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263
ioapi-3.2/Makefile
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263
ioapi-3.2/Makefile
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#.........................................................................
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# VERSION "$Id: Makefile.template 1 2017-06-10 18:05:20Z coats $"
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# EDSS/Models-3 I/O API Version 3.2.
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#.........................................................................
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# COPYRIGHT
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# (C) 1992-2002 MCNC and Carlie J. Coats, Jr., and
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# (C) 2003-2004 by Baron Advanced Meteorological Systems,
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# (C) 2005-2014 Carlie J. Coats, Jr., and
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# (C) 2014- UNC Institute for the Environment
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# Distributed under the GNU Lesser PUBLIC LICENSE version 2.1
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# See file "LGPL.txt" for conditions of use.
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#.........................................................................
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||||||
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# Usage:
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# Either edit this Makefile to un-comment the options you want, or
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# override the options by environment or command-line variables.
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# For example:
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#
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# setenv BIN Linux2_x86_64ifort
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# setenv BASEDIR /wherever/I-ve/un-tarred/the/code
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# setenv CPLMODE nocpl
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# make
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#
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# or:
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#
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# make BIN=Linux2_x86_64pg CPLMODE=pncf INSTALL=/foo/bar
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#
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||||||
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#.........................................................................
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||||||
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# Environment/Command-line Variables:
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||||||
|
#
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||||||
|
# BIN machine/OS/compiler/mode type. Shows up as suffix
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||||||
|
# for "$(IODIR)/Makeinclude.$(BIN)" to determine compilation
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# flags, and in $(OBJDIR) and $(INSTALL) to determine
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# binary directories
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||||||
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#
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||||||
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# INSTALL installation-directory root, used for "make install":
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# "libioapi.a" and the tool executables will be installed
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# in $(INSTALL)/$(BIN)
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#
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||||||
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# LIBINST overrides $(INSTALL)/$(BIN) for libioapi.a
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#
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||||||
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# BININST overrides $(INSTALL)/$(BIN) for M3TOOLS executables
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||||||
|
#.........................................................................
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||||||
|
# Directories:
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||||||
|
#
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||||||
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# $(BASEDIR) is the root directory for the I/O API library source,
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|
# the M3Tools and M3Test source,the HTML documentation,
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|
# and the (machine/compiler/flag-specific) binary
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||||||
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# object/library/executable directories.
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# $(HTMLDIR) is the web documentation
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# $(IODIR) is the I/O API library source
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# $(TOOLDIR) is the "M3TOOLS" source
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# $(OBJDIR) is the current machine/compiler/flag-specific
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||||||
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# build-directory
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# $(INSTALL) installation-directory root, used for "make install":
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# "libioapi.a" and the tool executables will be installed
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|
# in $(INSTALL)/$(BIN) object/library/executable directory
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#.........................................................................
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# Note On Library Versions and configuration:
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#
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||||||
|
# Environment variable "BIN" specifies library version up to
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# link- and compile-flag compatibility. Dependecies upon machine,
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|
# OS, and compiler are found in file "Makeinclude.$(BIN)".
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||||||
|
# Command-line "make BIN=<something>..." overrides environment
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||||||
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# variable "% setenv BIN <something>" which overrides the
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# make-variable default below.
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#
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# IN PARTICULAR, pay attention to the notes for various versions
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# that may be built for Linux x86 with the Portland Group
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# compilers: see comments in $(IODIR)/include 'MAKEINCLUDE'.Linux2_x86pg
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#.........................................................................
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# Special Make-targets
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#
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# configure: "Makefile"s, with the definitions indicated below.
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# all: OBJDIR, FIXDIR, libioapi.a, and executables, with
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# the current mode.
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# lib: OBJDIR, FIXDIR, libioapi.a
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# clean: remove .o's, libioapi.a, and executables from OBJDIR
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# rmexe: remove executables from OBJDIR
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# relink: rebuild executables from OBJDIR
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# install: copy "libioapi.a" and executables to $(INSTDIR)
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# dirs: make OBJDIR and FIXDIR directories
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# fix: FIXDIR and extended-fixed-source INCLUDE-files
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# gtar: GZipped tar-file of the source and docs
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# nametest: test of name-mangling compatibility (requires that
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# libnetcdff.a be manually placed into $(OBJDIR))
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#
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######################################################################
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# ---------- Definitions for "make configure" ------------------
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#
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# VERSIONING DEFINITIONS: the preprocessor definitions in $(IOAPIDEFS)
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# (below) govern I/O API behavior; versions with distinct combinations
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# of these options are NOT library- nor object-compatible and should
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# be built in *distinct* $(OBJDIR)s:
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#
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# Defining IOAPICPL turns on PVM-enabled "coupling mode" and
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# requires "libpvm3.a" for linking.
