From a5d23ebcc4903082dc0838af8b00061a421f6e85 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Thu, 19 Jan 2023 11:34:33 +0800 Subject: [PATCH 01/51] add ncl nco ncview --- benchmark/README.md | 0 benchmark/gemm/Makefile | 0 benchmark/gemm/gemm.cpp | 0 benchmark/gemm/run.sh | 0 benchmark/mpi/reduce_avg.c | 0 benchmark/mpi/run.sh | 0 benchmark/omp/Makefile | 0 benchmark/omp/caclPI.cpp | 0 benchmark/omp/gramSchmidt_gpu.F90 | 0 benchmark/omp/gramSchmidt_gpu.c | 0 benchmark/omp/run.sh | 0 benchmark/p2p/Makefile | 0 benchmark/p2p/p2pBandwidthLatencyTest.cu | 0 benchmark/p2p/run.sh | 0 benchmark/p2p/shared.mk | 0 downloads/download.md | 12 ------------ init.sh | 0 jarvis | 0 package/Hyper-tuner/2.3.0/install.sh | 0 package/IPM/2.0.6/install.sh | 0 package/ImageMagick/7.1.0/install.sh | 0 package/Porting/2.3.0/install.sh | 0 package/arpack/96/clang/install.sh | 0 package/automake/1.16.5/install.sh | 0 package/bedtools/2.28.0/clang/install.sh | 0 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b/package/udunits/2.2.28/install.sh old mode 100644 new mode 100755 diff --git a/package/valgrind/3.20/install.sh b/package/valgrind/3.20/install.sh old mode 100644 new mode 100755 diff --git a/package/wxWidgets/3.0.5/install.sh b/package/wxWidgets/3.0.5/install.sh old mode 100644 new mode 100755 diff --git a/package/yaml-cpp/0.6.2/install.sh b/package/yaml-cpp/0.6.2/install.sh old mode 100644 new mode 100755 diff --git a/package/zlib/1.2.12/clang/install.sh b/package/zlib/1.2.12/clang/install.sh old mode 100644 new mode 100755 diff --git a/package/zlib/1.2.12/install.sh b/package/zlib/1.2.12/install.sh old mode 100644 new mode 100755 diff --git a/test/test-bowtie2.sh b/test/test-bowtie2.sh old mode 100644 new mode 100755 diff --git a/test/test-duns.sh b/test/test-duns.sh old mode 100644 new mode 100755 diff --git a/test/test-elmer.sh b/test/test-elmer.sh old mode 100644 new mode 100755 diff --git a/test/test-mfem.sh b/test/test-mfem.sh old mode 100644 new mode 100755 diff --git a/test/test-qe-opt.sh b/test/test-qe-opt.sh old mode 100644 new mode 100755 diff --git a/test/test-qe.sh b/test/test-qe.sh old mode 100644 new mode 100755 diff --git a/test/test-qmcpack.sh b/test/test-qmcpack.sh old mode 100644 new mode 100755 diff --git a/test/test-trinity.sh b/test/test-trinity.sh old mode 100644 new mode 100755 diff --git a/test/test-util.sh b/test/test-util.sh old mode 100644 new mode 100755 diff --git a/test/test-wannier90.sh b/test/test-wannier90.sh old mode 100644 new mode 100755 -- Gitee From ef20b8e11e8d3aece9983ab01809ddc132c81f1d Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Thu, 19 Jan 2023 12:16:35 +0800 Subject: [PATCH 02/51] packages --- package/FreeType/2.1.9/install.sh | 19 +++ package/antlr/2.7.7/install.sh | 16 ++ package/cairo/1.16.0/install.sh | 9 + package/g2clib/1.6.0/install.sh | 21 +++ package/gdal/2.2.4/install.sh | 22 +++ package/hdf-eos2/2.20/install.sh | 21 +++ package/hdf-eos5/1.16/install.sh | 21 +++ package/hdf4/4.2.14/install.sh | 11 ++ package/hdf5/1.10.4/install.sh | 13 ++ package/mesa/3.1/install.sh | 19 +++ package/pixman/0.38.0/install.sh | 11 ++ package/proj/5.2.0/install.sh | 17 ++ package/vis5dplus/1.3.0/install.sh | 21 +++ templates/ncl/6.6.2/data.NCL.amd.cpu.config | 160 ++++++++++++++++++ templates/nco/5.1.4/data.NCO.amd.cpu.config | 67 ++++++++ .../ncview/2.1.7/data.ncview.amd.cpu.config | 37 ++++ 16 files changed, 485 insertions(+) create mode 100755 package/FreeType/2.1.9/install.sh create mode 100755 package/antlr/2.7.7/install.sh create mode 100755 package/cairo/1.16.0/install.sh create mode 100755 package/g2clib/1.6.0/install.sh create mode 100755 package/gdal/2.2.4/install.sh create mode 100755 package/hdf-eos2/2.20/install.sh create mode 100755 package/hdf-eos5/1.16/install.sh create mode 100755 package/hdf4/4.2.14/install.sh create mode 100755 package/hdf5/1.10.4/install.sh create mode 100755 package/mesa/3.1/install.sh create mode 100755 package/pixman/0.38.0/install.sh create mode 100755 package/proj/5.2.0/install.sh create mode 100755 package/vis5dplus/1.3.0/install.sh create mode 100644 templates/ncl/6.6.2/data.NCL.amd.cpu.config create mode 100644 templates/nco/5.1.4/data.NCO.amd.cpu.config create mode 100644 templates/ncview/2.1.7/data.ncview.amd.cpu.config diff --git a/package/FreeType/2.1.9/install.sh b/package/FreeType/2.1.9/install.sh new file mode 100755 index 0000000..857d5f9 --- /dev/null +++ b/package/FreeType/2.1.9/install.sh @@ -0,0 +1,19 @@ +#!