Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
MODE_CONFORMATION |
1 |
public static final int |
MODE_GRANULARITY |
0 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final boolean |
DEFAULT_SHOW_PROTOCOL |
false |
public static final boolean |
DEFAULT_START_IN_BACKGROUND |
false |
public static final boolean |
DEFAULT_UNIQUE_RANDOM |
false |
public static final long |
DEFAULT_UNIQUE_RANDOM_SEED |
0L |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final float |
DEFAULT_COVALENT_RADIUS |
0.6000000238418579f |
public static final float |
DEFAULT_VANDERWAALS_RADIUS |
1.5f |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final boolean |
PRINTOUT_JMOL_LOGS |
false |
public static final boolean |
READ_HELPFILES_DIRECTLY_FROM_MAIN_FOLDER |
false |
public static final boolean |
REDIRECT_ERRORS_TO_LOGFILE |
false |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final java.lang.String |
CM2_HOMEPAGE |
"http://Cm2.CELLmicrocosmos.org" |
public static final java.lang.String |
COPYRIGHT |
"Copyright (C) 2005-2017 The CELLmicrocosmos 2 Development Team\n(Bjorn Sommer, Tim Dingersen et al., University of Konstanz, Monash University, Bielefeld University)\nReleased under GNU GENERAL PUBLIC LICENSE 3 (GPL3)" |
public static final java.lang.String |
DEVELOPER_EDITION_NAME |
"Developer" |
public static final java.lang.String |
NAME_OF_THIS_PROGRAM |
"CELLmicrocosmos MembraneEditor" |
public static final java.lang.String |
OTHERNOTES |
"Includes some external source code and packages from other projects.\nFor a detailed list and/or the complete GPL3 license just click the button below." |
public static final java.lang.String |
SHORT_NAME_OF_THIS_PROGRAM |
"CmME" |
public static final java.lang.String |
STANDALONE_NAME |
"(Standalone)" |
public static final java.lang.String |
STANDARD_EDITION_NAME |
"Standard" |
public static final java.lang.String |
VERSION |
"Version 2.2.2_2" |
public static final java.lang.String |
WEBSTART_NAME |
"(Webstart)" |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final boolean |
DEVELOPER_EDITION |
true |
public static final int |
DND_TIMER_COUNTDOWN |
800 |
public static final double |
HELP_FRAME_SCALE |
0.85 |
public static final double |
MAIN_FRAME_SCALE |
1.0 |
public static final int |
MAX_PDB_SEARCH_HISTORY_SIZE |
15 |
public static final int |
MAX_QUICKLOAD_HISTORY_SIZE |
4 |
public static final int |
MIDDLE_BUTTON_MODIFIER |
17 |
public static final double |
PDBSEARCH_FRAME_SCALE |
0.75 |
public static final int |
RIGHT_BUTTON_MODIFIER |
18 |
public static final boolean |
SHOW_UI_BACKGROUND |
true |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final java.lang.String |
DEFAULT_DOWNLOAD_LINK |
"http://www.rcsb.org/pdb/files/#PDBCODE#.pdb" |
public static final java.lang.String |
DEFAULT_OPM_DOWNLOAD_LINK |
"http://opm.phar.umich.edu/pdb/#PDBCODE#.pdb" |
public static final java.lang.String |
DEFAULT_PREVIEW_IMAGE_LINK |
"http://www.rcsb.org/pdb/images/#PDBCODE#_bio_r_250.jpg" |
public static final java.lang.String |
DEFAULT_RCSB_SITE_LINK |
"http://www.rcsb.org/pdb/explore/explore.do?structureId=#PDBCODE#" |
public static final java.lang.String |
DEFAULT_SEARCH_ENTRIES_LINK |
"ftp://ftp.wwpdb.org/pub/pdb/derived_data/index/entries.idx" |
public static final boolean |
DO_BORDER_CHECK_WHEN_LOADING |
false |
public static final java.lang.String |
FTP_TEST_LINK |
"ftp://ftp.rcsb.org" |
public static final java.lang.String |
HTTP_TEST_LINK |
"http://www.rcsb.org" |
public static final boolean |
OPM_DUMMY_LAYERS_IN_PDBEXPORT |
false |
public static final java.lang.String |
OPM_FILENAME_ADDON |
"_OPM" |
