.appveyor.yml

@@ -28,17 +28,16 @@ install:
 
   # Add path, activate `conda` and update conda.
   - cmd: call %CONDA_INSTALL_LOCN%\Scripts\activate.bat
-  - 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 --remove channels defaults --force
-  - cmd: conda.exe config --add channels conda-forge --force
+  - cmd: conda config --set always_yes yes --set changeps1 no --set show_channel_urls true
+  - cmd: conda update conda
+  - cmd: conda config --remove channels defaults --force
+  - cmd: conda config --add channels conda-forge --force
   - cmd: set PYTHONUNBUFFERED=1
 
-  - cmd: conda.exe create --name TEST python=%PY% cmake antlr=2.7.7 curl expat gsl hdf5 libnetcdf udunits2 zlib
-  - cmd: conda activate TEST
+  - cmd: conda info --all
 
-  - cmd: conda.exe info --all
-  - cmd: conda.exe list
+  - cmd: conda create --name TEST python=%PY% cmake antlr=2.7.7 curl expat gsl hdf5 libnetcdf udunits2 zlib
+  - cmd: conda activate TEST
 
 # Skip .NET project specific build phase.
 build: off

CMakeLists.txt

@@ -204,7 +204,7 @@ if (has_nc_open_mem AND path_netcdf_mem_h)
   add_definitions(-DHAVE_NETCDF_MEM_H)
   message("-- NetCDF diskless functionaliy enabled")
 else()
-  message("-- NetCDF diskless functionaliy not available, netcdf_mem.h or nc_open_mem not found")
+  message("-- NetCDF diskless functionaliy not available, netcdf_mem.h or nc_open_mem() not found")
 endif()
 
 #if nc_def_var_filter() is available, nc_inq_path(), nc_inq_format() and has_nc_open_mem() are too
@@ -789,12 +789,17 @@ if (HAVE_STRINGS_H)
   add_definitions(-DHAVE_STRINGS_H)
 endif()
 
-check_include_file(netcdf_meta.h NC_HAVE_META_H)
-if (NC_HAVE_META_H)
+check_include_file(netcdf_meta.h HAVE_NC_META_H)
+if (HAVE_NC_META_H)
   message("-- Found header netcdf_meta.h")
-  add_definitions(-DNC_HAVE_META_H)
+  add_definitions(-DHAVE_NC_META_H)
 endif()
 
+check_include_file(netcdf_mem.h HAVE_NC_MEM_H)
+if (HAVE_NC_MEM_H)
+  message("-- Found header netcdf_mem.h")
+  add_definitions(-DHAVE_NC_MEM_H)
+endif()
 
 #//////////////////////////
 # regex
@@ -947,6 +952,10 @@ if (PATH_TO_NCGEN)
   add_custom_target(data
   COMMENT "${color_green}Creating sample netCDF data files for self-tests in ${PATH_DATA}${color_reset}"
   COMMAND ${PATH_TO_NCGEN} -b -o ${PATH_DATA}/in.nc ${PATH_DATA}/in.cdl
+  COMMAND ${PATH_TO_NCGEN} -b -o ${PATH_DATA}/split.nc ${PATH_DATA}/split.cdl
+  COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/cmip5.nc ${PATH_DATA}/cmip5.cdl
+  COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/in_1.nc ${PATH_DATA}/in_1.cdl
+  COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/in_2.nc ${PATH_DATA}/in_2.cdl
   COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/in_grp.nc ${PATH_DATA}/in_grp.cdl
   COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/in_grp_1.nc ${PATH_DATA}/in_grp_1.cdl
   COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/in_grp_2.nc ${PATH_DATA}/in_grp_2.cdl
@@ -955,13 +964,9 @@ if (PATH_TO_NCGEN)
   COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/in_grp_5.nc ${PATH_DATA}/in_grp_5.cdl
   COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/in_grp_6.nc ${PATH_DATA}/in_grp_6.cdl
   COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/in_grp_7.nc ${PATH_DATA}/in_grp_7.cdl
-  COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/in_1.nc ${PATH_DATA}/in_1.cdl
-  COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/in_2.nc ${PATH_DATA}/in_2.cdl
   COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/mdl_1.nc ${PATH_DATA}/mdl_1.cdl
   COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/mdl_2.nc ${PATH_DATA}/mdl_2.cdl
   COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/mdl_3.nc ${PATH_DATA}/mdl_3.cdl
-  COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/cmip5.nc ${PATH_DATA}/cmip5.cdl
-  COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/split.nc ${PATH_DATA}/split.cdl
   COMMAND ${PATH_TO_NCGEN} -k netCDF-4 -b -o ${PATH_DATA}/obs.nc ${PATH_DATA}/obs.cdl)
 
 #//////////////////////////

bld/Makefile

@@ -3,7 +3,7 @@
 # Purpose: GNU Makefile for NCO module nco
 # Requires GNU Make---AT&T Make chokes on GNU syntax
 
-# Copyright (C) 1994--2018 Charlie Zender
+# Copyright (C) 1994--present Charlie Zender
 # License: GNU General Public License (GPL) Version 3
 # See http://www.gnu.org/copyleft/gpl.html for full license text
 
@@ -1871,6 +1871,8 @@ ${MY_DAT_DIR}/snc.nc: ${MY_DAT_DIR}/snc.cdl
 	-ncgen -k netCDF-4 -b -o $@ $<
 ${MY_DAT_DIR}/snd.nc: ${MY_DAT_DIR}/snd.cdl
 	-ncgen -k netCDF-4 -b -o $@ $<
+${MY_DAT_DIR}/split.nc: ${MY_DAT_DIR}/split.cdl
+	-ncgen -b -o $@ $<
 dataclean: dat_cln
 dat_cln:
 	rm -f ${MDL_DAT}

bld/nco.spec

@@ -2,17 +2,17 @@
 # http://cvs.fedoraproject.org/viewvc/devel/nco/nco.spec?view=co
 
 Name:           nco
-Version:        4.7.8
+Version:        4.7.9
 Release:        1%{?dist}
 Summary:        Programs that manipulate netCDF files
 Group:          Applications/Engineering
 License:        GPL3
 URL:            http://nco.sf.net/
 
-# Obtain NCO version 4.7.8-1 tar.gz from Sourceforge using CVS:
+# Obtain NCO version 4.7.9-1 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-4.7.8-1 -d nco-%{version} nco
-# tar czf nco-%{version}.tar.gz --exclude='nco-4.7.8/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-4.7.9-1 -d nco-%{version} nco
+# tar czf nco-%{version}.tar.gz --exclude='nco-4.7.9/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
@@ -108,6 +108,9 @@ fi
 # %{_libdir}/libnco++.so
 