/bin/bash +set -x +set -e +# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 + +# cd ${JARVIS_TMP} +# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 +# cd freetype-2.1.9 + +. ${DOWNLOAD_TOOL} -u https://sourceforge.net/projects/freetype/files/freetype2/2.12.1/freetype-2.12.1.tar.gz +cd ${JARVIS_TMP} +tar -xvf ${JARVIS_DOWNLOAD}/freetype-2.12.1.tar.gz +cd freetype-2.12.1 + +./configure --enable-shared --prefix=$1 +make -j +make install +cd include +cp -r * $1/include \ No newline at end of file diff --git a/package/antlr/2.7.7/install.sh b/package/antlr/2.7.7/install.sh new file mode 100755 index 0000000..0c5162a --- /dev/null +++ b/package/antlr/2.7.7/install.sh @@ -0,0 +1,16 @@ +#!/bin/bash +set -x +set -e +. ${DOWNLOAD_TOOL} -u https://www.antlr2.org/download/antlr-2.7.7.tar.gz +cd ${JARVIS_TMP} +tar xvf ${JARVIS_DOWNLOAD}/antlr-2.7.7.tar.gz +cd antlr-2.7.7 +sed -i "13a #include " lib/cpp/antlr/CharScanner.hpp +sed -i "14a #include " lib/cpp/antlr/CharScanner.hpp +./configure \ +--prefix=$1 \ +--disable-csharp \ +--disable-java \ +--disable-python +make -j +make install diff --git a/package/cairo/1.16.0/install.sh b/package/cairo/1.16.0/install.sh new file mode 100755 index 0000000..20cc9b6 --- /dev/null +++ b/package/cairo/1.16.0/install.sh @@ -0,0 +1,9 @@ +#!/bin/bash +set -x +set -e +. ${DOWNLOAD_TOOL} -u https://www.cairographics.org/releases/cairo-1.16.0.tar.xz +cd ${JARVIS_TMP} +tar xvf ${JARVIS_DOWNLOAD}/cairo-1.16.0.tar.xz +cd cairo-1.16.0 +./configure --prefix=$1 +make all install diff --git a/package/g2clib/1.6.0/install.sh b/package/g2clib/1.6.0/install.sh new file mode 100755 index 0000000..eef6161 --- /dev/null +++ b/package/g2clib/1.6.0/install.sh @@ -0,0 +1,21 @@ +#!/bin/bash +set -x +set -e +# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 + +# cd ${JARVIS_TMP} +# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 +# cd freetype-2.1.9 +cd ${JARVIS_DOWNLOAD} +rm -rf g2clib-image +git clone https://gitee.com/linruoxuan/g2clib-image.git +cd ${JARVIS_TMP} +tar -xvf ${JARVIS_DOWNLOAD}/g2clib-image/g2clib-1.6.0-patch.tar.gz +cd g2clib-1.6.0-patch + +sed -i '22c INC=-I/glade/p/work/haley/dev/external/gnu/4.7.2/include -I${JARVIS_LIBS}/gcc10/jasper/1.900.2/include' makefile +make all +mkdir $1/lib +mkdir $1/include +mv libgrib2c.a $1/lib/ +cp grib2.h $1/include/ \ No newline at end of file diff --git a/package/gdal/2.2.4/install.sh b/package/gdal/2.2.4/install.sh new file mode 100755 index 0000000..b1e276a --- /dev/null +++ b/package/gdal/2.2.4/install.sh @@ -0,0 +1,22 @@ +#!/bin/bash +set -x +set -e +# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 + +# cd ${JARVIS_TMP} +# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 +# cd freetype-2.1.9 + +. ${DOWNLOAD_TOOL} -u http://download.osgeo.org/gdal/2.2.4/gdal-2.2.4.tar.gz +cd ${JARVIS_TMP} +tar -xvf ${JARVIS_DOWNLOAD}/gdal-2.2.4.tar.gz +cd gdal-2.2.4 + +./configure --with-static-proj4=${JARVIS_LIBS}/gcc10/proj/5.2.0 --prefix=$1 --with-png=/usr/local --with-gif=internal --with-libtiff=internal \ + --with-geotiff=internal --with-jpeg=${JARVIS_LIBS}/gcc10/libjpeg/v9b --with-libz=/usr/local \ + --with-sqlite3=no --with-expat=no --with-curl=no --without-ld-shared \ + --with-hdf4=no --with-hdf5=no --with-pg=no --without-grib --disable-shared \ + --with-freexl=no --with-geos=no --with-openjpeg=no --with-mysql=no \ + --with-ecw=no --with-fgdb=no --with-odbc=no --with-xml2=no --with-ogdi=no\ + --with-pcraster=no --with-xerces=no +make all install \ No newline at end of file diff --git a/package/hdf-eos2/2.20/install.sh b/package/hdf-eos2/2.20/install.sh new file mode 100755 index 0000000..0b2a90d --- /dev/null +++ b/package/hdf-eos2/2.20/install.sh @@ -0,0 +1,21 @@ +#!/bin/bash +set -x +set -e +# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 + +# cd ${JARVIS_TMP} +# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 +# cd freetype-2.1.9 + +. ${DOWNLOAD_TOOL} -u https://git.earthdata.nasa.gov/rest/git-lfs/storage/DAS/hdfeos/cb0f900d2732ab01e51284d6c9e90d0e852d61bba9bce3b43af0430ab5414903?response-content-disposition=attachment%3B%20filename%3D%22HDF-EOS2.20v1.00.tar.Z%22%3B%20filename*%3Dutf-8%27%27HDF-EOS2.20v1.00.tar.Z +cd ${JARVIS_DOWNLOAD} +mv cb0f900d2732ab01e51284d6c9e90d0e852d61bba9bce3b43af0430ab5414903* HDF-EOS2.20v1.00.tar +cd ${JARVIS_TMP} +# gzip -d ${JARVIS_DOWNLOAD}/HDF-EOS2.20v1.00.tar +tar -xvf ${JARVIS_DOWNLOAD}/HDF-EOS2.20v1.00.tar +cd hdfeos + +ac_cv_func_malloc_0_nonnull=yes ac_cv_func_realloc_0_nonnull=yes ./configure --with-hdf4=${JARVIS_LIBS}/gcc10/hdf4/4.2.14 --with-jpeg=${JARVIS_LIBS}/gcc10/libjpeg/'*'/ --with-zlib=/usr/local --prefix=$1 +make -j +make install +cp -r include $1/ \ No newline at end of file diff --git a/package/hdf-eos5/1.16/install.sh b/package/hdf-eos5/1.16/install.sh new file mode 100755 index 0000000..5a884d5 --- /dev/null +++ b/package/hdf-eos5/1.16/install.sh @@ -0,0 +1,21 @@ +#!