afni-AFNI_21.3.16/src/AFNI.sumarc

#SUMA ENVIRONMENT
# If you do not have a ~/.sumarc file, cannot find a SUMA
# environment variable that's been mentioned in documentation,
# or fervently desire to update your current ~/.sumarc with
# all the latest variables that SUMA uses, you should run:
#
#    suma -update_env
#
# Unless you have setup SUMA environment variables outside of
# your ~/.sumarc file, updating your ~/.sumarc file with
# 'suma -update_env' WILL NOT ALTER changes you have already
# made to the variables in your current ~/.sumarc.
# For this reason consider running the update command after each
# upgrade of your AFNI/SUMA binaries.
***ENVIRONMENT
// 000-SUMA_ArrowRotAngle:
//     Incremental arrow rotation angle in degrees
//     default:   SUMA_ArrowRotAngle = 5
   SUMA_ArrowRotAngle = 5
// 001-SUMA_ColorPattern:
//     Color pattern (AFNI, EURO, DEFAULT)
//     default:   SUMA_ColorPattern = EURO
   SUMA_ColorPattern = EURO
// 002-SUMA_SwapButtons_1_3:
//     Swap mouse buttons 1 and 3
//     default:   SUMA_SwapButtons_1_3 = NO
   SUMA_SwapButtons_1_3 = NO
// 003-SUMA_BackgroundColor:
//     Background color r g b. No space between values
//     default:   SUMA_BackgroundColor = 0.0,0.0,0.0
   SUMA_BackgroundColor = 0.0,0.0,0.0
// 004-SUMA_ROIColorMap:
//     ROI color map (bgyr64, roi64, roi128, roi256)
//     default:   SUMA_ROIColorMap = ROI_i256
   SUMA_ROIColorMap = ROI_i256
// 005-SUMA_NumConvSmooth:
//     Number of smoothing operations to run on convexity data
//     default:   SUMA_NumConvSmooth = 5
   SUMA_NumConvSmooth = 5
// 006-SUMA_ConvColorMap:
//     Colormap for convexity (gray02, gray_i02, ngray20, bgyr64, etc.)
//     default:   SUMA_ConvColorMap = gray02
   SUMA_ConvColorMap = gray02
// 007-SUMA_ConvBrightFactor:
//     Brightness factor for convexity
//     default:   SUMA_ConvBrightFactor = 0.5
   SUMA_ConvBrightFactor = 0.5
// 008-SUMA_NumForeSmoothing:
//     Number of smoothing operations to run on mixed foregroung color plane
//       before mixing with background
//     default:   SUMA_NumForeSmoothing = 0
   SUMA_NumForeSmoothing = 0
// 009-SUMA_NumFinalSmoothing:
//     Number of smoothing operations to run on final set of mixed colors.
//       This would be the mixed foreground and background colors
//     default:   SUMA_NumFinalSmoothing = 0
   SUMA_NumFinalSmoothing = 0
// 010-SUMA_ColorMixingMode:
//     Setup the color mixing mode (ORIG, MOD1)
//     default:   SUMA_ColorMixingMode = ORIG
   SUMA_ColorMixingMode = ORIG
// 011-SUMA_AFNI_TCP_PORT:
//     ** OBSOLETE: Port for communicating with AFNI
//                    Listening ports are derived from SUMA_AFNI_TCP_PORT
//                    Listening port i
//                    SUMA_AFNI_TCP_PORT + i (i > 0)
//     default:   SUMA_AFNI_TCP_PORT = 0
   SUMA_AFNI_TCP_PORT = 0
// 012-SUMA_WarnBeforeClose:
//     Warn before closing with the Escape key (YES/NO)
//     default:   SUMA_WarnBeforeClose = YES
   SUMA_WarnBeforeClose = YES
// 013-SUMA_MaskZero:
//     Mask node values
//       0 ? YES/NO
//     default:   SUMA_MaskZero = YES
   SUMA_MaskZero = YES
// 014-SUMA_AbsThreshold:
//     Threshold if Val < thr (NO) or | Val | < | Thr | (YES)
//     default:   SUMA_AbsThreshold = YES
   SUMA_AbsThreshold = YES
// 015-SUMA_ThresholdScalePower:
//     Threshold scale precision. 2 is the minimum allowed.
//       This value might be overriden in SUMA.
//     default:   SUMA_ThresholdScalePower = 2
   SUMA_ThresholdScalePower = 2
// 016-SUMA_CenterOnPatch:
//     Center of Rotation is based on nodes used in the mesh and not
//       on all the nodes in NodeList
//     default:   SUMA_CenterOnPatch = NO
   SUMA_CenterOnPatch = NO
// 017-SUMA_UseCrossTicks:
//     Use cross ticks on axis ?
