CMakeLists.txt

@@ -54,7 +54,7 @@ endif()
 #on multi-configuration generators (Visual Studio, Xcode) define only 2 types: Debug;Release
 #/////////////////////////////////////////////////////////////////////////////////////
 
-set(CMAKE_BUILD_TYPE Debug CACHE STRING "Choose the type of build." FORCE)
+set(CMAKE_BUILD_TYPE Debug CACHE STRING "Choose the type of build.")
 if(CMAKE_CONFIGURATION_TYPES)
   set(CMAKE_CONFIGURATION_TYPES "Debug;Release")
 endif()
@@ -85,11 +85,11 @@ set(find_opt NO_SYSTEM_ENVIRONMENT_PATH)
 #If not found, business as usual
 #//////////////////////////
 
+# NETCDF_ROOT, if found in environment, will be searched after specific command line locations for NETCDF_INCLUDE
+# and NETCDF_LIBRARY
 set(netcdf_root "$ENV{NETCDF_ROOT}")
 if(netcdf_root)
-  set(NETCDF_INCLUDE "${netcdf_root}/include")
-  set(NETCDF_LIBRARY_PATH "${netcdf_root}/lib")
-  message("${color_blue}-- Using user defined netCDF location: ${netcdf_root}${color_reset}")
+  message("${color_blue}-- Using user-defined netCDF root location: ${netcdf_root}${color_reset}")
 endif()
 
 #//////////////////////////
@@ -97,12 +97,19 @@ endif()
 #//////////////////////////
 
 if(NETCDF_INCLUDE)
+  if(EXISTS "${NETCDF_INCLUDE}/netcdf.h")
+    message("-- Using ${NETCDF_INCLUDE}/netcdf.h")
+  else()
+    if(netcdf_root)
+        set(NETCDF_INCLUDE "${netcdf_root}/include")
+    endif()
     if(EXISTS "${NETCDF_INCLUDE}/netcdf.h")
       message("-- Using ${NETCDF_INCLUDE}/netcdf.h")
     else()
       message(FATAL_ERROR "${color_red}netcdf.h not found at ${NETCDF_INCLUDE}${color_reset}")
     endif()
   endif()
+endif()
 
 find_path(NETCDF_INCLUDE netcdf.h ${find_opt})
 if(NOT NETCDF_INCLUDE)
@@ -118,10 +125,14 @@ endif()
 if(NETCDF_LIBRARY)
   if(EXISTS "${NETCDF_LIBRARY}")
     message("-- Using ${NETCDF_LIBRARY}")
+  else()
+    if(netcdf_root)
+        set(NETCDF_LIBRARY_PATH "${netcdf_root}/lib")
     else()
         message(FATAL_ERROR "${color_red}Specified ${NETCDF_LIBRARY} does not exist${color_reset}")
     endif()
   endif()
+endif()
 
 find_library(NETCDF_LIBRARY NAMES netcdf PATHS ${NETCDF_LIBRARY_PATH} NO_DEFAULT_PATH)
 find_library(NETCDF_LIBRARY NAMES netcdf ${find_opt})
@@ -145,12 +156,34 @@ if (has_nc_inq_path)
   message("-- Found nc_inq_path in: " ${NETCDF_LIBRARY})
   add_definitions(-DHAVE_NC_INQ_PATH)
 endif()
+
 check_library_exists(${NETCDF_LIBRARY} nc_inq_format "" has_nc_inq_format)
 if (has_nc_inq_format)
   message("-- Found nc_inq_format in: " ${NETCDF_LIBRARY})
   add_definitions(-DHAVE_NC_INQ_FORMAT)
 endif()
 
+#/////////////////////////////////////////////////////////////////////////////////////
+#netCDF 4.6.0 
+#nc_def_var_filter , has_inq_var_filter, define NC_LIB_VERSION=460 if both found 
+#/////////////////////////////////////////////////////////////////////////////////////
+
+check_library_exists(${NETCDF_LIBRARY} nc_def_var_filter "" has_nc_def_var_filter)
+if (has_nc_def_var_filter)
+  message("-- Found nc_def_var_filter in: " ${NETCDF_LIBRARY})
+  add_definitions(-DHAVE_NC_DEF_VAR_FILTER)
+endif()
+
+check_library_exists(${NETCDF_LIBRARY} nc_inq_var_filter "" has_inq_var_filter)
+if (has_inq_var_filter)
+  message("-- Found has_inq_var_filter in: " ${NETCDF_LIBRARY})
+  add_definitions(-DHAVE_NC_INQ_VAR_FILTER)
+endif()
+
+if (has_nc_def_var_filter AND has_inq_var_filter)
+  add_definitions(-DNC_LIB_VERSION=460)
+endif ()
+
 find_path(path_netcdf_mem_h netcdf_mem.h PATHS ${NETCDF_INCLUDE})
 if (path_netcdf_mem_h)
   message("-- Found netcdf_mem.h in: " ${path_netcdf_mem_h})
@@ -295,24 +328,18 @@ if (MSVC)
     message("-- Using static CRT ${MSVC_USE_STATIC_CRT}")
     foreach(flag_var CMAKE_CXX_FLAGS_DEBUG 
       CMAKE_CXX_FLAGS_RELEASE
-      CMAKE_CXX_FLAGS_MINSIZEREL 
-      CMAKE_CXX_FLAGS_RELWITHDEBINFO
       CMAKE_C_FLAGS_DEBUG 
-      CMAKE_C_FLAGS_RELEASE
-      CMAKE_C_FLAGS_MINSIZEREL 
-      CMAKE_C_FLAGS_RELWITHDEBINFO)
+      CMAKE_C_FLAGS_RELEASE)
     string(REPLACE "/MD" "/MT" ${flag_var} "${${flag_var}}")
     endforeach()
-  endif()
+  endif(MSVC_USE_STATIC_CRT)
 
   #//////////////////////////
   #compile as C++ Code (/TP)
   #//////////////////////////
   
   foreach(flag_var CMAKE_C_FLAGS_DEBUG 
-    CMAKE_C_FLAGS_RELEASE
-    CMAKE_C_FLAGS_MINSIZEREL 
-    CMAKE_C_FLAGS_RELWITHDEBINFO)
+    CMAKE_C_FLAGS_RELEASE)
   set(${flag_var} "/TP ${${flag_var}}")
   endforeach()
 
@@ -474,21 +501,21 @@ add_executable(ncatted src/nco/ncatted.c)
 
 set(ncwa_SOURCES ${ncwa_SOURCES})
 set(ncwa_SOURCES ${ncwa_SOURCES} src/nco/ncwa.c)
-find_package(BISON QUIET)
+# find_package(BISON QUIET)
 find_package(FLEX QUIET) 
-if(BISON_FOUND AND FLEX_FOUND)
+if(FLEX_FOUND)
  add_definitions(-DHAVE_BISON_FLEX)
- message("-- Bison found at ${BISON_EXECUTABLE}")
+ # message("-- Bison found at ${BISON_EXECUTABLE}")
  message("-- Flex found at ${FLEX_EXECUTABLE}")
- BISON_TARGET(nco_parser src/nco/ncap_yacc.y ${CMAKE_CURRENT_BINARY_DIR}/ncap_yacc.c COMPILE_FLAGS "--name-prefix=nco_yy")
+ # BISON_TARGET(nco_parser src/nco/ncap_yacc.y ${CMAKE_CURRENT_BINARY_DIR}/ncap_yacc.c COMPILE_FLAGS "--name-prefix=nco_yy")
  FLEX_TARGET(nco_scanner src/nco/ncap_lex.l ${CMAKE_CURRENT_BINARY_DIR}/ncap_lex.c COMPILE_FLAGS "-Pnco_yy")
- ADD_FLEX_BISON_DEPENDENCY(nco_scanner nco_parser)
+ # ADD_FLEX_BISON_DEPENDENCY(nco_scanner nco_parser)
  include_directories(${CMAKE_CURRENT_BINARY_DIR})
  include_directories(src/nco)
- message("-- Bison/Flex will generate ${BISON_nco_parser_OUTPUTS} ${FLEX_nco_scanner_OUTPUTS}")
- set(ncwa_SOURCES ${ncwa_SOURCES} ${BISON_nco_parser_OUTPUTS} ${FLEX_nco_scanner_OUTPUTS} src/nco/ncap_utl.c)
+ message("-- Flex will generate ${FLEX_nco_scanner_OUTPUTS}")
+ set(ncwa_SOURCES ${ncwa_SOURCES}  ${FLEX_nco_scanner_OUTPUTS} src/nco/ncap_utl.c)
 else()
-  message("${color_magenta}-- Bison/Flex not found${color_reset}")
+  message("${color_magenta}--Flex not found${color_reset}")
 endif()
 add_executable(ncwa ${ncwa_SOURCES})
 