/bin/bash +set -x +set -e +# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 + +# cd ${JARVIS_TMP} +# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 +# cd freetype-2.1.9 + +. ${DOWNLOAD_TOOL} -u https://git.earthdata.nasa.gov/rest/git-lfs/storage/DAS/hdfeos5/7054de24b90b6d9533329ef8dc89912c5227c83fb447792103279364e13dd452?response-content-disposition=attachment%3B%20filename%3D%22HDF-EOS5.1.16.tar.Z%22%3B%20filename*%3Dutf-8%27%27HDF-EOS5.1.16.tar.Z +cd ${JARVIS_DOWNLOAD} +mv 7054de24b90b6d9533329ef8dc89912c5227c83fb447792103279364e13dd452* HDF-EOS5.1.16.tar +cd ${JARVIS_TMP} +# gzip -d ${JARVIS_DOWNLOAD}/HDF-EOS2.20v1.00.tar +tar -xvf ${JARVIS_DOWNLOAD}/HDF-EOS5.1.16.tar +cd hdfeos5 + +./configure CC=${JARVIS_LIBS}/gcc10/hdf5/1.12.0/bin/h5pcc --with-hdf4=${JARVIS_LIBS}/gcc10/hdf5/1.12.0 --with-zlib=/usr/local --prefix=$1 +make -j +make install +cp -r include $1/ \ No newline at end of file diff --git a/package/hdf4/4.2.14/install.sh b/package/hdf4/4.2.14/install.sh new file mode 100755 index 0000000..6073220 --- /dev/null +++ b/package/hdf4/4.2.14/install.sh @@ -0,0 +1,11 @@ +#!/bin/bash +set -x +set -e +. ${DOWNLOAD_TOOL} -u https://support.hdfgroup.org/ftp/HDF/releases/HDF4.2.14/src/hdf-4.2.14.tar.gz +cd ${JARVIS_TMP} +rm -rf hdf-4.2.14 +tar -xvf ${JARVIS_DOWNLOAD}/hdf-4.2.14.tar.gz +cd hdf-4.2.14 +FFLAGS+='-fallow-argument-mismatch' ./configure --prefix=$1 --with-zlib=/usr/local --with-jpeg=${JARVIS_LIBS}/gcc10/libjpeg/*/ --disable-netcdf +make -j +make install diff --git a/package/hdf5/1.10.4/install.sh b/package/hdf5/1.10.4/install.sh new file mode 100755 index 0000000..c55dc05 --- /dev/null +++ b/package/hdf5/1.10.4/install.sh @@ -0,0 +1,13 @@ +#!/bin/bash +set -x +set -e +hdf5_big_version='1.10' +hdf5_version="${hdf5_big_version}.4" +. ${DOWNLOAD_TOOL} -u https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-${hdf5_big_version}/hdf5-${hdf5_version}/src/hdf5-${hdf5_version}.tar.gz +cd ${JARVIS_TMP} +rm -rf hdf5-${hdf5_version} +tar -xvf ${JARVIS_DOWNLOAD}/hdf5-${hdf5_version}.tar.gz +cd hdf5-${hdf5_version} +CC=`which mpicc` ./configure --prefix=$1 --enable-fortran --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/gcc10/szip/2.1.1/lib +make -j +make install diff --git a/package/mesa/3.1/install.sh b/package/mesa/3.1/install.sh new file mode 100755 index 0000000..015335c --- /dev/null +++ b/package/mesa/3.1/install.sh @@ -0,0 +1,19 @@ +#!/bin/bash +set -x +set -e +# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 + +# cd ${JARVIS_TMP} +# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 +# cd freetype-2.1.9 + +. ${DOWNLOAD_TOOL} -u https://archive.mesa3d.org/older-versions/3.x/MesaLib-3.1.tar.gz +cd ${JARVIS_TMP} + +tar -xvf ${JARVIS_DOWNLOAD}/MesaLib-3.1.tar.gz +cd Mesa-3.1 +cp -f /usr/share/libtool/build-aux/config.guess ./ +cp -f /usr/share/libtool/build-aux/config.sub ./ +./configure --prefix=$1 +make +make install \ No newline at end of file diff --git a/package/pixman/0.38.0/install.sh b/package/pixman/0.38.0/install.sh new file mode 100755 index 0000000..cdc121d --- /dev/null +++ b/package/pixman/0.38.0/install.sh @@ -0,0 +1,11 @@ +#!/bin/bash +set -x +set -e +. ${DOWNLOAD_TOOL} -u https://www.cairographics.org/releases/pixman-0.38.0.tar.gz +cd ${JARVIS_TMP} + +tar xvf ${JARVIS_DOWNLOAD}/pixman-0.38.0.tar.gz +cd pixman-0.38.0 +./configure --prefix=$1 +make -j +make install diff --git a/package/proj/5.2.0/install.sh b/package/proj/5.2.0/install.sh new file mode 100755 index 0000000..8d5a3e7 --- /dev/null +++ b/package/proj/5.2.0/install.sh @@ -0,0 +1,17 @@ +#!/bin/bash +set -x +set -e +# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 + +# cd ${JARVIS_TMP} +# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 +# cd freetype-2.1.9 + +. ${DOWNLOAD_TOOL} -u http://download.osgeo.org/proj/proj-5.2.0.tar.gz +cd ${JARVIS_TMP} +rm -rf proj-5.2.0 +tar -xvf ${JARVIS_DOWNLOAD}/proj-5.2.0.tar.gz +cd proj-5.2.0 + +./configure --enable-shared --enable-static --prefix=$1 +make all install \ No newline at end of file diff --git a/package/vis5dplus/1.3.0/install.sh b/package/vis5dplus/1.3.0/install.sh new file mode 100755 index 0000000..804d804 --- /dev/null +++ b/package/vis5dplus/1.3.0/install.sh @@ -0,0 +1,21 @@ +#!