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#
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# Defining IOAPI_PNCF turns on PnetCDF based distributed I/O
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# and requires libpnetcdf.a and libmpi.a for linking; it should
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# be used only with an MPI-based ${BIN} (e.g., Linux2_x86_64ifortmpi)
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#
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# Defining IOAPI_NCF4 turns on full netCDF-4 interfaces, including
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# support for INTEGER*8 variables and attributes. It requires
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# extra libraries for linking, which can be found by running the
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# commands "nf-config --flibs" and "nc-config --libs"
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#
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# Defining IOAPI_NO_STDOUT suppresses WRITEs to the screen in
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# routines INIT3(), M3MSG2(), M3MESG(), M3PARAG(), and M3ABORT().
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# This also helps control the "double-printed-message" behavior
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# caused by recent SGI compilers.
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#
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# Defining IO_360 creates the 360-day "global climate" version
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# of the library.
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#
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# Defining BIN3_DEBUG turns on trace-messages for native-binary
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# mode routines.
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||||||
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######################################################################
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||||||
|
# ---------- Default/fall-back Definitions --------------------
|
||||||
|
# For POSIX "make", environment variables override these;
|
||||||
|
# variable setting on the command line ("make VAR=VALUE ...")
|
||||||
|
# overrides that.
|
||||||
|
#
|
||||||
|
# GNU "make" DOES NOT FOLLOW POSIX, AND INSTEAD DOES ITS OWN
|
||||||
|
# WRONG-HEADED THING, MAKING IT IMPOSSIBLE TO HAVE DEFAULTS
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|
# THAT ARE THEN OVER-RIDDEN BY THE ENVIRONMENT !!
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#
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# BIN : Use 64-bit gcc/gfortran
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# BASEDIR : source under this current directory
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|
# INSTALL : installation directly under ${HOME}
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# LIBINST : for installation of library
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# BININST : for installation of m3tools executables
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# CPLMODE : nocpl
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# IOAPIDEFS : none (can override for climo-year, etc.
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# PVMINCL : none
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# NCFLIBS : assumes netCDF-4-style separate libs
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#
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#
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# BIN = Linux2_x86_64
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|
# BASEDIR = ${PWD}
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|
# INSTALL = ${HOME}
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# LIBINST = $(INSTALL)/$(BIN)
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# BININST = $(INSTALL)/$(BIN)
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# CPLMODE = nocpl
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# IOAPIDEFS =
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# PVMINCL =
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# NCFLIBS = -lnetcdff -lnetcdf
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#
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# **** Variants ****
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#
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# BASEDIR = ${HOME}/ioapi-3.2 # fall-back to versioned source under this directory
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#
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# CPLMODE = cpl # turn on PVM coupling mode
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# PVMINCL = $(PVM_ROOT)/conf/$(PVM_ARCH).def
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# IOAPIDEFS = "-DIOAPICPL"
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#
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# CPLMODE = pncf # turn on PnetCDF distributed-file mode
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# NCFLIBS = -lpnetcdf -lnetcdff -lnetcdf
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# IOAPIDEFS = "-DIOAPI_PNCF"
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#
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# NCFLIBS = -lnetcdf # Assumes netcdf-3-style unified libs
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# IOAPIDEFS = "-DIOAPI_PNCF"
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#
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# NCFLIBS = -lnetcdff -lnetcdf -lhdf5_hl -lhdf5 -lz # netcdf-4 with HDF but not DAP
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# IOAPIDEFS = "-DIOAPI_NCF4"
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#
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# NCFLIBS = -lpnetcdf -lnetcdff -lnetcdf -lhdf5_hl -lhdf5 -lz # PnetCDF+netcdf-4 with HDF but not DAP
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# IOAPIDEFS = "-DIOAPI_PNCF -DIOAPI_NCF4"
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#
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# NCFLIBS = "-lnetcdff -lnetcdf -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 -lmfhdf -ldf -ljpeg -lm -lz -lcurl -lsz" # all-out netcdf-4
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#
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# NCFLIBS = "`nf-config --flibs` `nc-config --libs`" # general-case netcdf-4 with NetCDF "bin" in ${path}
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#
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# INSTALL = <installation base-directory> -- what GNU "configure" calls "--prefix=..."
