Program var2pipe, argument checking enabled.
*** NMRPipe System Version 1.7 Rev 2000.012.14.42 ***
Var2Pipe: Varian to NMRPipe Conversion.
var2pipe hdrFlags < varData > pipeFile
General Flags:
-in inName Varian Input.
-out outTemplate NMRPipe Output.
-ov Force Overwrite.
-nofs No File Size Check.
-nodir Suppress Creation of Directory.
-verb Verbose Mode On.
Byte-Swap Options:
-swap Do Four-Byte Swap.
-noswap Suppress Four-Byte Swap (Default).
-aswap Do Four-Byte Swap.
(Meaning is System-dependant)
-noaswap Suppress Four-Byte Swap.
(Meaning is System-dependant)
Varian Header Flags:
-hdr Use Varian Header Data (Default).
-nohdr Don't Use Varian Header.
-hw hSize [8] Header Size in Four-Byte Words.
-pw pSize [7] Pad Size in Four-Byte Words.
-info Show Header Info on stdout,
Don't Convert Data.
Options Set Via Varian Header:
-i2r Convert Integer to Real.
-noi2r No Integer to Real Conversion.
-short Input is Two-Byte Data.
-long Input is Four-Byte Data.
-dsp Input is floating-point DSP data;
(Same as -noi2r).
Parallel Processing (Not Yet Implemented):
-par sListName Server List File Name.
-first firstPlane First Plane to process.
-last lastPlane Last Plane to process.
General Header Flags:
-fdata loc val... Adjust File Header.
-u1 -u2...-u5 User Parameters.
-ndim Number of Dimensions.
-tau Tau Value.
-day Day.
-month Month [1-12].
-year Year.
-hours Hours [0-23]
-mins Minutes [0-59]
-secs Seconds [0-59]
-temp Temperature.
-aq2D 2D Acquisition Code or Keyword:
0=Magnitude.
1=TPPI.
2=States.
3=Image.
-tpFlag 0=Not Transposed.
1=Transposed.
Header Labels:
-srcName Source File Name.
-operName Operator Name.
-userName User Name.
-comment Comment.
-title Title.
Axis-Specific Header Flags -xQ -yQ etc;
Default Values are zero:
-xN Actual Size in File. Pts Real plus Imag.
-xT Current Time Domain Size. Pts Real or Imag.
-xSW Full Spectral Width. Hz.
-xOBS Observe Frequency. MHz.
-xCAR Carrier Position. ppm.
-xLAB Axis Label. 8 Chars.
-xMODE Acquisition Mode Code or Keyword:
0=Complex,States,Complex-N,States-N.
0=States-TPPI,States-TPPI-N.
1=Real,TPPI.
2=Sequential,Bruker.
-xALT Sign Adjustment Code or Keyword:
0=Complex,States No Alternation Needed.
0=Real,TPPI No Alternation Needed.
1=Sequential,Bruker Real Alternation.
2=States-TPPI Complex Alternation.
With Negation of Imaginaries:
16=Complex-N No Alternation Needed.
16=States-N No Alternation Needed.
18=States-TPPI-N Complex Alternation.
Note: Default Sign Adjustment Mode is Automatically
Set by the Corresponding Acquisition Mode Keyword.
Axis-Specific Header Flags -xQ -yQ etc;
Not required for conversion; used to adjust header:
-xTD Original Time Domain Size. Pts.
-xMID Carrier Virtual Loc. Pts.
-xORIG Last Point Coord. Hz.
-xDIM Dimension Order.
2=Original X-Axis
1=Original Y-Axis
3=Original Z-Axis
4=Original A-Axis
-xFT Fourier Flag Code or Keyword:
0=Time Time-Domain Data.
1=Freq Frequency-Domain Data.
Special Acquisition-Axis Flags (no longer required):
-aqN Actual Size. Pts Real or Imag.
-aqMODE Acquisition Mode. 0=Complex.
1=Real.
2=Sequential.
Axis-Specific Processing Values -xQ -yQ etc:
-xAPOD Apodize Function SP EM GM TM TRI or NONE.
-xQ1 Apodize Parameter 1. Depends on Function.
-xQ2 Apodize Parameter 2. Depends on Function.
-xQ3 Apodize Parameter 3. Depends on Function.
-xC1 First Point Scale. Default is 1.0.
-xP0 Zero Order Phase. Degrees.
-xP1 First Order Phase. Degrees.
Special Varian Format Flags:
-aqORD aqOrd [0] Acquisition Order Code.
0 = 2D d2,phase
0 = 3D d3,d2,phase2,phase
0 = 4D d4,d3,d2,phase3,phase2,phase
1 = 3D d3,d2,phase,phase2
1 = 4D d4,d3,d2,phase,phase2,phase3
2 = 4D d3,d2,d4,phase3,phase2,phase
Notes:
1. 4D Conversion requires explicit input file
as specified by the -in argument.
2. By default, byte-swap is ON for Pentium systems,
and OFF for other platforms.
Var2Pipe Error extracting arguments.