/bin/bash +set -x +set -e +# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 + +# cd ${JARVIS_TMP} +# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 +# cd freetype-2.1.9 + +. ${DOWNLOAD_TOOL} -u https://sourceforge.net/projects/vis5d/files/vis5d/vis5d%2B-1.3.0-beta/vis5d%2B-1.3.0-beta.tar.gz +cd ${JARVIS_TMP} +rm -rf vis5d+-1.3.0-beta +tar -xvf ${JARVIS_DOWNLOAD}/vis5d%2B-1.3.0-beta.tar.gz +cd vis5d+-1.3.0-beta +sed -i '40c extern float vis_round( float x ); ' src/misc.h +sed -i '150c float vis_round(float x)' src/misc.c + +FFLAGS='-fno-range-check -fallow-rank-mismatch' LDFLAGS=-L${JARVIS_LIBS}/gcc10/mesa/3.1/lib CFLAGS=-I${JARVIS_LIBS}/gcc10/mesa/3.1/include ./configure --prefix=$1 --disable-fortran --with-netcdf=${JARVIS_LIBS}/gcc10/netcdf/4.7.4 --disable-shared + +make > make-output 2>&1 +make install \ No newline at end of file diff --git a/templates/ncl/6.6.2/data.NCL.amd.cpu.config b/templates/ncl/6.6.2/data.NCL.amd.cpu.config new file mode 100644 index 0000000..7a12a5c --- /dev/null +++ b/templates/ncl/6.6.2/data.NCL.amd.cpu.config @@ -0,0 +1,160 @@ +[SERVER] +11.11.11.11 + +[DOWNLOAD] +NCL/6.6.2 https://www.earthsystemgrid.org/dataset/ncl.662.src/file/ncl_ncarg-6.6.2.tar.gz + +[DEPENDENCY] +set -e +set -x +module purge +./jarvis -install gcc/10.3.0 com +module use ./software/modulefiles +module load gcc10/10.3.0 +./jarvis -install libjpeg/v9b gcc +./jarvis -install openmpi/4.1.2 gcc +module load libjpeg + + +module load openmpi4 +./jarvis -install FreeType/2.1.9 gcc +./jarvis -install libpng/1.6.37 gcc +./jarvis -install pkg-config/0.29 gcc +./jarvis -install pixman/0.38.0 gcc +./jarvis -install szip/2.1.1 gcc +module load hdf5/1.12.0 +module load libpng/1.6.37 +module load pkg-config/0.29 +module load pixman/0.38.0 + + +export PATH=${JARVIS_LIBS}/gcc10/pkg-config/0.29/bin:$PATH +export png_REQUIRES="libpng16" +export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${JARVIS_LIBS}/gcc10/FreeType/2.1.9/lib/pkgconfig/:${JARVIS_LIBS}/gcc10/libpng/1.6.37/lib/pkgconfig:${JARVIS_LIBS}/gcc10/pixman/0.38.0/lib/pkgconfig/:${JARVIS_LIBS}/gcc10/pkg-config/0.29 +export C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc10/libpng/1.6.37/include:${JARVIS_LIBS}/gcc10/FreeType/2.1.9/include:${JARVIS_LIBS}/gcc10/hdf5/1.12.0/include:${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include +export pixman_LIBS="-L$HOME/lib/ -lpixman-1" +export FREETYPE_CONFIG="-lfreetype2" +module load pixman/0.38.0 +LDFLAGS=-lpng ./jarvis -install cairo/1.16.0 gcc + + +./jarvis -install pnetcdf/1.12.1 gcc +module load pnetcdf/1.12.1 +sed -i '9c ./configure --prefix=$1 --enable-netcdf-4 --disable-shared' package/szip/2.1.1/install.sh +./jarvis -install szip/2.1.1 gcc +./jarvis -install netcdf/4.7.4 gcc +./jarvis -install hdf4/4.2.14 gcc + +./jarvis -install hdf5/1.10.4 gcc + + +./jarvis -install gsl/2.6.0 gcc +./jarvis -install jasper/1.900.2 gcc +./jarvis -install proj/5.2.0 gcc +./jarvis -install gdal/2.2.4 gcc +./jarvis -install hdf-eos2/2.20 gcc +./jarvis -install hdf-eos5/1.16 gcc + +./jarvis -install mesa/3.1 gcc +./jarvis -install vis5dplus/1.3.0 gcc + + + +[ENV] +module purge +module use ./software/modulefiles + +module load gcc10/10.3.0 +module load openmpi4 +module load libjpeg +module load hdf5/1.12.0 +module load libpng/1.6.37 +module load pkg-config/0.29 +module load pixman/0.38.0 +module load pnetcdf/1.12.1 +module load netcdf/4.7.4 +module load hdf4/4.2.14 +module load hdf5/1.10.4 +module load g2clib/1.6.0 +module load gsl/2.6 +module load hdf-eos2/2.20 +module load hdf-eos5/1.16 +module load jasper/1.900.2 +module load proj/5.2.0 +module load gdal/2.2.4 +module load udunits/2.2.28 +module load mesa/3.1 +module load vis5dplus/1.3.0 +export CC=`which mpicc` +export F77=`which mpif77` +export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:${JARVIS_LIBS}/gcc10/szip/2.1.1/lib:${JARVIS_LIBS}/gcc10/libjpeg/v9b/lib:${JARVIS_LIBS}/gcc10/gsl/2.6/lib + + + +[APP] +app_name = NCL +build_dir = ${JARVIS_TMP}/ncl_ncarg-6.6.2 +binary_dir = ${JARVIS_LIBS}/gcc10/ncl/bin +case_dir = ${JARVIS_LIBS}/gcc10/ncl/bin + +[BUILD] +cd ${JARVIS_TMP} +rm -rf ncl_ncarg-6.6.2 + +tar zxvf ${JARVIS_DOWNLOAD}/ncl_ncarg-6.6.2.tar.gz +cd ncl_ncarg-6.6.2 +wget http://www.netlib.org/voronoi/triangle.zip +unzip triangle.zip 'triangle.