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# LIBINST = $(INSTALL)/lib
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# BININST = $(INSTALL)/bin
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|
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# ---------- Edit-command used by "make configure" to customize the "*/Makefile*"
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SEDCMD = \
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-e 's|IOAPI_BASE|$(BASEDIR)|' \
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-e 's|LIBINSTALL|$(LIBINST)|' \
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-e 's|BININSTALL|$(BININST)|' \
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||||||
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-e 's|IOAPI_DEFS|$(IOAPIDEFS)|' \
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||||||
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-e 's|NCFLIBS|$(NCFLIBS)|' \
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-e 's|MAKEINCLUDE|include $(IODIR)/Makeinclude|' \
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-e 's|PVMINCLUDE|include $(PVMINCL)|'
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|
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# ---------- I/O API Build System directory definitions --------
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VERSION = 3.2-${CPLMODE}
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BASEDIR = ${PWD}
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NCFLIBS = -lnetcdff -lnetcdf
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IODIR = $(BASEDIR)/ioapi
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|
FIXDIR = $(IODIR)/fixed_src
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|
HTMLDIR = $(BASEDIR)/HTML
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||||||
|
TOOLDIR = $(BASEDIR)/m3tools
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||||||
|
OBJDIR = $(BASEDIR)/$(BIN)
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||||||
|
|
||||||
|
|
||||||
|
# ---------------------- TOP-LEVEL TARGETS: ------------------
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|
#
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|
all: dirs fix configure
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||||||
|
(cd $(IODIR) ; make BIN=${BIN} all)
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||||||
|
(cd $(TOOLDIR) ; make BIN=${BIN} all)
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||||||
|
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||||||
|
test:
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||||||
|
(cd $(BASEDIR)/tests; ioapitest.csh ${BASEDIR} ${BIN} )
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||||||
|
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||||||
|
configure: ${IODIR}/Makefile ${TOOLDIR}/Makefile
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||||||
|
(cd $(IODIR) ; sed $(SEDCMD) < Makefile.$(CPLMODE).sed > Makefile )
|
||||||
|
(cd $(TOOLDIR) ; sed $(SEDCMD) < Makefile.$(CPLMODE).sed > Makefile )
|
||||||
|
|
||||||
|
bins: dirs
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||||||
|
(cd $(IODIR) ; make bins)
|
||||||
|
(cd $(TOOLDIR) ; make bins)
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||||||
|
|
||||||
|
clean:
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||||||
|
(cd $(IODIR) ; make BIN=${BIN} -i clean)
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||||||
|
(cd $(TOOLDIR) ; make BIN=${BIN} -i clean)
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||||||
|
|
||||||
|
binclean: dirs
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||||||
|
(cd $(IODIR) ; make binclean)
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||||||
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(cd $(TOOLDIR) ; make binclean)
