Ufiles

The UFILE system.  Last review/update D. McCune 16 Oct 1998
-- export version --

UFILEs are a standard way for storing physics data across various
machines.  Doug McCune's software includes utility programs and
service subroutines to support users.  The utility programs are 
menu driven command line oriented interactive programs with 
Tektronix (SGLIB) graphics capability.  Fortran subroutines for
user written software are stored in subroutine libraries.  

This help file contains a summary on Ufiles.  More information
is available from the manual.  There are two versions of the
manual:

  the "traditional version", available only in hardcopy
  form in Doug McCune's office -- email dmccune@pppl.gov.

  the "HTML version" -- see the TRANSP home page at
   http://w3.pppl.gov/transp 

Ufiles software was developed at Plasma Physics Laboratory of
Princeton University, under U.S. DoE contract DE-AC02-76-CH0-3073.

Ufiles are essentially an early data standard for single precision
(32 bit) floating point data, that has been used heavily in tokamak 
and fusion energy research both in the USA and in Europe and Japan.

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Software_availability

The Ufiles software (sources and build procedures) are available from 
two sources:

  (1)  TRANSP distribution system -- see anonymous ftp:

       ftp.pppl.gov:pub/transp/codata/README

       for more information.  This distribution mechanism gives
       read/write access to a central source repository, and is
       oriented towards developers.

  (2)  National Transport Code Collaboration (NTCC) Modules Library

        http://w3.pppl.gov/NTCC   (click on "Modules Library").

       This distribution is oriented to users who would like to
       download a copy of source and unix make files, but who do
       not envision doing any code development.

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Precision

The main UFILES routines are all written in single precision; all
floating point arrays are declared REAL.  The Ufiles data formats
store single precision (32 bit) floating point data.

However, a parallel interface is maintained for codes which use
REAL*8 to declare floating point arrays.  For each named routine
in the UFILES library, that name prepended with R8_ gives the 
REAL*8 interface routine name.

Thus, to call UF1DRD from a REAL*8 code, use R8_UF1DRD, replacing
all REAL arguments and arrays with REAL*8 arguments and arrays.

Similarly, to call UF2DWR from a REAL*8 code, use R8_UF2DWR.
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Data_formats

Five Ufiles file format variants are supported:

  o  Ascii -- portable from machine to machine -- 7 decimal digits
     of precision.

  o  Compressed binary -- NOT portable -- 16 bit precision -- fast
     and compact.  Accuracy not sufficient for some applications.
     NOT RECOMMENDED for NEW UFILES, but many old TFTR UFILES are
     in this format.

  o  Loss-free portable compressed binary -- 100% bit for bit
     accurate network portable compressed binary Ufiles data--
     transferable btw all brands of unix and VMS via binary ftp.

  o  NetCDF -- NetCDF Ufiles may be written, if the Ufiles software
     is linked with the NetCDF binary library(s).

  o  HDF -- HDF Ufiles may be written, if the Ufiles software is
     linked with the HDF binary library(s).

Ufiles reading software deals automatically with all formats.
However, the user needs to be somewhat concerned when writing
Ufiles-- a format variant must be chosen.

The Ufiles software default is Ascii.  However, many applications
override this to set their own default.  Standard Ufiles utilities
offer user control over output file formats as a "menu option".

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Data_structures

Ufiles are generally described as having "dimensionality".  A Ufile
may be 0d, 1d, 2d, or 3d.  A 0d Ufile contains scalars only.  Higher
dimensional Ufiles contain dimensioned data plus optional scalars.

A fundamental rule of Ufiles -- a kind of atomicity -- is that each
Ufile contains at most one data structure of dimensionality 1 or more.
This "one item per file" rule is the key to the simplicity, flexibility
and portability of Ufiles.

  o  Scalar -- scalar numbers associated with keywords, labels and
     physical units.  Any Ufile may contain zero or more "associated
     scalars".

  o  1d -- discreet representation of data of the form f(x).  X is
     usually a monotonic increasing sequence.  Ufiles do not require
     X to be monotonic increasing but some utility programs do depend
     on this.

  o  2d -- discreet representation of data of the form f(x,y).

  o  3d -- discreet representation of data of the form f(x,y,z).

The vast majority of existing Ufiles are either 1d or 2d.

Software using Ufiles generally must know in advance the dimensionality
of the Ufiles being read.

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Filenames

Ufiles filenames have 3 parts:

  a prefix (up to 16 characters long, uppercase letters)
  a shot number (5 digits)
  a suffix (up to 16 characters long, uppercase letters).

