Scripts of the NMRPipe System
scroll.tcl: On-Screen Strip Plot Manipulation for One or More 3D Spectra.

Flag Argument Default Description  -tab tabName hn.tab 2D Table for strip locations.  -in inName ft/test%03d.ft3 ... 3D Spectral data template. Contour Drawing:  -hi contHi Auto ... First contour height.  -plev nPos 10 ... Number of Positive Contours.  -nlev nNeg 10 ... Number of Negative Contours.  -mult mult 2.0 ... Factor for Auto contour height. Analysis Features:  -pk pkName None ... 3D Peak Table Data.  -seq seqName None Residue Sequence Table.  -cs csName None Reference Chemical Shift (CS) Table.  -csVar csVar SHIFT Reference CS Table Variable Name.  -pkXVar xVar Auto ... Peak Table X-Axis PPM Variable Name.  -pkYVar yVar Auto ... Peak Table Y-Axis PPM Variable Name.  -pkZVar zVar Auto ... Peak Table Z-Axis PPM Variable Name.  -assVar aVar ASS ... Peak Table Assignment Variable Name.  -xTol xTol 0.03 ... X-Axis Comparison Tolerance, PPM.  -yTol yTol 0.15 ... Y-Axis Comparison Tolerance, PPM.  -zTol zTol Auto ... Z-Axis Comparison Tolerance, PPM.  -cmnd Show Command Panel Window. Strip Axis Names:  -xName xName Auto ... First Axis Name of Strip 2D Coord.  -yName yName Auto ... Second Axis Name of Strip 2D Coord.  -zName zName Auto ... Axis Name of Strip Dimension. Strip Spectral Region Widths:  -xw xw 0.12ppm ... X-Axis +/- Width For view1.  -yw yw 0.80ppm ... Y-Axis +/- Width For view2.  -zw zw 1 ... Z-Axis +/- Width For Srip Projection. Strip Region Limits, ppm, Hz, pts or %:  -z1 zStart 0% ... Strip Starting Coord.  -zn zEnd 100% ... Strip Ending Coord.  -zOff zOff 0.0 ... Z Offset to Apply, PPM. Coordinate Table Names:  -xVar xVar Auto Variable name of first 2D PPM coord.  -yVar yVar Auto Variable name of second 2D PPM coord.  -idVar idVar INDEX 2D Location Table ID Variable Name.  -xOff xOff 0.0 ... X Offset to Apply, PPM.  -yOff yOff 0.0 ... Y Offset to Apply, PPM. Single/Pairwise Strip Plotting  -view1 Plot First (X-Axis) View For Each 2D Coord (Default).  -view2 Plot Second (Y-Axis) View For Each 2D Coord.  -pair Plot Both Complementary Views (same as -view1 -view2). Strip Labels:  -lab lVar INDEX Variable name for Strip Label.  -xGrid Draw X-Axis Grid Line (Default).  -noxGrid No X-Axis Grid Line.  -yGrid Draw Y-Axis Grid Lines (Default).  -noyGrid No Y-Axis Grid Lines. Colors:  -fg fgC yellow ... Strip Foreground (Border) Color.  -bg bgC black Strip Background Color.  -colorF fC gray20 ... Folded Background Color (Or Keyword 'Blank').  -colorA aC white Axis and Info Text Color.  -colorH aH white Hilight Color for Active Items.  -colorG gC dimGray Strip Grid Color.  -colorW wC gray20 Viewer Window Color.  -colorL lC white ... Label Color.  -colorP pC Multi ... Positive Contour Color.  -colorN nC Multi ... Negative Contour Color.  -colorC cC Default ... Cursor Colors.  -colorQ cQ white ... Cursor Label Colors. Strip Graphic Region Widths:  -dx xwPix 40 Strip Width, Pixels.  -qx1 xwPix 3 Spacing Between Views, Pixels.  -qx2 xwPix 6 Spacing Between Spectra, Pixels.  -qx3 xwPix 9 Spacing Between Groups, Pixels.  -ySize ywPix Auto Height of Graphics Area, Pixels. Window Geometry:  -g geom Auto Initial Window Geometry.  -xAdj xAdj 25 X Adjustment for Window Size, Pixels.  -yAdj yAdj 70 Y Adjustment for Window Size, Pixels.  -cAdj cAdj 220 X Adjustment for Command Panel Window.  -cx cx 12 X Character Size, Pixels.  -cy cy 15 Y Character Size, Pixels. Special Options:  -history hName None File for Recording Strip Order Adjustments.  -cursors nC 0 ... Number of Horizontal Tracking Cursors.  -shade Shade Backgrounds for Folded Data.  -noshade No Shading of Backgrounds for Folded Data.  -link Communicate to Other Scroll Applictions.