VnmrJ Command and Parameter Reference VnmrJ 2.2D

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makedosyparams Create parameters for DOSY processing (M)................................. 353 makefid Make a FID element using numeric text input (C) ......................... 353 makeeccglobals Create global parameters for ECC control (M) ............................. 354 makeslice Synthesize 2D projection of 3D DOSY experiment (C)................. 354 man Display online description of command or macro (M)................... 354 managedb Update user files (U)....................................................................... 355 manualpath Path to user’s manual directory (P)................................................. 355 manvi Edit online description of a command or macro (M)...................... 355 mapwin List of experiment numbers (P) ...................................................... 355 mark Determine intensity of spectrum at a point (C)............................... 355 masvt Type of variable temperature system (P) ........................................ 357 maxattench1-4 Maximum limit for attenuator setting for rf channel 1-4 (P)......... 358 maxpen Maximum number of pens to use (P).............................................. 358 md Move display parameters between experiments (C)....................... 358 menu Change status of menu system (C) ................................................. 359 menuvi Edit a menu with vi text editor (M) ................................................ 359 method Autoshim method (P)...................................................................... 359 mf Move FIDs between experiments (C)............................................. 360 mfblk Copy FID block (C) ........................................................................ 360 mfclose Close memory map FID (C) ........................................................... 361 mfdata Move FID data (C).......................................................................... 361 mfopen Memory map open FID file (C)...................................................... 362 mftrace Move FID trace (C)......................................................................... 362 minsw Reduce spectral width to minimum required (M)........................... 363 mkdir Create new directory (C)................................................................. 363 mlabel Menu label (P) ................................................................................ 364 move Move to an absolute location to start a line (C).............................. 364 movedssw Set downsampling parameters for selected spectral region (M)..... 364 moveossw Set oversampling parameters for selected spectral region (M)....... 364 movesw Move spectral window according to cursors (M) ........................... 365 movetof Move transmitter offset (M)............................................................ 365 mp Move parameters between experiments (C) ................................... 365 mqcosy Set up parameters for MQCOSY pulse sequence (M).................... 366 mref Set referencing based on a existing spectrum of the sample (M) .. 366 mrev8 Set up parameters for MREV8 pulse sequence (M) ....................... 367 mrfb Set the filter bandwidths for multiple receivers (P)........................ 367 mrgain Set the gain for multiple receivers (P) ............................................ 368 mstat Display memory usage statistics (C) .............................................. 368 mstring Menu string (P) ............................................................................... 368 mtune Tune probe using swept-tune graphical display (M) ...................... 369 mv Move and/or rename a file (C)........................................................ 369 mxconst Maximum scaling constant (P) ....................................................... 369 N n1,n2,n3 Name storage for macros (P) .......................................................... 371 newmenu Select a menu without immediate activation (C)............................ 372 newshm Interactively create a shim method with options (M) ..................... 372 nextpl Display the next 3D plane (M) ....................................................... 373 nfni Number of increments in 1st indirectly detected dimension (P) .... 373 ni2 Number of increments in 2nd indirectly detected dimension (P) ... 373 ni3 Number of increments in 3rd indirectly detected dimension (P).... 374 niter Number of iterations (P) ................................................................. 374 nimax Maximum limit of ni (P) ............................................................... 374 nl Position cursor at the nearest line (C)............................................. 374 nli Find integral values (C) .................................................................. 374 nlivast Produces a text file of integral regions without a sum region (M) . 375 nlivast2 Produces a text file with normalized integral regions (M) ............. 375 nlivast3 Produces a text file with normalized integral regions (M) ............. 375 nll Find line frequencies and intensities (C) ........................................ 375 nm Select normalized intensity mode (C)............................................. 376 nm2d Select Automatic 2D normalization (M) ........................................ 376 01-999380-00 A 0808 Command and Parameter Reference for VnmrJ 2.2D 17