Example:  T12345.CUR

  prefix = T
  shot   = 12345
  suffix = CUR

Ufiles software also allows specification of a disk and directory
name (VMS) or a path name (unix) -- see the section on applications
programming.  An option exists for suppressing the shot number field.

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History

Ufiles were originally developed to facilitate preparation of data
for the TRANSP code analyses of PDX tokamak data at PPPL.  The 
design aimed at two goals:

  (a)  be able to write the data on the data acquisition DEC-10
       machine but read it on a VAX 11/780;

  (b)  be able to process data from different diagnostics using
       common utility programs for smoothing, averaging, etc.

The resulting standardization of physics results data (and removal
of most format peculiarities specific to diagnostic, tokamak, or
data acquisition system) has proven extremely useful, both for
processing of the data and for sharing the data on a wide variety
of machines.  Ufiles have since been used to carry the data from
many tokamaks to many computers around the world.

Most of the Ufiles software was developed in the early 1980s on
DEC VAX minicomputers.

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Utilities

A rich collection of utility programs exist for the display and
manipulation of Ufiles data.  They share the following common
features:

  o Ufiles data format input/output
  o sglib (Tektronix) graphics
  o interactive menu driven command line user i/o using the
    UREAD system (described elsewhere) to allow scripting
    and automation of routine operations
  o Ufiles filename set up via interactive menu.
  o Utilities which write Ufiles generate comments describing
    the Ufile manipulation & copy comments from the input Ufile.
    Also, user comments are solicited.  Thus the comment section
    of Ufiles contains a history of utility manipulations applied
    to the data.

The utility programs are intended to be largely self documenting
through their menu interfaces.  The following list summarizes 
Ufile utility programs currently in existence:

display
-------

make Tektronix displays of Ufile data

ulook0 -- look at scalar Ufile data
ugraf1 -- look at 1d Ufile data
ugraf2 -- look at 2d Ufile data
ugraf3 -- look at 3d Ufile data

uftype -- read a Ufile header, type out dimensionality
          and formatting information.

averaging
---------

average or sum data from multiple input Ufiles; output the average
or sum to a single Ufile.  Some interpolation capability is provided
in gaver1 and gaver2:  the first input file's grid becomes the 
interpolation target for subsequent input files in case their grids
do not match.

gaver0 -- average scalar lists
gaver1 -- average/sum 1d Ufile data
gaver2 -- average/sum 2d Ufile data.

smoothing
---------

apply "local triangular weighted average" smoothing to Ufile data.
Also permit limited arithmetic, e.g. linear transformations

  x  --> a*x + b

on data axes ("units transformations", e.g. a=1000, b=0 to take "KeV"
to "eV").

gsmoo1 -- smooth 1d data
gsmoo2 -- smooth 2d data.

Smoothing programs also have some capability for deglitching data,
by means of automatic algorithms and by means of interactive cutting
and pasting.  These features are not effective on all data.

advanced utilities
------------------

concat -- concatenator, combine a sequence of 1d Ufiles to form
  a 2d Ufile.  Or, add 1d slices to an existing 2d Ufile.

extrac -- extractor, extract 1d slices from an existing 2d Ufile.
  Or, extract a 2d subset from a 2d Ufile.

splice -- splice a single 1d Ufile f(x) using selected intervals 
  from input Ufiles f1(x), f2(x), f3(x) ,...

splice2 -- same as splice but using 2d Ufiles on input and output.
  All ufiles share the same grid in the direction not spliced.

thin1 -- thin the x coordinate of a 1d Ufile f(x), to make it smaller.

thin2 -- thin out the x and y coordinats of a 2d Ufile f(x,y) to make
  it smaller.

specialized utilities
---------------------

Discussion with experienced PPPL user is recommended prior to use of
these programs.

ecprog -- manipulate ECE data 
  frequency --> radius maps valid for simple tokamak geometries
  recalibration and edge trimming options

sawtoo -- apply pattern matching algorithm to detect sawtooth event
  times from input 1d Ufile data.  Output 1d Ufile of sawtooth event
  times (suitable for input to TRANSP).

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Utilities_demo_scripts

The NTCC Modules Library distribution includes a test directory with
"demo" scripts that illustrate the capabilities of the Ufiles utilities.

These are "uread" scripts -- they encode the user side of a dialog
with a "uread" menu driven interactive fortran program.  Each script
contains contains a complete session with a specific Ufiles utility.
Ufiles data required by the script sessions are included in the same
directory with the scripts themselves.

Execution of the scripts results in the output of "Tektronix" style
graphics (supported by ordinary unix xterm, or by the xtc application
available with the NTCC Ufiles software distribution); also messages
are written to the terminal window in which the demo is invoked.
Typically, demo scripts will pause to allow the user to view each
graph before going on to the next graph (but other behaviors are 
possible, depending on the user's configuration).  The graphs
illustrate the utilities' capabilities; the text provides some
supporting explanation.