//     default:   SUMA_UseCrossTicks = NO
   SUMA_UseCrossTicks = NO
// 018-SUMA_1D_Transpose_Warn:
//     Warn if 1D file looks like it needs a transpose
//     default:   SUMA_1D_Transpose_Warn = YES
   SUMA_1D_Transpose_Warn = YES
// 019-SUMA_AdjustMouseMotionWithZoom:
//     Adjust roation and translation factor of mouse with changes
//       in zoom levels
//     default:   SUMA_AdjustMouseMotionWithZoom = YES
   SUMA_AdjustMouseMotionWithZoom = YES
// 020-SUMA_ViewOrthographicProjection:
//     Use orthographic projection
//     default:   SUMA_ViewOrthographicProjection = NO
   SUMA_ViewOrthographicProjection = NO
// 021-SUMA_KeyZoomGain:
//     Percent gain for zooming in and out with the 'z' and 'Z' keys.
//       Typical range from 0 to 50
//     default:   SUMA_KeyZoomGain = 5
   SUMA_KeyZoomGain = 5
// 022-SUMA_FOV_Original:
//     Original FOV. Set between 1.0 and 100.0
//       Default is 30.0, -1 == auto
//     default:   SUMA_FOV_Original = -1
   SUMA_FOV_Original = -1
// 023-SUMA_Position_Original:
//     Original windows size and width in pixels
//       Allowed values are: 'TopLeft'
//                           'RightOffset'
//                           'X Y' Sets only the position to top left corner
//                           'X Y Xwidth Ywidth' Set also width of window
//       Default is top left of the screen
//     default:   SUMA_Position_Original = TopLeft
   SUMA_Position_Original = TopLeft
// 024-SUMA_Light0Color:
//     light0 color
//     default:   SUMA_Light0Color = 1.0,1.0,1.0
   SUMA_Light0Color = 1.0,1.0,1.0
// 025-SUMA_AmbientLight:
//     Ambient light
//     default:   SUMA_AmbientLight = 1.0,1.0,1.0
   SUMA_AmbientLight = 1.0,1.0,1.0
// 026-SUMA_AllowDsetReplacement:
//     Allow for replacement of pre-loaded dsets
//     default:   SUMA_AllowDsetReplacement = YES
   SUMA_AllowDsetReplacement = YES
// 027-SUMA_AlwaysAssignSurface:
//     Allow a dataset to be assigned to a surface, even if
//      domain of dset is specified and different for the surface.
//      Default is yes
//     default:   SUMA_AlwaysAssignSurface = YES
   SUMA_AlwaysAssignSurface = YES
// 028-SUMA_ShareGrandChildrenOverlays:
//     Allow for surfaces with same DomainGrandParentID to share overlays
//     default:   SUMA_ShareGrandChildrenOverlays = NO
   SUMA_ShareGrandChildrenOverlays = NO
// 029-SUMA_SnapshotOverSampling:
//     Increase the resolution of images recorded with 'r' button.
//       Increase is done by taking multiple shots that once stitched
//       together form a high-resolution image.
//       The maximum resolution is set by the GL_MAX_VIEWPORT_DIMS of your
//       graphics card. I have 4096 pixels.
//       If you exceed this number, SUMA will make adjustments automatically.
//       Assemble images with program 2dcat.
//     default:   SUMA_SnapshotOverSampling = 1
   SUMA_SnapshotOverSampling = 1
// 030-SUMA_NoDuplicatesInRecorder:
//     Ignore consecutive duplicate images in recorder
//     default:   SUMA_NoDuplicatesInRecorder = YES
   SUMA_NoDuplicatesInRecorder = YES
// 031-SUMA_START_NIML:
//     start NIML (can't do this for more than one suma at a time!)
//     default:   SUMA_START_NIML = YES
   SUMA_START_NIML = YES
// 032-SUMA_AllowFilenameDsetMatch:
//     Allow (YES) datasets with the same filename but differing ID
//       to be considered the same.
//       This is only useful with SUMA_AllowDsetReplacement
//     default:   SUMA_AllowFilenameDsetMatch = YES
   SUMA_AllowFilenameDsetMatch = YES
// 033-SUMA_FreezeFOVAcrossStates:
//     Freeze zoom across states
//     default:   SUMA_FreezeFOVAcrossStates = NO
   SUMA_FreezeFOVAcrossStates = NO
// 034-SUMA_DsetColorMap:
//     Dset color map
//     default:   SUMA_DsetColorMap = Spectrum:red_to_blue
   SUMA_DsetColorMap = Spectrum:red_to_blue
// 035-SUMA_ShowOneOnly:
//     Show only selected dset in suma's surface controller.