 %changelog
+* Thu Feb 20 2019 Charlie Zender <zender@uci.edu> - 4.7.9-1
+- new upstream 4.7.9
+
 * Fri Nov 16 2018 Charlie Zender <zender@uci.edu> - 4.7.8-1
 - new upstream 4.7.8
 

bld/nco_dst.pl

@@ -5,20 +5,20 @@
 
 # Usage:
 # Export tagged, public versions
-# /usr/bin/scp ${DATA}/nco-4.7.8.tar.gz zender,nco@web.sf.net:/home/project-web/nco/htdocs/src
-
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln nco-4.7.8 # Build, do not release on SF
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --sf nco-4.7.8 # Build, release on SF
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --nst_all nco-4.7.8 # Install, do not build
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --nst_all nco-4.7.8 # Build and install
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_cnt nco-4.7.8
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_prs nco-4.7.8
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cgd_cnt nco-4.7.8
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cray_prs nco-4.7.8
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --bbl_cnt nco-4.7.8
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --blk_cnt nco-4.7.8
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --dat_cnt nco-4.7.8
-# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --ute_prs nco-4.7.8
+# /usr/bin/scp ${DATA}/nco-4.7.9.tar.gz zender,nco@web.sf.net:/home/project-web/nco/htdocs/src
+
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln nco-4.7.9 # Build, do not release on SF
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --sf nco-4.7.9 # Build, release on SF
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --nst_all nco-4.7.9 # Install, do not build
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --bld --cln --nst_all nco-4.7.9 # Build and install
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_cnt nco-4.7.9
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --acd_prs nco-4.7.9
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cgd_cnt nco-4.7.9
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --cray_prs nco-4.7.9
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --bbl_cnt nco-4.7.9
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --blk_cnt nco-4.7.9
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --dat_cnt nco-4.7.9
+# ${HOME}/nco/bld/nco_dst.pl --dbg=2 --cln --ute_prs nco-4.7.9
 
 # 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 $dst_fl --exclude='nco-4.7.8/debian*' --exclude='.cvsignore' --exclude=ncap_lex.c --exclude=ncap_yacc.[ch] ./$dst_vrs"); # Create gzipped tarfile
+    cmd_prc("$tar_cmd cvzf $dst_fl --exclude='nco-4.7.9/debian*' --exclude='.cvsignore' --exclude=ncap_lex.c --exclude=ncap_yacc.[ch] ./$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

@@ -136,7 +136,7 @@ appending history to file.
 This script is part of the netCDF Operators package:
 http://nco.sf.net
 
-Copyright 1995--2018 Charlie Zender
+Copyright 1995--present Charlie Zender
 
 USAGE
 exit(0);

bm/NCO_rgr.pm

@@ -4035,7 +4035,6 @@ if($RUN_NETCDF4_TESTS_VERSION_GE_431){
     NCO_bm::tst_run(\@tst_cmd);
     $#tst_cmd=0; # Reset array
 
-
 #ncrcat #22	
 
     $tst_cmd[0]="ncap2 -h -O $fl_fmt $nco_D_flg -v -s 'time\@units=\"hours since 1970-01-01\"' $in_pth_arg in.nc %tmp_fl_00%";
@@ -4697,6 +4696,18 @@ if(0){
     NCO_bm::tst_run(\@tst_cmd);
     $#tst_cmd=0; # Reset array 	
 
+# ncra #40
+# Test SSC MRO running averages
+# ncra -O -C --mro -v one_dmn_rec_var_flt -d time,0,,2,2 ~/nco/data/in.nc ~/foo.nc
+# ncks -C -H --trd -s '%g, ' -v one_dmn_rec_var_flt ~/foo.nc
+    $dsc_sng="Test SSC MRO running average";
+    $tst_cmd[0]="ncra -h -O $fl_fmt $nco_D_flg -C --mro -d time,0,,2,2 -v one_dmn_rec_var_flt $in_pth_arg in.nc %tmp_fl_00%";
+    $tst_cmd[1]="ncks -C -H --trd -s '%g, ' -v one_dmn_rec_var_flt %tmp_fl_00%";
+    $tst_cmd[2]="1.5, 3.5, 5.5, 7.5, 9.5,";
+    $tst_cmd[3]="SS_OK";   
+    NCO_bm::tst_run(\@tst_cmd);
+    $#tst_cmd=0; # Reset array 	
+    
 ####################
 #### ncwa tests #### OK!
 ####################

cmake/README.md

@@ -41,7 +41,7 @@ NCO should detect the ZLIB dependency in HDF5 as
 -- ZLIB library is needed...
 ```
 
-the netcdf function detection should be
+the netCDF function detection should be
 
 ```
 -- Found netcdf library at: I:/nco/cmake/build/netcdf-c/build/liblib/Debug/netcdf.lib

configure

 #! /bin/sh
 # Guess values for system-dependent variables and create Makefiles.
-# Generated by GNU Autoconf 2.69 for NCO netCDF Operators 4.7.8.
+# Generated by GNU Autoconf 2.69 for NCO netCDF Operators 4.7.9.
 #
 # Report bugs to <nco-bugs@lists.sourceforge.net>.
 #
@@ -592,8 +592,8 @@ MAKEFLAGS=
 # Identity of this package.
 PACKAGE_NAME='NCO netCDF Operators'
 PACKAGE_TARNAME='nco'
-PACKAGE_VERSION='4.7.8'
-PACKAGE_STRING='NCO netCDF Operators 4.7.8'
+PACKAGE_VERSION='4.7.9'
+PACKAGE_STRING='NCO netCDF Operators 4.7.9'
 PACKAGE_BUGREPORT='nco-bugs@lists.sourceforge.net'
 PACKAGE_URL=''
@@ -1388,7 +1388,7 @@ if test "$ac_init_help" = "long"; then
   # Omit some internal or obsolete options to make the list less imposing.
   # This message is too long to be a string in the A/UX 3.1 sh.
   cat <<_ACEOF
-\`configure' configures NCO netCDF Operators 4.7.8 to adapt to many kinds of systems.
+\`configure' configures NCO netCDF Operators 4.7.9 to adapt to many kinds of systems.
 Usage: $0 [OPTION]... [VAR=VALUE]...
@@ -1459,7 +1459,7 @@ fi
 if test -n "$ac_init_help"; then
   case $ac_init_help in
-     short | recursive ) echo "Configuration of NCO netCDF Operators 4.7.8:";;
+     short | recursive ) echo "Configuration of NCO netCDF Operators 4.7.9:";;
    esac
   cat <<\_ACEOF
@@ -1625,7 +1625,7 @@ fi
 test -n "$ac_init_help" && exit $ac_status
 if $ac_init_version; then
   cat <<\_ACEOF
-NCO netCDF Operators configure 4.7.8
+NCO netCDF Operators configure 4.7.9
 generated by GNU Autoconf 2.69
 Copyright (C) 2012 Free Software Foundation, Inc.
@@ -2491,7 +2491,7 @@ cat >config.log <<_ACEOF
 This file contains any messages produced by compilers while
 running configure, to aid debugging if configure makes a mistake.
-It was created by NCO netCDF Operators $as_me 4.7.8, which was
+It was created by NCO netCDF Operators $as_me 4.7.9, which was
 generated by GNU Autoconf 2.69.  Invocation command line was
   $ $0 $@
@@ -3746,7 +3746,7 @@ fi
 # Define the identity of the package.
  PACKAGE='nco'
- VERSION='4.7.8'
+ VERSION='4.7.9'
 cat >>confdefs.h <<_ACEOF
@@ -20074,10 +20074,10 @@ fi
 	    CPPFLAGS="${CPPFLAGS} -I${UDUNITS2_PATH}/include"
 	else
 	    echo "WARNING: UDUNITS2_PATH location \"${UDUNITS2_PATH}\" does not exist!"
-	fi
+	fi # !UDUNITS2_PATH
     elif test "${NETCDF_INC}"; then
 	nco_udunits2_xml="${NETCDF_INC}/../share/udunits/udunits2.xml"
-    fi
+    fi # !UDUNITS2_PATH
     if test "${UDUNITS2_PATH}" = ''; then
 	# NO UDUNITS2_PATH section
 	# Fedora 1.7 has /usr/include/udunits2/udunits2.h
@@ -21575,7 +21575,7 @@ cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
 # report actual input values of CONFIG_FILES etc. instead of their
 # values after options handling.
 ac_log="
-This file was extended by NCO netCDF Operators $as_me 4.7.8, which was
+This file was extended by NCO netCDF Operators $as_me 4.7.9, which was
 generated by GNU Autoconf 2.69.  Invocation command line was
   CONFIG_FILES    = $CONFIG_FILES
@@ -21641,7 +21641,7 @@ _ACEOF
 cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
 ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`"
 ac_cs_version="\\
-NCO netCDF Operators config.status 4.7.8
+NCO netCDF Operators config.status 4.7.9
 configured by $0, generated by GNU Autoconf 2.69,
   with options \\"\$ac_cs_config\\"

