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wgrib2: wgrib for GRIB-2

wgrib2: wgrib for GRIB-2 Utility to study and write grib2 information Newswgrib2 v3.0.2 has been launched (home windows) (three/2021)Newspywgrib2_s been launched for alpha-beta (Linux/MacOS) (wgrib2 v3.0.0, 9/2020) Introduction

wgrib2 is not primary upgrade of wgrib for grib2 information. wgrib can slice and dice grib1 info. wgrib2 is more like four drawers of kitchen utensils as well because the microwave and blender. This kitchen miracle changed into performed via a extra developer pleasant design and the contributions of many individuals. Some functionality include,

  • inventory and browse grib2 files
  • create subsets
  • create regional subsets through cookie cutter or projections
  • export to ieee, textual content, binary, CSV, netcdf and mysql
  • write of new grib2 fields
  • parallel processing through the use of threads (OpenMP)
  • parallel processing by means of stream-primarily based programming
  • fortran, C, and python interfaces
  • OpenMP Configuration

    OpenMP is used to velocity up wgrib2 by way of operating loops over multiple cores. With gcc and icc, OpenMP is on with the aid of default. In customary, you place the variety of threads to be much less or equal to the variety of CPU cores obtainable. constantly I set the quantity to 3 on a quad-core desktop. That leaves one core for unrelated work. So I delivered "export OMP_NUM_THREADS=three" to my .bashrc. I additionally brought "export OMP_WAIT_POLICY=PASSIVE" to my .bashrc to be able to cut back CPU utilization at the price of run time.

    Compiling: NetCDF Configuration

    Wgrib2 can also be configured with (1) no NetCDF aid, (2) NetCDF3 support or (three) NetCDF4 guide. The advantages and drawbacks are,

  • option 1: No NetCDF aid
  • quickly bring together
  • small executable (3.9 MB as of 2014)
  • compile works on 32+ bit machines
  • can not study nor write NetCDF files
  • no library conflicts in wgrib2lib when calling program makes use of netcdf or hdf
  • makefile configuration: USE_NETCDF3=0, USE_NETCDF4=0
  • option 2: NetCDF3 guide (default in makefile)
  • quick assemble
  • modest boost in executable measurement (5.7 MB vs 3.9 MB as of 2014)
  • compile may fail on 32-bit machines
  • library conflict in wgrib2lib when calling software that makes use of netcdf
  • makefile configuration: USE_NETCDF3=1, USE_NETCDF4=0
  • alternative three: NetCDF4 help
  • slow assemble time (hours on an Intel Apollo Lake)
  • 3.5x boost in executable size (13.5 MB vs three.9 MB as of 2014)
  • HDF5-1.10.four: assemble works on RedHat 6 (gcc four.x and intel 17.03)
  • HDF5-1.10.4: collect has failed on Ubuntu and a considerable number of different methods (more moderen gcc)
  • HDF5-1.10.6: compiles on Ubuntu and many different machines
  • HDF5-1.10.6: requires fortran90 compiler
  • HDF5-1.10.6: wgrib2 fails with hdf5 interior error
  • library conflict in wgrib2lib when calling program that use netcdf
  • makefile configuration: USE_NETCDF3=0, USE_NETCDF4=1
  • prompts for downloading netcdf4/hdf5 libraries
  • 1/2019: Debian and Fedora and many others have patches to make hdf5-1.10.4 work (vital for netCDF4). After you down load hdf5-1.10.4, apply the patches. then you may well be in a position to assemble wgrib2 with netCDF4 assist by way of altering the makefile.

    eight/2020: NetCDF4 is still on the unsupported feature listing as a result of lengthy-time period issues with the hdf5 library. if you are willing to trust a protracted-time period archive to a structure that has only 1 implementation, neatly this is your choice.

    there are lots of different programs that may tackle grib and NetCDF4. Use one of those programs in case you want assist.

    Execution: phase Faults

    Wgrib2 is utilized in NCEP operations and via many day by day processing jobs at CPC. Seg-faults are relatively extraordinary to wgrib2. The usual complications are in involving experimental/alpha facets and the following 3 issues.

