Program nmrPipe, argument checking enabled.
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| The NMRPipe System -- Legal Notice |
| |
| This program and its related software is provided "as is". |
| It is based on a design originating in the NIH Laboratory of |
| Chemical Physics, NIDDK. The NIH, the Laboratory of Chemical |
| Physics, NIDDK, and the authors make no warranties, either |
| express or implied, as to any matter whatsoever with respect |
| to the software. In particular, any and all warranties of |
| merchantability and fitness for any particular purpose are |
| expressly excluded. In no event will the NIH, the Laboratory |
| of Chemical Physics, NIDDK, or the authors be liable for any |
| loss of profits, any incidental, special, exemplary, or |
| consequential damages of any nature whatsoever (including |
| without limitation, loss of use or other commercial or |
| research loss) arising out of or relating to the use or |
| performance of the software. |
*-----------------------------------------------------------------*
| This program and its related software is based on a design |
| originating in the NIH Laboratory of Chemical Physics, NIDDK. |
| It is not to be distributed or modified. (C) F. Delaglio 1995 |
*-----------------------------------------------------------------*
*** NMRPipe System Version 1.7 Rev 2000.020.15.13 ***
NMR Stream Processing:
nmrPipe -fn fnName [fnArgs] < inFile > outFile
Optional Flags:
-in inName NMRPipe Format Input File Name.
-out outName NMRPipe Format Output File Name.
-ov Force Overwrite of Existing Data.
-nofs Suppress File Size Check.
-tty Suppress Check for I/O to TTY.
-inPlace Allows in-place processing.
Data Type Adjustment; Select Only One:
Deleting Imaginary Data:
-xi Delete Imaginaries;
Complex Data Only.
-dt Delete Imaginaries;
Hypercomplex (Double Block) Only.
-di Delete Current Imaginaries;
Hypercomplex or Complex Data.
Creating Empty Imaginary Data:
-ai Create Imaginaries;
Real Data Only.
-ad Create Hypercomplex Imaginaries;
Complex Data Only.
-ac Create Current Imaginaries;
Real or Complex Data.
Processing or Pass-Through of a Selected Region:
-select Y1 YN ... Specification of Region Limits.
-outside Process vectors outside region.
-inside Process vectors inside region;
(Default).
Report Modes:
-verb verboseLevel [2]
-inc verboseIncrement [16]
-dbg debugReportLevel [0]
-noSig Suppress Signal Catching.
-X11 X11 is available for reports.
Help Text:
-help Prints help text; use the
-fn fnName switch for more.
-allHelp Prints help text for all
functions (requires -help).
Parallel Processing:
-client serverListName
-server portFileName
-sID serverID
-inSock inSocketPort
-outSock outSocketPort
-path pathName [$cwd]
-smt serverMaxTries [-1]
-sto serveruSecTimeOut [512]
Header Control:
-inHdr inHdrName Use Name or !cmnd.
-outHdr outHdrName Use Name, !cmnd, or 'none'.
-inSwap Byte Swap of Input ON.
-outSwap Byte Swap of Output ON.
-fdata loc1 parm1... Parameter/Value List.
I/O Control:
-buff ioBuffCount [0]
-ibuff inputBuffCount [0]
-obuff outputBuffCount [0]
-mt maxTries [-1]
-to uSecTimeOut [512]
-noRd Suppress Reading of Input.
-noWr Suppress Writing of Output.