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||||||
|
|
||||||
|
relink:
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||||||
|
(cd $(TOOLDIR) ; make BIN=${BIN} relink)
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||||||
|
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||||||
|
binrelink:
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||||||
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(cd $(TOOLDIR) ; make binrelink)
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||||||
|
|
||||||
|
install: $(LIBINST) $(BININST)
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||||||
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echo "Installing I/O API and M3TOOLS in $(LIBINST) and $(BININST)"
|
||||||
|
(cd $(IODIR) ; make BIN=${BIN} INSTDIR=${LIBINST} install)
|
||||||
|
(cd $(TOOLDIR) ; make BIN=${BIN} INSTDIR=${BININST} install)
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||||||
|
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||||||
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dirs: $(OBJDIR) $(FIXDIR)
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||||||
|
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||||||
|
fix:
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||||||
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(cd $(IODIR) ; make fixed_src)
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||||||
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||||||
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gtar:
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||||||
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cd $(BASEDIR); date > VERSION.txt; \
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||||||
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gtar cvfz ioapi-$(VERSION).tar.gz --dereference -X exclude \
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||||||
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Makefile* *.txt exclude ioapi HTML m3tools tests
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||||||
|
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||||||
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lib: dirs
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||||||
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(cd $(IODIR) ; make all)
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||||||
|
|
||||||
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nametest: lib $(OBJDIR)/libnetcdff.a
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||||||
|
(cd $(IODIR) ; make nametest)
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||||||
|
|
||||||
|
$(FIXDIR):
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||||||
|
mkdir -p $(FIXDIR)
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||||||
|
|
||||||
|
$(OBJDIR):
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||||||
|
mkdir -p $(OBJDIR)
|
||||||
|
|
||||||
|
$(LIBINST): $(INSTALL)
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||||||
|
cd $(INSTALL); mkdir -p $(LIBINST)
|
||||||
|
|
||||||
|
$(BININST): $(INSTALL)
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||||||
|
cd $(INSTALL); mkdir -p $(BININST)
|
||||||
116
ioapi-3.2/ioapi/Makeinclude.Linux2_x86_64ifort
Normal file
116
ioapi-3.2/ioapi/Makeinclude.Linux2_x86_64ifort
Normal file
@@ -0,0 +1,116 @@
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|||||||
|
# Version "$Id: Makeinclude.Linux2_x86_64ifort 1 2017-06-10 18:05:20Z coats $"
|
||||||
|
#
|
||||||
|
# Michael Bane (UManchester UK) reports that for ifort version 9,
|
||||||
|
# -stack_temps -safe_cray_ptr are not supported and that there are
|
||||||
|
# problems with "-unroll" without an unroll-count (bug reported
|
||||||
|
# to Intel)
|
||||||
|
|
||||||