Noesy Convert the parameter to a NOESY experiment (M) ..................... 377 Noesy1d Convert the parameter set to a Noesy1d experiment (M)............... 377 noise Measure noise level of FID (C) ...................................................... 377 noisemult Control noise multiplier for automatic 2D processing (M) ............ 378 noislm Limit noise in spectrum (M) ........................................................... 378 notebook Notebook name (P) ......................................................................... 378 np Number of data points (P)............................................................... 379 npoint Number of points for fp peak search (P)......................................... 379 nrecords Determine number of lines in a file (M) ......................................... 379 nt Number of transients (P)................................................................. 379 ntrig Number of trigger signals to wait before acquisition (P)................ 380 ntype3d Specify whether f 1 or f 2 display expected to be N-type (P) ........... 380 nuctable Display VNMR style nucleus table for a given H1 frequency (M)380 numrcvrs Number of receivers in the system (P)............................................ 380 numreg Return the number of regions in a spectrum (C) ............................ 381 numrfch Number of rf channels (P) .............................................................. 381 O off Make a parameter inactive (C)........................................................ 383 on Make a parameter active or test its state (C)................................... 383 operator Operator name (P).......................................................................... 384 operatorlogin Sets workspace and parameters for the operator (M) ..................... 384 opx Open shape definition file for Pbox (M)......................................... 384 oscoef Digital filter coefficients for over sampling (P).............................. 385 osfb Digital filter bandwidth for oversampling (P) ................................ 385 osfilt Oversampling filter for real-time DSP (P)...................................... 386 oslsfrq Bandpass filter offset for oversampling (P).................................... 386 overrange Frequency synthesizer overrange (P).............................................. 386 oversamp Oversampling factor for acquisition (P) ......................................... 387 owner Operating system account owner (P) ............................................. 388 P p1 Enter pulse width for p1 in degrees (C).......................................... 393 p1 First pulse width (P)........................................................................ 393 p1pat Shape of excitation pulse (P) .......................................................... 393 p2pul Set up sequence for PFG testing (M).............................................. 394 p31 Automated phosphorus acquisition (M) ......................................... 394 p31p Process 1D phosphorus spectra (M) ............................................... 394 pa Set phase angle mode in directly detected dimension (C) .............. 395 pa1 Set phase angle mode in 1st indirectly detected dimension (C) ..... 395 pacosy Plot automatic COSY analysis (C) ................................................. 396 pad Preacquisition delay (P) .................................................................. 396 padept Perform adept analysis and plot resulting spectra (C) .................... 397 page Submit plot and change plotter page (C) ........................................ 397 page Name of page (P) ............................................................................ 398 panellevel Display level for VnmrJ interface pages (P)................................... 398 pap Plot out “all” parameters (C) .......................................................... 398 par2d Create 2D acquisition, processing, and display parameters (M) .... 399 par3d Create 3D acquisition, processing, and display parameters (M) .... 399 par3rf Get display templates for 3rd rf channel parameters (M)............... 399 par4d Create 4D acquisition parameters (M)............................................ 399 paramedit Edit a parameter and its attributes with user-selected editor (C).... 400 paramvi Edit a parameter and its attributes with vi editor (M)..................... 400 pards Create additional parameters used by downsampling (M) ............. 401 parfidss Create parameters for time-domain solvent subtraction (M).......... 401 parfix Update parameter sets (M).............................................................. 402 parlc Create parameters for LC-NMR experiments (M) ......................... 402 parll2d Create parameters for 2D peak picking (M) ................................... 403 parlp Create parameters for linear prediction (M) ................................... 403 parmax Parameter maximum values (P)...................................................... 403 parmin Parameter minimum values (P)....................................................... 404 18 Command and Parameter Reference for VnmrJ 2.2D 01-999380-00 A 0808
Page 1 and 2: VnmrJ Command and Parameter Referen
Page 3 and 4: VnmrJ Command and Parameter Referen
Page 5 and 6: 2 Command and Parameter Reference f
Page 7 and 8: arraydim Dimension of experiment (P
Page 9 and 10: copy Copy a file (C) ..............
Page 11 and 12: dglc Display group of LC-NMR parame
Page 13 and 14: dsshn Display stacked spectra horiz
Page 15 and 16: gcal Gradient calibration constant
Page 17 and 18: homo3 Homodecoupling control for th
Page 19: loadcolors Load colors for graphics
Page 23 and 24: plcosy Plot COSY- and NOESY-type sp
Page 25 and 26: R r Recall display parameter set (M
Page 27 and 28: seqfil Pulse sequence name (P).....