configure.ac

@@ -3,7 +3,7 @@
 # Purpose: Template autoconf uses to generate NCO configure script
 # Newer convention names this file configure.ac, rather than configure.in
 
-# Copyright (C) 2003--2018 Charlie Zender
+# Copyright (C) 2003--present Charlie Zender
 # License: GNU General Public License (GPL) Version 3
 # See http://www.gnu.org/copyleft/gpl.html for full license text
 
@@ -54,7 +54,7 @@
 # 20170808: Choose between traditional version and Git-based version
 # If Git, consider that Linux dynamic libraries will have full messy name, MacOSX will not
 # https://stackoverflow.com/questions/43526939/how-to-insert-git-based-version-in-autoconf-managed-project
-AC_INIT([NCO netCDF Operators],[4.7.8],[nco-bugs@lists.sourceforge.net],[nco])
+AC_INIT([NCO netCDF Operators],[4.7.9],[nco-bugs@lists.sourceforge.net],[nco])
 
 # Print GNU copyright in configure script
 AC_COPYRIGHT
@@ -754,10 +754,10 @@ if test "${enable_udunits2}" != 'no'; then
 	    CPPFLAGS="${CPPFLAGS} -I${UDUNITS2_PATH}/include"
 	else
 	    echo "WARNING: UDUNITS2_PATH location \"${UDUNITS2_PATH}\" does not exist!"
-	fi
+	fi # !UDUNITS2_PATH
     elif test "${NETCDF_INC}"; then
 	nco_udunits2_xml="${NETCDF_INC}/../share/udunits/udunits2.xml"
-    fi
+    fi # !UDUNITS2_PATH
     if test "${UDUNITS2_PATH}" = ''; then
 	# NO UDUNITS2_PATH section
 	# Fedora 1.7 has /usr/include/udunits2/udunits2.h

configure.eg

@@ -271,6 +271,8 @@ scp nco.configure.${GNU_TRP}.foo nco.config.log.${GNU_TRP}.foo nco.libtool.${GNU
 
 # gcc/g++ Zender uses this to develop/install/update netCDF4-enabled NCO in personal directories with CMake:
 # Generic when netCDF is in /usr (Ubuntu glace, Fedora skyglow)
+# Personal recipe last modified: 20170814
+# Personal recipe last used successfully: 20171218
 export GNU_TRP=`~/nco/autobld/config.guess`
 cd ~/nco;/bin/rm -f *.${GNU_TRP}.foo;make distclean
 cd ~/nco;cmake/clean.sh
@@ -290,12 +292,14 @@ make install
 
 # gcc/g++ Zender uses this to develop/install/update netCDF4-enabled NCO in system directories with CMake:
 # Generic when netCDF is in /usr (Ubuntu glace, Fedora skyglow)
+# Personal recipe last modified: 20170814
+# Personal recipe last used successfully: 20171218
 cd ~/nco/cmake
 cmake .. -DCMAKE_INSTALL_PREFIX=/usr/local
 make
 sudo make install
 
-# gcc/g++ Zender uses this to develop/install/update netCDF4-enabled NCO in system directories with CMake, when build requirements are in unusual directories:
+# gcc/g++ Zender uses this to develop/install/update netCDF4-enabled NCO in personal directories with CMake, when build requirements are in unusual directories:
 # netCDF4/HDF5 in /usr/local
 cd ~/nco/cmake
 cmake .. -DCMAKE_INSTALL_PREFIX=${HOME} -DNETCDF_INCLUDE:PATH=${NETCDF_INC} -DNETCDF_LIBRARY:FILE=${NETCDF_LIB}/libnetcdf.a -DHDF5_LIBRARY:FILE=${NETCDF_LIB}/libhdf5.a -DHDF5_HL_LIBRARY:FILE=${NETCDF_LIB}/libhdf5.a # Skyglow (Fedora does not supply szip packages)
@@ -310,7 +314,7 @@ make install
 # Sysadmin upgrade request: 
 # Latest sysadmin-compiled module usage: 
 # Personal recipe last modified: 20180912
-# Personal recipe last used successfully: 20180925
+# Personal recipe last used successfully: 20190216
 # NB: aims4 and acme1 only accept connections from whitelisted domains (e.g., uci.edu)
 export GNU_TRP=`~/nco/autobld/config.guess`
 cd ~/nco;/bin/rm -f *.${GNU_TRP}.foo;make distclean
@@ -329,7 +333,7 @@ scp nco.configure.${GNU_TRP}.foo nco.config.log.${GNU_TRP}.foo nco.libtool.${GNU
 # Sysadmin upgrade request: 
 # Latest sysadmin-compiled module usage: 
 # Personal recipe last modified: 2016??
-# Personal recipe last used successfully: 20180925
+# Personal recipe last used successfully: 20190216
 # NB: aims4 and acme1 only accept connections from whitelisted domains (e.g., uci.edu)
 export GNU_TRP=`~/nco/autobld/config.guess`
 cd ~/nco;/bin/rm -f *.${GNU_TRP}.foo;make distclean
@@ -349,7 +353,7 @@ scp nco.configure.${GNU_TRP}.foo nco.config.log.${GNU_TRP}.foo nco.libtool.${GNU
 # Latest ticket: AREQ0215917 on 20180413
 # Latest sysadmin-compiled module usage: soft add +netcdf-4.6.1 soft add +nco-4.7.4 # 20180417
 # Personal recipe last modified: 20180729
-# Personal recipe last used successfully: 20180921 (up to ncap2 linking with antlr)
+# Personal recipe last used successfully: 20190216 (up to ncap2 linking with antlr)
 # Fails to link to system-installed udunits...why?
 # nm -a /soft/udunits/2.1.21/lib/libudunits2.a | grep ut_read_xml
 # soft add +antlr-2.7.7 # 20161223 this ANTLR appears to be stock and not NCO-compatible
@@ -408,7 +412,7 @@ scp nco.configure.${GNU_TRP}.foo nco.config.log.${GNU_TRP}.foo nco.libtool.${GNU
 # Latest ticket: INC0118469 on 20180413
 # Latest sysadmin-compiled module usage: module load nco/4.7.4 # 20180430 (without ncap2)
 # Personal recipe last modified: 20180125
-# Personal recipe last used successfully: 20180925
+# Personal recipe last used successfully: 20190216
 module load szip
 module load gsl
 module load udunits
@@ -423,13 +427,13 @@ make check >> nco.make.${GNU_TRP}.foo 2>&1
 make install >> nco.make.${GNU_TRP}.foo 2>&1
 scp nco.configure.${GNU_TRP}.foo nco.config.log.${GNU_TRP}.foo nco.libtool.${GNU_TRP}.foo nco.make.${GNU_TRP}.foo dust.ess.uci.edu:Sites/nco/rgr
 