    The jpeg2000 library (Jasper) may seg-fault with greater grids. This issue became fixed with an Ubuntu/Debian update to Jasper (fall 2015) which was incorporated into wgrib2 v2.0.3. if your copy of wgrib2 is the usage of an extra version of the Jasper library, then your copy of wgrib2 can be vunerable to this problem.

    Wgrib2 can decode grib using g2clib. the usage of the g2clib that changed into not covered with the wgrib2 source code may cause a seg-fault. Wgrib2 had patches to g2clib that have been now not completely incorporated except g2clib v1.four.0. in addition, g2clib can also be compiled either with a 32 or sixty four-bit interface. The default makefile assumes that a 32-bit interface is used on 32-bit processors and a 64-bit interface is used 64-bit processors. Third-events regularly followed NCEP's lead and used a 32-bit interface for 32 and 64 bit machines. Of path, that limits the latest g2clib (8/2020) to 2GB files.

    ultimately, the third problem is a compiler trojan horse and only affects

  • wgrib2 v2.0.four
  • wgrib2 was compiled with OpenMP support
  • number of threads is enhanced than one
  • growing simple packed grib messages
  • all the grid facets are undefined
  • compiled with older models of gcc comparable to 2.4.7
  • This problem appears in gcc 2.four.7's handling of unsigned int looping variables when OpenMP is enabled. The issue is fixed by using gcc 2.5.0.

    There a possible for seg-faults by way of studying using exceptionally crafted png or jpeg2000 compressed grib data. as an example, a couple of days after the release of wgrib2 v2.0.3, the pnglib turned into upgraded to fix a seg-fault when analyzing a especially crafted png file.

    news

    5/6/2021: PNG help is missing for bit depths of 1, 2 and 4.repair has been proven.three/27/2021: AOCC v3.0 requires OpenJPEG for jpeg-2000 aid.The default Jasper library produces empty statistics.unluckily OpenJPEG requires CMake which is unavailable on my work desktop.this is display that I even have some empathy for users with restrictive sys admins.3/01/2021: wgrib2 v3.0.1: the incorrect info were written to the web serversSo the replace is being launched as wgrib2 v3.0.2.

  • changes for wgrib2 v3.0.2
  • verified: gcc/gfortran on Ubuntu 20.04, Redhat 7, SUSE
  • verified: AOCC v2.three (clang, flang) on Ubuntu 20.04
  • tested: nvidia HPD-SDK on Ubuntu 20.04
  • established: icc/ifort on Redhat 7
  • verified: home windows 10 the use of cygwin64
  • notes: Redhat 6 is EOL. moved to Ubuntu 18.04 to 20.04 at domestic
  • 9/30/2020: wgrib2 v3.0.0 is launched.

  • confirmed: gcc/gfortran on Ubuntu (18.04/20.04), Redhat (6/7), SUSE
  • tested: AOCC (clang, flang) on Ubuntu (18.04)
  • proven: icc/ifort on Redhat 7
  • demonstrated: MacOS with a real gcc/gfortran
  • demonstrated: windows 10 the use of cygwin64
  • usage
  • each and every option name corresponds to a subroutine name
  • type wgrib2 to peer primary alternate options
  • stock layout is detailed on command line via alternatives
  • if no "inv" choice is distinct, -s is used
  • joining the construction effort
  • supply code: competencies of C and some grib-2
  • adjustments to present supply code should use the equal licence as the customary code
  • New code (information) have to either be GNU or public area.
  • trojan horse studies are vital
  • Contact wesley.ebisuzaki@noaa.gov
  • Contributions with the aid of
  • Wesley Ebisuzaki: many modules
  • Reinoud Bokhorst: tosubmsg, checksum
  • DWD (Gregor Schee, Daniel Lee and others): AEC compression
  • Jaakko Hyvätti: gribtab
  • John Howard: callable wgrib2
  • Dusan Jovic: staggered grids, proj4 code
  • Kristian Nilssen: netcdf module
  • Karl Pfeiffer: georeferencing
  • Pablo Romero: unix_time
  • Manfred Schwarb: many modules
  • Arlindo da Silva: openGrADS, bbox
  • Niklas Sondell: mysql module
  • Sam Trahan: satellite tables
  • George Trojan: python interface, improvements to wgrib2api
  • Sergey Varlamov: netcdf module improvements, georeferencing updates
  • because of the americans who record the bugs and greater who supply the fixes!
  • Documentation The alternatives Some solutionsSelecting Fields/facts/Message opt for/Ignore via name/level/time/etc
  • -healthy technique facts that suit a posix prolonged common expression
  • -not technique statistics not matching a regular expression
  • -match_inv the stock used by using -fit and -now not
  • -i reads inventory from stdin for checklist choice
  • choose by using quantity (more desirable to use old method)
  • -d dump particular list
  • -for select a range of facts to method (nth message)
  • -for_n select a number of data to method (nth message/submessage)
  • Selective Processing: if options