//     default:   SUMA_ShowOneOnly = YES
   SUMA_ShowOneOnly = YES
// 036-SUMA_GraphHidden:
//     Update graphs, even SUMA_ShowOneOnly (or suma's '1 Only') is turned on.
//     default:   SUMA_GraphHidden = YES
   SUMA_GraphHidden = YES
// 037-SUMA_ColorMapRotationFraction:
//     Fraction of colormap to rotate with up/down arrow keys.
//     default:   SUMA_ColorMapRotationFraction = 0.05
   SUMA_ColorMapRotationFraction = 0.05
// 038-SUMA_SurfContFontSize:
//     Size of surface controller font.
//       Values are SMALL, BIG (old style).
//     default:   SUMA_SurfContFontSize = SMALL
   SUMA_SurfContFontSize = SMALL
// 039-SUMA_StartUpLocation:
//     Where to position SUMA window when first opened.
//       Values are POINTER (at the mouse pointer's location)
//                  DEFAULT (let the window manager decide)
//
//     default:   SUMA_StartUpLocation = DEFAULT
   SUMA_StartUpLocation = DEFAULT
// 040-SUMA_KeyNodeJump:
//     Numer of nodes to jump with the 'alt+arrow' keys.
//       Valid range from 1 to 10
//     default:   SUMA_KeyNodeJump = 1
   SUMA_KeyNodeJump = 1
// 041-SUMA_DriveSumaMaxWait:
//     Numer of seconds to wait for SUMA to respond to DriveSuma.
//       Valid range from 0 to 60000
//     default:   SUMA_DriveSumaMaxWait = 300.0
   SUMA_DriveSumaMaxWait = 300.0
// 042-SUMA_LEFT_FILE_DSET_IDENTIFIER:
//     String to use in creating left hemisphere dataset wildcards.
//     default:   SUMA_LEFT_FILE_DSET_IDENTIFIER = *lh*.dset
   SUMA_LEFT_FILE_DSET_IDENTIFIER = *lh*.dset
// 043-SUMA_RIGHT_FILE_DSET_IDENTIFIER:
//     String to use in creating left hemisphere dataset wildcards.
//     default:   SUMA_RIGHT_FILE_DSET_IDENTIFIER = *rh*.dset
   SUMA_RIGHT_FILE_DSET_IDENTIFIER = *rh*.dset
// 044-SUMA_LEFT_FILE_ROI_IDENTIFIER:
//     String to use in creating left hemisphere roi wildcards.
//     default:   SUMA_LEFT_FILE_ROI_IDENTIFIER = *lh*.roi
   SUMA_LEFT_FILE_ROI_IDENTIFIER = *lh*.roi
// 045-SUMA_RIGHT_FILE_ROI_IDENTIFIER:
//     String to use in creating right hemisphere roi wildcards.
//     default:   SUMA_RIGHT_FILE_ROI_IDENTIFIER = *rh*.roi
   SUMA_RIGHT_FILE_ROI_IDENTIFIER = *rh*.roi
// 046-SUMA_LEFT_FILE_OTHER_IDENTIFIER:
//     String to use in creating left hemisphere roi wildcards.
//     default:   SUMA_LEFT_FILE_OTHER_IDENTIFIER = *lh*
   SUMA_LEFT_FILE_OTHER_IDENTIFIER = *lh*
// 047-SUMA_RIGHT_FILE_OTHER_IDENTIFIER:
//     String to use in creating right hemisphere roi wildcards.
//     default:   SUMA_RIGHT_FILE_OTHER_IDENTIFIER = *rh*
   SUMA_RIGHT_FILE_OTHER_IDENTIFIER = *rh*
// 048-SUMA_ConvexityDsetOpacity:
//     Initial Convexity Datasest opacity.
//     default:   SUMA_ConvexityDsetOpacity = 0.85
   SUMA_ConvexityDsetOpacity = 0.85
// 049-SUMA_ShowLabelDsetAtStartup:
//     Display mode of  Label Datasest specified in spec file at startup.
//        'YES' or 'Col': Shows it in color
//        'Con': Shows only contours (see also env SUMA_ContourThickness).
//        'C&C': Shows both colors and contours
//        'XXX'or 'No': Does not show it.
//
//     default:   SUMA_ShowLabelDsetAtStartup = XXX
   SUMA_ShowLabelDsetAtStartup = XXX
// 050-SUMA_ShowLabelsAtCrossHair:
//     Show label at cross hair in viewer
//      You can toggle the display at such labels with F9
//
//     default:   SUMA_ShowLabelsAtCrossHair = YES
   SUMA_ShowLabelsAtCrossHair = YES
// 051-SUMA_LabelDsetOpacity:
//     Initial Label Datasest opacity.