-# acme: http://www.gnu.org/software/automake/manual/automake.html search for "shared by two hosts" use 
+# e3sm: http://www.gnu.org/software/automake/manual/automake.html search for "shared by two hosts" use 
 # gcc/g++ Zender uses this to develop/install/update netCDF4-enabled NCO in personal directories on edison:
 # Sysadmin upgrade request: https://nersc.service-now.com/navpage.do
 # Latest ticket: INC0118469 on 20180413
 # Latest sysadmin-compiled module usage: module load nco/4.7.4 # 20180430 (without ncap2)
 # Personal recipe last modified: 20170807
-# Personal recipe last used successfully: 20180921 (but must manually link to -L${HOME}/lib_edison to find antlr)
+# Personal recipe last used successfully: 20190216 (but must manually link to -L${HOME}/lib_edison to find antlr)
 module load szip
 module load gsl
 module load udunits2
@@ -464,7 +468,7 @@ scp nco.configure.${GNU_TRP}.foo nco.config.log.${GNU_TRP}.foo nco.libtool.${GNU
 # Latest ticket: 381695 on 20180413
 # Latest sysadmin-compiled module usage: module load netcdf/4.6.1 nco/4.7.4 # 20180423
 # Personal recipe last modified: 20170814
-# Personal recipe last used successfully: 20180921
+# Personal recipe last used successfully: 20190216
 export LINUX_CC='gcc -std=c99 -pedantic -D_DEFAULT_SOURCE -D_BSD_SOURCE -D_POSIX_SOURCE'
 export LINUX_CXX='g++ -std=c++11'
 export LINUX_FC='gfortran'
@@ -760,16 +764,16 @@ Linux sand.ess.uci.edu 2.6.8.1-4-amd64-generic #1 Thu Dec 16 11:44:05 UTC 2004 x
 x86_64-unknown-linux-gnu
 
 # gcc/g++ Regular (non-root) users build NCO with system-supplied netCDF and install in your own directories
-# Zender uses this on MACOSX aerosol/firn as well
+# Zender uses this on MACOSX sastrugi/firn as well
 export GNU_TRP=`~/nco/autobld/config.guess`
 cd ~/nco;/bin/rm -f *.${GNU_TRP}.foo;make distclean
 # Pre-20180729 (antlr from macports seems to have stopped linking, so build it from scratch)
 CC='gcc' CFLAGS='' CXX='g++' CXXFLAGS='' ./configure --prefix=${HOME} --bindir=${MY_BIN_DIR} --datadir=${HOME}/nco/data --libdir=${MY_LIB_DIR} --mandir=${HOME}/nco/man > nco.configure.${GNU_TRP}.foo 2>&1
 # Firn 20180729 (works)
 ANTLR_ROOT=${HOME} CC='gcc' CFLAGS='' CXX='g++' CXXFLAGS='' ./configure --prefix=${HOME} --bindir=${MY_BIN_DIR} --datadir=${HOME}/nco/data --libdir=${MY_LIB_DIR} --mandir=${HOME}/nco/man > nco.configure.${GNU_TRP}.foo 2>&1
-# Aerosol 20180729 (works)
+# Sastrugi 20180729 (works)
 ANTLR_ROOT=${HOME} CC=${LINUX_CC} CFLAGS='' CXX=${LINUX_CXX} CXXFLAGS='' ./configure --prefix=${HOME} --bindir=${MY_BIN_DIR} --datadir=${HOME}/nco/data --libdir=${MY_LIB_DIR} --mandir=${HOME}/nco/man > nco.configure.${GNU_TRP}.foo 2>&1
-# Aerosol 20180917 Build with libraries/headers from Anaconda (borken: compiles and links but run-time linker fails)
+# Sastrugi 20180917 Build with libraries/headers from Anaconda (borken: compiles and links but run-time linker fails)
 export PATH=${HOME}/anaconda/bin:${PATH}
 export LD_LIBRARY_PATH=${HOME}/anaconda/lib:${LD_LIBRARY_PATH}
 ANTLR_ROOT=${HOME} CC=${LINUX_CC} CFLAGS='' CXX=${LINUX_CXX} CXXFLAGS='' NETCDF_ROOT=${HOME}/anaconda ./configure --disable-openmp --prefix=${HOME} --bindir=${MY_BIN_DIR} --datadir=${HOME}/nco/data --libdir=${MY_LIB_DIR} --mandir=${HOME}/nco/man > nco.configure.${GNU_TRP}.foo 2>&1