|
AR = ar
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||||||
|
CC = icc
|
||||||
|
CXX = icpc
|
||||||
|
FC = ifort -auto -warn notruncated_source -Bstatic -static-intel
|
||||||
|
M4 = m4
|
||||||
|
LINK = $(CC)
|
||||||
|
|
||||||
|
## Module-include-directory command
|
||||||
|
MODI = -I
|
||||||
|
E132 = -extend-source 132
|
||||||
|
|
||||||
|
# MFLAGS = -traceback # generic
|
||||||
|
# MFLAGS = -traceback -msse4.1 -xSSE4.1 # penryn
|
||||||
|
# MFLAGS = -traceback -mavx2 -xAVX -march=corei7-avx # SandyBridge
|
||||||
|
# MFLAGS = -traceback -mavx -xAVX2 -march=corei7-avx2 # Haswell
|
||||||
|
MFLAGS = -traceback -xHost # this-machine
|
||||||
|
|
||||||
|
OMPFLAGS = -openmp # for Intel compilers, version 15 or earlier
|
||||||
|
OMPLIBS = -openmp
|
||||||
|
# OMPFLAGS = -openmp -qopenmp
|
||||||
|
# OMPLIBS = -openmp -qopenmp -qopenmp-link=static -shared_intel
|
||||||
|
|
||||||
|
COPTFLAGS = -O3 ${MFLAGS}
|
||||||
|
FOPTFLAGS = -O3 -unroll -stack_temps -safe_cray_ptr \
|
||||||
|
-convert big_endian -assume byterecl ${MFLAGS}
|
||||||
|
FPPFLAGS = -DF90=1
|
||||||
|
FSFLAGS = -save
|
||||||
|
ARCHFLAGS = \
|
||||||
|
-DAUTO_ARRAYS=1 \
|
||||||
|
-DF90=1 -DFLDMN=1 \
|
||||||
|
-DFSTR_L=int \
|
||||||
|
-DIOAPI_NO_STDOUT=1 \
|
||||||
|
-DAVOID_FLUSH=1 -DBIT32=1
|
||||||
|
PARFLAGS =
|
||||||
|
ARCHLIB = -Bstatic
|
||||||
|
|
||||||
|
# M4DEFFILE = $(PVM_ROOT)/conf/$(PVM_ARCH).m4
|
||||||
|
# PVMLIBS = -L$(PVM_ROOT)/lib/$(PVM_ARCH) -lpvm3
|
||||||
|
|
||||||
|
PVMLIBS =
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
AR = ar
|
||||||
|
CC = icc
|
||||||
|
CXX = icpc
|
||||||
|
FC = ifort
|
||||||
|
|
||||||
|
M4 = m4
|
||||||
|
LINK = $(FC)
|
||||||
|
|
||||||
|
MODI = -I
|
||||||
|
E132 = -extend-source 132
|
||||||
|
|
||||||
|
# Optimization
|
||||||
|
MFLAGS = -traceback -xHost
|
||||||
|
|
||||||
|
# OpenMP (modern Intel)
|
||||||
|
OMPFLAGS = -qopenmp
|
||||||
|
OMPLIBS = -qopenmp
|
||||||
|
|
||||||
|
# Compiler flags
|
||||||
|
COPTFLAGS = -O3 $(MFLAGS)
|
||||||
|
|
||||||
|
FOPTFLAGS = -O3 -unroll \
|
||||||
|
-convert big_endian -assume byterecl \
|
||||||
|
$(MFLAGS)
|
||||||
|
|
||||||
|
FPPFLAGS = -DF90=1
|
||||||
|
FSFLAGS = -save
|
||||||
|
|
||||||
|
# Architecture flags
|
||||||
|
ARCHFLAGS = \
|
||||||
|
-DAUTO_ARRAYS=1 \
|
||||||
|
-DF90=1 -DFLDMN=1 \
|
||||||
|
-DFSTR_L=int \
|
||||||
|
-DIOAPI_NO_STDOUT=1 \
|
||||||
|
-DAVOID_FLUSH=1
|
||||||
|
|
||||||
|
# MPI + NetCDF (IMPORTANT)
|
||||||
|
PARFLAGS = -DIOAPI_PNCF=1
|
||||||
|
|
||||||
|
# Remove static linking (containers hate this)
|
||||||
|
ARCHLIB =
|
||||||
|
|
||||||
|
# Libraries (you must link these)
|
||||||
|
NETCDFLIB = -L$(NETCDF_LIBDIR) -lnetcdff -lnetcdf
|
||||||
|
MPILIBS = -lmpi
|
||||||
|
|
||||||
|
# Combine
|
||||||
|
LIBS = $(NETCDFLIB) $(MPILIBS) $(OMPLIBS)
|
||||||
|
|
||||||
|
PVMLIBS =
|
||||||
357
skyply.def
Normal file
357
skyply.def
Normal file
@@ -0,0 +1,357 @@
|
|||||||
|
###########################################################################
|
||||||
|
###########################################################################
|
||||||
|
##
|
||||||
|
## Apptainer Build File: Skyply
|
||||||
|
## Function: Fully-integrated Simulation stack for WRF, CMAQ, & SCICHEM
|
||||||
|
##
|
||||||
|
## Documentation:
|
||||||
|
##
|
||||||
|
###########################################################################
|
||||||
|
###########################################################################
|
||||||
|
|
||||||
|
Bootstrap: docker
|
||||||
|
From: rockylinux:9
|
||||||
|
|
||||||
|
%labels
|
||||||
|
Author HPCStack
|
||||||
|
Version 1.0
|
||||||
|
Description "Rocky 9 base with development tools for WRF/CMAQ"
|
||||||
|
|
||||||
|
%environment
|
||||||
|
############################################################
|
||||||
|
