DEFAULT_BP_INCREMENT |
0.65 |
public static final double |
DEFAULT_BP_THICKNESS |
1.0 |
public static final double |
DEFAULT_DIST_NUMBERS |
3.0 |
public static final int |
DEFAULT_PERIOD |
10 |
public static final double |
DEFAULT_ZOOM |
1.0 |
public static final int |
MAJOR_VERSION |
3 |
public static final double |
MAX_AMOUNT |
2.0 |
public static final double |
MAX_ZOOM |
60.0 |
public static final double |
MIN_AMOUNT |
1.01 |
public static final double |
MIN_ZOOM |
0.5 |
public static final int |
MINOR_VERSION |
8 |
private static final long |
serialVersionUID |
2853916694420964233L |
fr.orsay.lri.varna.models.VARNAConfigLoader | ||
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public static final String |
ALGORITHM_CIRCULAR |
"circular" |
public static final String |
ALGORITHM_LINE |
"line" |
public static final String |
ALGORITHM_MOTIF_VIEW |
"motifview" |
public static final String |
ALGORITHM_NAVIEW |
"naview" |
public static final String |
ALGORITHM_RADIATE |
"radiate" |
public static final String |
ALGORITHM_VARNA_VIEW |
"varnaview" |
public static final String |
LEONTIS_WESTHOF_BP_STYLE |
"lw" |
private static final int |
MAXSTYLE |
50 |
public static final String |
NONE_BP_STYLE |
"none" |
public static final String |
RNAVIZ_BP_STYLE |
"rnaviz" |
public static final String |
SIMPLE_BP_STYLE |
"simple" |
fr.orsay.lri.varna.models.VARNAEdits | ||
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public static final double |
MAX_DISTANCE |
55.0 |
fr.orsay.lri.varna.models.annotations.ChemProbAnnotation | ||
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private static final long |
serialVersionUID |
5833315460145031242L |
fr.orsay.lri.varna.models.annotations.HighlightRegionAnnotation | ||
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public static final double |
DEFAULT_RADIUS |
16.0 |
public static final int |
NUM_STEPS_ROUNDED_CORNERS |
10 |
private static final long |
serialVersionUID |
7087014168028684775L |
fr.orsay.lri.varna.models.annotations.TextAnnotation | ||
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public static final int |
BASE |
1 |
public static final int |
HELIX |
2 |
public static final int |
LOOP |
3 |
public static final int |
POSITION |
0 |
private static final long |
serialVersionUID |
465236085501860747L |
fr.orsay.lri.varna.models.export.SecStrDrawingProducer | ||
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public static final int |
FONT_COURIER |
12 |
public static final int |
FONT_COURIER_BOLD |
13 |
public static final int |
FONT_COURIER_BOLD_OBLIQUE |
15 |
public static final int |
FONT_COURIER_OBLIQUE |
14 |
public static final int |
FONT_HELVETICA |
16 |
public static final int |
FONT_HELVETICA_BOLD |
18 |
public static final int |
FONT_HELVETICA_BOLD_OBLIQUE |
19 |
public static final int |
FONT_HELVETICA_OBLIQUE |
17 |
public static final int |
FONT_TIMES_BOLD |
1 |
public static final int |
FONT_TIMES_BOLD_ITALIC |
3 |
public static final int |
FONT_TIMES_ITALIC |
2 |
public static final int |
FONT_TIMES_ROMAN |
0 |
fr.orsay.lri.varna.models.export.XFIGExport | ||
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private static final int |
UPPER_BOUND_COLOR_CODE |
543 |
fr.orsay.lri.varna.models.naView.NAView | ||
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private final double |
ANUM |
9999.0 |
private final int |
MAXITER |
500 |
private final double |
RADIUS_REDUCTION_FACTOR |
1.4 |
fr.orsay.lri.varna.models.rna.Mapping | ||
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private static final long |
serialVersionUID |
-3031358968555310380L |
public static final int |
UNKNOWN |
-1 |
fr.orsay.lri.varna.models.rna.ModeleBaseNucleotide | ||
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private static final long |
serialVersionUID |
-5493938366569588113L |
fr.orsay.lri.varna.models.rna.ModeleBasesComparison | ||
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private static final long |
serialVersionUID |
-2733063250714562463L |
fr.orsay.lri.varna.models.rna.ModeleBP | ||
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public static final String |
PARAM_COLOR |
"color" |
public static final String |
PARAM_EDGE3 |
"edge3" |
public static final String |
PARAM_EDGE5 |
"edge5" |
public static final String |
PARAM_STERICITY |
"stericity" |
public static final String |
PARAM_THICKNESS |
"thickness" |
private static final long |
serialVersionUID |
-1344722280822711931L |
public static final String |
VALUE_CIS |
"cis" |
public static final String |
VALUE_HOOGSTEEN |
"h" |
public static final String |