data/bzip2.cdl

+// -*-C++-*-
+
+// Purpose: Test netCDF filters with BZIP2 compression
+
+// Generate netCDF file with:
+// ncgen -k netCDF-4 -b -o ~/nco/data/bzip2.nc ~/nco/data/bzip2.cdl
+
+netcdf bzip2 {
+
+ dimensions:
+  dim0 = 4 ;
+  dim1 = 4 ;
+  dim2 = 4 ;
+  dim3 = 4 ;
+
+ variables:
+
+    float var(dim0, dim1, dim2, dim3) ;
+        var:_Storage = "chunked" ;
+        var:_ChunkSizes = 4, 4, 4, 4 ;
+        var:_Filter = "307,9" ;
+        var:_NoFill = "true" ;
+
+ data:
+
+// ncap2 -O -v -s 'defdim("dmn",256);val=array(0,1,$dmn);print(val)' ~/nco/data/in.nc ~/foo.nc;ncks -s "%d, " ~/foo.nc
+
+   var = 0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 144, 145, 146, 147, 148, 149, 150, 151, 152, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162, 163, 164, 165, 166, 167, 168, 169, 170, 171, 172, 173, 174, 175, 176, 177, 178, 179, 180, 181, 182, 183, 184, 185, 186, 187, 188, 189, 190, 191, 192, 193, 194, 195, 196, 197, 198, 199, 200, 201, 202, 203, 204, 205, 206, 207, 208, 209, 210, 211, 212, 213, 214, 215, 216, 217, 218, 219, 220, 221, 222, 223, 224, 225, 226, 227, 228, 229, 230, 231, 232, 233, 234, 235, 236, 237, 238, 239, 240, 241, 242, 243, 244, 245, 246, 247, 248, 249, 250, 251, 252, 253, 254, 255;
+}

data/in.cdl

@@ -215,6 +215,10 @@ variables:
 	float climatology_bounds(time,vrt_nbr);
 	climatology_bounds:purpose = "Variable containing CF-compliant climatology bounds for time dimension";
 
+	double time_rpt(time);
+	time_rpt:long_name = "A repeating sequence to check compliance of MRO";
+	time_rpt:purpose = "Sequence is 1,2,3,1,2,3,1,2,3,1. Average of every third element should be the same as the element, e.g., ncra -O --mro -d time,,,3,3 ~/nco/data/in.nc ~/foo.nc;ncks -C -v time_rpt ~/foo.nc";
+
         double lon_cal(lon_cal);
 	lon_cal:long_name = "lon_cal";
 	lon_cal:units = "days since 1964-2-28"; 
@@ -829,6 +833,16 @@ variables:
 	three_dmn_var_crd:long_name = "three dimensional variable with COORDS coordinate convention C=[lev,lat,lon], Fortran=(lon,lat,lev)";
 	three_dmn_var_crd:units = "fraction";
 
+	float three_dmn_var_cf(lev,lat,lon);
+	three_dmn_var_cf:long_name = "three dimensional variable with CF \"coordinates\" convention";
+	three_dmn_var_cf:coordinates = "lat lev lon";
+	three_dmn_var_cf:units = "fraction";
+
+	float three_dmn_var_cf2(lev,lat,lon);
+	three_dmn_var_cf2:long_name = "three dimensional variable with CF \"coordinates\" convention for wrong coordinates";
+	three_dmn_var_cf2:coordinates = "x y z";
+	three_dmn_var_cf2:units = "fraction";
+
 	float prs_sfc(time,lat,lon);
 	prs_sfc:long_name = "Surface pressure";
 	prs_sfc:units = "pascal";
@@ -1696,7 +1710,10 @@ data:
 	three=3.;
 	three_dmn_var=0.,1.,2.,3.,4.,5.,6.,7.,8.,9.,10.,11.,12.,13.,14.,15.,16.,17.,18.,19.,20.,21.,22.,23.;
 	three_dmn_var_crd=0.,1.,2.,3.,12.,13.,14.,15.,4.,5.,6.,7.,16.,17.,18.,19.,8.,9.,10.,11.,20.,21.,22.,23.;
+	three_dmn_var_cf=0.,1.,2.,3.,12.,13.,14.,15.,4.,5.,6.,7.,16.,17.,18.,19.,8.,9.,10.,11.,20.,21.,22.,23.;
+	three_dmn_var_cf2=0.,1.,2.,3.,12.,13.,14.,15.,4.,5.,6.,7.,16.,17.,18.,19.,8.,9.,10.,11.,20.,21.,22.,23.;
 	time=1.,2.,3.,4.,5.,6.,7.,8.,9.,10.;
+        time_rpt=1.,2.,3.,1.,2.,3.,1.,2.,3.,1.;
 	time_bnds=0.5,1.5,1.5,2.5,2.5,3.5,3.5,4.5,4.5,5.5,5.5,6.5,6.5,7.5,7.5,8.5,8.5,9.5,9.5,10.5;
 	climatology_bounds=0.5,1.5,1.5,2.5,2.5,3.5,3.5,4.5,4.5,5.5,5.5,6.5,6.5,7.5,7.5,8.5,8.5,9.5,9.5,10.5;
 	tm_scn=59;

data/nco_gsl_multifit_tst.nco

+// test the function gsl_multifit_linear
+// usage: ncap2 -v -O -S nco_gsl_multifit_tst.nco in.nc out.nc 
+
+defdim("cols",3);
+defdim("rows",4);
+
+matrix_x[$cols,$rows]={3.1, 4.2, 5.1, 6.2,
+		       8.1, 9.2, 10.1, 11.4,
+                       20.1, 22.3, 24.6, 26.8};
+
+vector_y[$rows]={0.5, 0.51, 0.52,0.53};
+
+status=gsl_multifit_linear(matrix_x,vector_y, &vector_c, &cov, &chisq);
+ 
+print(status);
+
+
+if(status == 0 )
+{
+  // shape of this variable is [cols]
+  print(vector_c);
+
+  /* shape of this variable is [cols, cols] */
+  print(cov);
+
+  // scalar variable  
+  print(chisq);
+  
+ }  
+ else
+ {
+   print("Call to gsl_multifit_linear status returned witht the error ");
+   print(status,"%d\n"); 
+
+ }  

debian/changelog

+nco (4.7.9-1~bpo9+1) stretch-backports; urgency=medium
+
+  * Rebuild for stretch-backports.
+
+ -- Bas Couwenberg <sebastic@debian.org>  Sun, 03 Mar 2019 08:31:28 +0100
+
+nco (4.7.9-1) unstable; urgency=medium
+
+  * New upstream release.
+  * Bump Standards-Version to 4.3.0, no changes.
+
+ -- Bas Couwenberg <sebastic@debian.org>  Thu, 21 Feb 2019 06:59:59 +0100
+
 nco (4.7.8-1~bpo9+1) stretch-backports; urgency=medium
 
   * Rebuild for stretch-backports.

debian/control

@@ -18,7 +18,7 @@ Build-Depends: debhelper (>= 9),
                libudunits2-dev,
                libdap-dev,
                texinfo
-Standards-Version: 4.2.1
+Standards-Version: 4.3.0
 Vcs-Browser: https://salsa.debian.org/debian-gis-team/nco
 Vcs-Git: https://salsa.debian.org/debian-gis-team/nco.git -b stretch-backports
 Homepage: http://nco.sourceforge.net/

doc/ANNOUNCE

 $Header$ -*-text-*-
 
-The netCDF Operators NCO version 4.7.8 have hatched.
+The netCDF Operators NCO version 4.7.9 art b'rn
 
 http://nco.sf.net (Homepage, Mailing lists, Help)
 http://github.com/nco (Source Code, Issues, Releases, Developers)
 
-What's new? Version 4.7.8 contains many improvements to help convert
-ESM output into CMIP6 timeseries format. In particular, ncclimo
-coordinates better with ncremap when processing MPAS data and
-regridding. ncpdq has a new feature to convert doubles to floats,
-and raw binary output can now be byte-swapped to ease creation of
-offline datasets for some models like WRF and CICE.
+What's new?
+
+Producing data for submission to CMIP6 has led to many improvemnts to
+the two workflow tools ncclimo and ncremap. Dozens of changes have
+made both tools more robust, clearer, and better documented. Notable
+changes include include improved sub-gridscale remapping, adding depth
+coordinates, CDL updates for hidden attributes, and support for GCC9
+and OpenMP 5.0.0. 
 