## Compiler Settings
|
||||||
|
############################################################
|
||||||
|
|
||||||
|
# Intel Compiler
|
||||||
|
#export CC=icc
|
||||||
|
#export CXX=icpc
|
||||||
|
#export FC=ifort
|
||||||
|
#export F77=ifort
|
||||||
|
|
||||||
|
# GNU Compiler
|
||||||
|
export CC=gcc
|
||||||
|
export CXX=g++
|
||||||
|
export FC=gfortran
|
||||||
|
export F77=gfortran
|
||||||
|
|
||||||
|
############################################################
|
||||||
|
## General
|
||||||
|
############################################################
|
||||||
|
export HPC_PATH=/opt/hpc
|
||||||
|
export MODEL_PATH=/opt/models
|
||||||
|
|
||||||
|
|
||||||
|
############################################################
|
||||||
|
## OpenMPI Settings
|
||||||
|
############################################################
|
||||||
|
export MPI=/opt/hpc/mpi
|
||||||
|
|
||||||
|
|
||||||
|
############################################################
|
||||||
|
## OpenMP Settings
|
||||||
|
############################################################
|
||||||
|
export OMP_NUM_THREADS=1
|
||||||
|
export OMP_PROC_BIND=spread
|
||||||
|
export OMP_PLACES=cores
|
||||||
|
|
||||||
|
|
||||||
|
############################################################
|
||||||
|
## HDF5 Settings
|
||||||
|
############################################################
|
||||||
|
export HDF5=$HPC_PATH/hdf5
|
||||||
|
export PHDF5=$HDF5
|
||||||
|
|
||||||
|
|
||||||
|
############################################################
|
||||||
|
## NetCDF Settings
|
||||||
|
############################################################
|
||||||
|
export NETCDF_INCDIR
|
||||||
|
export NETCDF_LIBDIR
|
||||||
|
export NETCDF=$HPC_PATH/netcdf
|
||||||
|
export NETCDF=$NETCDF
|
||||||
|
|
||||||
|
|
||||||
|
############################################################
|
||||||
|
## IO/API Settings
|
||||||
|
############################################################
|
||||||
|
export MPI_HOME=$HPC_PATH/mpi
|
||||||
|
export IOAPI=$HPC_PATH/ioapi
|
||||||
|
|
||||||
|
|
||||||
|
############################################################
|
||||||
|
## WRF Settings
|
||||||
|
############################################################
|
||||||
|
export WRF_DIR=$MODEL_PATH/wrf
|
||||||
|
export PATH=$MPI_HOME/bin:$NETCDF/bin:$PATH
|
||||||
|
export LD_LIBRARY_PATH=$MPI_HOME/lib:$HDF5/lib:$NETCDF/lib:$IOAPI/lib:$LD_LIBRARY_PATH
|
||||||
|
|
||||||
|
############################################################
|
||||||
|
## WPS Settings
|
||||||
|
############################################################
|
||||||
|
export WPS_DIR=$MODEL_PATH/wps
|
||||||
|
|
||||||
|
############################################################
|
||||||
|
## CMAQ Settings
|
||||||
|
############################################################
|
||||||
|
export CMAQ_DIR=$MODEL_PATH/cmaq
|
||||||
|
|
||||||
|
|
||||||
|
export JASPERLIB=/usr/lib64
|
||||||
|
export JASPERINC=/usr/include
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
%post
|
||||||
|
# Update system and enable CRB repository
|
||||||
|
dnf -y install epel-release
|
||||||
|
dnf config-manager --set-enabled crb
|
||||||
|
dnf -y update
|
||||||
|
|
||||||
|
# Install development packages
|
||||||
|
dnf -y install \
|
||||||
|
gcc gcc-gfortran gcc-c++ \
|
||||||
|
python3 python3-pip \
|
||||||
|
R R-devel \
|
||||||
|
git wget which file time \
|
||||||
|
make cmake automake autoconf libtool \
|
||||||
|
libcurl-devel \
|
||||||
|
tar bzip2 bzip2-devel \
|
||||||
|
perl tcsh csh m4 \
|
||||||
|
jasper jasper-devel \
|
||||||
|
libpng libpng-devel \
|
||||||
|
zlib zlib-devel \
|
||||||
|
libxml2 libxml2-devel \
|
||||||
|
xz xz-devel \
|
||||||
|
zstd \
|
||||||
|
sudo \
|
||||||
|
unzip \
|
||||||
|
diffutils \
|
||||||
|
patch \
|
||||||