    After deciding upon the fields to procedure, that you would be able to refine the processing by using the "if" alternatives. With wgrib2 v3.0.0, the IF constitution changed into improved. Scripts that used the older IF constitution nevertheless work; however, the new IF constitution is more convenient to read.

    If viable, it's enhanced to make use of the healthy alternate options than the if alternate options. The -in shape/-not options prevent undesirable information from being processed which saves time over the if options which technique the fields.

    particular person Grid point information
  • -ij print value at grid element (i, j)
  • -ijlat print lat, lon, cost at grid factor (i, j)
  • -ilat print lat, lon, cost of Nth grid point
  • -lon prints the lat-lon, and value of the grid element nearest the targeted lat-lon
  • -max prints the maximum cost
  • -min prints the minimal value
  • -stats prints some records concerning the fields
  • -V verbose stock (shows stats)
  • Regridding, Interpolating to new grids

    Wgrib2 has the capacity to convert grib files from one grid to one more. The conversion makes use of a user-selected interpolation scheme: bilinear (default), bicubic, nearest neighbor, finances, and spectral. The supported grids consist of lat-lon, gaussian, Lambert conformal, polar stereographic, and WMO-defined rotated lat-lon grid. This skill uses the NCEP IPOLATES2 library and is an not obligatory equipment.

    be aware: the interpolation uses scalar and vector interpolation schemes. For the vector quantities the V field have to instantly observe the corresponding U box.

    Exporting facts to other classes
  • -netcdf: write data in netcdf layout
  • -mysql: export records to a mysql database
  • -mysql_speed: export facts to a mysql database
  • -spread: write information for spreadsheets
  • -csv: write in column separated values, yet another one for spreadsheets
  • -textual content: facts in text structure
  • -bin: facts native binary floating point
  • -ieee: information in large endian IEEE format
  • -ijbox: write an oblong grid of records
  • -AAIG: arcinfo ascii grid, GIS
  • For a short listing of options, category "wgrib -h"For a complete listing, classification "wgrib -help all"To look for an option, type "wgrib -aid keyword"Writing grib2 Wgrib2 has adopted the template approach for writing grib. you've got a pattern grib2 message (template), and you regulate the grid point values and metadata to create a new grib message that you should write. here is comparable to how ECMWF's ECCodes writes grib. The other method is to provide many parameters to create a grib message which is used through NCEP's g2 library.
  • from wgrib2 command line
  • from GrADS the use of g2grb.gs
  • fron python the use of write
  • from fortran the use of grb2_write
  • Machines capable of run wgrib2
  • linux: sixty four-bit with IPOLATES
  • Redhat 6 enterprise: basic building device
  • Redhat 7 commercial enterprise
  • Redhat 5 business: remove collect option "-Werror=format-protection" from the makefile. this is a compulsory collect alternative for some distributions and is only a good suggestion. despite the fact, the gcc in RH5 would not aid this alternative.
  • Ubuntu 18.04 and 20.04: sixty four-bit with IPOLATES
  • Ubuntu: AOCC's clang and flang
  • ARM: crucial to be compiled with USE_NETCDF4=1, USE_JASPER=0
  • Redhat linux: 32-bit with IPOLATES, now not demonstrated these days, use netcdf4 as a substitute of netcdf3
  • Mandriva linux (old file)
  • AIX: use makefile, some twiddling with libraries is critical, now not proven currently
  • Solaris, wants gnu make and gcc (historic file)
  • Solaris-10
  • HPUX, wants alterations to makefiles (historic record)
  • home windows: the use of Cygwin equipment produces 32-bit binaries. using netcdf4
  • windows: using Cygwin equipment produces 64-bit binaries
  • windows: compiled MingW (not fresh), Watcom C, icc/ifort
  • home windows/linux subsystem (ubuntu): compiled with gcc/gfortran
  • Intel-based Mac the usage of gcc and gfortran
  • The IPOLATES library has been demonstrated with on AIX fortran, g95, gfortran, ifort, and openf95
  • The makefile works on Redhat and Ubuntu (with essential installed alternatives). For other methods, you may additionally need to modify the makefile. The makefile requires gnu make is a standard version of make. gadget dependencies: 32 vs 64 bit, home windows vs Linux/UNIX