*' -d ./ni/src/lib/hlu/ +rm -f triangle.zip + +cd config + +make -f Makefile.ini +./ymake -config `pwd` + +sed -i '/LibSearch/d' ./Site +sed -i '/IncSearch/d' ./Site +sed -i '/#define ManRoot/a \ +#define YmakeRoot ${JARVIS_LIBS}/gcc10/ncl \ +#define BinRoot ${JARVIS_LIBS}/gcc10/ncl/bin \ +#define LibRoot ${JARVIS_LIBS}/gcc10/ncl/lib \ +#define IncRoot ${JARVIS_LIBS}/gcc10/ncl/include \ +#define ManRoot ${JARVIS_LIBS}/gcc10/ncl/man \ +#define TmpRoot /tmp \ +\ +#define RootPath ${JARVIS_LIBS}/gcc10/ncl \ +#define BinPath ${JARVIS_LIBS}/gcc10/ncl/bin \ +#define LibPath ${JARVIS_LIBS}/gcc10/ncl/lib \ +#define IncPath ${JARVIS_LIBS}/gcc10/ncl/include \ +#define ManPath ${JARVIS_LIBS}/gcc10/ncl/man \ +#define LibSearch -L/usr/local/lib -L${JARVIS_LIBS}/gcc10/jasper/1.900.2/lib -L${JARVIS_LIBS}/gcc10/szip/2.1.1/lib -L${JARVIS_LIBS}/gcc10/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10/pixman/0.38.0/lib -L${JARVIS_MPI}/openmpi4-gcc10/4.1.2/lib -L${JARVIS_LIBS}/gcc10/hdf5/1.10.4/lib -L${JARVIS_LIBS}/gcc10/gsl/2.6/lib -L${JARVIS_LIBS}/gcc10/netcdf/4.7.4/lib -L${JARVIS_LIBS}/gcc10/hdf4/4.2.14/lib -L${JARVIS_LIBS}/gcc10/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10/FreeType/2.1.9/lib -L${JARVIS_LIBS}/gcc10/udunits/2.2.28/lib -L${JARVIS_LIBS}/gcc10/g2clib/1.6.0/lib -L${JARVIS_LIBS}/gcc10/hdf-eos2/2.20/lib -L${JARVIS_LIBS}/gcc10/hdf-eos5/1.16/lib\ +#define IncSearch -I/usr/local/include -I${JARVIS_MPI}/openmpi4-gcc10/4.1.2/include -I${JARVIS_LIBS}/gcc10/hdf5/1.10.4/include -I${JARVIS_LIBS}/gcc10/gsl/2.6/include -I${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include -I${JARVIS_LIBS}/gcc10/hdf4/4.2.14/include -I${JARVIS_LIBS}/gcc10/cairo/1.16.0/include -I${JARVIS_LIBS}/gcc10/FreeType/2.1.9/include -I${JARVIS_LIBS}/gcc10/udunits/2.2.28/include -I${JARVIS_LIBS}/gcc10/g2clib/1.6.0/include -I${JARVIS_LIBS}/gcc10/hdf-eos2/2.20/include -I${JARVIS_LIBS}/gcc10/hdf-eos5/1.16/include' ./Site + +sed -i '/#ifdef hostshavano/a\ +#define BuildNCL 1 \ +#define BuildRasterHDF 1 ' ./Site + + +cd .. +sed -i '85c extern NclQuark possibleDimNames[NUMPOSDIMNAMES];' ni/src/ncl/NclNewHDF5.c +sed -i '143,145c extern FILE *thefptr;\ +extern FILE *theoptr;\ +extern int cmd_line;' ni/src/ncl/NclApi.c +pwd +ac_cv_func_malloc_0_nonnull=yes ac_cv_func_realloc_0_nonnull=yes ./Configure -ncar + +sed -i "34c\ r = (iand(index, RMASK) / int(Z'0000FFFF')) / 255." ncarg2d/src/libncarg_gks/bwi/argb2ci.f +sed -i "35c\ g = (iand(index, GMASK) / int(Z'000000FF')) / 255." ncarg2d/src/libncarg_gks/bwi/argb2ci.f +C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc10/g2clib/include:${JARVIS_LIBS}/gcc10/udunits/include:${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include:${JARVIS_LIBS}/gcc10/hdf4/4.2.14/include +CC=gcc FC=`which gfortran` \ +EXTRA_CCOPTIONS='-I${JARVIS_LIBS}/gcc10/cairo/1.16.0/include -I${JARVIS_LIBS}/gcc10/FreeType/2.1.9/include -L${JARVIS_LIBS}/gcc10/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10/pixman/0.38.0/lib' +EXTRA_FCOPTIONS='-fallow-argument-mismatch -fallow-invalid-boz' \ +make Everything >& make-output +make install >& install-output +export PATH=$PATH:${JARVIS_LIBS}/gcc10/ncl/bin + + +[RUN] +run = ncl -V && ng4ex gsun01n && ncl gsun01n.ncl +binary = +nodes = 1 diff --git a/templates/nco/5.1.4/data.NCO.amd.cpu.config b/templates/nco/5.1.4/data.NCO.amd.cpu.config new file mode 100644 index 0000000..ce08ec3 --- /dev/null +++ b/templates/nco/5.1.4/data.NCO.amd.cpu.config @@ -0,0 +1,67 @@ +[SERVER] +11.11.11.11 + +[DOWNLOAD] +NCO/5.1.4 https://sourceforge.net/projects/nco/files/nco-5.1.4.tar.gz + +[DEPENDENCY] +set -e +set -x +module purge +./jarvis -install gcc/10.3.0 com +module use ./software/modulefiles +module load gcc10/10.3.0 +./jarvis -install libjpeg/v9b gcc +./jarvis -install openmpi/4.1.2 gcc +module load libjpeg + + +module load openmpi4 + +./jarvis -install netcdf/4.7.4 gcc +./jarvis -install gsl/2.6 gcc +./jarvis -install antlr/2.7.7 gcc +./jarvis -install udunits/2.2.38 gcc + + +[ENV] +module purge +module use ./software/modulefiles + +module load gcc10/10.3.0 +module load openmpi4 +module load netcdf/4.7.4 +module load gsl/2.6 +module load antlr/2.7.7 +module load udunits/2.2.28 + +export CC=`which gcc` + + + + + +[APP] +app_name = NCL +build_dir = ${JARVIS_TMP}/ncl_ncarg-6.6.2 +binary_dir = ${JARVIS_LIBS}/gcc10/nco/bin +case_dir = ${JARVIS_LIBS}/gcc10/ncl/bin + +[BUILD] +cd ${JARVIS_TMP} +rm -rf nco-5.1.4 + +tar zxvf ${JARVIS_DOWNLOAD}/nco-5.1.4.tar.gz +cd nco-5.1.4 +./configure CPPFLAGS="-I${JARVIS_LIBS}/gcc10/antlr/2.7.7/include" CFLAGS="-I${JARVIS_LIBS}/gcc10/udunits/2.2.28/include -L${JARVIS_LIBS}/gcc10/udunits/2.2.28/lib " --prefix=${JARVIS_LIBS}/gcc10/nco NETCDF_INC=${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include NETCDF_LIB=${JARVIS_LIBS}/gcc10/netcdf/4.7.4/lib +make +make install + + + + + +[RUN] +run = ncl -V && ng4ex gsun01n && ncl gsun01n.ncl +binary = +nodes = 1 diff --git a/templates/ncview/2.1.7/data.ncview.amd.cpu.config b/templates/ncview/2.1.7/data.ncview.amd.cpu.config