The scripts are ascii text.  The user may want to print out a copy
of the script and then follow along in an interactive session with
the utility, in order to see the program menus and prompts.

What follows is a list of the demo scripts provided, and a summary
of their contents.  Assuming the utility binaries have been built
and made available as commands (on the user's PATH in UNIX), the
demo scripts are invoked by typing <utility-name> @<utility-name>.demo
from the directory containing the scripts.

Display:
========

> ugraf1 @ugraf1.demo  --  plot 1d Ufiles -- show some 1d display
      style options and rescaling capability.

> ugraf2 @ugraf2.demo  --  plot 2d Ufiles -- show 2d display types
      including slice plots, isometric plots, contour plots, and
      multi-slice plots.

(All utilities have similar display capabilities).

Basic Averaging and Smoothing:
==============================

> gaver1 @gaver1.demo  --  demonstrate averaging of data -- average
      several 1d profiles.

> gsmoo1 @gsmoo1.demo  --  1d smoothing -- smooth an ECE time trace
      with internal breaks inserted for preservation of pellet
      injection events.

> gsmoo2 @gsmoo2.demo  --  2d smoothing -- smooth f(x,t) first in
      x, then in t.

Hand generated Profiles and Signals:
====================================

> propane @propane.demo  --  generate an analytic profile; generate
      a hand entered waveform.

Methods for Extracting, Combining, or Thinning Ufiles Data:
===========================================================

> concat @concat.demo  --  demonstrate concatenation of multiple 1d
      profiles to form a 2d profile evolution Ufile.  Add extrapolated
      profiles at endpoints.

> extrac @extrac.demo  --  extract 1d slices and 2d sub-blocks from a
      2d input Ufile.

> splice @splice.demo  --  join 1d Ufile time trace segments end to end,
      to form a new 1d Ufile timetrace.

> splice2 @splice2.demo  --  "splice" method applied to profile evolution
      2d Ufiles.

> thin1 @thin1.demo  --  thin (resample at lower rate) 1d Ufile data,
      with averaging option.

> thin2 @thin2.demo  --  "thin" method applied to 2d Ufile profile
      evolution function.

Sawtooth Event Recognition:
===========================

> sawtoo @sawtoo.demo  --  use a correlation method applied to 
      smoothing residue to yield a sequence of sawtooth event times.

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Applications_programming

Ufiles are opened, read, and written via calls to subroutines in a
Fortran subroutine library.  The process involves:

  (a)  setting up the filename                - see file_setup
  (b)  opening the file                       - see file_setup
  (c)  reading or writing the data            - see scalar/1d/2d
  (d)  (optionally) dealing with comment data - see comments
  (e)  closing the file.                      - see file_setup

Ancillary calls are available to define file format (ascii or
compressed binary) or modify error handling.

New in 1999:  Ufiles software can now access MDSplus -- READ
access only.  See MDSplus_setup subtopic.

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loading

On unix systems a non-interactive Ufile application will need to 
load the following libraries:

   -L/usr/local/mdsplus/shlib -lMdsLib 
   -L/usr/local/lib -lnetcdf -ldf -lz
and
   -L/usr/ntcc/lib -uflib -lufhdf -lmdstransp 
                     -lsgdummy -lvaxonly -portlib


If the program uses sglib graphics and/or the pppl interactive
input/output subroutine libraries, then use:

   -L/usr/local/lib -lnetcdf -ldf -lz 
	(the netcdf and hdf libraries)
and 
   -L/usr/ntcc/lib -luflib -lufhdf -lmdstransp -ltrgraf
                     -lureadsub -lsg -lvaxonly -portlib

Link with -lsg if you use sglib graphics, otherwise with -lsgdummy.

See /usr/ntcc/etc/Make_sample.

Note to Non-PPPL sites:
Verify above directory names with your systems administrator.
  
If you don't have the netcdf and hdf libraries, link with -lgeneric_dummy.


On VMS systems use the libraries with the corresponding names in
the directory TRANSP$:[OBJ.LIB], e.g. TRANSP$:[OBJ.LIB]UFLIB.OLB.
Link an appropriate version of SGLIB if necessary.

On PPPL VMS systems the linker option file USR:[UFILES]UFILES.OPT
may be employed instead.

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lun

The acronym "lun" stands for "logical unit number" and is used by
Fortran to keep track of open files.