 Work on NCO 5.0.0 has commenced "under the hood". The key leap in that 
 release will be support for netCDF4 user-defined types. Printing of
@@ -23,42 +25,99 @@ Charlie
 
 NEW FEATURES (full details always in ChangeLog):
 
-A. ncclimo and ncremap accept the --d2f flag to turn-on the dbl_flt
-   packing map that converts double-precision to single-precision.
-   ncclimo --d2f ...
-   ncremap --d2f ...
-   http://nco.sf.net/nco.html#dbl_flt
-   http://nco.sf.net/nco.html#ncpdq
+A. ncremap now names the SGS map as per the -m map_fl option.
+   Previously there was no way to name SGS maps for archival.
+   This capability eases the generation of SGS maps for CMIP6,
+   since models (like ELM, CTSM) with time-invariant land units can
+   regrid all variables with the same SGS map.
+   http://nco.sf.net/nco.html#sgs
+
+B. ncremap and ncclimo support MPAS files with a 'depth' dimension,
+   and also adding a depth coordinate to raw MPAS output files.
+   Both add 'depth' to MPAS files with the new option --dpt_fl:
+   ncremap -P mpas --dpt_fl=refBottomDepth_60lyr.nc ...
+   ncremap -m mpaso --dpt_fl=refBottomDepth_60lyr.nc ...
+   To work, the Python code add_depth.py must be on the $PATH, and
+   dpt_fl must contain the MPAS-Ocean field refBottomDepth.
+   Thanks to Xylar Asay-Davis of LANL for creating a robust
+   add_depth.py. 
+   http://nco.sf.net/nco.html#dpt
+   http://nco.sf.net/nco.html#dpt_fl
+
+C. The regridder utilizes the lat_dmn_nm and lon_dmn_nm options, when 
+   specified, to name the dimensions for regridded logically
+   rectangular files. Previously these options were only used to
+   specify horizontal dimension names in input file. Consistent
+   with this, lat_nm_out and lon_nm_out now specify only the
+   horizontal variable names, not the dimension names as before.
+   The indepdendent configurability of dimension and variable names
+   allows ncremap to regrid files with map projections as expected
+   by Panoply and other software. Thanks to Xylar Asay-Davis of LANL
+   for suggesting this feature.
+   ncremap --rgr_opt='--rgr lat_dmn_nm=x#lon_dmn_nm=y'
+   We realize this API is ugly and will create more aesthetic options
+   like ncremap --lat_dmn=x --lon_dmn=y if enough users lovingly
+   petition our representatives now standing-by at call centers.
+   http://nco.sf.net/nco.html#rgr_opt
+
+D. ncclimo writes more explicit information about parallelism,
+   including job_nbr, var_nbr, and nd_nbr. This will help users
+   tune throughput for large climatology and splitting jobs.
+   http://nco.sf.net/nco.html#ncclimo
+
+E. The splitter in ncclimo now outputs progress more clearly,
+   and shows the elapsed time to split each timeseries.
+   http://nco.sf.net/nco.html#split
+
+F. ncra/ncrcat now perform time-rebasing in rec_apn mode using
+   calendar units from the destination not the source file.
+   This makes more sense when you think about it.
+   Thanks to Ian McHugh of Monash University for prompting this. 
+   http://nco.sf.net/nco.html#rbs
+
+G. NCO now writes more intelligible error messages with HINTS for
+   likely causes of and responses to NC_EHDFERR and NC_EBADCHUNK
+   errors. 
+   http://nco.sf.net/nco.html#hdf
+   http://nco.sf.net/nco.html#cnk
+
+H. ncks emulates ncdump more closely and prints hidden attribute
+   _NoFill (not _NOFILL) values as "true" or "false" not 1 or 0.
+   ncks --hidden -m in.nc
+   http://nco.sf.net/nco.html#cdl
+
+I. ncks prints CDL for hidden _Filters attribute, if any, with 
+   all filter values.
+   ncks --hidden -m in.nc
+   http://nco.sf.net/nco.html#cdl
+
+J. ncks prints hidden _Endianness attribute for floating point types
+   not just multi-byte integers as before.
+   ncks --hidden -m in.nc
+   http://nco.sf.net/nco.html#cdl
 
-B. ncremap adds missing values to single-precision MPAS variables as
-   well as double. Previously it only added _FillValue to doubles.
-   http://nco.sf.net/nco.html#ncremap
+BUG FIXES:
 
-C. NCO takes advantage of faster stride access in netCDF 4.6.2.
-   Previously NCO used its own workaround to accelerate strides.
-   It will continue to do so with older version of netCDF.
+A. Fix a bug exposed in NCO 4.7.1 that could attempt to dereference
+   a NULL pointer, resulting in a core dump. The solution is to
+   install 4.7.9. The workaround to that is to run a version of NCO
+   prior to 4.7.1.
 
-D. ncremap improves metadata annotation for Tempest monotr maps.
+B. ncremap used an inappropriate area to weight SGS variables.
+   Thanks to Min Xu of ORNL for reporting and providing the fix.
+   SGS regridding is once again BFB with global means.
 
-E. ncks provides the --bsa flag to invoke a byte-swap algorithm.
-   Setting this option causes unformatted binary output (with --bnr)
-   to be output in byte-swapped order relative to the host machine:
-   ncks -O -v uint32_var.? --bsa=1 -b foo.bnr in_grp.nc foo.nc
-   http://nco.sf.net/nco.html#bnr
+C. ncremap orders Tempest remap commands in execution-order in the
+   history attribute. Previously they were recorded in an ad hoc
+   order. Thanks to Ben Hilman of SNL for suggesting this.
 
-BUG FIXES:
+D. Cause ncclimo in MPI mode to exit when no nodes are available.
 