Page 29 and 30: sqsavestudy Macro to save study par
Page 31 and 32: updaterev Update after installing n
Page 33 and 34: xm1 Utility macro for study queue e
Page 35 and 36: 32 Command and Parameter Reference
Page 37 and 38: Notational Conventions md(to_exp) n
Page 39 and 40: A aph aph0 aphb aphx appdirs appmod
Page 41 and 42: A See also: parent (nested) macros
Page 43 and 44: A acosy Syntax: Description: See al
Page 45 and 46: A spin sw vp vs wp Sample spin rate
Page 47 and 48: A window should open automatically
Page 49 and 50: A See also: 595. Sample failed to i
Page 51 and 52: A spadd sub Add current spectrum to
Page 53 and 54: A Examples: See also: • 'ss' spec
Page 55 and 56: A Examples: See also: adept adept('
Page 57 and 58: A lock sample Submit an Autolock ex
Page 59 and 60: A Arguments: (3) Line containing an
Page 61 and 62: A See also: VnmrJ User Programming
Page 63 and 64: A appmode Description: Values: Appl
Page 65 and 66: A asin Find arc sine of number (C)
Page 67 and 68: A Arguments: Examples: When called
Page 69 and 70: A go_ load loc lock method sample s
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A Aufindz0 Automatic adjustment of
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A Values: 'y' indicates automation
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A Description: Arguments: Examples:
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A Examples: Examples: See also: >9
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A See also: NMR Spectroscopy User G
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A Examples: See also: number_argume
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A dscale pscale Display scale below
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B Arguments: Examples: See also: me
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B This command should rarely be use
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B See also: NMR Spectroscopy User G
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B 88 Command and Parameter Referenc
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C contact_time MAS cross-polarizati
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C Description: See also: Calculates
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C See also: 127 for imaging attenua
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C See also: NMR Spectroscopy User G
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C Description: checkstring is used
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C clfreq Description: See also: Cal
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C it runs in interactive mode; if n
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C Arguments: Examples: See also:
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C Description: Arguments: See also:
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C Examples: See also: • -dxxx, wh
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C Dqcosy relayh Set up parameters f
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C Related: apptype Application type
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C cr2 Description: See also: Cursor
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C crl Description: See also: Clear
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C See also: NMR Spectroscopy User G
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C 120 Command and Parameter Referen
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D delta Cursor difference in direct
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D dosygamma dosytimecubed dot1 dotf
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D See also: If d0='n', the software
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D daslp Description: Values: See al
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D dc Description: See also: Calcula
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D Arguments: Examples: See also: ds
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D ft2d imconi wft2d Fourier transfo
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D Syntax: Description: ddrcr= Sets
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D dm2 dm3 Decoupler mode for second
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D Description: Arguments: Examples:
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D deptproc Description: See also: P
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D dfid Syntax: Description: See als
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D ho plfid pfww sc vo vpf wc Horizo
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D Arguments: Examples: See also: te
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D See also: NMR Spectroscopy User G
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D Examples: in these directories. T
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D nli z Find integral values (C) Ad
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D Values: See also: 5 Hz to 2 MHz i
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D Description: Arguments: Examples:
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D See also: outside of the acqi pro
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D dnode Applicability: Description:
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D Examples: See also: max_width is
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D Values: See also: deltaf (if the
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D See also: dpf('top','noll') dpf('
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D dplane Syntax: Description: Argum
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D Arguments: See also: The pulse pa
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D CAUTION: See also: Decoupling pow
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D Examples: See also: • 'xor','no
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D ds Syntax: Description: Arguments
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D Examples: See also: ds2dn ds2dn('
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D dseq4 Applicability: Description:
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D Values: See also: the digital fil
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D dsp Applicability: Description: V
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D Arguments: Examples: See also: Th
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D step is the increment for the spe
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D dsww ft1d ho intmod pl plww sc sc
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D dsvast2d Display VAST data in a p
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D homorof3 tn Delay between setting
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E See also: NMR Spectroscopy User G
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E enter Applicability: Syntax: Desc
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E ewrite Applicability: Syntax: Des
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E keyword 'maclib' 'command' 'ascii
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E exit Description: CAUTION: Call t
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E Arguments: Examples: See also: (3
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E Syntax: Description: Arguments: E
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F foldcc foldj foldt fontselect for
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F make3dcoef par2d Make 3D coeffici
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F Examples: See also: v1, v2... is
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F fiddleu Perform reference deconvo
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F Arguments: Examples: See also: st
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F slfreq sp usemark wp Measured lin
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F Arguments: Examples: See also: nf
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F focus Description: See also: Send
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F See also: format($snum,3,1):$rval
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F Examples: See also: type of tree
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F Examples: See also: start is the
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F See also: NMR Spectroscopy User G
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F • 'noop' is a keyword to not pe
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F See also: • 'ni2' is a keyword
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F Arguments: ft3d Entered from UNIX
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F make3dcoef ptspec3d set3dproc spe
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G gHSQC_d213 Ghsqctoxy gilson gin g
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G examined for signal level. If the
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G See also: Be aware that if an old
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G Examples: See also: extension is
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G Examples: See also: • 'xall' is
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G Arguments: Examples: See also: A
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G See also: detected dimension. Thi
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G gilson Syntax: Description: See a
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G Values: 'n' disable spinning duri
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G gmax Description: See also: Maxim
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G go seqfil usergo Submit experimen
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G grayctr Gray level window adjustm
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G gtnroesy Applicability: Descripti
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G 274 Command and Parameter Referen
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H homo2 homo3 homo4 HOMODEC homo2d
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H See also: j2r is the reduced coup