The lun is used similarly by the Ufiles system.  Most Ufiles calls
have the lun as the first argument; this tells the Ufiles software
to which file the call applies.  Applications can maintain multiple
Ufile streams open in parallel; lun is used to distinguish between
them.  

Fortran allows lun values in the range from 0 to 99.  However, it
is recommended to use values in the range 21 to 99, because the
lower numbers are typically used by the system (e.g. 5 and 6 for 
terminal i/o), and numbers between 10 and 20 may be used by the 
ureadsub library, if the application uses this.

If the application opens any file on any logical unit number, that
lun should not be used for Ufiles until after the file is closed.

For more information -- see a fortran manual.

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file_setup

UFSETR is used to set up the naming and location convention
you will use.  The disk and directory fields may be blank, in 
which case the files will default to the current working directory.  

generic:
        call UFSETR(lun,prefix,suffix,disk,directory)
              lun - integer
              prefix - character, max length 16
              suffix - character, max length 16
              disk - character, max length 16
              directory - character, max length 64

VMS:
        call UFSETR(lun,'T','CUR','MB_ALL',' ')
                                !To access files MB_ALL:T*.CUR, or
        call UFSETR(lun,'S','T1T','TR_DISK','MCCUNE')
                                !For files TR_DISK:[MCCUNE]S*.T1T

unix:
        call UFSETR(lun,'T','CUR',' ','/usr/ufiles/data')
                                !To access /usr/ufiles/data/T*.CUR
                                !leave "disk" argument blank

ufsetr does not set the entire filename:  the shot number has not
yet been given.  This is given as an integer argument to the open
subroutine (ufoprd or ufopwr).  The shot number is a positive 
integer of no more than six digits.

then
        call UFOPRD(lun,ishot,ierr)     !Open for READONLY access
        call UFOPWR(lun,ishot,ierr)     !Open for WRITE access
         ...check ierr for errors, ierr=0 indicates success

         ...read/write the data (code depends on what kind) ...

        call UFCLOS(lun)                !Close the file

See also the section on compression if you are writing Ufiles.
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Suppress_shot_no

Use a call to the subroutine UFNSHO to suppress the encoding of
the shot number in the Ufile name.

Thus, to read a Ufile called ABC.DAT, do:

      call ufsetr(lun,'ABC','DAT',' ',' ')
      call ufnsho(lun)
      call ufoprd(lun,idummy,ierr)
        ... ...
      call ufclos(lun)

note the 2nd argument of ufoprd is ignored.  The same is true for
ufopwr if the Ufile is being written.

The normal sequence would have been

      call ufsetr(lun,'ABC','DAT',' ',' ')
      ishot=12345
      call ufoprd(lun,ishot,ierr)
        ... ...
      call ufclos(lun)

which would read the Ufile ABC12345.DAT.

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MDSplus_setup

UFSETR is used to identify the MDSplus server, treename, path, and
nodename of an MDSplus signal that is to be read by Ufiles software.
(The applications program needs to know the dimensionality of the
signal in advance).

The general form of such a call is:

        call UFSETR(lun,server,tree_name,path,node)

Note this is the same routine as is used to setup access to
standard Ufiles.  To distinguish MDSplus access from standard
Ufile access, the "server" string must start with "MDS+::".  If
it does not, then standard Ufile access is assumed.

            lun - integer
            server - character, max length 55 including "MDS+::"
            tree_name - character, max length 20
            path - character, max length 120
            node - character, max length 20

The full path string to the desired data is 

   path(1:ilp)//':'//node(1:iln)

where ilp is the non-blank length of "path" (stripping off also
any trailing colon), and iln is the non-blank length of "node".

actual example:

        call UFSETR(lun,
     >              'MDS+::TRANSPGRID.PPPL.GOV',
     >              'TRANSP_NSTX',
     >              'TRANSP_OUT',
     >              'PCUR')

(PPPL TRANSP trees have their own numbering system; shot 1027 has
data for the above path configuration).

Note that, as with traditional file access, UFSETR does not access
the data.  The shot number of the MDSplus tree has not been given
yet.  As with traditional file access, the shot number is given
via a call to UFOPRD, which in this mode calls the appropriate
MDSplus client software to connect to the MDSplus server, and 
open up the named tree.  UF1DRD or UF2DRD will be used to go to
the indicated path in the tree and actually read the signal data.
(Access to data comments is not available at this time).

So:
        call UFOPRD(lun,ishot,ierr)     !Open tree #ishot for READ
         ...check ierr for errors, ierr=0 indicates success

         ...use UF1DRD or UF2DRD or similar routine to read the
            signal; check status code.