@@ -986,3 +1013,53 @@ if (UNIX)
  file(APPEND ${file_sh} "export PATH=\"${path}\"")
  execute_process(COMMAND chmod a+x ${file_sh} RESULT_VARIABLE res)
 endif()
+
+#//////////////////////////
+# compiler/linker warnings
+#//////////////////////////
+
+if(MSVC)
+add_definitions(-D_CRT_SECURE_NO_WARNINGS)
+add_definitions(-D_CRT_NONSTDC_NO_DEPRECATE)
+set(MSVC_DEVELOPER ON CACHE BOOL "Disable MSVC warnings /wd4267 /wd4244 /wd4477")
+if (MSVC_DEVELOPER)
+  set(CMAKE_C_FLAGS_DEBUG "${CMAKE_C_FLAGS_DEBUG} /wd4267 /wd4244 /wd4477")
+  set(CMAKE_CXX_FLAGS_DEBUG "${CMAKE_CXX_FLAGS_DEBUG} /wd4267 /wd4244 /wd4477")
+  set(CMAKE_C_FLAGS_RELEASE "${CMAKE_C_FLAGS_RELEASE} /wd4267 /wd4244 /wd4477")
+  set(CMAKE_CXX_FLAGS_RELEASE "${CMAKE_CXX_FLAGS_RELEASE} /wd4267 /wd4244 /wd4477")
+endif()
+endif()
+
+#//////////////////////////
+# disable .pdb not found warnings
+#//////////////////////////
+
+
+if (MSVC)
+set_target_properties(ncks PROPERTIES LINK_FLAGS "/ignore:4099")
+set_target_properties(ncbo PROPERTIES LINK_FLAGS "/ignore:4099")
+set_target_properties(ncecat PROPERTIES LINK_FLAGS "/ignore:4099")
+set_target_properties(ncflint PROPERTIES LINK_FLAGS "/ignore:4099")
+set_target_properties(ncpdq PROPERTIES LINK_FLAGS "/ignore:4099")
+set_target_properties(ncra PROPERTIES LINK_FLAGS "/ignore:4099")
+set_target_properties(ncrename PROPERTIES LINK_FLAGS "/ignore:4099")
+set_target_properties(ncatted PROPERTIES LINK_FLAGS "/ignore:4099")
+set_target_properties(ncwa PROPERTIES LINK_FLAGS "/ignore:4099")
+set_target_properties(ncap2 PROPERTIES LINK_FLAGS "/ignore:4099")
+endif (MSVC)
+
+#//////////////////////////
+# use of strcasecmp and strncasecmp
+# UDUNITS2 defines strcasecmp
+#//////////////////////////
+
+if (UDUNITS2_LIBRARY AND UDUNITS2_INCLUDE)
+ set(have_udunits)
+endif()
+
+if (MSVC)
+ if (NOT ${have_udunits})
+   add_definitions(-DNEED_STRCASECMP)
+ endif()
+ add_definitions(-DNEED_STRNCASECMP)
+endif(MSVC)

Makefile.in

@@ -304,8 +304,6 @@ SHELL = @SHELL@
 STRIP = @STRIP@
 UDUNITS2_PATH = @UDUNITS2_PATH@
 VERSION = @VERSION@
-YACC = @YACC@
-YFLAGS = @YFLAGS@
 abs_builddir = @abs_builddir@
 abs_srcdir = @abs_srcdir@
 abs_top_builddir = @abs_top_builddir@

appveyor.yml

@@ -20,15 +20,15 @@ install:
   - cmd: call %CONDA_INSTALL_LOCN%\Scripts\activate.bat
 
   # # Add path, activate `conda` and update conda.
-  - cmd: conda config --set always_yes yes --set changeps1 no --set show_channel_urls true
-  - cmd: conda update conda
-  - cmd: conda config --prepend channels conda-forge
+  - cmd: conda.exe config --set always_yes yes --set changeps1 no --set show_channel_urls true
+  - cmd: conda.exe update conda
+  - cmd: conda.exe config --prepend channels conda-forge
 
   - cmd: set PYTHONUNBUFFERED=1
 
-  - cmd: conda install conda-build
-  - cmd: conda info --all
-  - cmd: conda list
+  - cmd: conda.exe install conda-build
+  - cmd: conda.exe info --all
+  - cmd: conda.exe list
 
 
 # Skip .NET project specific build phase.

bld/Makefile

@@ -15,6 +15,7 @@
 # Machine build parameters
 #                         Source     Method   Packages Compiler
 # aerosol.ess.uci.edu: NCO          Configure All else clang
+# AppVeyor CI        : NCO          CMake     All else MSVC
 # cheyenne.ucar.edu  : NCO          Makefile  All else Intel
 # cooley.alcf.anl.g  : NCO          Configure All else GCC
 # edison.nersc.gov   : NCO          Configure All else Intel
@@ -22,11 +23,10 @@
 # frazil.ess.uci.edu : NCO          Configure All else clang
 # glace.ess.uci.edu  : NCO          CMake     All else GCC
 # grele.ess.uci.edu  : NCO          Makefile  All else GCC
-# katabatic.ess.uci.e: NCO                    All else clang
+# katabatic.ess.uci.e: NCO          CMake     All else clang
 # rhea.ccs.ornl.gov  : NCO          Makefile  All else GCC
-# roulee.ess.uci.edu : NCO + netCDF Makefile  All else GCC
 # skyglow.ess.uci.edu: NCO + netCDF Configure All else GCC
-# travis CI          : NCO          Configure All else gcc,clang,g++
+# Travis CI          : NCO          Configure All else gcc,clang,g++
 
 # Usage (testing):
 # make tst                           # Vanilla regression test
@@ -75,7 +75,7 @@
 # cd ~/nco/bld;ANTLR=/sopt/ifort_icpc/bin/antlr ANTLR_ROOT=/sopt/ifort_icpc SZ_LIB=/sopt/lib UDUNITS_INC=/sopt/include UDUNITS_LIB=/sopt/lib make OMP=Y OPTS=D NETCDF4=Y SZ=Y UDUNITS=N allinone;cd - # greenplanet intel
 # cd ~/nco/bld;ANTLR=/sopt/pgf90_pgcc/bin/antlr ANTLR_ROOT=/sopt/pgf90_pgcc SZ_LIB=/sopt/lib UDUNITS_INC=/sopt/include UDUNITS_LIB=/sopt/lib make OMP=Y OPTS=D NETCDF4=N SZ=Y UDUNITS=N allinone;cd - # greenplanet pgi
 # cd ~/nco/bld;make OMP=Y OPTS=D NETCDF4=N UDUNITS=Y allinone;cd - # pbs
-# cd ~/nco/bld;make OMP=Y OPTS=D NETCDF4=N UDUNITS=Y allinone;cd - # grele
+# cd ~/nco/bld;make OMP=Y OPTS=D UDUNITS=Y UBUNTU_440=Y allinone # grele
 # cd ~/nco/bld;make NETCDF4=N all ncap2;cd - # tephra
 # cd ~/nco/bld;make OMP=Y OPTS=D NETCDF4=N UDUNITS=N allinone;cd - # silt, clay
 # cd ~/nco/bld;NETCDF_INC='/usr/include/netcdf-3' NETCDF_LIB='/usr/lib64' make GSL=N OMP=N OPTS=D NETCDF4=N UDUNITS=N allinone;cd - # snow
@@ -574,8 +574,8 @@ TAGS_FILTER_FILES := .//libnco_tst.c .//libnco_c++_tst.cc ../bld/lex.${NCO_YY_PF
 # TAGS_FILTER_FILES := .//libnco_tst.c .//libnco_c++_tst.cc
 
 # Variables having to do with ncap
-MDL_NCAP_SRC := $(addprefix ${MY_SRC_DIR}/,ncap_yacc.y ncap_lex.l ncap.h) # `make tags' includes these files
-MDL_NCAP_TRG := ncap_yacc.c ncap_yacc.h ncap_lex.c # `make ncap' creates these files
+MDL_NCAP_SRC := $(addprefix ${MY_SRC_DIR}/,ncap_lex.l ncap_utl.h) # `make tags' includes these files
+MDL_NCAP_TRG := ncap_lex.c # `make ncap' creates these files
 MDL_NCAP := $(addprefix ${MY_SRC_DIR}/,${MDL_NCAP_TRG}) # `make distclean' removes these files
 