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H Examples: See also: hcdept hcdept
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H homo homorof1 homorof2 homorof3 t
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H Examples: See also: hdwshimlist='
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H HMQC_d2 Description: Set up param
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H Related: dm3 Decoupler mode for t
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hoult Set parameters alfa and rof2
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H hsqctoxySE Description: Set up pa
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H htss1 Description: Values: See al
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H 296 Command and Parameter Referen
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I ihwinfo Syntax: Description: Argu
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I Examples: See also: dir_flag imag
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I See also: fn. The insref paramete
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I See also: NMR Spectroscopy User G
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I category type gettype returns str
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I 308 Command and Parameter Referen
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J Arguments: Examples: See also: ex
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J jviewports Viewport layout (P) De
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K See also: NMR Spectroscopy User G
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K 316 Command and Parameter Referen
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L lp1 lp2 lpalg lpalg1 lpalg2 lpext
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L Values: See also: A positive valu
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L legrelay Description: Values: See
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L See also: in Hz, analogous to sfr
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L Examples: See also: • 'comment'
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L Examples: See also: ln(.5) ln(val
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L Values: See also: 1, 2, 3, or 4 (
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L See also: User Guide: Solid-State
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L See also: lookup('delimiter',' ,\
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L strtlp strtext Starting point for
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L lpfilt ni LP coefficients to calc
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L lpprint Description: Values: See
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L Arguments: Examples: directory is
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L lsfrq1 Description: Values: Frequ
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L 346 Command and Parameter Referen
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M movetof mp mqcosy mrev8 mrfb mref
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M Arguments: Examples: See also: ov
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M make3dcoef Syntax: Description: A
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M element_number and format argumen
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M Description: Arguments: (5) mark
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M Values: See also: Note that the V
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M mf Syntax: Description: Arguments
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M mfopen mftrace rfblk rftrace Memo
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M mlabel Description: See also: Men
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M Examples: See also: mp(4) mp(2,3)
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M Description: Examples: An array o
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M CAUTION: See also: One special ca
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N newmenu Syntax: Description: Argu
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N ni3 Description: See also: Number
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N Arguments: Examples: See also: 'p
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N r6 returns the percentage channel
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N ntrig Applicability: Description:
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N 382 Command and Parameter Referen
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O Arguments: Examples: See also: %d
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O paros sw Create additional parame
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O 'n' causes normal acquisition to
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P pboxpar pboxrst pboxunits pcon pc
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P prescan_CoilTable prescan_tn prin
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P Description: Values: See also: Sp
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P See also: The pa1 command is only
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P page Description: Name of page (P
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P Description: See also: Creates th
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P See also: The quality of filterin
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P See also: User Programming Relate
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P See also: NMR Spectroscopy User G
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P pboxpar Syntax: Description: Argu
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P See also: User Programming Relate
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P Values: See also: A three-charact
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P Examples: See also: reference_reg
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P phase Syntax: Description: Argume
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P phfid1 Description: Values: See a
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P pintvast Applicability: Syntax: D
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P ft1d ho intmod plww pshr pslw sc
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P plate_glue Applicability: Descrip
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P vpf wc Current vertical position
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P • Negative or positive contours
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P Related: protune Macro to start P
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P plothiresprep High resolution plo
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P p1 pw First pulse width (P) Pulse
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P Examples: See also: pprofile ppro
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P Examples: str is a string that ca
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P See also: VnmrJ User Programming
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P See also: proc1d does not work wi
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P Description: Arguments: Examples:
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P Third case: exec — keyword that
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P Examples: See also: C3 sets lb1=-
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P See also: searched for when an ex
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P sw sw1 sw2 Spectral width in dire
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P See also: point are used in the s
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P Arguments: Examples: See also: fi
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P 466 Command and Parameter Referen
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Q ? Display the value of an individ
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R rfband rfblk rfchannel rfchtype r
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R See also: experiment with the rt
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R Examples: The par1 and par2 param
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R Examples: See also: readhw('z1c',
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R Description: Produces 2D images (
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R record Syntax: Description: Argum
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R Related: reff1 Reference f2 Indir
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R See also: if it is a heteronuclea
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R the current tree, if it exists th
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R vnmrjcmd() wp Commands to invoke
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R Arguments: Examples: See also: us
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R Values: See also: The values of r
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R rfp Description: Values: See also
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R rfwg Description: Values: See als
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R rl rl2 scalesw1 sfrq Set ref. lin
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R See also: NMR Spectroscopy User G
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R See also: NMR Spectroscopy User G
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R Examples: See also: noabort — k
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S setcolor setdecpars setdec2pars s
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S spincad Run SpinCAD program (C) s
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S Description: Saves a copy of the
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S See also: NMR Spectroscopy User G
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S sd2 Applicability: Description: S
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S Examples: See also: • 'f1f3', '
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S Arguments: Examples: See also: se
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S See also: initialization, etc.).