Processing Functions:
-fn NULL Null Function
-fn FT [-inv -real -alt -bruk -auto] Fourier Transform
-fn RFT [-inv] Real Transform
-fn HT -ps90-180 -zf Hilbert Transform
-fn MC Modulus Calculation
-fn TP [-hyper -nohyper -auto] 2D Transpose XY->YX
YTP [-hyper -nohyper -auto] 2D Transpose XY->YX
XY2YX [-hyper -nohyper -auto] 2D Transpose XY->YX
-fn ZTP 3D Transpose XYZ->ZYX
XYZ2ZYX 3D Transpose XYZ->ZYX
-fn ZF [-zf count | -size xSize -inv ETC...] Zero Fill
-fn REV [-sw] Reverse Data
-fn PS [-p0 degP0 -p1 degP1 -ht -inv ETC...] Phase Correct
-fn APOD [-qName -q1 -q2 -q3 -start -size ETC...] Generic Apodization
-fn EM [-lb lbHz -start -size -c ETC...] Exponential Multiply
-fn GM [-g1 -g2 -g3 -start -size -c ETC...] Lorentz-to-Gauss
-fn GMB [-gb -lb -start -size -c ETC...] Gauss Broaden Window
-fn TM [-t1 len -t2 len -start -size -c ETC...] Trapezoid Multiply
-fn SP [-off -end -pow -start -size -c ETC...] Adjustable Sine Bell
SINE [-off -end -pow -start -size -c ETC...] Adjustable Sine Bell
-fn TRI [-loc -lHi -rHi -start -size -c ETC...] Triangle Window
-fn ZD [-wide -x0 -slope -func -g] Zero Diagonal
-fn MIR [-left | -right -invl -invr | -ps90-180] Mirror Image
-fn EXT [-left | -time | -x1 -xn -sw ETC...] Extract Region
-fn CBF [-last percent | -reg x1 x2... -slice..] Constant Baseline
-fn FSH [-ls leftShiftPts -sw -nosw] Frequency Shift
-fn MAC [-macro macroName -all] MACRO Processing
-fn LP [-x1 -xn -ord -pred -fb -b ETC...] Linear Prediction
LPC [-x1 -xn -ord -pred -fb -b ETC...] Linear Prediction
-fn LP2D [-xOrd -yOrd -xSize -ySize ETC...] 2D Linear Prediction
-fn DX Derivative
-fn INTEG Integral
-fn SOL [-mode -fs -fl -sn -sf -head ETC...] Solvent Filter
-fn BASE [-nl nList -nw nWidth] Linear Corrections
-fn POLY [-sx1 -sxn -nw -nc -nl -ord ETC...] Polynomial Subtract
-fn MED [-nw nodeWidth -sf smothWidth -avg] Median Baseline
-fn SMO [-n nWidth] N-Point Smooth
-fn CS [-rs rsPts | -ls lsPts -neg -sw -nosw] Circular Shift
-fn RS [-rs rsPts -sw -nosw] Right Shift
-fn LS [-ls lsPts -sw -nosw] Left Shift
-fn SHUF [-ri2c -c2ri -exlr -rolr ETC...] Shuffle Data
-fn SIGN [-r -i -left -right -abs -alt] Sign Manipulation
-fn SET [-r cR -i cI -c cC -x1 pnt1 -xn pntN] Set Data to Constant
-fn ADD [-r cR -i cI -c cC -x1 pnt1 -xn pntN] Add a Constant
-fn MULT [-r cR -i cI -c cC -x1 pnt1 -xn pntN...] Multiply Data
-fn COADD [-c cList -axis aName -time] Co-Addition of Data
COAD [-c cList -axis aName -time] Co-Addition of Data
-fn QMIX [-ic -oc -cList -time] Complex Mixing
-fn QART [-a cI -f cR] Scale Quad Artifacts
-fn SAVE [-name] Save Current Data
-fn ANN [-rms noise -wName wtTab -c scale] ANN Fourier Analysis
-fn MEM [-sigma timeDomNoise -zero -neg...] ND Maximum Entropy
-fn ML [-sigma timeDomNoise -w wName] Maximum Likelihood
-fn IMG [-dx dx -dy dy -kern kList ...] Image Processing
-fn DMUSIC [-fStep -dStep -d1 -dN ...] DMUSIC Analysis
-fn DEV Development Use
NULL: No Change to Data.