 # Variables having to do with C++ source and documentation
@@ -656,8 +656,10 @@ CPP_TKN_OS := -DHAVE_REGEX_H -DNCO_HAVE_REGEX_FUNCTIONALITY -DHAVE_GETPAGESIZE -
 CPP_TKN_OS += -DHAVE_NC_INQ_FORMAT
 # Assume netCDF >= 4.3.2
 CPP_TKN_OS += -DHAVE_NC_INQ_PATH
-# Assume netCDF >= 4.4.0
+# Assume netCDF >= 4.4.0, but Ubuntu 4.4.0 (e.g., on grele) fumbled netcdf_mem.h header
+ifndef UBUNTU_440
  CPP_TKN_OS += -DHAVE_NETCDF_MEM_H
+endif # !grele
 # gcc 4.7.3 finally includes strcasestr() in string.h iff _GNU_SOURCE token is defined
 # NB: C++ (or at least g++ 4.7.3) always includes strcasestr()---work around this with tokens in nco_sng_utl.[ch]
 ifneq (${PVM_ARCH},CRAY)
@@ -1681,8 +1683,8 @@ ${MY_BIN_DIR}/mpncra:	${MY_OBJ_DIR}/mpncra.o lib
 	cd ${MY_BIN_DIR}; rm -f mpnces; ln -s -f mpncra mpnces
 	cd ${MY_BIN_DIR}; rm -f mpncrcat; ln -s -f mpncra mpncrcat
 mpncwa:   ${MY_BIN_DIR}/mpncwa
-${MY_BIN_DIR}/mpncwa:	${MY_OBJ_DIR}/mpncwa.o ${MY_OBJ_DIR}/ncap_yacc.o ${MY_OBJ_DIR}/ncap_lex.o ${MY_OBJ_DIR}/ncap_utl.o lib
-	${MPICC} -o $@${BNR_SFX} $<  ${MY_OBJ_DIR}/ncap_yacc.o ${MY_OBJ_DIR}/ncap_lex.o ${MY_OBJ_DIR}/ncap_utl.o ${LDFLAGS}
+${MY_BIN_DIR}/mpncwa:	${MY_OBJ_DIR}/mpncwa.o ${MY_OBJ_DIR}/ncap_lex.o ${MY_OBJ_DIR}/ncap_utl.o lib
+	${MPICC} -o $@${BNR_SFX} $< ${MY_OBJ_DIR}/ncap_lex.o ${MY_OBJ_DIR}/ncap_utl.o ${LDFLAGS}
 	chmod 755 $@${BNR_SFX}
 ncatted:   ${MY_BIN_DIR}/ncatted
 ${MY_BIN_DIR}/ncatted:	${MY_OBJ_DIR}/ncatted.o lib
@@ -1729,11 +1731,11 @@ ${MY_BIN_DIR}/ncrename:	${MY_OBJ_DIR}/ncrename.o lib
 	${CC} -o $@${BNR_SFX} $< ${LDFLAGS}
 	chmod 755 $@${BNR_SFX}
 ncwa:   ${MY_BIN_DIR}/ncwa
-${MY_BIN_DIR}/ncwa:	${MY_OBJ_DIR}/ncwa.o ${MY_OBJ_DIR}/ncap_yacc.o ${MY_OBJ_DIR}/ncap_lex.o ${MY_OBJ_DIR}/ncap_utl.o lib
+${MY_BIN_DIR}/ncwa:	${MY_OBJ_DIR}/ncwa.o ${MY_OBJ_DIR}/ncap_lex.o ${MY_OBJ_DIR}/ncap_utl.o lib
 ifeq (${MSVC},TRUE)
 	${CC} -o $@${BNR_SFX} $< ${LDFLAGS}
 else
-	${CC} -o $@${BNR_SFX} $< ${MY_OBJ_DIR}/ncap_yacc.o ${MY_OBJ_DIR}/ncap_lex.o ${MY_OBJ_DIR}/ncap_utl.o ${LDFLAGS}
+	${CC} -o $@${BNR_SFX} $< ${MY_OBJ_DIR}/ncap_lex.o ${MY_OBJ_DIR}/ncap_utl.o ${LDFLAGS}
 endif
 	chmod 755 $@${BNR_SFX}
 bin: ${MDL_BIN_TRG} ${MDL_BIN_SPT}
@@ -2175,18 +2177,12 @@ ncap : LDFLAGS += -lC
 endif # endif AIX VA Compiler Collection
 endif # endif AIX
 # For some reason, ncap_lex.c is not remade when I expect it to be, so I explicitly remove the object file every time
-ncap:	${MY_OBJ_DIR}/ncap_yacc.o ${MY_OBJ_DIR}/ncap_lex.o ncap_yacc.h ${MY_OBJ_DIR}/ncap.o ${MY_OBJ_DIR}/ncap_utl.o ${libnco}.a
-#        ${YACC} --name-prefix=nco_
-ifneq (${null},$(findstring ${PVM_ARCH},LINUXALPHALINUXAMD64LINUXARMFREEBSDWIN32SGIMP64))
-	${CC} ${CFLAGS} -o ${MY_BIN_DIR}/$@ ${MY_OBJ_DIR}/$@.o ${MY_OBJ_DIR}/ncap_utl.o ${MY_OBJ_DIR}/$@_yacc.o ${MY_OBJ_DIR}/$@_lex.o ${LDFLAGS}
-else	
-	${CC} ${CFLAGS} -o ${MY_BIN_DIR}/$@ ${MY_OBJ_DIR}/$@.o ${MY_OBJ_DIR}/ncap_utl.o ${MY_OBJ_DIR}/$@_yacc.o ${MY_OBJ_DIR}/$@_lex.o -ll -ly ${LDFLAGS}
-endif
-	chmod 755 ${MY_BIN_DIR}/$@${BNR_SFX}
+ncap:	${MY_OBJ_DIR}/ncap_lex.o ${MY_OBJ_DIR}/ncap_utl.o ${libnco}.a
+
 ncap2 :
 	-cd ../src/nco++; ${MAKE} -f Makefile.old DAP=${DAP} DBG=${DBG} GSL=${GSL} MPI=${MPI} NETCDF4=${NETCDF4} OMP=${OMP} OPTS=${OPTS} PNETCDF=${PNETCDF} SZ=${SZ} UDUNITS=${UDUNITS} all
 
-#	/bin/rm -f ${MDL_NCAP} ${MY_OBJ_DIR}/$@_lex.o ${MY_OBJ_DIR}/ncap_yacc.h ${MY_OBJ_DIR}/ncap_yacc.c
+#	/bin/rm -f ${MDL_NCAP} ${MY_OBJ_DIR}/$@_lex.o
 
 # Create dependency files only if they will not be immediately deleted
 INCLUDE_DPN := TRUE

bld/nco.spec

@@ -2,17 +2,17 @@
 # http://cvs.fedoraproject.org/viewvc/devel/nco/nco.spec?view=co
 
 Name:           nco
-Version:        4.7.2
+Version:        4.7.3
 Release:        1%{?dist}
 Summary:        Programs that manipulate netCDF files
 Group:          Applications/Engineering
 License:        GPL3
 URL:            http://nco.sf.net/
 
-# Obtain NCO version 4.7.2-1 tar.gz from Sourceforge using CVS:
+# Obtain NCO version 4.7.3-1 tar.gz from Sourceforge using CVS:
 # cvs -d:pserver:anonymous@nco.cvs.sf.net:/cvsroot/nco login
-# cvs -z3 -d:pserver:anonymous@nco.cvs.sf.net:/cvsroot/nco co -r nco-4.7.2-1 -d nco-%{version} nco
-# tar czf nco-%{version}.tar.gz --exclude='nco-4.7.2/debian*' --exclude='.cvsignore' --exclude=ncap_lex.c --exclude='ncap_yacc.[ch]' ./nco-%{version}
+# cvs -z3 -d:pserver:anonymous@nco.cvs.sf.net:/cvsroot/nco co -r nco-4.7.3-1 -d nco-%{version} nco
+# tar czf nco-%{version}.tar.gz --exclude='nco-4.7.3/debian*' --exclude='.cvsignore' --exclude=ncap_lex.c --exclude='ncap_yacc.[ch]' ./nco-%{version}
 Source0:        nco-%{version}.tar.gz
 #Patch0:		nco_install_C_headers.patch
 #Patch1:         nco_find_udunits-dat.patch
@@ -108,7 +108,10 @@ fi
 # %{_libdir}/libnco++.so
 
 %changelog
-* Thu Jan 21 2018 Charlie Zender <zender@uci.edu> - 4.7.2-1
+* Fri Mar 03 2018 Charlie Zender <zender@uci.edu> - 4.7.3-1
+- new upstream 4.7.3
+
+* Thu Jan 25 2018 Charlie Zender <zender@uci.edu> - 4.7.2-1
 - new upstream 4.7.2
 
 * Thu Dec 21 2017 Charlie Zender <zender@uci.edu> - 4.7.1-1

bld/nco_dst.pl

@@ -5,20 +5,20 @@
 
 # Usage:
 # Export tagged, public versions
-# /usr/bin/scp ${DATA}/nco-4.7.2.tar.gz zender,nco@web.sf.net:/home/project-web/nco/htdocs/src
-
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln nco-4.7.2 # Build, do not release on SF
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --sf nco-4.7.2 # Build, release on SF
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --nst_all nco-4.7.2 # Install, do not build
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --nst_all nco-4.7.2 # Build and install
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_cnt nco-4.7.2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_prs nco-4.7.2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cgd_cnt nco-4.7.2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cray_prs nco-4.7.2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --bbl_cnt nco-4.7.2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --blk_cnt nco-4.7.2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --dat_cnt nco-4.7.2
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --ute_prs nco-4.7.2
+# /usr/bin/scp ${DATA}/nco-4.7.3.tar.gz zender,nco@web.sf.net:/home/project-web/nco/htdocs/src
+
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln nco-4.7.3 # Build, do not release on SF
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --sf nco-4.7.3 # Build, release on SF
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --nst_all nco-4.7.3 # Install, do not build
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --nst_all nco-4.7.3 # Build and install
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_cnt nco-4.7.3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_prs nco-4.7.3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cgd_cnt nco-4.7.3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cray_prs nco-4.7.3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --bbl_cnt nco-4.7.3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --blk_cnt nco-4.7.3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --dat_cnt nco-4.7.3
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --ute_prs nco-4.7.3
 
 # Export daily snapshot
 # ${HOME}/nco/bld/nco_dst.pl --dbg=2 
@@ -256,7 +256,7 @@ if($bld){
 # Set up FTP server
     chdir $dst_pth_pfx or die "$prg_nm: ERROR unable to chdir to $dst_pth_pfx: $!\n"; # $! is system error string
     cmd_prc("$cp_cmd $doc_fl ./$dst_vrs/doc"); # Copy derived documentation to source directory
-    cmd_prc("$tar_cmd cvzf $dst_fl --exclude='nco-4.7.2/debian*' --exclude='.cvsignore' --exclude=ncap_lex.c --exclude=ncap_yacc.[ch] ./$dst_vrs"); # Create gzipped tarfile
+    cmd_prc("$tar_cmd cvzf $dst_fl --exclude='nco-4.7.3/debian*' --exclude='.cvsignore' --exclude=ncap_lex.c --exclude=ncap_yacc.[ch] ./$dst_vrs"); # Create gzipped tarfile
     cmd_prc("$rsh_cmd $www_mch $rm_cmd $www_drc/src/$dst_fl"); # Remove any distribution with same name
     if($dly_snp){cmd_prc("$rsh_cmd $www_mch $rm_cmd -r $www_drc/src/nco-????????.tar.gz");} # Remove previous daily snapshots from WWW server
     cmd_prc("$rcp_cmd $dst_fl $www_mch:$www_drc/src"); # Copy local tarfile to WWW server