-A. ncatted would exit when the -t option yielded no matches.
-   This has been fixed.
+E. Ensure ncclimo writes nd_fl to writable directory
 
-B. NCO could fail to build with netCDF 4.6.2 snapshots due to a
-   new way of handling the log_lvl option.
-   This has been fixed.
+F. ncap2 exits gracefully when no output file is specified
 
-C  ncremap could fail to execute ERWG commands when started in
-   a directory in which it had no write access. Now ncremap
-   invokes ERWG with --no_log to prevent ERWG write attempts
-   to a (possibly write-protected) working directory.
+G. ncap2 exits gracefully when no -s or -S argument given
 
 Full release statement at http://nco.sf.net/ANNOUNCE
 
@@ -66,7 +125,7 @@ KNOWN PROBLEMS DUE TO NCO:
 
    This section of ANNOUNCE reports and reminds users of the
    existence and severity of known, not yet fixed, problems. 
-   These problems occur with NCO 4.7.8 built/tested under
+   These problems occur with NCO 4.7.9 built/tested under
    MacOS 10.14.1 with netCDF 4.6.1 on HDF5 1.10.2 and with
    Linux with netCDF 4.6.2-development (20180515) on HDF5 1.8.19.
 
@@ -106,15 +165,17 @@ A. NOT YET FIXED (netCDF4 or HDF5 problem?)
    20140718: Problem reported by Parker Norton
    20140826: Verified problem still exists
    20140930: Finish NCO workaround for problem
+   20190201: Possibly this problem was fixed in netCDF 4.6.2 by https://github.com/Unidata/netcdf-c/pull/1001
    Cause: Slow algorithm in nc_var_gets()?
    Workaround #1: Use NCO 4.4.6 or later (avoids nc_var_gets())
    Workaround #2: Convert file to netCDF3 first, then use stride
+   Workaround #3: Compile NCO with netCDF >= 4.6.2
 
 B. NOT YET FIXED (netCDF4 library bug)
    Simultaneously renaming multiple dimensions in netCDF4 file can corrupt output
 
    Demonstration:
-   ncrename -O -d lev,z -d lat,y -d lon,x ~/nco/data/in_grp.nc ~/foo.nc # Completes but file is unreadable
+   ncrename -O -d lev,z -d lat,y -d lon,x ~/nco/data/in_grp.nc ~/foo.nc # Completes but produces unreadable file foo.nc
    ncks -v one ~/foo.nc
 
    20150922: Confirmed problem reported by Isabelle Dast, reported to Unidata
@@ -126,7 +187,7 @@ B. NOT YET FIXED (netCDF4 library bug)
    20170323: https://github.com/Unidata/netcdf-c/issues/381
    20171102: Verified problem still exists with netCDF 4.5.1-development
    20171107: https://github.com/Unidata/netcdf-c/issues/597
-   Bug tracking: https://www.unidata.ucar.edu/jira/browse/fxm
+   20190202: Progress has recently been made in netCDF 4.6.3-development
    More details: http://nco.sf.net/nco.html#ncrename_crd
 