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S See also: User Programming Relate
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S See also: Pulsed Field Gradient M
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S Arguments: Examples: Syntax 5 eje
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S Step Value Parameter setting Argu
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S sw rof2 Spectral width in directl
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S sw tpwr Spectral width in directl
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S Arguments: Examples: See also: re
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S See also: flushing mode. In the l
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S Examples: See also: trev time rev
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S See also: (e.g.: multiselective)
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S See also: and radial shims x1, y1
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S Arguments: See also: shift sets t
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S testsn testct Test signal-to-nois
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S spadd Syntax: Description: Argume
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S See also: If the spinning speed i
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S dsp initialize_iterate iterate ni
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S sqdir sqname studyid Svfname Stud
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S ss Steady-state transients (P) De
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S ssfilter sslsfrq ssntaps wft Full
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S shim wshim Submit an Autoshim exp
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S See also: sub('new') sub('trace',
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S Examples: See also: where numgray
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S Percent sign (%) substitution spe
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S Examples: See also: The svs comma
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S See also: variable evolution time
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T tpwrm Observe transmitter linear
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T Arguments: Examples: See also: 2D
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T Arguments: Examples: See also: 1
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T Syntax: Values: status of the cur
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T textis Syntax: Description: Argum
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T nt sw1 sw2 Number of transients (
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T tnroesy Description: See also: Se
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T tpwr tpwrm Observe transmitter po
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T Examples: See also: the 1 H, the
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T tupwr Description: See also: Tran
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U See also: NMR Spectroscopy User G
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U See also: NMR Spectroscopy User G
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U 608 Command and Parameter Referen
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V vast1d Applicability: Description
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V vf Description: Values: See also:
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V Examples: See also: Changing sele
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V See also: vnmr2sc('gcosy',2,3) nt
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V Examples: See also: file is the n
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V See also: NMR Spectroscopy User G
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V See also: NMR Spectroscopy User G
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V See also: VnmrJ Installation and
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W wp wp1 wp2 write writefid writepa
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W Values: Width, in mm. See also: N
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W wet Description: Flag to turn on
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W Examples: See also: before each o
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W Description: Arguments: See also:
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W See also: NMR Spectroscopy User G
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W wp2 Description: See also: Width
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W writefid Syntax: Description: Arg
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W See also: 'e' or 'exp' sets that
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W Arguments: Examples: See also:
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W 646 Command and Parameter Referen
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X xpolar1 xy xz xz2 Set up paramete
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X xmaddreq Applicability: Descripti
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X Description: See also: Find the n
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X Description: See also: A macro th
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X Description: See also: Sets up th
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Y Values: See also: If shimset is 1
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Z Arguments: Examples: See also: be
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Z See also: NMR Spectroscopy User G
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Z See also: NMR Spectroscopy User G
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Z 666 Command and Parameter Referen
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Index type of data processing, 447
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Index analysis of DEPT data, 70 car
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Index parameters in a parameter tre
Page 677 and 678:
Index contour plot, 130 contour plo
Page 679 and 680:
Index FDM program, running, 219 FID
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Index gradient calibration pulse se
Page 683 and 684:
Index linear modulator power, 179,
Page 685 and 686:
Index Oxford-Sorenson VT controller
Page 687 and 688:
Index Hewlett-Packard, 648 maximum
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Index recording keyboard entries, 4
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Index create parameters, 401 filter
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Index t 2 dimension in, 343 tablib
Page 695:
Index WETPWXCAL pulse sequence, 631
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VnmrJ Command and Parameter Reference VnmrJ 2.2D

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