new file mode 100644 index 0000000..7fa0659 --- /dev/null +++ b/templates/ncview/2.1.7/data.ncview.amd.cpu.config @@ -0,0 +1,37 @@ +[SERVER] +11.11.11.11 + + +[DEPENDENCY] +module use ./software/modulefiles +module purge +./jarvis -install gcc10/10.3.0 com +module load gcc10/10.3.0 +./jarvis -install openmpi/4.1.2 gcc + +./jarvis -install hdf5/1.10.4 gcc + +./jarvis -install netcdf/4.7.4 gcc +./jarvis -install udunits/2.2.28 gcc + +[ENV] +module purge +module use ${JARVIS_ROOT}/software/modulefiles +module load gcc10 +module add openmpi4 +export CC=mpicc CXX=mpicxx FC=mpifort F77=mpifort + +[APP] +app_name = ncview +build_dir = ${JARVIS_ROOT} +binary_dir = +case_dir = + +[BUILD] + +sed -i '13c NETCDF_DIR=${1%/*/*}/netcdf/4.7.4' package/ncview/2.1.7/install.sh +./jarvis -install ncview/2.1.7 gcc +[RUN] +run = +binary = +node = 1 -- Gitee From 10f22f7cd8745ecdd828d0468a3062ffa2022d01 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Thu, 19 Jan 2023 13:02:28 +0800 Subject: [PATCH 03/51] fix --- templates/ncview/2.1.7/data.ncview.amd.cpu.config | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/templates/ncview/2.1.7/data.ncview.amd.cpu.config b/templates/ncview/2.1.7/data.ncview.amd.cpu.config index 7fa0659..dae8470 100644 --- a/templates/ncview/2.1.7/data.ncview.amd.cpu.config +++ b/templates/ncview/2.1.7/data.ncview.amd.cpu.config @@ -5,7 +5,7 @@ [DEPENDENCY] module use ./software/modulefiles module purge -./jarvis -install gcc10/10.3.0 com +./jarvis -install gcc/10.3.0 com module load gcc10/10.3.0 ./jarvis -install openmpi/4.1.2 gcc -- Gitee From 067a1074b7e952c4a9c327c97e863eacca7a9ba3 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Thu, 19 Jan 2023 15:58:27 +0800 Subject: [PATCH 04/51] fix hdf5 --- templates/ncview/2.1.7/data.ncview.amd.cpu.config | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/templates/ncview/2.1.7/data.ncview.amd.cpu.config b/templates/ncview/2.1.7/data.ncview.amd.cpu.config index dae8470..0ecf4b6 100644 --- a/templates/ncview/2.1.7/data.ncview.amd.cpu.config +++ b/templates/ncview/2.1.7/data.ncview.amd.cpu.config @@ -8,7 +8,8 @@ module purge ./jarvis -install gcc/10.3.0 com module load gcc10/10.3.0 ./jarvis -install openmpi/4.1.2 gcc - +module load openmpi4 +sed -i '11c CC=`which mpicc` FC=`which mpifort` ./configure --prefix=$1 --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/bisheng2.3.0/szip/2.1.1/lib' package/hdf5/1.10.4/install.sh ./jarvis -install hdf5/1.10.4 gcc ./jarvis -install netcdf/4.7.4 gcc -- Gitee From 689d74860fafe1f237b3253809eac68e91516602 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 13:53:31 +0800 Subject: [PATCH 05/51] fix vis5d+ --- package/vis5dplus/1.3.0/install.sh | 2 +- ...CL.amd.cpu.config => data.NCL.x86.cpu.config} | 16 ++++++++++------ 2 files changed, 11 insertions(+), 7 deletions(-) rename templates/ncl/6.6.2/{data.NCL.amd.cpu.config => data.NCL.x86.cpu.config} (90%) diff --git a/package/vis5dplus/1.3.0/install.sh b/package/vis5dplus/1.3.0/install.sh index 804d804..2dbf227 100755 --- a/package/vis5dplus/1.3.0/install.sh +++ b/package/vis5dplus/1.3.0/install.sh @@ -15,7 +15,7 @@ cd vis5d+-1.3.0-beta sed -i '40c extern float vis_round( float x ); ' src/misc.h sed -i '150c float vis_round(float x)' src/misc.c -FFLAGS='-fno-range-check -fallow-rank-mismatch' LDFLAGS=-L${JARVIS_LIBS}/gcc10/mesa/3.1/lib CFLAGS=-I${JARVIS_LIBS}/gcc10/mesa/3.1/include ./configure --prefix=$1 --disable-fortran --with-netcdf=${JARVIS_LIBS}/gcc10/netcdf/4.7.4 --disable-shared +FFLAGS='-fno-range-check -fallow-rank-mismatch' LDFLAGS=-L${JARVIS_LIBS}/gcc10/mesa/3.1/lib CPPFLAGS=-I${JARVIS_LIBS}/gcc10/mesa/3.1/include ./configure --prefix=$1 --disable-fortran --with-netcdf=${JARVIS_LIBS}/gcc10/netcdf/4.7.4 --disable-shared make > make-output 2>&1 make install \ No newline at end of file diff --git a/templates/ncl/6.6.2/data.NCL.amd.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config similarity index 90% rename from templates/ncl/6.6.2/data.NCL.amd.cpu.config rename to templates/ncl/6.6.2/data.NCL.x86.cpu.config index 7a12a5c..27f7d19 100644 --- a/templates/ncl/6.6.2/data.NCL.amd.