bm/NCO_bm.pm

@@ -686,7 +686,7 @@ sub tst_run {
 	    $cmd_lst_cnt++;
 	    if ($dbg_lvl > 2) {
 		print "\ntst_run: test cycle held - hit <Enter> to continue\n";
-		my $wait = <STDIN>;
+		#		my $wait = <STDIN>;
 	    }
 	} # end loop: 	foreach (@cmd_lst)
     } # end of client side 'else'
@@ -910,7 +910,7 @@ sub SS_prepare {
 ####################
 sub failed {
     $failure{$opr_nm}++;
-    $err_sng .= "   ERR: FAILURE in $opr_nm failure: $dsc_sng\n";
+    $err_sng .= "   ERR: FAILED in $opr_nm test: $dsc_sng\n";
     foreach(@cmd_lst) { $err_sng .= "   $_\n";}
     $err_sng .= "   ERR::EXPLAIN: Result: [$cmd_rsl] != Expected: [$nsr_xpc]\n\n" ;
     return;

bm/NCO_rgr.pm

@@ -108,9 +108,10 @@ sub tst_rgr {
     # 440 (for library 4.4.0)
     # 441 (for library 4.4.1.x)
     # 450 (for library 4.5.0)
-    # 451 (for library 4.5.1)
-    # 452 (for library 4.5.2)
-    # 453 (for library 4.5.3)
+    # 451 (for library 4.5.1) (development-only)
+    # 460 (for library 4.6.0.x)
+    # 461 (for library 4.6.1)
+    # 462 (for library 4.6.2)
 
   if($exit_value == 410){print "netCDF version 4.1.x detected\n";}
   if($exit_value == 431){print "netCDF version 4.3.1 detected\n";}
@@ -119,9 +120,10 @@ sub tst_rgr {
   if($exit_value == 440){print "netCDF version 4.4.0 detected\n";}
   if($exit_value == 441){print "netCDF version 4.4.1 detected\n";}
   if($exit_value == 450){print "netCDF version 4.5.0 detected\n";}
-  if($exit_value == 451){print "netCDF version 4.5.1 detected\n";}
-  if($exit_value == 452){print "netCDF version 4.5.2 detected\n";}
-  if($exit_value == 453){print "netCDF version 4.5.3 detected\n";}
+  if($exit_value == 451){print "netCDF version 4.5.1 detected\n";} # development-only
+  if($exit_value == 460){print "netCDF version 4.6.0 detected\n";}
+  if($exit_value == 461){print "netCDF version 4.6.1 detected\n";}
+  if($exit_value == 462){print "netCDF version 4.6.2 detected\n";}
 
   if($exit_value >= 400){$RUN_NETCDF4_TESTS=1;}
   if($exit_value >= 431){$RUN_NETCDF4_TESTS_VERSION_GE_431=1;}
@@ -487,6 +489,18 @@ if($USER eq 'zender'){
     NCO_bm::tst_run(\@tst_cmd);
     $#tst_cmd=0; # Reset array
 
+# ncap2 #17
+   $dsc_sng="Run script to test sort functions";
+    $tst_cmd[0]="ncap2 -h -O $fl_fmt $nco_D_flg -v -S '../data/sort.nco' $in_pth_arg in.nc %tmp_fl_00%";
+    $tst_cmd[1]="ncks -C -H --trd -v nbr_err -s '%d' %tmp_fl_00%";
+    $tst_cmd[2]="0";
+    $tst_cmd[3]="SS_OK";
+    NCO_bm::tst_run(\@tst_cmd);
+    $#tst_cmd=0; # Reset array
+
+
+
+    
     if($dodap eq "FALSE"){
 ####################
 #### ncatted tests #
@@ -1247,7 +1261,7 @@ if($USER eq 'zender'){
     $#tst_cmd=0; # Reset array
 
 #nces #19 (check coordinate variables)
-# ncra -Y ncge -h -O mdl_1.nc ~/foo.nc
+# ncra -Y ncge -h -O ~/nco/data/mdl_1.nc ~/foo.nc
 # ncks -g cesm -v time ~/foo.nc
 # NB: This test succeeds when it fails, i.e., the NCO command fails as it should because the input files do not conform
     $dsc_sng="(Groups) Ensemble record coordinate variables";
@@ -5919,7 +5933,7 @@ if($RUN_NETCDF4_TESTS_VERSION_GE_431){
 #ncrename -O -d lev,z -d lat,y -d lon,x ~/nco/data/in_grp.nc ~/foo.nc
 #ncks -H --trd -s %d -v one ~/foo.nc
 # Check for corruption after simultaneously renaming multiple dimensions in netCDF4 file
-    $dsc_sng="netCDF4: Simultaneously rename multiple dimensions (netCDF bug, will require Unidata to fix in netCDF 4.5.???)";
+    $dsc_sng="netCDF4: Simultaneously rename multiple dimensions (netCDF bug, will require Unidata to fix)";
     $tst_cmd[0]="ncrename -O $fl_fmt $nco_D_flg -d lev,z -d lat,y -d lon,x $in_pth_arg in_grp.nc %tmp_fl_00%";
     $tst_cmd[1]="ncks -H --trd -s %d -v one %tmp_fl_00%";
     $tst_cmd[2]="1";

bm/bm.ncl

+load "bm_lib.ncl"
+
+
+  
+;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;
+;; vars that are in ?????_xps_img.mc 
+;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;
+
+
+; bm_times=new((/9/), float)
+
+
+
+; single plot list
+if(True) then  
+
+  years=(/1,3,5,10,15,20/)
+  years@units="years"
+
+
+  my_list=NewList("fifo")
+
+  bmx=make_benchmark("ctl","-3","-3",(/1.87,2.38,2.92,4.29,5.68,7.08/),"black")
+  ListPush(my_list,bmx)
+
+  ret=xy_benchmarks_plot(my_list,years,"test plot ",1.0,9.0)
+
+  
+
+end if
+
+
+
+
+if (False) then
+
+
+  my_list=NewList("fifo")
+  years=(/1,3,5/)
+  years@units="years"
+
+  ListPush(my_list, make_benchmark("ctl","-6","-6",(/63.74,68.85,74.51/) , "black"))
+  ListPush(my_list, make_benchmark("xpt1", "-6","-7",(/283.23,279.85,278.51/)  ,"red"))
+  ListPush(my_list, make_benchmark( "xpt2","-6", "-7 -L 1", (/346.56,362.56,367.27/)  ,"blue"))
+  ListPush(my_list, make_benchmark("xpt3", "-6", "-7 -L 9", (/643.09,700.14,728.24/)  ,"orange") )
+  ListPush(my_list, make_benchmark("xpt4","-6", "-7 -L 1 --ppc default=3",(/401.07,436.10,431.86/)  ,"green")) 
+  ListPush(my_list, make_benchmark("xpt5", "-6", "-7 --cnk_plc=g2d --cnk_map=nc4",(/355.09,360.92,366.49/) , "grey"))     
+  ListPush(my_list, make_benchmark("xpt6", "-6", "-7 --cnk_plc=g2d --cnk_map=nco",(/332.39,327.01,342.70/) , "orange"))
+  ListPush(my_list, make_benchmark("xpt7", "-6", "-7 --cnk_plc=g2d --cnk_map=rew",(/319.36,317.23,341.30/) , "purple"))
+
+  ret=xy_benchmarks_plot(my_list,years,"ncclimo run times",0.0,0.0)
+
+
+end if  
+
+

bm/bm_lib.ncl

+
+;************************************************
+undef("xy_benchmarks_plot")
+function xy_benchmarks_plot(rfl_img, xaxis, str_title:string, ymin:float, ymax:float)
+local nList, n, data, LineColors, LineThicknesses, res, wks   
+begin
+;
+;************************************************
+;  deal with multiple plots on graph 
+
+
+  nList=ListCount(rfl_img)
+  ; data = new((/nList,dimsizes(rfl_img[0]&years)/),float)
+  data = new((/nList,dimsizes(xaxis)/),float)
+  LineColors=new((/nList/),string)
+  LineThicknesses=new((/nList/),float)
+  Markers=new((/nList/),integer)
+  LineLabelStrings=new((/nList/),string)
+  
+  do n=0,nList-1
+    data(n,:)=rfl_img[n](:) 
+    if( isatt(rfl_img[n],"Color" ) )
+      LineColors(n)=rfl_img[n]@Color
+    else
+      LineColors(n)="blue"
+    end if  
+    
+    LineThicknesses(n)=4.0
+    ; set default to circle   
+    Markers(n)=16
+    LineLabelStrings(n)=rfl_img[n]@xpr_str
+  end do
+
+
+
+str_fname=str_sub_str(str_title," and ","__")
+
+;************************************************
+; plotting parameters
+;************************************************
+
+ if(ymin.eq.ymax) then 
+    ymin = min(data) 
+    ymax = max(data)
+ end if
+
+ wks   = gsn_open_wks ("png",str_fname)        ; send graphics to PNG file
+
+ res                  = True                     ; plot mods desired
+ res@tiMainString     = str_title          ; add title
+ res@tiYAxisString = rfl_img[0]@units 
+
+ ; res@tmXBMode  = "auto"
+ res@trXMinF = min(xaxis)
+ res@trXMaxF = max(xaxis)
+ res@tiXAxisString    = xaxis@units
+ res@tmXBValues=xaxis   
+
+ res@trYMinF     = ymin
+ res@trYMaxF     = ymax*1.06 ; make bound 6% larger than max value - tidy
+ 
+ res@xyLineThicknesses = LineThicknesses
+ ; res@xyLineColors      = (/"blue","red"/)        ; change line color
+ res@xyLineColors      = LineColors
+
+ res@xyMarkLineMode = "MarkLines"               ; Markers *and* lines
+ res@xyMarkers      = Markers   ; different markers
+ ; set marker colors same as line color
+ res@xyMarkerColors := LineColors
+ res@xyDashPattern  = 0                         ; Make curves all solid
+
+ wks@wkWidth =  800
+ wks@wkHeight = 800
+ 
+
+ plot = gsn_csm_xy (wks,xaxis,data,res) ; create plot
+
+;***********************************************
+; legend resources
+;***********************************************
+  lgres                    = True
+  lgres@lgLineColors       = LineColors
+  lgres@lgLineThicknessF   = LineThicknesses
+  lgres@lgItemType         = "Lines"        ; show lines only (default)
+  lgres@lgLabelFontHeightF = .04            ; set the legend label font thickness
+  lgres@lgMonoDashIndex    =  True
+  lgres@lgDashIndex        =  0             ; set all lines solid   
+  lgres@vpWidthF           = 0.15           ; width of legend (NDC)
+  lgres@vpHeightF          = 0.3            ; height of legend (NDC)
+  lgres@lgPerimColor       = "grey"         ; draw the box perimeter in orange
+  lgres@lgPerimThicknessF  = 5.0            ; thicken the box perimeter
+  lbid = gsn_create_legend(wks,nList,LineLabelStrings,lgres)         ; create legend
+
+  amres = True
+  amres@amParallelPosF   = -0.8 	    ; move legend to the right
+  amres@amOrthogonalPosF = -0.8             ; move the legend down
+  ; amres@amZone           = 1
+  ; amres@amSide           =   0 ; NhlLEFT
+  ;amres@amTrackData           =  True
+  ; amres@amDataXF           =  0.0
+  ; amres@amDataYF           =  0.0
+  amres@amJust             =  0 ;NhlTOPLEFT 
+  
+  annoid1 = gsn_add_annotation(plot,lbid,amres)   ; add legend to plot
+
+ draw(plot)   ; Draw base plot.
+ frame(wks)   ; advance frame
+
+ 
+ return 1
+end
+
+
+undef(" make_benchmark")
+function make_benchmark( xpr_str:string, cmd_in_str:string, cmd_out_str:string, bm,  Color:string)
+begin
+  bm@xpr_str=xpr_str
+  bm@cmd_in_str=cmd_in_str
+  bm@cmd_out_str=cmd_out_str
+  bm@Color=Color
+  bm@units="seconds" ; dont think this should be here
+
+  return(bm)   
+end  
+
+
+
+
+
+