         ...WRITE acces is NOT available

        call UFCLOS(lun)                !Close the tree
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Scalar

To write an array of N scalars:

call UF0DWR(lun,tdev*4,sdate*10,values(N),labels(3,N)*10,N,ierr)

tdev labels the tokamak:  'TFTR', 'PDX', 'PLT', 'PBX',..., max of
  four characters, character*4.
sdate should contain a character*10 shot date e.g. '29-FEB-89 '

for the i'th scalar, i = 1 to N:

values(i) is the i'th scalar value, real

label(1,i) is a 1-9 character keyword followed by a ":".
label(2,i) is a 10 character descriptive label
label(3,i) is the physical units.

all element of the label array are character*10.

Similarly, to read scalar values:

call UF0DRD(lun,tdev,sdate,values,labels,Nmax,Nactual,ierr)

if the operation is successful ierr=0 is set on return.
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_1d arrays

To write a 1-d array, you need arrays for both "x" and f(x).

call UF1DWR(lun,tdev,sdate,x,f,n,iproc,xlab,flab,nsc,scval,sclab,ier)

The variables tdev,sdate are as under "Scalars."
The variables at the end containing "sc" are like those defined
under "Scalars".

The ones special to a 1-d call are:

   The real arrays x,f and their size n.
   IPROC: process code 0 for Translated from raw data (integer)
                       1 for Averaged
                       2 for Smoothed
                       3 for Smoothed and Averaged
                       4 for "other".

XLAB/FLAB contain 20 characters of label, 10 characters of units --
  total CHARACTER*30 or 3 adjacent CHARACTER*10 array elements.

To read the data, labels and scalars:
call UF1DRD(lun,tdev,sdate,x,f,nmax,n,iproc,xlab,flab,
            nscmax,nsc,scval,sclab,ier)

To read just the data, and dispose of the rest to unit lunxt:
call UF1DRE(lun,x,f,nmax,n,ier,lunxt)
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_2d arrays

To write 2-d data for a function f(x,y) where f is a 2d array
(e.g. declared REAL f(nf1,nymax) with nf1, nymax as array dimension
parameters):

call UF2DWR(lun,tdev,sdate,                  !just like for scalars
            f,nf1,x,nx,y,ny,iproc,           !similar to 1-d arguments
            flab,xlab,ylab,            !character*30, like 1-d args.
            nsc,scval,sclab,ier)             !just like for scalars

  uf2dwr declares real arrays f(nf1,ny), x(nx), and y(ny).
  nf1.ge.nx is required.

call UF2DRD(lun,tdev,sdate,
            f,nf1,x,nxmax,y,nymax,iproc,            !as above
            nx,ny,                                  !actuals returned
                iflag,                              ! ** see below **
            flab,xlab,ylab,                         !as above
            nscmax,nsc,scval,sclab,ier)             !as in scalars

iflag controls the dimensioning of f as seen by uf2drd.

iflag=0:  uf2drd assumes the callers declares f(nf1,nymax)
          and reads the data using the loop specification
              read(...) ((f(ix,iy),ix=1,nx),iy=1,ny).
          It is expected that nx.le.nf1, otherwise an error
          is reported.  If nx.lt.nf1, then, not all the 
          elements of f will be set by the read statement.
iflag=1:  uf2drd assumes the caller declares f(nfmax) as a large
          buffer, and wants the data read *contiguously* into the
          f array.  In this case, set nf1=nfmax/nymax on input.
          an error will occur if nx*ny is greater then nf1*nymax,
          i.e. if reading the data would write past the end of 
          the buffer in memory.

For either value of iflag, the independent coordinate arrays
          x(nxmax), y(nymax) are declared, and an error occurs
          if in the data file either nx.gt.nxmax or ny.gt.nymax.

On exit, ier=0 indicates normal successful operation.  Applications
programs should check.

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Format_Variants

In addition to the traditional Ascii Ufile format, there are four 
binary Ufile format variants:  16-bit compressed binary, 32-bit
loss free portable compressed binary, NetCDF, and HDF.

The 16 bit Compressed binary UFILES occupy ~ 1/10th the disk space of 
ascii UFILES, and can be read in about 1/5th the time (or faster), with
no significant loss of data accuracy in most cases (compression involves
specifying scale factors and using a 16 bit digitization of the floating
point data.  Inaccuracy can occur in analyzed data with wide dynamic
range for which this 16 bit digitization is inadequate).

-->16-bit binary compressed Ufiles are not portable across machine 
   architectures!
-->16-bit binary compressed Ufiles are small and fast but their
   use involves loss of data precision!

Read access to Ufile data in any format is automatic; the application
does not have to know the format of the Ufile it is reading.