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -22,17 +22,16 @@ module load openmpi4 ./jarvis -install pkg-config/0.29 gcc ./jarvis -install pixman/0.38.0 gcc ./jarvis -install szip/2.1.1 gcc -module load hdf5/1.12.0 + module load libpng/1.6.37 module load pkg-config/0.29 module load pixman/0.38.0 - +module load FreeType/2.1.9 export PATH=${JARVIS_LIBS}/gcc10/pkg-config/0.29/bin:$PATH export png_REQUIRES="libpng16" -export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${JARVIS_LIBS}/gcc10/FreeType/2.1.9/lib/pkgconfig/:${JARVIS_LIBS}/gcc10/libpng/1.6.37/lib/pkgconfig:${JARVIS_LIBS}/gcc10/pixman/0.38.0/lib/pkgconfig/:${JARVIS_LIBS}/gcc10/pkg-config/0.29 +export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${FREETYPE_PATH}/lib/pkgconfig/:${LIBPNG_PATH}/lib/pkgconfig:${JARVIS_LIBS}/gcc10/pixman/0.38.0/lib/pkgconfig/:${JARVIS_LIBS}/gcc10/pkg-config/0.29 export C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc10/libpng/1.6.37/include:${JARVIS_LIBS}/gcc10/FreeType/2.1.9/include:${JARVIS_LIBS}/gcc10/hdf5/1.12.0/include:${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include -export pixman_LIBS="-L$HOME/lib/ -lpixman-1" export FREETYPE_CONFIG="-lfreetype2" module load pixman/0.38.0 LDFLAGS=-lpng ./jarvis -install cairo/1.16.0 gcc @@ -42,10 +41,14 @@ LDFLAGS=-lpng ./jarvis -install cairo/1.16.0 gcc module load pnetcdf/1.12.1 sed -i '9c ./configure --prefix=$1 --enable-netcdf-4 --disable-shared' package/szip/2.1.1/install.sh ./jarvis -install szip/2.1.1 gcc + +sed -i '11c CC=`which mpicc` ./configure --prefix=$1 --with-zlib=/usr/local --enable-fortran --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/gcc10/szip/2.1.1/lib' package/hdf5/1.12.0/install.sh +./jarvis -install hdf5/1.12.0 gcc +module load hdf5/1.12.0 ./jarvis -install netcdf/4.7.4 gcc + ./jarvis -install hdf4/4.2.14 gcc -./jarvis -install hdf5/1.10.4 gcc ./jarvis -install gsl/2.6.0 gcc @@ -56,6 +59,7 @@ sed -i '9c ./configure --prefix=$1 --enable-netcdf-4 --disable-shared' package/ ./jarvis -install hdf-eos5/1.16 gcc ./jarvis -install mesa/3.1 gcc +module load mesa/3.1 ./jarvis -install vis5dplus/1.3.0 gcc @@ -155,6 +159,6 @@ export PATH=$PATH:${JARVIS_LIBS}/gcc10/ncl/bin [RUN] -run = ncl -V && ng4ex gsun01n && ncl gsun01n.ncl +run = export PATH=$PATH:${JARVIS_LIBS}/gcc10/ncl/bin && ncl -V && ng4ex gsun01n && ncl gsun01n.ncl binary = nodes = 1 -- Gitee From fe6024a0b83636e7c3810af554cd99853ce11eff Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 19:15:36 +0800 Subject: [PATCH 06/51] libjpeg v9b --- package/libjpeg/v9b/install.sh | 11 +++++++++++ 1 file changed, 11 insertions(+) create mode 100755 package/libjpeg/v9b/install.sh diff --git a/package/libjpeg/v9b/install.sh b/package/libjpeg/v9b/install.sh new file mode 100755 index 0000000..da3dcd3 --- /dev/null +++ b/package/libjpeg/v9b/install.sh @@ -0,0 +1,11 @@ +#!/bin/bash +set -x +set -e +. ${DOWNLOAD_TOOL} -u http://www.ijg.org/files/jpegsrc.v9b.tar.gz +cd ${JARVIS_TMP} +rm -rf jpeg-9b +tar xvf ${JARVIS_DOWNLOAD}/jpegsrc.v9b.tar.gz +cd jpeg-9b +./configure --prefix=$1 +make -j +make install \ No newline at end of file -- Gitee From 7655138bcd1ce3d8ab7bd0386eab5b9997bead1c Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 20:02:52 +0800 Subject: [PATCH 07/51] freetype --- .../2.1.9 => freetype/2.5.1}/install.sh | 6 +- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 56 +++++++++---------- 2 files changed, 31 insertions(+), 31 deletions(-) rename package/{FreeType/2.1.9 => freetype/2.5.1}/install.sh (76%) diff --git a/package/FreeType/2.1.9/install.sh b/package/freetype/2.5.1/install.sh similarity index 76% rename from package/FreeType/2.1.9/install.sh rename to package/freetype/2.5.1/install.sh index 857d5f9..7a04568 100755 --- a/package/FreeType/2.1.9/install.sh +++ b/package/freetype/2.5.1/install.sh @@ -7,10 +7,10 @@ set -e # tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 # cd freetype-2.1.9 -. ${DOWNLOAD_TOOL} -u https://sourceforge.net/projects/freetype/files/freetype2/2.12.1/freetype-2.12.1.tar.gz +. ${DOWNLOAD_TOOL} -u https://sourceforge.net/projects/freetype/files/freetype2/2.5.1/freetype-2.5.1.tar.gz cd ${JARVIS_TMP} -tar -xvf ${JARVIS_DOWNLOAD}/freetype-2.12.1.tar.gz -cd freetype-2.12.1 +tar -xvf ${JARVIS_DOWNLOAD}/freetype-2.5.1.tar.gz +cd freetype-2.5.1 ./configure --enable-shared --prefix=$1 make -j diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index 27f7d19..ffbccc2 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -10,14 +10,14 @@ set -x module purge ./jarvis -install gcc/10.3.0 com module use ./software/modulefiles -module load gcc10/10.3.0 +module load gcc/10.3.0 ./jarvis -install libjpeg/v9b gcc ./jarvis -install openmpi/4.1.2 gcc module load libjpeg -module load openmpi4 -./jarvis -install FreeType/2.1.9 gcc +module load openmpi +./jarvis -install freetype/2.5.1 gcc ./jarvis -install libpng/1.6.37 gcc ./jarvis -install pkg-config/0.29 gcc ./jarvis -install pixman/0.38.0 gcc @@ -26,12 +26,12 @@ module load openmpi4 module load libpng/1.6.37 module