bm/cch_clr.sh

+#!/bin/sh
+# Flush and clear the disk caches.
+
+if [ -z "$OSTYPE" ]; then
+    echo "$0: unknown OS type env-var OSTYPE not set"
+    exit 1;
+fi
+
+case "$OSTYPE" in
+    
+  darwin*)
+    purge
+    ;;
+  
+  linux*)
+    echo "$0: about to clear caches for linux"  
+    sync
+    sudo sh -c "echo 3 > /proc/sys/vm/drop_caches"
+    ;;
+	 
+  bsd*)
+    ;;
+  
+  # windoze
+  msys*)
+    ;;
+
+  #default do nothing
+  *)
+    ;;   
+
+esac
+
+exit 0

bm/chunking-times.sh

+#!/bin/bash
+#######################################################################################
+# purpose: benchmark chunking tools nccopy, h5repack ncks 
+# author:  Henry Btowsky
+# date:    28th February 2018
+
+#######################################################################################
+# usage examples
+# chunking-times.sh <tool>  <input-netcdf-file> 
+#
+# chunking-times.sh nccopy cnk-tst-1032-29-35.nc
+# chunking-times.sh ncks foo.nc
+# chunking-times.sh h5repack cnk-tst-1032-29-35.nc
+#######################################################################################
+
+# get time from stderr log
+function ex_time () {    
+  tt_ar=($( cat  "$1" |grep zzz))  
+  tt_el="${tt_ar[0]}"
+  echo $tt_el 
+}
+
+dbg_flg=1
+sim_flag=0
+idx=0
+
+# nccopy or h5repack
+tool="$1" #  
+in_fl="$2"
+out_dir="."
+
+lst_tst="C1 C2 C3 C4"
+
+# lst_tst="C4"
+
+for tst in $lst_tst; do
+
+      case "$tst" in 
+        
+          C1)
+	    info_dbg="C1 test 516x20x25"    
+            cnk=(516 20 25);      
+         ;;     
+
+          C2)
+	    info_dbg="C2 test 64x8x8"    
+            cnk=(64 8 8);      
+         ;;     
+
+          C3)
+	    info_dbg="C2 test 46x6x7"    
+            cnk=(46 6 7);      
+         ;;     
+
+          C4)
+	    info_dbg="C2 test 33x5x6"    
+            cnk=(33 5 6);      
+         ;;     
+
+
+	  
+      esac
+      
+      out_fl="$out_dir/cnk-tst-dbg-${cnk[0]}-${cnk[1]}-${cnk[2]}.nc"          
+      [[ -e "$out_fl" ]]  && rm "$out_fl"
+
+      if [[ $tool = "nccopy" ]]; then
+                 
+          arg_chunks="time/${cnk[0]},y/${cnk[1]},x/${cnk[2]}"
+          exe_cmd="nccopy -k 4 -d0 -c ${arg_chunks} ${in_fl} ${out_fl}"        
+
+      elif [[ $tool = "h5repack" ]]; then
+           
+          arg_chunks="T:CHUNK=${cnk[0]}x${cnk[1]}x${cnk[2]}"
+          exe_cmd="h5repack -l ${arg_chunks} -i ${in_fl} -o ${out_fl}"        
+
+      elif [[ $tool = "ncks" ]]; then
+	  
+	  arg_chunks="--cnk_dmn time,${cnk[0]} --cnk_dmn y,${cnk[1]} --cnk_dmn x,${cnk[2]}"
+          exe_cmd="ncks -O -4 --cnk_plc g3d $arg_chunks  ${in_fl} ${out_fl}"  
+              
+      fi	  
+
+
+
+	
+        # do the deed  - nb zzz is so we can grep stderr
+        [[ $dbg_flg -ne 0 ]] && echo "exe_cmd=$exe_cmd"
+       
+        # delete old climo files
+	# rm "$out_fl"
+        
+        eval "/usr/bin/time --format \" %e zzz\" $exe_cmd 2>my_error_log" 
+        if [[ $? -ne 0 ]]; then   
+          echo "$tool ERROR"
+          cat my_error_log        
+        fi   
+        # extract time from stderr 
+        ts=$(ex_time my_error_log)
+     
+        [[ $dbg_flg -ne 0 ]] && echo  "test  $info_dbg time=$ts"  
+
+        if [[ -n "$ts" ]]; then
+          bm_times[idx]="$ts"
+        fi
+  
+        : $(( idx++ ))  
+
+done
+
+# format times into ncl array
+# e.g (/3.60,4.83,6.07,9.13,12.29,15.34/)
+ncl_sng="(/${bm_times[@]}/)"
+ncl_sng="${ncl_sng// /,}"
+
+echo $ncl_sng
+
+

bm/ncclimo_profile.sh

+#!/bin/bash
+
+# get time from stderr log
+function ex_time () {    
+  tt_ar=($( cat  "$1" |grep zzz))  
+  tt_el="${tt_ar[0]}"
+  echo $tt_el 
+}
+
+dbg_flg=1
+sim_flag=0
+idx=0
+model="cam"
+
+ncclimo_sh="/ccs/home/butowsky/bin/ncclimo"
+in_dir="/lustre/atlas1/cli115/world-shared/mbranst/famipc5_ne120_v0.3_00003-wget-test"
+out_dir="/lustre/atlas/proj-shared/cli115/butowsky/ne120"
+
+
+# lst_tst="B1 B3 B5 B10 B15 B20"
+lst_tst="B1 B3 B5"
+
+# add_opts="-7 -L 7 --cnk_plc=g2d --cnk_map=rew"
+std_opts="$1"
+ext_args="$2"
+
+for tst in $lst_tst; do
+
+      case "$tst" in 
+        
+         B1)     
+           info_dbg="B1 - test a single year "
+	   srt_year=1979
+	   end_year=1979
+          ;;     
+
+         B3)   
+           info_dbg="B3 -  test 3 years"
+	   srt_year=1979
+	   end_year=1981
+          ;;     
+
+      
+         B5)
+           info_dbg="test B5 - test 5 years  "
+	   srt_year=1979
+	   end_year=1983
+          ;;
+                  
+         B10)  
+           info_dbg="test B10 - test 10 years"
+	   srt_year=1979
+	   end_year=1988
+          ;;     
+
+         B15)  
+           info_dbg="test B15 - test 15 years"
+	   srt_year=0000
+	   end_year=0014
+          ;;     
+
+         B20)  
+           info_dbg="test B20 - test 20 years"
+	   srt_year=0000
+	   end_year=0019
+          ;;     
+
+
+         DEBUG)
+	  info_dbg="B1 - test a single year "
+	  exe_cmd="ncclimo -i . -o out_climo/ -c essgcm14 -m $model -s 0000 -e 0000 -a sdc"
+          ;;     
+
+        esac   
+
+        exe_cmd="${ncclimo_sh} -d 1 -p mpi -i $in_dir -o $out_dir -c famipc5_ne120_v0.3_00003 -m $model -s $srt_year -e $end_year -a sdc $std_opts  -n '$ext_args'"
+        # do the deed  - nb zzz is so we can grep stderr
+        [[ $dbg_flg -ne 0 ]] && echo "exe_cmd=$exe_cmd"
+       
+        # delete old climo files
+	rm "${out_dir}/*.nc"
+        
+        eval "/usr/bin/time --format \" %e zzz\" $exe_cmd 2>my_error_log" 
+        if [[ $? -ne 0 ]]; then   
+          echo "NCO ERROR"
+          cat my_error_log        
+        fi   
+        # extract time from stderr 
+        ts=$(ex_time my_error_log)
+     
+        [[ $dbg_flg -ne 0 ]] && echo  "test  $info_dbg time=$ts"  
+
+        if [[ -n "$ts" ]]; then
+          bm_times[idx]="$ts"
+        fi
+  
+        : $(( idx++ ))  
+
+done
+
+# format times into ncl array
+# e.g (/3.60,4.83,6.07,9.13,12.29,15.34/)
+ncl_sng="(/${bm_times[@]}/)"
+ncl_sng="${ncl_sng// /,}"
+
+echo $ncl_sng
+
+

bm/nco_bm.pl

@@ -257,9 +257,8 @@ if ($os_sng =~ /Darwin/){
 	  If you want life to be better, consider installing the GNU coreutils
 	  which will provide an acceptable 'cut'.
 	  