public static final java.lang.String |
RAWDATA_SEPERATOR |
"(SPRT)" |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final boolean |
ATOM_PERFORMANCE_MODE |
false |
public static final int |
CRITICAL_ATOM_COUNT |
200000 |
public static final float |
DETAIL_AMBIENT_LIGHT |
0.800000011920929f |
public static final int |
DETAIL_DEFAULTVERTICES |
10 |
public static final int |
DETAIL_MIN_PRECISION |
4 |
public static final int |
DETAIL_POLYGON_MODE |
2 |
public static final int |
DETAIL_PRECISION_MODIFIER |
8 |
public static final int |
DETAIL_SHININESS_LIPIDS |
10 |
public static final int |
DETAIL_SHININESS_PROTEINS |
5 |
public static final boolean |
FAST_TRANSITIONS |
true |
public static final float |
J3D_ANGSTROM_SCALE |
0.009999999776482582f |
public static final float |
MOUSE_SENSITIVITY |
1.0f |
public static final boolean |
PPE_AUTOMATIC |
true |
public static final double |
STEREO_VIEW_DISTANCE_SCALE_MAX |
6.0 |
public static final double |
STEREO_VIEW_DISTANCE_SCALE_MIN |
-6.0 |
public static final double |
STEREO_VIEW_DISTANCE_SCALE_STANDARD |
1.0 |
public static final boolean |
STEREO_VIEW_DISTANCE_SCALING |
true |
public static final boolean |
STEREOSCOPIC_3D_PERFORMANCE_MODE |
false |
public static final boolean |
STEREOSCOPIC_3D_QUAD_MODE_PREFERRED |
false |
public static final boolean |
STEREOSCOPIC_3D_UPDATE_FOCUS |
false |
public static final int |
STEREOVIEW_DEFAULT |
5 |
public static final int |
STEREOVIEW_MAX |
50 |
public static final int |
STEREOVIEW_MIN |
0 |
public static final double |
STEREOVIEW_SCALE |
1000.0 |
public static final boolean |
VIEW_ALL_MULTILAYERS |
false |
public static final boolean |
VIEW_ANTIALIASING |
false |
public static final boolean |
VIEW_PARALLEL_PROJECTION |
false |
public static final boolean |
VIEW_UNIFORM_BACKGROUND |
false |
public static final boolean |
VISUALIZATION_OFFLINE_MODE |
false |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
MAX_ATOMS_FOR_PROPER_SECONDARY_STRUCTURE |
99999 |
public static final int |
MAX_SIZE_OF_MEMBRANE |
10000 |
public static final float |
MAX_Y_TRANSLATION |
10000.0f |
public static final int |
MIN_SIZE_OF_MEMBRANE |
20 |
public static final float |
MIN_Y_TRANSLATION |
-1000.0f |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final boolean |
ALLOW_ATOM_MODE |
true |
public static final boolean |
ALLOW_MULTIPLE_ENTRIES_IN_DB |
false |
public static final boolean |
COMPUTE_ABSOLUTE_VALUES |
false |
public static final int |
LIPID_PERCENTAGE_DIVISOR |
0 |
public static final int |
RETRIES_AT_RANDOM_PROTEIN_PLACING |
200 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
RENDER_MODE_BALLS_N_STICKS |
4 |
public static final int |
RENDER_MODE_COLORED_STICKS |
3 |
public static final int |
RENDER_MODE_COVALENT |
1 |
public static final int |
RENDER_MODE_POLYGON |
0 |
public static final int |
RENDER_MODE_VAN_DER_WAALS |
2 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
PRIORITY_GENERATE_MEMBRANE_THREAD |
10 |
public static final int |
PRIORITY_LIPID_FILLING_ALGORITHMS |
5 |
public static final int |
PRIORITY_LOAD_MEMBRANE_THREAD |
5 |
public static final int |
PRIORITY_SEARCH_THREAD |
1 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
ELLIPSE |
1 |
public static final int |
POLYGON |
2 |
public static final int |
RECTANGULAR |
0 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final long |
VERSION_HELP |
1222L |
public static final long |
VERSION_IMAGES |
1217L |
public static final long |
VERSION_JMOL |
1215L |
public static final long |
VERSION_SETTINGS |
1215L |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final boolean |
isActive |