//     default:   SUMA_LabelDsetOpacity = 0.2
   SUMA_LabelDsetOpacity = 0.2
// 052-SUMA_AttemptTalkRecover:
//     Attempt to recover from AFNI <--> SUMA disconnection bug.
//
//     default:   SUMA_AttemptTalkRecover = Yes
   SUMA_AttemptTalkRecover = Yes
// 053-SUMA_CmapsDir:
//     Name of directory containing user's own SUMA color maps (*.cmap)
//
//     default:   SUMA_CmapsDir = None
   SUMA_CmapsDir = ~/suma_colormaps
// 054-SUMA_RetinoAngle_DsetColorMap:
//     Name of color map for datasets of retinotopy angles.
//      These would be produced by 3dRetinoPhase
//
//     default:   SUMA_RetinoAngle_DsetColorMap = rgybr20
   SUMA_RetinoAngle_DsetColorMap = rgybr20
// 055-SUMA_VFR_DsetColorMap:
//     Name of color map for VFR datasets produced by SurfRetinoMap
//
//     default:   SUMA_VFR_DsetColorMap = afni_n2
   SUMA_VFR_DsetColorMap = afni_n2
// 056-SUMA_NodeCoordsUnits:
//     Coordinate units of surface nodes. Choose from 'mm' or 'cm'
//      A bad choice can make the surfaces render with many artifacts.
//
//     default:   SUMA_NodeCoordsUnits = mm
   SUMA_NodeCoordsUnits = mm
// 057-SUMA_DoNotSendStates:
//     Which anatomically correct surf. states should not NOT be sent to AFNI?
//      This is mostly for deciding whether one of 'white' or 'smoothwm'
//      FreeSurfer states should not be sent to AFNI.
//      The default is to let them all go.
//      You can specify multiple states with a , delimited list (no spaces!).
//      By default nothing is excluded.
//
//     default:   SUMA_DoNotSendStates = N/A
   SUMA_DoNotSendStates = N/A
// 058-SUMA_AutoRecordPrefix:
//     Prefix for autorecord (suma's Ctrl+R) files.
//      FreeSurfer states should not be sent to AFNI.
//      Add a path if you want the files to endup in a particular directory.
//      You can also add an extension to prefix to specify the output type.
//      Choose from .jpg, .ppm, or .1D . The fallback type is .jpg
//
//     default:   SUMA_AutoRecordPrefix = ./SUMA_Recordings/autorecord.jpg
   SUMA_AutoRecordPrefix = ./SUMA_Recordings/autorecord.jpg
// 059-SUMA_CrossHairLabelFont:
//     Font for cross hair label in SUMA viewer
//      Choose one of: f8 f9 tr10 tr24 he10 he12 he18
//
//     default:   SUMA_CrossHairLabelFont = f9
   SUMA_CrossHairLabelFont = f9
// 060-SUMA_IxT_LinkMode:
//     Linking mode of I and T sub-brick selectors
//      Choose one of: None, Same, Stat
//
//     default:   SUMA_IxT_LinkMode = Stat
   SUMA_IxT_LinkMode = Stat
// 061-SUMA_ArrowFieldSelectorTrigger:
//     Minimum Number of sub-bricks to trigger use of arrow field for
//      sub-brick selectors.
//
//     default:   SUMA_ArrowFieldSelectorTrigger = 200
   SUMA_ArrowFieldSelectorTrigger = 50
// 062-SUMA_Sym_I_Range:
//     Use symmetric Intensity range by default (YES or NO)
//
//     default:   SUMA_Sym_I_Range = YES
   SUMA_Sym_I_Range = YES
// 063-SUMA_Auto_I_Range:
//     Set auto Intensity range by default (YES or NO)
//
//     default:   SUMA_Auto_I_Range = NO
   SUMA_Auto_I_Range = NO
// 064-SUMA_Auto_B_Range:
//     Set auto Brightness range by default (YES or NO)
//
//     default:   SUMA_Auto_B_Range = NO
   SUMA_Auto_B_Range = NO
// 065-SUMA_ContourThickness:
//     Set thickness of dataset contours
//
//     default:   SUMA_ContourThickness = 1.0
   SUMA_ContourThickness = 1.0
// 066-SUMA_LHunify:
//     Merge separated left/right states for inflated/spherical/etc. surfaces
//      Choose from YES or NO
//     default:   SUMA_LHunify = YES
   SUMA_LHunify = YES