-	  Hit <Enter> to acknowledge your miserable state of cut kharma.
 BADCUT
-        $tmp=<STDIN>;
+#        $tmp=<STDIN>;
 	$gnu_cut=0;
     }
 }
@@ -427,9 +426,9 @@ if(-e "/usr/bin/time" && -x "/usr/bin/time"){
     $tmr_app="time "; # bash builtin or other 'time'-like application (AIX)
 } # endif time
 
-if($dbg_lvl > 1){
+if($dbg_lvl >= 4){
     print "\nAbout to begin requested tests; waiting for keypress to proceed.\n";
-    my $tmp=<STDIN>;
+#    my $tmp=<STDIN>;
 }
 
 # Regression tests

cmake/README.md

@@ -6,7 +6,6 @@ https://github.com/nco/nco
 Do
 
 ```
-clone.bat
 bld.bat
 ```
 
@@ -56,17 +55,17 @@ INCLUDE_DIRECTORIES(${HDF5_HL_INCLUDE_DIR})
 NCO should detect the ZLIB dependency in HDF5 as
 
 ```
--- Looking for H5Z_DEFLATE in I:/nco/cmake/hdf5/build/bin/Debug/libhdf5_D.lib
--- Looking for H5Z_DEFLATE in I:/nco/cmake/hdf5/build/bin/Debug/libhdf5_D.lib - found
+-- Looking for H5Z_DEFLATE in I:/nco/cmake/build/hdf5/build/bin/Debug/libhdf5_D.lib
+-- Looking for H5Z_DEFLATE in I:/nco/cmake/build/hdf5/build/bin/Debug/libhdf5_D.lib - found
 -- ZLIB library is needed...
 ```
 
 the netcdf function detection should be
 
 ```
--- Found netcdf library at: I:/nco/cmake/netcdf-c/build/liblib/Debug/netcdf.lib
--- Looking for nc_inq_path in I:/nco/cmake/netcdf-c/build/liblib/Debug/netcdf.lib
--- Looking for nc_inq_path in I:/nco/cmake/netcdf-c/build/liblib/Debug/netcdf.lib - found
+-- Found netcdf library at: I:/nco/cmake/build/netcdf-c/build/liblib/Debug/netcdf.lib
+-- Looking for nc_inq_path in I:/nco/cmake/build/netcdf-c/build/liblib/Debug/netcdf.lib
+-- Looking for nc_inq_path in I:/nco/cmake/build/netcdf-c/build/liblib/Debug/netcdf.lib - found
 ```
 
 # NCO tests
@@ -124,7 +123,7 @@ edit hdf5-static.vcxproj and add full path of ZLIB and SZIP libraries as depende
 ```
 <Lib>
 <AdditionalOptions>%(AdditionalOptions) /machine:x64</AdditionalOptions>
-<AdditionalDependencies>I:\nco\cmake\zlib\build\Debug\zlibstaticd.lib;I:\nco\cmake\szip\build\bin\Debug\libszip_D.lib</AdditionalDependencies>
+<AdditionalDependencies>E:\nco\cmake\build\zlib\build\Debug\zlibstaticd.lib;E:\nco\cmake\build\szip\build\bin\Debug\libszip_D.lib</AdditionalDependencies>
 </Lib>
 ```
 
@@ -135,7 +134,7 @@ edit netcdf.vcxproj and add full path of HDF5 and curl libraries as dependencies
 ```
 <Lib>
 <AdditionalOptions>%(AdditionalOptions) /machine:x64</AdditionalOptions>
-<AdditionalDependencies>I:\nco\cmake\hdf5\build\bin\Debug\libhdf5_hl_D.lib;I:\nco\cmake\hdf5\build\bin\Debug\libhdf5_D.lib;I:\nco\cmake\curl\builds\libcurl-vc14-x64-debug-static-ipv6-sspi-winssl\lib\libcurl_a_debug.lib;%(AdditionalDependencies)</AdditionalDependencies>
+<AdditionalDependencies>E:\nco\cmake\build\hdf5\build\bin\Debug\libhdf5_hl_D.lib;E:\nco\cmake\build\hdf5\build\bin\Debug\libhdf5_D.lib;E:\nco\cmake\build\curl\builds\libcurl-vc14-x64-debug-static-ipv6-sspi-winssl\lib\libcurl_a_debug.lib;%(AdditionalDependencies)</AdditionalDependencies>
 </Lib>
 ```
 
@@ -145,7 +144,7 @@ edit netcdf.vcxproj and add full path of HDF5 and curl libraries as dependencies
 ```
 git clone https://github.com/Unidata/netcdf-c
 pushd netcdf-c
-git checkout tags/v4.5.0
+git checkout tags/v4.6.0
 popd
 git clone https://github.com/curl/curl
 git clone https://github.com/madler/zlib
@@ -154,7 +153,7 @@ git clone https://github.com/live-clones/hdf5
 git clone https://github.com/Unidata/UDUNITS-2
 git clone https://github.com/libexpat/libexpat
 git clone https://github.com/ampl/gsl
-git clone https://github.com/Distrotech/antlr2
+git clone https://github.com/nco/antlr
 ```
 
 

cmake/bld.bat

@@ -3,10 +3,7 @@
 
 @echo off
 if not defined DevEnvDir (
- echo "%VS140COMNTOOLS%VsDevCmd.bat" 
- call "%VS140COMNTOOLS%VsDevCmd.bat" 
- echo "%VCINSTALLDIR%vcvarsall.bat" amd64
- call "%VCINSTALLDIR%vcvarsall.bat" amd64
+ call "C:\Program Files (x86)\Microsoft Visual Studio 14.0\VC\vcvarsall.bat" x86_amd64
  if errorlevel 1 goto :eof
 )
 
@@ -19,13 +16,99 @@ set MSVC_VERSION="Visual Studio 14 2015 Win64"
 echo using static crt %STATIC_CRT%
 echo using %MSVC_VERSION%
 
-:: replace the character string '\' with '/' needed for cmake
+:: 'git clone' all the dependencies
+:: the build folder is 'build'
+:: git clone https://github.com/Unidata/netcdf-c
+:: git clone https://github.com/curl/curl
+:: git clone https://github.com/madler/zlib
+:: git clone https://github.com/soumagne/szip
+:: git clone https://github.com/live-clones/hdf5
+:: git clone https://github.com/Unidata/UDUNITS-2
+:: git clone https://github.com/libexpat/libexpat
+:: git clone https://github.com/ampl/gsl
+:: git clone https://github.com/nco/antlr2
+
+:: current place
 set root_win=%cd%
-set root=%root_win:\=/%
+set build=%root_win%\build
+
+if not exist %build% (
+ mkdir %build%
+ echo cloning/building in %build%
+) else (
+ echo skipping mkdir %build%
+)
+
+:: change to build place 
+:: replace the character string '\' with '/' needed for cmake
+pushd %build%
+set tmp=%cd%
+set root=%tmp:\=/%
 echo cmake root is %root%
 
+if not exist %build%\netcdf-c (
+ git clone https://github.com/nco/netcdf-c
+ pushd netcdf-c
+ git checkout Branch_v4.6.0
+ popd
+) else (
+ echo skipping netcdf git clone
+)
+
+if not exist %build%\curl (
+ git clone https://github.com/curl/curl
+) else (
+ echo skipping curl git clone
+)
+
+if not exist %build%\zlib (
+ git clone https://github.com/madler/zlib
+) else (
+ echo skipping zlib git clone
+)
+
+if not exist %build%\szip (
+ git clone https://github.com/soumagne/szip
+) else (
+ echo skipping szip git clone
+)
+
+if not exist %build%\hdf5 (
+ git clone https://github.com/live-clones/hdf5
+) else (
+ echo skipping hdf5 git clone
+)
+
+if not exist %build%\UDUNITS-2 (
+ git clone https://github.com/Unidata/UDUNITS-2
+) else (
+ echo skipping UDUNITS-2 git clone
+)
+
+if not exist %build%\libexpat (
+ git clone https://github.com/libexpat/libexpat
+) else (
+ echo skipping libexpat git clone
+)
+
+if not exist %build%\gsl (
+ git clone https://github.com/ampl/gsl
+) else (
+ echo skipping gsl git clone
+)
+
+if not exist %build%\antlr2 (
+ git clone https://github.com/nco/antlr2
+) else (
+ echo skipping antlr2 git clone
+)
+
+:: //////////////////////////////////////////////////////////
+:: zlib
+:: //////////////////////////////////////////////////////////
+
 :build_zlib
-if exist %root_win%\zlib\build\zlib.sln (
+if exist %build%\zlib\build\zlib.sln (
  echo skipping zlib build
  goto build_szip
 ) else (
@@ -37,15 +120,19 @@ if exist %root_win%\zlib\build\zlib.sln (
            -DMSVC_USE_STATIC_CRT=%STATIC_CRT% ^
            -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON ^
            -DBUILD_SHARED_LIBS=OFF
-  msbuild zlib.sln /target:build /property:configuration=debug
-  cp %root%\zlib\build\zconf.h %root%\zlib
+  msbuild zlib.sln /target:build /property:configuration=debug /nologo /verbosity:minimal
+  cp %build%\zlib\build\zconf.h %build%\zlib
   popd
   popd
   if errorlevel 1 goto :eof
 )
 