    The wgrib2 supply code is written to be moveable; there aren't any concerns with massive vs little endian or the measurement of the integer as long because it is 32 bits or more. The source code is written to the ANSI/ISO C general, with "optional" aspects that require POSIX or POSIX-2 compiler guide. there was a debate about moving the bottom degree to C99.

    Foe home windows, the cygwin's gcc supports the POSIX general and allows for the average source code to be compiled. For different windows compilers, it's feasible to assemble the code with many of the POSIX extentions became off. usually the grib info are confined to 2GB.

    Wgrib2 will also be compiled for 32-bit programs. youngsters, this characteristic hasn't been validated in years.

    for most home windows sixty four-bit C compilers, "long int" is described as 32 bits. because of this the ISO C random-entry movements is limited to 2GB data. The 64-bit cygwin gcc works the manner it can and is counseled for home windows compilations.

    The leading change between the home windows and linux types is that windows treats binary and text info in a different way. in consequence which you could send a grib or binary statistics to STDOUT in unix/linux and not using a issue. below windows, the results are implementation elegant. additionally, POSIX1 and POSIX2 capabilities may additionally not be supported or may also characteristic in another way. subsequently certain options may additionally work in a different way.

  • equipment changes
  • The highest variety of open info is device based.
  • The highest variety of arguments to wgrib2 can be restrained wgrib2 or by the system.
  • The netcdf conversion is achieved in memory, so the pace is based on the free reminiscence obtainable.
  • Some wgrib2 options deserve to hold a copy of prior to now examine data, so may additionally fail with insufficient memory
  • the accuracy of the trig capabilities depends upon the compiler
  • wgrib2 is continually compiled in quick mode instead of ieee mode.
  • windows stdin and stdout have textual content and binary modes. even if using stdin/stdout for grib data works is compiler/OS stylish.
  • supply Code and Compling pointers

    The wgrib2 source code is written to the POSIX-2 average. facets requiring POSIX2, such as ordinary expressions, can continually be grew to become off within the makefile. The wgrib2 code can also be compiled with 32 or sixty four bit pointers and integers. besides the fact that children, the code needs to be compiled in a like manner for all of the libraries. Some packages are non-compulsory (netcdf, mysql) and enabling these options can really boost the executable dimension.

    while compiling wgrib2, you may additionally see warnings about unknown pragmas. Pragmas are "feedback" that are used when compiling an OpenMP edition of the code. The default is to bring together with OpenMP became on.

    2/2019: The HDF5 library has complications being compiled with more moderen gcc compilers. The handiest consisten formula of including NetCDF4 to wgrib2 is by using historical compilers (RedHat 6) or using the Intel compilers. The work around to enable NetCDF3 assist and use an exterior utility to transform the info to Netcdf4.