VALUE_SUGAR |
"s" |
public static final String |
VALUE_TRANS |
"trans" |
public static final String |
VALUE_WATSON_CRICK |
"wc" |
fr.orsay.lri.varna.models.rna.ModeleBPStyle | ||
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private static final long |
serialVersionUID |
3006493290669550139L |
fr.orsay.lri.varna.models.rna.ModeleColorMap | ||
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private static final long |
serialVersionUID |
4055062096061553106L |
fr.orsay.lri.varna.models.rna.ModeleStyleBase | ||
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public static final String |
PARAM_INNER_COLOR |
"fill" |
public static final String |
PARAM_NUMBER_COLOR |
"number" |
public static final String |
PARAM_OUTLINE_COLOR |
"outline" |
public static final String |
PARAM_TEXT_COLOR |
"label" |
private static final long |
serialVersionUID |
-4331494086323517208L |
fr.orsay.lri.varna.models.rna.RNA | ||
---|---|---|
public static final double |
BASE_PAIR_DISTANCE |
65.0 |
public static final int |
DEFAULT_DRAW_MODE |
2 |
public static final int |
DRAW_MODE_CIRCULAR |
1 |
public static final int |
DRAW_MODE_LINEAR |
4 |
public static final int |
DRAW_MODE_MOTIFVIEW |
6 |
public static final int |
DRAW_MODE_NAVIEW |
3 |
public static final int |
DRAW_MODE_RADIATE |
2 |
public static final int |
DRAW_MODE_TEMPLATE |
7 |
public static final int |
DRAW_MODE_VARNA_VIEW |
5 |
public static final int |
FILE_TYPE_BPSEQ |
1 |
public static final int |
FILE_TYPE_CT |
2 |
public static final int |
FILE_TYPE_DBN |
3 |
public static final int |
FILE_TYPE_RNAML |
4 |
public static final int |
FILE_TYPE_UNKNOWN |
5 |
public static final double |
LOOP_DISTANCE |
40.0 |
public static final double |
MULTILOOP_DISTANCE |
35.0 |
private static final long |
serialVersionUID |
7541274455751497303L |
public static final double |
VIRTUAL_LOOP_RADIUS |
40.0 |
fr.orsay.lri.varna.models.rna.StructureTemp | ||
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private static final long |
serialVersionUID |
-436852923461989105L |
fr.orsay.lri.varna.models.rna.VARNAPoint | ||
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private static final long |
serialVersionUID |
8815373295131046029L |
fr.orsay.lri.varna.models.templates.RNATemplate.RNATemplateUnpairedSequence | ||
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private static final double |
defaultTangentVectorAngle |
1.5707963267948966 |
private static final double |
defaultTangentVectorLength |
100.0 |
fr.orsay.lri.varna.models.templates.RNATemplateDrawingAlgorithmException | ||
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private static final long |
serialVersionUID |
1701307036024533400L |
fr.orsay.lri.varna.models.templates.RNATemplateMappingException | ||
---|---|---|
private static final long |
serialVersionUID |
-201638492590138354L |
fr.orsay.lri.varna.models.treealign.RNANodeValue2WrongTypeException | ||
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private static final long |
serialVersionUID |
-2709057098523675088L |
fr.orsay.lri.varna.models.treealign.RNATree2Exception | ||
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private static final long |
serialVersionUID |
2034802149835891010L |
fr.orsay.lri.varna.models.treealign.TreeAlignException | ||
---|---|---|
private static final long |
serialVersionUID |
7782935062930780231L |
fr.orsay.lri.varna.views.fr.orsay.lri.varna.views.PrintTestFrame | ||
---|---|---|
private static final int |
HEIGHT |
300 |
private static final int |
WIDTH |
300 |
fr.orsay.lri.varna.views.VueAboutPanel | ||
---|---|---|
private static final long |
serialVersionUID |
4525998278180950602L |
fr.orsay.lri.varna.views.VueBases | ||
---|---|---|
public static final int |
ALL_MODE |
2 |
public static final int |
COUPLE_MODE |
3 |
public static final int |
KIND_MODE |
1 |
private static final long |
serialVersionUID |
1L |
fr.orsay.lri.varna.views.fr.orsay.lri.varna.views.VueBPList.BPTableModel | ||
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private static final long |
serialVersionUID |
1L |
fr.orsay.lri.varna.views.VueListeAnnotations | ||
---|---|---|
public static final int |
EDIT |
1 |
public static final int |
REMOVE |
0 |
private static final long |
serialVersionUID |
1L |
fr.orsay.lri.varna.views.VueLoadColorMapValues | ||
---|---|---|
private static final long |
serialVersionUID |
-1648400107478203724L |
fr.orsay.lri.varna.views.VueMenu | ||
---|---|---|
private static final long |
serialVersionUID |
1L |
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