|
--allowerasing \
|
||||||
|
&& dnf clean all
|
||||||
|
|
||||||
|
mkdir -p /opt/src /opt/hpc /opt/models
|
||||||
|
|
||||||
|
# -------------------------------------------------
|
||||||
|
# Create non-root user
|
||||||
|
# -------------------------------------------------
|
||||||
|
|
||||||
|
USERNAME="hpcuser"
|
||||||
|
USER_UID=1000
|
||||||
|
USER_GID=1000
|
||||||
|
|
||||||
|
# Create group and user
|
||||||
|
groupadd -g ${USER_GID} ${USERNAME}
|
||||||
|
useradd -m -u ${USER_UID} -g ${USER_GID} -s /bin/bash ${USERNAME}
|
||||||
|
|
||||||
|
# Set password (optional; often not needed for batch jobs)
|
||||||
|
echo "${USERNAME}:password" | chpasswd
|
||||||
|
|
||||||
|
# Give ownership of relevant directories
|
||||||
|
chown -R ${USERNAME}:${USERNAME} /opt/src
|
||||||
|
|
||||||
|
|
||||||
|
%post
|
||||||
|
# -------------------------------------------------
|
||||||
|
# Define package URLs
|
||||||
|
# -------------------------------------------------
|
||||||
|
|
||||||
|
OPENMPI_URL="https://download.open-mpi.org/release/open-mpi/v4.1/openmpi-4.1.6.tar.gz"
|
||||||
|
HDF5_URL="https://support.hdfgroup.org/releases/hdf5/v1_14/v1_14_6/downloads/hdf5-1.14.6.tar.gz"
|
||||||
|
NETCDF_C_URL="https://downloads.unidata.ucar.edu/netcdf-c/4.10.0/netcdf-c-4.10.0.tar.gz"
|
||||||
|
NETCDF_FORTRAN_URL="https://github.com/Unidata/netcdf-fortran/archive/refs/tags/v4.6.2.tar.gz"
|
||||||
|
IOAPI_URL="https://www.cmascenter.org/ioapi/download/ioapi-3.2.tar.gz"
|
||||||
|
WRF_URL="https://github.com/wrf-model/WRF/releases/download/v4.6.0/v4.6.0.tar.gz"
|
||||||
|
WPS_URL="https://github.com/wrf-model/WPS/archive/refs/tags/v4.6.0.tar.gz"
|
||||||
|
|
||||||
|
SRC_DIR="/opt/src"
|
||||||
|
mkdir -p ${SRC_DIR}
|
||||||
|
|
||||||
|
# -------------------------------------------------
|
||||||
|
# Package list (name + URL)
|
||||||
|
# -------------------------------------------------
|
||||||
|
|
||||||
|
packages=(
|
||||||
|
"openmpi:${OPENMPI_URL}"
|
||||||
|
"hdf5:${HDF5_URL}"
|
||||||
|
"netcdf-c:${NETCDF_C_URL}"
|
||||||
|
"netcdf-fortran:${NETCDF_FORTRAN_URL}"
|
||||||
|
"ioapi:${IOAPI_URL}"
|
||||||
|
"wrf:${WRF_URL}"
|
||||||
|
"wps:${WPS_URL}"
|
||||||
|
)
|
||||||
|
|
||||||
|
# -------------------------------------------------
|
||||||
|
# Download loop
|
||||||
|
# -------------------------------------------------
|
||||||
|
|
||||||
|
for pkg in "${packages[@]}"; do
|
||||||
|
NAME="${pkg%%:*}"
|
||||||
|
URL="${pkg#*:}"
|
||||||
|
|
||||||
|
echo "Downloading ${NAME}..."
|
||||||
|
|
||||||
|
mkdir -p ${SRC_DIR}/${NAME}
|
||||||
|
cd ${SRC_DIR}/${NAME}
|
||||||
|
|
||||||
|
wget ${URL}
|
||||||
|
done
|
||||||
|
|
||||||
|
%post
|
||||||
|
|
||||||
|
export HPC_PATH=/opt/hpc
|
||||||
|
export MODEL_PATH=/opt/models
|
||||||
|
|
||||||
|
export MPI_HOME=$HPC_PATH/mpi
|
||||||
|
export HDF5=$HPC_PATH/hdf5
|
||||||
|
export NETCDF=$HPC_PATH/netcdf
|
||||||
|
export IOAPI=$HPC_PATH/ioapi
|
||||||
|
|
||||||
|
export PATH=$MPI_HOME/bin:$NETCDF/bin:$PATH
|
||||||
|
export LD_LIBRARY_PATH=$MPI_HOME/lib:$HDF5/lib:$NETCDF/lib:$LD_LIBRARY_PATH
|
||||||
|
|
||||||
|
# -------------------------------------------------
|
||||||
|
# Build HDF5 (parallel)
|
||||||
|
# -------------------------------------------------
|
||||||
|
cd /opt/src
|
||||||
|
tar -xzf hdf5-1.14.6.tar.gz
|
||||||
|
cd hdf5-1.14.6
|
||||||
|
|
||||||
|
CC=mpicc FC=mpif90 ./configure --prefix=$HDF5 --enable-parallel --enable-fortran
|
||||||
|
make -j$(nproc)
|
||||||
|
make install
|
||||||
|
|
||||||
|
# -------------------------------------------------
|
||||||
|
# Build NetCDF-C
|
||||||
|
# -------------------------------------------------
|
||||||
|
|
||||||
|
cd /opt/src
|
||||||
|
export CC=/opt/hpc/mpi/bin/mpicc
|
||||||
|
export CXX=/opt/hpc/mpi/bin/mpicxx
|
||||||
|