    NetCDF3 has issue being compiled on 32-bit machines.

    Wgrib2 from VLAB

    The VLAB/HPC-stack edition of wgrib2 is for use through the NOAA supercomputers and NCEP operations. it's in keeping with the general public unlock edition of wgrib2 but makes use of the CMake build device (requirement of HPC-stack) as a substitute of the makefile construct. (Ironic remark: the CMake construct supports fewer OSes and compilers than the makefile construct.)

    complications with constructing the VLAB edition may still be despatched to the people helping the VLAB/HPC-stack version of wgrib2. problems with building the general public free up version should be sent to wesley.ebisuzaki@noaa.gov. >p> The theoretical skills of VLAB is that it opens up the development of the wgrib2 through the use of git. "Theoretical" is not utilized in a pejorative manner, just that adjustments to wgrib2 have never been enter through git. The present components is for the code submissions be sent to me (wesley.ebisuzaki@noaa.gov), and that i do the code overview and trying out. For most important adjustments, comparable to callable wgrib2, and including python support, on occasion a good deal co-construction is required. OTOH The netcdf turned into in respectable form at first. The plan is preserve the current system of code submissions and to vet the code alterations from VLAB when vital. in my view I consider that the historic formulation is greater for the code since it keeps the design consistent and offers an improved evolution of the code.

    Precompiled code from exterior sites

    there are many websites with precompiled versions of wgrib2. This checklist is neither exhaustive nor an endorsement of the websites. I haven't validated the wgrib2 executables from these sites and YMMV.

    other classes that use wgrib2 (incomplete checklist)
  • g2ctl a handle maker for GraADS
  • atl_g2ctl, alt_gmp option types of g2ctl/gribmap for for GraADS
  • grib-filter/g2subset cgi-bin programs for Nomads (NOAA OperationalModel Archive & Distribution equipment)
  • g2grb.gs permits GrADS to jot down grib2 information
  • rNOMADS R interface for NOAA climate information
  • rNOMADS R interface for NOAA climate facts
  • grb1to2.pl grib1 to grib2 converter
  • wgrib2api, a fortran API for analyzing/writing grib2
  • repute

    The code is being developed on a Redhat linux x86_64 platform in usual (POSIX) C. The wgrib2 source code requires an integer measurement of 32 or greater bits. Incompatibilites tend to be involving problems in compiling of the external libraries (ex. netcdf, jasper).

    exchange logfile

    Bugs

    9/2018: netcdf4 will no longer compile with Ubuntu, upgrade to hdf5 v1.10.4

    11/2016: wgrib2 v2.0.5 AEC library does not collect, improve library supply code

    eight/2015: wgrib2 v2.0.0-v2.0.2 -ieee doesn't work with OpenMP. mounted 2.0.3

    eight/2015: advanced packing: difficulty when developing if grid values are all undefined. fixed 2.0.3

    5/2015: callable wgrib2 and deadly blunders. The error handling code may cause a seg fault on subsequent calls to wgrib2. problem has been fastened v2.0.three

    1/2014: Jasper library trojan horse? Grib data that have significant grids and that are compressed with jpeg-2000 can have problems. Have seen this difficulty in GrADS, wgrib2 and it has been reported in WCT. update: eleven/2016: this issue become fixed by using Debian/Ubuntu edition of the Jasper library blanketed with wgrib2 2.0.3.

    Please record them to wesley.ebisuzaki@noaa.gov. if you happen to file bugs, are trying to make them reproducible on a linux computer and include pattern statistics.

    Distribution

    The source code modules for wgrib2 are either in the public area or below the GNU licence reckoning on the authors of the quite a lot of modules. Wgrib2 makes use of libraries that are within the public area, under a considerable number of GNU licences, the graphic energy JPEG-2000 Public Licence*, libpng licence*, the zlib licence*, the netcdf licence*, HDF5 licence*, MySQL licence* and perhaps others. How about one licence to rule them all?

    * not obligatory equipment


    References


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