 C. NOT YET FIXED (would require DAP protocol change?)

doc/ChangeLog

+2019-02-20  Charlie Zender  <zender@uci.edu>
+
+	* NCO 4.7.9 release procedure:
+	cd ~/nco;git commit -a -m 'Version 4.7.9: Guru Benji';git push
+	git tag -a 4.7.9 -m 'ncremap sgs fix, sgs --map, lat/lon_dmn_nm, whitespace ok, mpas depth, add_depth.py;ncclimo nd_fl, nd_nbr fix;ncrcat rec_apn rbs;ncatted --hdn';git push --tags
+
+	* Update release metadata
+
+	* NCO 4.7.9-beta01 release procedure:
+	cd ~/nco;git commit -a -m 'Version 4.7.9-beta01: Waterfalls';git push
+	git tag -a 4.7.9-beta01 -m 'CDL _NoFill, _Filter, _Endianness fixes;ncremap/ncclimo die+report linker errors';git push --tags
+
+2019-02-18  Charlie Zender  <zender@uci.edu>
+
+	* Always build split.nc so ncks regression test #120 can pass
+
+	* ncremap/ncclimo die sooner when NCO is found but cannot run due to, e.g., dynamic linking errors
+
+	* Replace $? by "$?" since $? can be undefined, e.g., when command failed due to link error
+	Then conditions like "if[ $? -eq 0 ];" cause syntax error that obscures initial error
+
+2019-02-17  Charlie Zender  <zender@uci.edu>
+
+	* Print _Endianness for floating point types not just integers as before
+
+	* Print _Filter values not number of values
+
+	* Print _Filter filter ID
+
+	* Emulate changes to netCDF and print _NoFill (not _NOFILL) values as true or false not 1 or 0
+
+	* Add bzip2.cdl for filter testing
+
+	* ncclimo exit with error if --dpt_fl invoked without regridder
+
+2019-02-16  Charlie Zender  <zender@uci.edu>
+
+	* NCO 4.7.9-alpha07 release procedure:
+	cd ~/nco;git commit -a -m 'Version 4.7.9-alpha07: Ed';git push
+	git tag -a 4.7.9-alpha07 -m 'ncremap lat/lon_dmn_nm, clm_flg, alg_opt';git push --tags
+
+	* Update ncremap documentation accordingly
+
+	* ncremap use lat_dmn_nm/lon_dmn_nm for lat_dmn_nm_out/lon_dmn_nm_out
+
+2019-02-15  Charlie Zender  <zender@uci.edu>
+
+	* ncremap make --clm_flg a true flag with same meaning as -C
+
+	* ncremap refactor to always define algorithm diagnostic alg_opt for six Tempest-types
+
+2019-02-14  Charlie Zender  <zender@uci.edu>
+
+	* NCO 4.7.9-alpha06 release procedure:
+	cd ~/nco;git commit -a -m 'Version 4.7.9-alpha06: Trash bags';git push
+	git tag -a 4.7.9-alpha06 -m 'ncclimo nd_fl, nd_nbr fix;ncremap sgs --map, whitespace ok;GCC9 default(none) removal;clarify NC_EHDFERR, NC_EBADCHUNK errors;DGR, BG2 progress';git push --tags
+
+	* ncremap double-quote all filenames used in command strings and verify whitespace works
+
+	* ncremap double-quote input, output, and map-file names to allow white-space in filepaths
+
+2019-02-12  Charlie Zender  <zender@uci.edu>
+
+	* Merge patch by Orion Poplawski to eliminate default(none) pragma for GCC9 OpenMP 5.0
+
+2019-02-07  Charlie Zender  <zender@uci.edu>
+
+	* Correct some (of many) compiler warnings for GCC 4.8.2 (rhea)
+
+	* Add netcdf.h error codes to nco_netcdf.c
+
+2019-02-06  Charlie Zender  <zender@uci.edu>
+
+	* in.cdl add time_rpt to test sub-cycle hyperslabs
+
+	* ncremap prevent spurious exit when computing named SGS maps when vrb_lvl >= 3
+
+2019-02-05  Charlie Zender  <zender@uci.edu>
+
+	* Cause ncclimo MPI-mode to exit when nd_nbr=0
+
+	* Ensure ncclimo writes nd_fl to writable directory
+
+	* ncclimo print cmd_sbs not cmd_rgr for generated files
+
+	* ncclimo output more explicit information about parallelism job_nbr, var_nbr, nd_nbr
+
+2019-02-03  Charlie Zender  <zender@uci.edu>
+
+	* Differentiate Digit Rounding (DGR, baa=3) from Bit Grooming 2	(BG2, baa=4)
+
+	* Remove default(none) clause to prevent GCC9 errors on missing declaration for fp_stderr
+
+2019-02-02  Charlie Zender  <zender@uci.edu>
+
+	* Add more verbose information for NC_EHDFERR errors
+
+2019-02-01  Charlie Zender  <zender@uci.edu>
+
+	* Add more verbose information for NC_EBADCHUNK errors
+
+2019-01-31  Charlie Zender  <zender@uci.edu>
+
+	* NCO 4.7.9-alpha05 release procedure:
+	cd ~/nco;git commit -a -m 'Version 4.7.9-alpha05: Kubasek';git push
+	git tag -a 4.7.9-alpha05 -m 'd2f doc, ncremap SGS ELM fix';git push --tags
+
+2019-01-30  Charlie Zender  <zender@uci.edu>
+
+	* ncremap implement and verify that Min Xu's modification conserves fields not land area
+	Previous ncremap SGS implementation conserved land area not fields
+	Conserving fields (slightly) more important so changing to that
+	Expect most non-conservation of area will disappear once ELM archives area/landfrac in DP
+	My original conservation diagnostic for raw files used an unreliable identity remap
+	Dianostic conservation tests should be turned into regression tests
+
+2019-01-28  Charlie Zender  <zender@uci.edu>
+
+	* Investigate _FillValue behavior described by John Wilkin
+
+	* Add stubs for PPC Digit Rounding algorithm of DCG19 and/or Bit Grooming 2 (BG2)
+
+2019-01-25  Charlie Zender  <zender@uci.edu>
+
+	* ncremap rename internal variables as with 'sgs' instead of 'lnd'
+
+	* Add E3SM material on Manual Grid Generation to ncremap documentation
+
+	* Add E3SM material on SGS and RRG options to ncremap documentation
+
+2019-01-23  Charlie Zender  <zender@uci.edu>
+
+	* Add ncra SSC MRO regression test to NCO_rgr.pm
+
+	* ncremap SGS mode fails conservation tests at 10^-4 level
+	  Min Xu warns that conv_remap conserves values while ncremap SGS conserves area
+
+2019-01-22  Charlie Zender  <zender@uci.edu>
+
+	* Add stubs for PPC BG2, Bit Grooming version 2 which features dynamic masks
+
+	* Document --d2f in manual and man pages
+
+2019-01-21  Charlie Zender  <zender@uci.edu>
+
+	* ncremap add SGS procedures for mpascice, change prc_typ='mpas' to prc_mpas='Yes'
+
+	* ncremap advertise PPC in usage
+
+2019-01-20  Charlie Zender  <zender@uci.edu>
+
+	* Audit ncremap and add comments on treatment of land vs. sea-ice data
+
+2019-01-19  Charlie Zender  <zender@uci.edu>
+
+	* NCO 4.7.9-alpha04 release procedure:
+	cd ~/nco;git commit -a -m 'Version 4.7.9-alpha04: Shutdown';git push
+	git tag -a 4.7.9-alpha04 -m 'ncremap add_depth.py';git push --tags
+
+	* ncclimo add synonyms, update climo tests to use CMIP6 PI files
+
+	* ncclimo add --dpt_fl option and pass to ncremap
+
+2019-01-15  Charlie Zender  <zender@uci.edu>
+
+	* Fix ncremap flg_grd_only definition to work in SGS mode
+
+2019-01-12  Charlie Zender  <zender@uci.edu>
+
+	* Finish infrastructure for add_depth.py. ncremap --add_depth appears to work.
+
+2019-01-11  Charlie Zender  <zender@uci.edu>
+
+	* Add stubs for MPAS depth coordinate option
+
+2019-01-06  Charlie Zender  <zender@uci.edu>
+
+	* NCO 4.7.9-alpha03 release procedure:
+	cd ~/nco;git commit -a -m 'Version 4.7.9-alpha03: AOC';git push
+	git tag -a 4.7.9-alpha03 -m 'MPAS depth';git push --tags
+
+	* ncremap allow for MPAS depth coordinate after processing by add_depth.py
+
+2019-01-02  Charlie Zender  <zender@uci.edu>
+
+	* End binary source code copyright notice with "--present" to nearly eliminate annual updates
+
+2018-12-12  Charlie Zender  <zender@uci.edu>
+
+	* NCO 4.7.9-alpha02 release procedure:
+	cd ~/nco;git commit -a -m 'Version 4.7.9-alpha02: Unconventional Diner';git push
+	git tag -a 4.7.9-alpha02 -m 'splitter timestamps;mpas no_stg_grd;ncap2 exit_gracefully;get/put_var1 fix;ncrcat rec_apn rbs';git push --tags
+
+	* ncra/ncrcat: Rebase in rec_apn mode using calendar units from destination not source file
+
+2018-12-06  Charlie Zender  <zender@uci.edu>
+
+	* Prevent redefinition of struct NC_memio on Windows
+
+	* Add --msa to man pages, reformat long-options after first in nco_usg_prn()
+
+2018-12-04  Charlie Zender  <zender@uci.edu>
+
+	* ncclimo: Add timestamped notices after each timeseries segment completes
+
+	* ncclimo: Add timestamped notices after completing all full batches and partial batch if any
+
+2018-11-30  Charlie Zender  <zender@uci.edu>
+
+	* Synchronize ncremap and ncclimo host-specific blocks
+
+2018-11-29  Charlie Zender  <zender@uci.edu>
+
+	* Always use --no_stg_grd for prc_typ='mpas'
+
+2018-11-24  Charlie Zender  <zender@uci.edu>
+
+	* ncap2 exit gracefully when no output file specified with netCDF4 input file
+
+	* ncap2 exit gracefully when no -s or -S argument given
+
+2018-11-20  Charlie Zender  <zender@uci.edu>
+
+	* Correctly dereference pointer zero (i.e., NULL) passed as value of srt argument to nco_get/put_var1()
+
+2018-11-19  Charlie Zender  <zender@uci.edu>
+
+	* ncremap order shell commands in tempest history attribute cmd_msh, cmd_map not cmd_map, cmd_msh
+
 2018-11-16  Charlie Zender  <zender@uci.edu>
+	* NCO 4.7.9-alpha01 release procedure:
+	cd ~/nco;git commit -a -m 'Version 4.7.9-alpha01: Palm Desert';git push
+	git tag -a 4.7.9-alpha01 -m 'Functionally identical to 4.7.8';git push --tags
+
 	* NCO 4.7.8 release procedure:
 	cd ~/nco;git commit -a -m 'Version 4.7.8: Paradise Lost';git push
 	git tag -a 4.7.8 -m 'ncremap/ncclimo CMIP6 features, d2f, no frac_b, deprecate USE_NC4_SRD_WORKAROUND; ERWG no_log; ncks byte-swap; ncatted typ_mch fix';git push --tags