export CPPFLAGS="-I/opt/hpc/hdf5/include"
|
||||||
|
export LDFLAGS="-L/opt/hpc/hdf5/lib"
|
||||||
|
export LD_LIBRARY_PATH=/opt/hpc/hdf5/lib:$LD_LIBRARY_PATH
|
||||||
|
tar -xzf netcdf-c-4.10.0.tar.gz
|
||||||
|
cd netcdf-c-4.10.0
|
||||||
|
|
||||||
|
./configure --prefix=/opt/hpc/netcdf --enable-parallel-tests
|
||||||
|
make -j$(nproc)
|
||||||
|
make install
|
||||||
|
|
||||||
|
# -------------------------------------------------
|
||||||
|
# Build NetCDF-Fortran
|
||||||
|
# -------------------------------------------------
|
||||||
|
cd /opt/src
|
||||||
|
tar -xzf v4.6.2.tar.gz
|
||||||
|
cd netcdf-fortran-4.6.2
|
||||||
|
|
||||||
|
CPPFLAGS="-I$NETCDF/include" \
|
||||||
|
LDFLAGS="-L$NETCDF/lib" \
|
||||||
|
./configure --prefix=$NETCDF --enable-large-files
|
||||||
|
|
||||||
|
make -j$(nproc)
|
||||||
|
make install
|
||||||
|
|
||||||
|
# -------------------------------------------------
|
||||||
|
# Build OpenMPI
|
||||||
|
# -------------------------------------------------
|
||||||
|
cd /opt/src
|
||||||
|
tar -xzf openmpi-4.1.6.tar.gz
|
||||||
|
cd openmpi-4.1.6
|
||||||
|
|
||||||
|
./configure --prefix=$MPI_HOME
|
||||||
|
make -j$(nproc)
|
||||||
|
make install
|
||||||
|
|
||||||
|
# -------------------------------------------------
|
||||||
|
# Install WRF
|
||||||
|
# -------------------------------------------------
|
||||||
|
|
||||||
|
cd /opt/src
|
||||||
|
tar -xzf v4.6.0.tar.gz
|
||||||
|
mv WRFV4.6.0 /opt/models/wrf
|
||||||
|
|
||||||
|
cd /opt/models/wrf
|
||||||
|
|
||||||
|
printf "34\n1\n" | ./configure
|
||||||
|
|
||||||
|
ulimit -s unlimited
|
||||||
|
|
||||||
|
./compile em_real -j $(nproc) 2>&1 | tee compile.log || true
|
||||||
|
|
||||||
|
ls -lh main || true
|
||||||
|
ls -lh run || true
|
||||||
|
|
||||||
|
# -------------------------------------------------
|
||||||
|
# Install WPS
|
||||||
|
# -------------------------------------------------
|
||||||
|
|
||||||
|
cd /opt/src
|
||||||
|
wget https://github.com/wrf-model/WPS/archive/refs/tags/v4.6.0.tar.gz
|
||||||
|
|
||||||
|
# Extract WPS source
|
||||||
|
tar -xzf v4.6.0.tar.gz
|
||||||
|
mv WPS-4.6.0 /opt/models/wps
|
||||||
|
|
||||||
|
cd /opt/models/wps
|
||||||
|
|
||||||
|
# Tell WPS where WRF is installed
|
||||||
|
export WRF_DIR=/opt/models/wrf
|
||||||
|
|
||||||
|
# Configure automatically (choose Linux + gfortran)
|
||||||
|
printf "1\n" | ./configure
|
||||||
|
|
||||||
|
# Compile WPS
|
||||||
|
./compile 2>&1 | tee compile.log || true
|
||||||
|
|
||||||
|
# Verify binaries
|
||||||
|
ls -lh geogrid/src/geogrid.exe || true
|
||||||
|
ls -lh ungrib/src/ungrib.exe || true
|
||||||
|
ls -lh metgrid/src/metgrid.exe || true
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
# -------------------------
|
||||||
|
# Install I/O API
|
||||||
|
# -------------------------
|
||||||
|
git clone https://github.com/cjcoats/ioapi-3.2.git
|
||||||
|
cd ioapi-3.2
|
||||||
|
|
||||||
|
export FC=gfortran
|
||||||
|
export CC=gcc
|
||||||
|
export NETCDF=/usr
|
||||||
|
|
||||||
|
# Configure (Linux2_x86_64gfort is typical)
|
||||||
|
make config
|
||||||
|
# Choose: Linux2_x86_64gfort
|
||||||
|
|
||||||
|
make -j$(nproc)
|
||||||
|
|
||||||
|
echo "export IOAPI=/opt/ioapi-3.2" >> /environment
|
||||||
|
|
||||||
|
|
||||||
|
# -------------------------
|
||||||
|
# Install CMAQ
|
||||||
|
# -------------------------
|
||||||
|
cd /opt
|
||||||
|
git clone https://github.com/USEPA/CMAQ.git
|
||||||
|
cd CMAQ
|
||||||
|
|
||||||
|
# Checkout stable release (optional)
|
||||||
|
# git checkout 5.3.3
|
||||||
|
|
||||||
|
echo "export CMAQ_HOME=/opt/CMAQ" >> /environment
|
||||||
|
|
||||||
|
# CMAQ build scripts expect tcsh
|
||||||
|
echo "CMAQ installed. Build manually via bldit scripts." > /opt/README
|
||||||
|
|
||||||
|
|
||||||
Reference in New Issue
Block a user