true |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
EXTRA |
0 |
public static final int |
FREE |
-1 |
public static final int |
INTRA |
1 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
BORDER_EAST |
1 |
public static final int |
BORDER_MAX_Y |
4 |
public static final int |
BORDER_MIN_Y |
5 |
public static final int |
BORDER_NORTH |
0 |
public static final int |
BORDER_SOUTH |
2 |
public static final int |
BORDER_WEST |
3 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
EXTRA |
0 |
public static final int |
FREE |
-1 |
public static final int |
INTRA |
1 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
DISABLE_ROTATE |
512 |
public static final int |
DISABLE_TRANSLATE |
1024 |
public static final int |
DISABLE_ZOOM |
2048 |
public static final int |
PROPORTIONAL_ZOOM |
4096 |
public static final int |
REVERSE_ALL |
112 |
public static final int |
REVERSE_ROTATE |
16 |
public static final int |
REVERSE_TRANSLATE |
32 |
public static final int |
REVERSE_ZOOM |
64 |
public static final int |
STOP_ZOOM |
256 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
INVALID_POSITION |
1 |
public static final int |
PICKED |
0 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
h |
200 |
public static final int |
w |
200 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
MANAGING_MODE |
1 |
public static final int |
RUN_MODE |
0 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
APPROVE |
1 |
public final int |
CANCEL |
2 |
Modifier and Type | Constant Field | Value |
---|---|---|
public final int |
APPROVE |
1 |
public final int |
CANCEL |
2 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
APPROVE |
1 |
public static final int |
CANCEL |
2 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
GUI_MODE_ALIGN_PROTEIN |
0 |
public static final int |
GUI_MODE_ALIGN_PROTEIN_PLUS |
1 |
public static final int |
GUI_MODE_ALIGN_SAMPPLELIPID |
2 |
public static final int |
GUI_MODE_MODEL_CHANGE |
3 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
ATOMSERIALS_BOTH |
0 |
public static final int |
ATOMSERIALS_NONE |
2 |
public static final int |
ATOMSERIALS_PROTSONLY |
1 |
public static final int |
TRANSFORM_BOTTOM |
2 |
public static final int |
TRANSFORM_NONE |
0 |
public static final int |
TRANSFORM_PHYSICAL |
1 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final java.lang.String |
ROOTELEMENTNAME_DB |
"CM2_DATABASE_CONTENTS" |
Modifier and Type | Constant Field | Value |
---|---|---|
public final int |
LOADDATABASE |
3 |
public final int |
LOADMEMBRANE |
0 |
public final int |
NEWDATABASE |
4 |
public final int |
SAVEIMAGE |
2 |
public final int |
SAVEMEMBRANE |
1 |
public final int |
SAVEPROTOCOL |
5 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final java.lang.String |
ROOTELEMENTNAME_MEMBRANE |
"CM2_MEMBRANE_DESCRIPTION" |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final java.lang.String |
END_TOKEN |
"/--------->" |
public static final java.lang.String |
OPM_KEY |
"&_OPM" |
public static final java.lang.String |
PDBTM_KEY |
"&_PDBTM" |
public static final java.lang.String |
PORT_SUBKEY |
"&_PORT_CONFIG" |
public static final java.lang.String |
START_TOKEN |
"---------->" |
public static final java.lang.String |
SUB_TOKEN |
"---->" |
public static final java.lang.String |
XML_SUBKEY |
"&_XML_CONFIG" |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final java.lang.String |
REQUEST_KEY_AUTHORIZATION |
"Authorization" |
public static final java.lang.String |
SUBDIR_PDB_ALL |
"count_all.txt" |
public static final java.lang.String |
SUBDIR_PDBTM_ALL |
"count_tm.txt" |
public static final java.lang.String |
SUBDIR_PDBTM_ALPHA |
"count_tma.txt" |