+:: //////////////////////////////////////////////////////////
+:: szip
+:: //////////////////////////////////////////////////////////
+
 :build_szip
-if exist %root_win%\szip\build\SZIP.sln (
+if exist %build%\szip\build\SZIP.sln (
  echo skipping szip build
  goto build_hdf5
 ) else (
@@ -58,14 +145,18 @@ if exist %root_win%\szip\build\SZIP.sln (
            -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON ^
            -DBUILD_SHARED_LIBS=OFF ^
            -DBUILD_TESTING=OFF
-  msbuild SZIP.sln /target:build /property:configuration=debug
+  msbuild SZIP.sln /target:build /property:configuration=debug /nologo /verbosity:minimal
   popd
   popd
   if errorlevel 1 goto :eof
 )
 
+:: //////////////////////////////////////////////////////////
+:: hdf5
+:: //////////////////////////////////////////////////////////
+
 :build_hdf5
-if exist %root_win%\hdf5\build\bin\Debug\h5dump.exe (
+if exist %build%\hdf5\build\bin\Debug\h5dump.exe (
  echo skipping hdf5 build
  goto build_curl
 ) else (
@@ -90,15 +181,18 @@ if exist %root_win%\hdf5\build\bin\Debug\h5dump.exe (
            -DSZIP_FOUND=ON ^
            -DSZIP_STATIC_LIBRARY:FILEPATH=%root%/szip/build/bin/Debug/libszip_D.lib ^
            -DSZIP_INCLUDE_DIRS:PATH=%root%/szip/src
-  msbuild HDF5.sln /target:build /property:configuration=debug
+  msbuild HDF5.sln /target:build /property:configuration=debug /nologo /verbosity:minimal
   popd
   popd
   if errorlevel 1 goto :eof
 )
 
+:: //////////////////////////////////////////////////////////
+:: curl
+:: //////////////////////////////////////////////////////////
 
 :build_curl
-if exist %root_win%\curl\builds\libcurl-vc14-x64-debug-static-ipv6-sspi-winssl\lib\libcurl_a_debug.lib (
+if exist %build%\curl\builds\libcurl-vc14-x64-debug-static-ipv6-sspi-winssl\lib\libcurl_a_debug.lib (
  echo skipping curl build
  goto build_netcdf
 ) else (
@@ -118,9 +212,12 @@ if exist %root_win%\curl\builds\libcurl-vc14-x64-debug-static-ipv6-sspi-winssl\l
   if errorlevel 1 goto :eof
 )
 
+:: //////////////////////////////////////////////////////////
+:: netcdf
+:: //////////////////////////////////////////////////////////
 
 :build_netcdf
-if exist %root_win%\netcdf-c\build\ncdump\ncdump.exe (
+if exist %build%\netcdf-c\build\ncdump\ncdump.exe (
  echo skipping netcdf build
  goto test_netcdf
 ) else (
@@ -143,7 +240,7 @@ if exist %root_win%\netcdf-c\build\ncdump\ncdump.exe (
            -DHDF5_HL_INCLUDE_DIR=%root%/hdf5/hl/src ^
            -DCURL_LIBRARY=%root%/curl/builds/libcurl-vc14-x64-debug-static-ipv6-sspi-winssl/lib/libcurl_a_debug.lib ^
            -DCURL_INCLUDE_DIR=%root%/curl/include
-  msbuild netcdf.sln /target:build /property:configuration=debug
+  msbuild netcdf.sln /target:build /property:configuration=debug /nologo /verbosity:minimal
   popd
   popd
   if errorlevel 1 goto :eof
@@ -151,17 +248,21 @@ if exist %root_win%\netcdf-c\build\ncdump\ncdump.exe (
 
 
 :test_netcdf
-if exist %root_win%\netcdf-c\build\ncdump\ncdump.exe (
+if exist %build%\netcdf-c\build\ncdump\ncdump.exe (
  echo testing netcdf build
  @echo on
- %root_win%\netcdf-c\build\ncdump\ncdump.exe -k http://www.esrl.noaa.gov/psd/thredds/dodsC/Datasets/cmap/enh/precip.mon.mean.nc
+ %build%\netcdf-c\build\ncdump\ncdump.exe -h http://www.esrl.noaa.gov/psd/thredds/dodsC/Datasets/cmap/enh/precip.mon.mean.nc
  @echo off
  @echo.
  goto build_expat
 )
 
+:: //////////////////////////////////////////////////////////
+:: expat
+:: //////////////////////////////////////////////////////////
+
 :build_expat
-if exist %root_win%\libexpat\expat\build\expat.sln (
+if exist %build%\libexpat\expat\build\expat.sln (
  echo skipping expat build
  goto build_udunits
 ) else (
@@ -175,16 +276,19 @@ if exist %root_win%\libexpat\expat\build\expat.sln (
            -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON ^
            -DBUILD_SHARED_LIBS=OFF ^
            -DBUILD_shared=OFF
-  msbuild expat.sln /target:build /property:configuration=debug
+  msbuild expat.sln /target:build /property:configuration=debug /nologo /verbosity:minimal
   popd
   popd
   popd
   if errorlevel 1 goto :eof
 )
 
+:: //////////////////////////////////////////////////////////
+:: udunits
+:: //////////////////////////////////////////////////////////
 
 :build_udunits
-if exist %root_win%\UDUNITS-2\build\udunits.sln (
+if exist %build%\UDUNITS-2\build\udunits.sln (
  echo skipping udunits build
  goto build_gsl
 ) else (
@@ -198,15 +302,18 @@ if exist %root_win%\UDUNITS-2\build\udunits.sln (
            -DBUILD_SHARED_LIBS=OFF ^
            -DEXPAT_INCLUDE_DIR=%root%/libexpat/expat/lib ^
            -DEXPAT_LIBRARY=%root%/libexpat/expat/build/Debug/expatd.lib
-  msbuild udunits.sln /target:build /property:configuration=debug
+  msbuild udunits.sln /target:build /property:configuration=debug /nologo /verbosity:minimal
   popd
   popd
   if errorlevel 1 goto :eof
 )
 
+:: //////////////////////////////////////////////////////////
+:: gsl
+:: //////////////////////////////////////////////////////////
 
 :build_gsl
-if exist %root_win%\GSL\build\GSL.sln (
+if exist %build%\GSL\build\GSL.sln (
  echo skipping gsl build
  goto build_antlr
 ) else (
@@ -225,14 +332,18 @@ if exist %root_win%\GSL\build\GSL.sln (
            -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON ^
            -DBUILD_SHARED_LIBS=OFF ^
            -DGSL_DISABLE_TESTS=ON
-  msbuild GSL.sln /target:build /property:configuration=debug
+  msbuild GSL.sln /target:build /property:configuration=debug /nologo /verbosity:minimal
   popd
   popd
   if errorlevel 1 goto :eof
 )
 
+:: //////////////////////////////////////////////////////////
+:: antlr
+:: //////////////////////////////////////////////////////////
+
 :build_antlr
-if exist %root_win%\antlr2\lib\cpp\build\Project.sln (
+if exist %build%\antlr2\lib\cpp\build\antlr.sln (
  echo skipping antlr build
  goto build_nco
 ) else (
@@ -246,7 +357,7 @@ if exist %root_win%\antlr2\lib\cpp\build\Project.sln (
            -DMSVC_USE_STATIC_CRT=%STATIC_CRT% ^
            -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON ^
            -DBUILD_SHARED_LIBS=OFF
-  msbuild Project.sln /target:build /property:configuration=debug
+  msbuild antlr.sln /target:build /property:configuration=debug /nologo /verbosity:minimal
   popd
   popd
   popd
@@ -254,18 +365,24 @@ if exist %root_win%\antlr2\lib\cpp\build\Project.sln (
   if errorlevel 1 goto :eof
 )
 
+:: //////////////////////////////////////////////////////////
+:: NCO
+:: use undocumented option -H (location of CMakeLists.txt)
+:: //////////////////////////////////////////////////////////
 
 
 :build_nco
-if exist Debug\ncks.exe (
+if exist %build%\Debug\ncks.exe (
  echo skipping nco build
  goto test_nco
 ) else (
   echo building NCO
   rm -rf CMakeCache.txt CMakeFiles
-  cmake .. -G %MSVC_VERSION% ^
-  -DMSVC_USE_STATIC_CRT=%STATIC_CRT% ^
+  cmake .. -H..\.. ^
+   -G %MSVC_VERSION% ^
+  -DMSVC_DEVELOPER=ON ^
   -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON ^
+  -DMSVC_USE_STATIC_CRT=%STATIC_CRT% ^
   -DNETCDF_INCLUDE:PATH=%root%/netcdf-c/include ^
   -DNETCDF_LIBRARY:FILE=%root%/netcdf-c/build/liblib/Debug/netcdf.lib ^
   -DHDF5_LIBRARY:FILE=%root%/hdf5/build/bin/Debug/libhdf5_D.lib ^
@@ -281,25 +398,27 @@ if exist Debug\ncks.exe (
   -DGSL_CBLAS_LIBRARY:FILE=%root%/gsl/build/Debug/gslcblas.lib ^
   -DANTLR_INCLUDE:PATH=%root%/antlr2/lib/cpp ^
   -DANTLR_LIBRARY:FILE=%root%/antlr2/lib/cpp/build/Debug/antlr.lib 
-  msbuild nco.sln /target:build /property:configuration=debug
+  msbuild nco.sln /target:build /property:configuration=debug /nologo /verbosity:minimal
   if errorlevel 1 goto :eof
 )
 