To set up for a Ufile write, choosing a non-Ascii format variant:

*After* the UFSETR call, *prior* to the UFOPWR call, add

      call UFCMPR(lun,iarg)

with  iarg = 1 for compressed binary (NOT RECOMMENDED due to data loss)
      iarg = 2 for loss free portable compressed binary
      iarg = 3 for HDF
      iarg = 4 for NetCDF
      (iarg = 0 for Ascii).

to set the output format for a Ufile to be written on unit ILUN.

      call UFCMPR(lun,0)

clears the flag, allowing an old style ascii UFILES data write.
Note that UFCMPR must be called prior to EACH UFOPWR call.  UFCMPR
does not establish a permanent default.
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Comments

Historically, comments were written to the end of Ufiles simply
using formatted WRITE statements after the Ufile write call
(UF1DWR or UF2DWR).

Since compressed UFILES are binary/unformatted, direct formatted
writes of comments appended to the end of the file after data write
is no longer a reliable programming method.  Instead, use

      CALL UFOPCF(ILUNC,IER)

to open a scratch formatted comments file on unit ILUNC.  Write the
comments on ILUNC.  Then,

      CALL UCSEND(ILUNC,ILUN)

to send the comments in binary form to the binary compressed output 
file on unit ILUN.  UCSEND rewinds ILUNC and uses the USPOOL 
subroutine to copy the comments to the binary output file.  USPOOL 
has been enhanced to support comment output to binary files.

The 16-bit Compressed data write calls generate statistics describing
data (usually negligible) error associated with compression.  These
statistics are appended as comments in the compressed binary 
output file.

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error_flags

Many Ufiles routines have an error return flag, usually called
"ier" or "ierr" and usually the last argument of the subroutine
call.

This flag is set to 0 if the subroutine call is successful.  If 
there is an error, generally a message is written and ier is set
to a value other than zero.

Applications programs should check the return value of ier,
especially at file open time and at data read time, since a 
number of errors can and do occur.

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error_messages

By default the UFILES subroutine library system will write error
messages to SYS$OUTPUT (VMS) or stdout (unix).  If this is attached
to an interactive terminal, the default is also that the user will be 
prompted to acknowledge the error.

Applications programs may choose different UFILES system behaviour
in response to error situations-- e.g. to prevent error messages from
going to SYS$OUTPUT / stdout.

RECOMMENDED ALTERNATIVE:

Application program opens a new file e.g. "ufiles.log" on unit LUNERR.
Then, CALL UFEMSG(-LUNERR)  (note "-" sign) will cause all UFILES
messages to go to the file instead of SYS$OUTPUT / stdout.  Exception:
some system errors at file open time are not under UFILES control.

SECONDARY ALTERNATIVE:
      CALL UFIMSG(0)
      CALL UFEMSG(0)
will suppress SOME BUT NOT ALL messages from the UFILES system.  The
user will NOT be given a chance to acknowledge errors.

These alternatives should be implimented in the initialization phase
of your applications program.

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read_header

The Ufiles routine UFHDCK can be used to read the header of an
existing Ufile.  This can be useful if you want information prior
to committing to an attempt to read the Ufile, in particular:
  (a)  the dimensionality of the Ufile
  (b)  the size of the data array in the Ufile

UFHDCK can only be called AFTER calling UFOPRD to open the
file, but BEFORE calling one of the read routines e.g. UF1DRD or
UF2DRD.

The syntax of the call is:

C  declaration:
      INTEGER INFO(8)

      ....

C  read Ufile header:
      CALL UFHDCK(ILUN,INFO,IER)

This calls the routine UFHDCK:
C--------------------------------------------------------------
C  UFHDCK
C  READ HEADER OF UFILE AND RETURN STATISTICAL INFORMATION
C
      SUBROUTINE UFHDCK(ILUN,INFO,IER)
C
C  INPUT:
C    ILUN -- L.U.N. OF A JUST - OPENED  UFILE
C
C  OUTPUT:
C    INFO -- INFORMATION BLOCK
C    INFO(1)=FILE DIMENSIONALITY
C    INFO(2)=TOTAL # OF WORDS IN DEPENDENT DATA ARRAY
C    INFO(3)=SIZE OF FIRST DIMENSION OF DATA ARRAY
C    INFO(4)=SIZE OF SECOND DIMENSION OF DATA ARRAY (IF APPLICABLE)
C     ...
C    INFO(8)=NUMBER OF SCALARS IN DATA FILE
C
C    IER = 0 IF ROUTINE COMPLETES EXECUTION SUCCESSFULLY

...
UFHDCK rewinds the Ufile after reading the header, so that on exit
the Ufile is ready to be read by UF1DRD, UF2DRD, or whatever Ufile 
read routine is appropriate.
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How_Ufiles_Works

Ufiles maintains the logical equivalent of a table, stored in COMMON 
(include file "UFILES").