public static final java.lang.String |
SUBDIR_PDBTM_BETA |
"count_tmb.txt" |
public static final java.lang.String |
SUBDIR_PDBTM_XMLFILE |
"pdbtmall" |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final java.lang.String |
BACKUP_FILENAME_ADDON |
"_backup" |
public static final java.lang.String |
CONF_FILENAME |
"ppe.conf" |
public static final java.lang.String |
MIF_FILENAME_OPM |
"opm.mif" |
public static final java.lang.String |
MIF_FILENAME_PDBTM |
"pdbtm.mif" |
public static final java.lang.String |
UPDATE_FILENAME |
"update.txt" |
public static final java.lang.String |
XML_FILENAME_PDBTM |
"pdbtmall.xml" |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final java.lang.String |
NEW_ENTRY |
"ENTRY" |
public static final java.lang.String |
NORMAL_ENTRY |
"NORMAL" |
public static final java.lang.String |
OPM_ENTRY |
"opm" |
public static final java.lang.String |
PDBTM_ENTRY |
"pdbtm" |
public static final java.lang.String |
ROWX_ENTRY |
"ROWX" |
public static final java.lang.String |
ROWY_ENTRY |
"ROWY" |
public static final java.lang.String |
ROWZ_ENTRY |
"ROWZ" |
public static final java.lang.String |
START_ELEMENT |
"PPE" |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final java.lang.String |
OPM |
"opm" |
public static final java.lang.String |
PDBTM |
"pdbtm" |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final float |
MAX_Y_TRANSLATION |
10000.0f |
public static final float |
MIN_Y_TRANSLATION |
-1000.0f |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
SHIFTXZ_BOUNDS_CENTER |
2 |
public static final int |
SHIFTXZ_NONE |
0 |
public static final int |
SHIFTXZ_PHYSICAL_CENTER |
1 |
public static final int |
SHIFTY_AUTO_MEDIAN |
3 |
public static final int |
SHIFTY_BOTTOM |
2 |
public static final int |
SHIFTY_NONE |
0 |
public static final int |
SHIFTY_PHYSICAL_CENTER |
1 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
BORDER_EAST |
1 |
public static final int |
BORDER_MAX_Y |
4 |
public static final int |
BORDER_MIN_Y |
5 |
public static final int |
BORDER_NORTH |
0 |
public static final int |
BORDER_SOUTH |
2 |
public static final int |
BORDER_WEST |
3 |
public static final int |
EXTRA |
0 |
public static final int |
INTRA |
1 |
public static final int |
LIPIDTYPE |
1 |
public static final int |
PROTEINTYPE |
0 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
RENDER_MODE_BALLS_N_STICKS |
4 |
public static final int |
RENDER_MODE_COLORED_STICKS |
3 |
public static final int |
RENDER_MODE_COVALENT |
1 |
public static final int |
RENDER_MODE_POLYGON |
0 |
public static final int |
RENDER_MODE_VAN_DER_WAALS |
2 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final double |
MASTER_EPSILON |
1.6 |
public static final double |
MASTER_SIGMA |
3.0 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
DOUBLE |
1 |
public static final int |
INTEGER |
0 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final int |
MODE_ATOMS |
1 |
public static final int |
MODE_HYBRID |
2 |
public static final int |
MODE_POLYGON |
0 |
Modifier and Type | Constant Field | Value |
---|---|---|
public static final java.lang.String |
INCLUDED |
"Included" |
public static final java.lang.String |
JAR_FILE |
".jar" |
public static final java.lang.String |
JAVA_FILE |
".java" |
public static final java.lang.String |
STATE_COMPILE_ERROR |
"Compile Error" |
public static final java.lang.String |
STATE_FILE_NOT_FOUND |
"File not found" |
public static final java.lang.String |
STATE_FILE_NOT_READABLE |
"File not read" |
public static final java.lang.String |
STATE_NO_ALGORITHMS |
"Not found" |
public static final java.lang.String |
STATE_READY |
"Ready" |