 :test_nco
+set data=%root_win%\..\data
 @echo on
-%root_win%\netcdf-c\build\ncgen\ncgen.exe -k netCDF-4 -b -o %root_win%\..\data\in_grp.nc %root_win%\..\data\in_grp.cdl
-%root_win%\netcdf-c\build\ncgen\ncgen.exe -k netCDF-4 -b -o %root_win%\..\data\in.nc %root_win%\..\data\in.cdl
-%root_win%\Debug\ncks.exe --jsn_fmt 2 -C -g g10 -v two_dmn_rec_var %root_win%\..\data\in_grp.nc
-%root_win%\Debug\ncks.exe -v lat http://www.esrl.noaa.gov/psd/thredds/dodsC/Datasets/cmap/enh/precip.mon.mean.nc
+%build%\Debug\ncks.exe -v lat http://www.esrl.noaa.gov/psd/thredds/dodsC/Datasets/cmap/enh/precip.mon.mean.nc
+%build%\netcdf-c\build\ncgen\ncgen.exe -k netCDF-4 -b -o %data%\in_grp.nc %data%\in_grp.cdl
+%build%\netcdf-c\build\ncgen\ncgen.exe -k netCDF-4 -b -o %data%\in.nc %data%\in.cdl
+%build%\Debug\ncks.exe --jsn_fmt 2 -C -g g10 -v two_dmn_rec_var %data%\in_grp.nc
 
 :: generate text files in_grp.nc.gen.txt from in_grp.nc and in.nc and use tool FC to compare contents 
 :: with pre-existing in_grp.nc.txt, in.nc.txt, generated in Linux
 :: generation of in_grp.nc.gen.txt must be done in 'data' folder so that paths match
 
-@pushd %root_win%\..\data
-%root_win%\Debug\ncks.exe in_grp.nc > %root_win%\in_grp.nc.gen.txt 
-%root_win%\Debug\ncks.exe in.nc > %root_win%\in.nc.gen.txt 
+@pushd %data%
+%build%\Debug\ncks.exe in_grp.nc > %build%\in_grp.nc.gen.txt 
+%build%\Debug\ncks.exe in.nc > %build%\in.nc.gen.txt 
+@popd
 @popd
-fc in_grp.nc.gen.txt in_grp.nc.txt
-fc in.nc.gen.txt in.nc.txt
+fc %build%\in_grp.nc.gen.txt in_grp.nc.txt
+fc %build%\in.nc.gen.txt in.nc.txt
 echo done
\ No newline at end of file

cmake/build.bat

-cmake .. ^
--DNETCDF_INCLUDE:PATH=I:/grafic_project/netcdf/include ^
--DNETCDF_LIBRARY:FILE=I:/grafic_project/Debug/netcdf.lib ^
--DHDF5_LIBRARY:FILE=I:/grafic_project/Debug/hdf5.1.8.5.patch1.lib ^
--DHDF5_HL_LIBRARY:FILE=I:/grafic_project/Debug/hdf5_hl.1.8.5.patch1.lib ^
--DZLIB_LIBRARY:FILE=I:/grafic_project/Debug/zlib.lib ^
--DSZIP_LIBRARY:FILE=I:/grafic_project/Debug/szlib.lib ^
--DCURL_LIBRARY:FILE=I:/grafic_project/Debug/libcurld.lib ^
--DANTLR_INCLUDE:PATH=I:/antlr-2.7.7/lib/cpp ^
--DANTLR_LIBRARY:FILE=I:/antlr-2.7.7/lib/cpp/debug/antlr.lib ^
--DUDUNITS2_INCLUDE:PATH=I:/udunits2/lib ^
--DUDUNITS2_LIBRARY:FILE=I:/udunits2/build/lib/Debug/udunits2.lib ^
--DEXPAT_LIBRARY:FILE=I:/expat/expat/win32/bin/Debug/libexpatMT.lib ^
--DGSL_INCLUDE:PATH=I:/gsl-1.8/src ^
--DGSL_LIBRARY:FILE=I:/gsl-1.8/src/gsl/1.8/gsl-1.8/VC8/libgsl/Debug-StaticLib/libgsl_d.lib ^
--DGSL_CBLAS_LIBRARY:FILE=I:/gsl-1.8/src/gsl/1.8/gsl-1.8/VC8/libgslcblas/Debug-StaticLib/libgslcblas_d.lib
-msbuild nco.sln /target:build /property:configuration=debug
-
-

cmake/clean.sh

-#!/usr/bin/env bash
-rm -rf CMakeCache.txt CMakeFiles Makefile install_manifest.txt cmake_install.cmake cmake_uninstall.cmake

cmake/clone.bat

-
-git clone https://github.com/Unidata/netcdf-c
-pushd netcdf-c
-git checkout tags/v4.5.0
-popd
-git clone https://github.com/curl/curl
-git clone https://github.com/madler/zlib
-git clone https://github.com/soumagne/szip
-git clone https://github.com/live-clones/hdf5
-git clone https://github.com/Unidata/UDUNITS-2
-git clone https://github.com/libexpat/libexpat
-git clone https://github.com/ampl/gsl
-git clone https://github.com/Distrotech/antlr2
\ No newline at end of file

cmake/dep.bat

-:: cmake build all NCO dependencies obtained with 'git clone' using nmake
-:: Pedro Vicente
-
-@echo off
-@call "%VS140COMNTOOLS%VsDevCmd.bat" amd64
-
-:: replace the character string '\' with '/' needed for cmake
-set temp=%cd%
-set root=%temp:\=/%
-echo root is %root%
-
-pushd zlib
-if exist build\Makefile (
- echo skipping zlib build
- popd
- goto build_hdf5
-) else (
-  echo building zlib
-  mkdir build
-  pushd build
-  cmake .. -G "NMake Makefiles" ^
-           -DCMAKE_BUILD_TYPE=Debug ^
-           -DBUILD_SHARED_LIBS=OFF
-  nmake
-  popd
-  popd
-)
-
-:build_hdf5
-pushd hdf5
-if exist build\Makefile (
- echo skipping hdf5 build
- popd
- goto build_curl
-) else (
-  echo building hdf5
-  mkdir build
-  pushd build
-  cmake .. -G "NMake Makefiles" ^
-           -DCMAKE_BUILD_TYPE=Debug ^
-           -DBUILD_SHARED_LIBS=OFF ^
-           -DBUILD_STATIC_EXECS=ON ^
-           -DBUILD_TESTING=OFF ^
-           -DHDF5_BUILD_EXAMPLES=OFF ^
-           -DHDF5_BUILD_CPP_LIB=OFF
-  nmake
-  popd
-  popd
-)
-
-:build_curl
-pushd curl
-if exist build\Makefile (
- echo skipping curl build
- popd
- goto build_netcdf
-) else (
-  echo building curl
-  mkdir build
-  pushd build
-  cmake .. -G "NMake Makefiles" ^
-           -DCMAKE_BUILD_TYPE=Debug ^
-           -DBUILD_SHARED_LIBS=OFF ^
-           -DBUILD_TESTING=OFF
-  nmake
-  popd
-  popd
-)
-
-:build_netcdf
-pushd netcdf-c
-if exist build\ncdump\ncdump.exe (
- echo skipping netcdf build
- popd
- goto test_netcdf
-) else (
-  echo building netcdf
-  mkdir build
-  pushd build
-  cmake .. -G "NMake Makefiles" ^
-           -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON ^
-           -DENABLE_TESTS=OFF ^
-           -DCMAKE_BUILD_TYPE=Debug ^
-           -DBUILD_SHARED_LIBS=OFF ^
-           -DHDF5_HL_LIBRARY=%root%/hdf5/build/bin/libhdf5_hl_D.lib ^
-           -DHDF5_C_LIBRARY=%root%/hdf5/build/bin/libhdf5_D.lib ^
-           -DHDF5_INCLUDE_DIR=%root%/hdf5/src ^
-           -DZLIB_LIBRARY:FILE=%root%/zlib/build/zlibstaticd.lib ^
-           -DZLIB_INCLUDE_DIR:PATH=%root%/zlib ^
-           -DHAVE_HDF5_H=%root%/hdf5/build ^
-           -DHDF5_HL_INCLUDE_DIR=%root%/hdf5/hl/src ^
-           -DCURL_LIBRARY=%root%/curl/build/lib/libcurl-d_imp.lib ^
-           -DCURL_INCLUDE_DIR=%root%/curl/include
-  nmake
-  popd
-  popd
-)
-
-:test_netcdf
-if exist %root%\netcdf-c\build\ncdump\ncdump.exe (
- echo testing netcdf build
- pushd netcdf-c
- pushd build
- pushd ncdump
- cp %root%\curl\build\lib\libcurl-d.dll %root%\netcdf-c\build\ncdump
- ncdump http://www.esrl.noaa.gov/psd/thredds/dodsC/Datasets/cmap/enh/precip.mon.mean.nc
- popd
- popd
- popd
- goto build_nco
-)
-
-:build_nco
-cmake .. ^
--DCMAKE_VERBOSE_MAKEFILE:BOOL=ON ^
--DMSVC_USE_STATIC_CRT=OFF ^
--DNETCDF_INCLUDE:PATH=%root%/netcdf-c/include ^
--DNETCDF_LIBRARY:FILE=%root%/netcdf-c/build/liblib/netcdf.lib ^
--DHDF5_LIBRARY:FILE=%root%/hdf5/build/bin/libhdf5_D.lib ^
--DHDF5_HL_LIBRARY:FILE=%root%/hdf5/build/bin/libhdf5_hl_D.lib ^
--DZLIB_LIBRARY:FILE=%root%/zlib/build/zlibstaticd.lib ^
--DCURL_LIBRARY:FILE=%root%/curl/build/lib/libcurl-d_imp.lib
\ No newline at end of file