This table associates a fortran logical unit number (lun) with 
filename parts stored as character strings -- the `ufsetr' call
establishes this association, which is referred to within Ufiles
code internal documentation as a "channel".  Channels are indexed
by the lun, and all subsequent calls to do with a given channel
use the lun for identification.

Additional table entries track channel status, i.e. whether an actual
file is open on a given channel, what kind of access (read or write),
what format option (ascii, binary, NetCDF, etc.), and whether the data
from an open file has yet been read or written.  

Buffers are maintained for compression of the binary representation of
floating point numbers, and for input/output of binary Ufiles data.

Up to 64 Ufiles channels can be simultaneously defined and independently
maintained within an application.

A word of caution:
Ufiles have not been used on multiprocessors for parallel i/o operations.
Since Ufiles COMMON contains resources which are shared between channels,
parallel i/o operations would probably be unreliable without further 
careful work on the software.

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IDL

Ufiles can be read and written from IDL.

IDL_PATH must contain the location of the readuf.pro and w*duf.pro files.
LD_LIBRARY_PATH must contain the location of libufshr.so

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Read_Ufiles_from_IDL

        IDL> readuf
             lists parameters

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READUF

  NAME:		READUF
 
  PURPOSE:	Read 1,2,or 3d Ufile, and return everything in the file
                arrays are dynamically allocated
 
  Inputs for Files on Disk:
        disk            - ' '
        dir             - directory enclosed in single quotes ' '
        pref            - file prefix, up to 16 characters, enclosed in ' '
        shot            - long integer shot #, 5(TFTR) or 6(PBXM) digits
        ext             - file suffix, enclosed in ' '

  Inputs for Files in MDSplus:
        disk            - mdspath -- e.g. '.INPUTS'
        dir             - Node Name -- e.g. 'CUR'
        pref            - 'MDS+::<server>' --  e.g. 'MDS+::TRANSPGRID.PPPL.GOV'

       >>if in a Tree where mds-pulse# = shot#:
        shot            - mds pulse number (long integer)
        ext             - MDSplus Tree -- e.g. 'TRW_BUDNY'
       >>if in a TRANSP Tree using PPPL shot-to-pulse translation:
        shot            -  long integer shot # "NOT" mds-pulse#
        ext             - '<tree>@<runid>' -- e.g. 'transp_tftr@37065Y01'
       >>if NOT PPPL && shot != pulse
        shot            -  long integer shot # "NOT" mds pulse number
        ext             - '<tree>(<pulse #>)' -- e.g. 'TRANSP01(12345678)'

 
  Outputs:
        shdate          - shot date
        mach            - tokamak device
        ierr            - 0=ok
        nsc             - number of scalars
        scval           - scalar values array
        sclab           - scalar array descriptions
        iproc           - type of
                          data,0=unprocessed,1=avg,2=smth,3=avg&smth
 
        f               - dependent variable array
        x               - first dimension of variable array
        nx              - number of 1st independent variable data pts
        flab            - label of dependent variable
        xlab            - label of 1st independent variable
 
  If 2D or 3D Ufile:
        y               - second dimension of variable array
        ny              - number of 2nd independent variable data pts
        ylab            - label of 2nd independent variable 
  If 3D Ufile:
        z               - third dimension of variable array
        nz              - number of 3nd independent variable data pts
        zlab            - label of 3nd independent variable 
 
 
  NOTE:   comment not implemented
 
  USAGE: (to read S_V765611.Q0T)
        idl> readuf,' ','/u/mydir','S_V7',65611,'Q0T',  $ ;input
             shdate,mach,ierr, $
             nsc,scval,sclab,iproc,f,x,nx,flab,xlab $
             ,y,ny,ylab                                   ;for 2,3D files
             ,z,nz,zlab                                   ;for 3D file
 
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MDSplus_Example

Example to read 1D Ufile from a MDSplus working tree

disk='.inputs'
dir='CUR'
pref='MDS+::TRANSP.PPPL.GOV'
ext='transp_nstx'
shot=1144630102
readuf, disk,dir,pref,shot,ext,shdate,mach,ierr,nsc,scval,sclab, $
        iproc,f,x,nx,flab,xlab

plot,x,f

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Write_Ufiles_from_IDL


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W1DUF

  Write a 1D Ufile
  See W3DUF for Parameters

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W2DUF

  Write  2D Ufile
  See W3DUF for Parameters

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W3DUF

  NAME:		W3DUF
 
  PURPOSE:	Write 3d Ufile
 
  Inputs:
 	disk		- disk name enclosed in single quotes ' '
 	dir		- directory enclosed in ' '
 	pref		- file prefix, up to 16 characters, enclosed in ' '
 	shot		- long integer shot #, 5(TFTR) or 6(NSTX) digits
 	ext		- file suffix, enclosed in ' '
 	nx		- actual # pts in first dimension of F(x,y,z)
 	ny		- actual # pts in second dimension of F(x,y,z)
 	nz		- actual # pts in third dimension of F(x,y,z) 
 	nsc		- # of scalar values
 	f		- 3-dim array, F(x,y,z)
 	x		- 1st independent variable array
 	y		- 2nd independent variable array
 	z		- 3rd independent variable array
 	scval		- scalar values array
 	sclab		- scalar array descriptions = strarr(nsc)
 	iproc		- type of data,0=unprocessed,1=avg,2=smth,3=avg&smth
 	flab		- label of F(x,y,z)
                          First 20 characters -- NAME of F
                          Last  10 characters --  PHYSICAL UNITS of F
 	xlab		- label of 1st dimension of F(x,y,z)
 	ylab		- label of 2nd dimension of F(x,y,z)
 	zlab		- label of 3rd dimension of F(x,y,z)
 	sdate		- shot date
 	mach		- tokamak device
 	comment		- Ufile comment >>>> not implemented <<<<
  Outputs:
 	ierr		- 0=ok
 
  NOTE:   comment not implemented

  USAGE: (to write 3D /u/mydir/s_v765611.qpr)
 	idl> nx = 36
 	idl> ny = 12
 	idl> nz = 4
 	idl> nsc = 2
 	idl> w3duf,' ','/u/mydir','s_v7',65611,'qpr',nx,ny,nz,nsc, $
 	     f,x,y,z,scval,sclab,iproc,flab,xlab,ylab,zlab, $
             sdate,mach,comment,ierr

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D1_Example

Example to create A12345.F1D in working directort - No scalars

time = findgen(100)+1
dflux = cos(time/5)
nsc=0
scval=0
sclab=' '
xlab='Time                  second  '
ylab='Diagm Flx             Wb      '
mach='NSTX'
cmt=' '
iproc=1
nx=n_elements(time)
st=systime(0)
shdate = strmid(st,8,2)+strmid(st,4,3)+'-'+strmid(st,20,4)

w1duf,' ',' ','a',12345,'f1d',nx,nsc,time,dflux,$
scval,sclab,iproc,xlab,ylab,shdate,mach,cmt,ier

print,ier

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D2_Example

Example to create A22222.FOO in $HOME/work/NSTX - 2 scalars

shot=22222
dsk=' '
dir='~/work/NSTX'
pref='A'
ext='FOO'

time = findgen(100)+1
f = findgen(100,5)
y = findgen(5)+1
ntimes=n_elements(time)
ny=n_elements(y)
st=systime(0)
shdate = strmid(st,8,2)+strmid(st,4,3)+'-'+strmid(st,20,4)

mach='NSTX'
cmt='No comment'
ylab='Rmajor               cm       '
xlab='Time                  s       '
iproc=2	; smoothed data
nsc=2
scval=findgen(2)+2
sclab=strarr(2)
sclab[0] = 'value one:           units1   '
sclab[1] = 'value two:           units2   '
flab=      'Te                   eV       '

w2duf,dsk,dir,pref,shot,ext,ntimes,ny,nsc,f,time,y,$
scval,sclab,iproc,$
flab,xlab,ylab,shdate,mach,cmnt,ierr

print,ierr

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D3_Example

Example to create A33333.TEST in $HOME/work/TFTR - No scalars

shot=33333
dsk=' '
dir='~/work/TFTR'
pref='A'
ext='TEST'

time = findgen(10)+1
f = findgen(10,5,3)
y = findgen(5)+1
z = findgen(3)+2
ntimes=n_elements(time)
ny=n_elements(y)
nz=n_elements(z)
shdate='07Aug-2003'
mach='TFTR'
cmt='No comment'
flab='Te                   eV       '
xlab='Time:                 s       '
ylab='Rmajor:              cm       '
zlab='Test:               none      '
iproc=2	; smoothed data
nsc=0
scval=0.
sclab=' '

w3duf,dsk,dir,pref,shot,ext,ntimes,ny,nz,nsc,f,time,y,z,$
scval,sclab,iproc,$
flab,xlab,ylab,zlab,shdate,mach,cmt,ierr

print,ierr



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About this document

This Document was created by hlptohtml

  • Written By:
  • Manish Vachharajani(mvachhar@pppl.gov)