load pkg-config/0.29 module load pixman/0.38.0 -module load FreeType/2.1.9 +module load freetype/2.5.1 -export PATH=${JARVIS_LIBS}/gcc10/pkg-config/0.29/bin:$PATH +export PATH=${JARVIS_LIBS}/gcc/pkg-config/0.29/bin:$PATH export png_REQUIRES="libpng16" -export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${FREETYPE_PATH}/lib/pkgconfig/:${LIBPNG_PATH}/lib/pkgconfig:${JARVIS_LIBS}/gcc10/pixman/0.38.0/lib/pkgconfig/:${JARVIS_LIBS}/gcc10/pkg-config/0.29 -export C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc10/libpng/1.6.37/include:${JARVIS_LIBS}/gcc10/FreeType/2.1.9/include:${JARVIS_LIBS}/gcc10/hdf5/1.12.0/include:${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include +export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${FREETYPE_PATH}/lib/pkgconfig/:${LIBPNG_PATH}/lib/pkgconfig:${JARVIS_LIBS}/gcc/pixman/0.38.0/lib/pkgconfig/:${JARVIS_LIBS}/gcc/pkg-config/0.29 +export C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc/libpng/1.6.37/include:${JARVIS_LIBS}/gcc/freetype/2.5.1/include:${JARVIS_LIBS}/gcc/hdf5/1.12.0/include:${JARVIS_LIBS}/gcc/netcdf/4.7.4/include export FREETYPE_CONFIG="-lfreetype2" module load pixman/0.38.0 LDFLAGS=-lpng ./jarvis -install cairo/1.16.0 gcc @@ -42,7 +42,7 @@ module load pnetcdf/1.12.1 sed -i '9c ./configure --prefix=$1 --enable-netcdf-4 --disable-shared' package/szip/2.1.1/install.sh ./jarvis -install szip/2.1.1 gcc -sed -i '11c CC=`which mpicc` ./configure --prefix=$1 --with-zlib=/usr/local --enable-fortran --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/gcc10/szip/2.1.1/lib' package/hdf5/1.12.0/install.sh +sed -i '11c CC=`which mpicc` ./configure --prefix=$1 --with-zlib=/usr/local --enable-fortran --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib' package/hdf5/1.12.0/install.sh ./jarvis -install hdf5/1.12.0 gcc module load hdf5/1.12.0 ./jarvis -install netcdf/4.7.4 gcc @@ -68,7 +68,7 @@ module load mesa/3.1 module purge module use ./software/modulefiles -module load gcc10/10.3.0 +module load gcc/10.3.0 module load openmpi4 module load libjpeg module load hdf5/1.12.0 @@ -91,15 +91,15 @@ module load mesa/3.1 module load vis5dplus/1.3.0 export CC=`which mpicc` export F77=`which mpif77` -export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:${JARVIS_LIBS}/gcc10/szip/2.1.1/lib:${JARVIS_LIBS}/gcc10/libjpeg/v9b/lib:${JARVIS_LIBS}/gcc10/gsl/2.6/lib +export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib:${JARVIS_LIBS}/gcc10.3.0/libjpeg/v9b/lib:${JARVIS_LIBS}/gcc10.3.0/gsl/2.6/lib [APP] app_name = NCL build_dir = ${JARVIS_TMP}/ncl_ncarg-6.6.2 -binary_dir = ${JARVIS_LIBS}/gcc10/ncl/bin -case_dir = ${JARVIS_LIBS}/gcc10/ncl/bin +binary_dir = ${JARVIS_LIBS}/gcc10.3.0/ncl/bin +case_dir = ${JARVIS_LIBS}/gcc10.3.0/ncl/bin [BUILD] cd ${JARVIS_TMP} @@ -119,20 +119,20 @@ make -f Makefile.ini sed -i '/LibSearch/d' ./Site sed -i '/IncSearch/d' ./Site sed -i '/#define ManRoot/a \ -#define YmakeRoot ${JARVIS_LIBS}/gcc10/ncl \ -#define BinRoot ${JARVIS_LIBS}/gcc10/ncl/bin \ -#define LibRoot ${JARVIS_LIBS}/gcc10/ncl/lib \ -#define IncRoot ${JARVIS_LIBS}/gcc10/ncl/include \ -#define ManRoot ${JARVIS_LIBS}/gcc10/ncl/man \ +#define YmakeRoot ${JARVIS_LIBS}/gcc10.3.0/ncl \ +#define BinRoot ${JARVIS_LIBS}/gcc10.3.0/ncl/bin \ +#define LibRoot ${JARVIS_LIBS}/gcc10.3.0/ncl/lib \ +#define IncRoot ${JARVIS_LIBS}/gcc10.3.0/ncl/include \ +#define ManRoot ${JARVIS_LIBS}/gcc10.3.0/ncl/man \ #define TmpRoot /tmp \ \ -#define RootPath ${JARVIS_LIBS}/gcc10/ncl \ -#define BinPath ${JARVIS_LIBS}/gcc10/ncl/bin \ -#define LibPath ${JARVIS_LIBS}/gcc10/ncl/lib \ -#define IncPath ${JARVIS_LIBS}/gcc10/ncl/include \ -#define ManPath ${JARVIS_LIBS}/gcc10/ncl/man \ -#define LibSearch -L/usr/local/lib -L${JARVIS_LIBS}/gcc10/jasper/1.900.2/lib -L${JARVIS_LIBS}/gcc10/szip/2.1.1/lib -L${JARVIS_LIBS}/gcc10/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10/pixman/0.38.0/lib -L${JARVIS_MPI}/openmpi4-gcc10/4.1.2/lib -L${JARVIS_LIBS}/gcc10/hdf5/1.10.4/lib -L${JARVIS_LIBS}/gcc10/gsl/2.6/lib -L${JARVIS_LIBS}/gcc10/netcdf/4.7.4/lib -L${JARVIS_LIBS}/gcc10/hdf4/4.2.14/lib -L${JARVIS_LIBS}/gcc10/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10/FreeType/2.1.9/lib -L${JARVIS_LIBS}/gcc10/udunits/2.2.28/lib -L${JARVIS_LIBS}/gcc10/g2clib/1.6.0/lib -L${JARVIS_LIBS}/gcc10/hdf-eos2/2.20/lib -L${JARVIS_LIBS}/gcc10/hdf-eos5/1.16/lib\ -#define IncSearch -I/usr/local/include -I${JARVIS_MPI}/openmpi4-gcc10/4.1.2/include -I${JARVIS_LIBS}/gcc10/hdf5/1.10.4/include -I${JARVIS_LIBS}/gcc10/gsl/2.6/include -I${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include -I${JARVIS_LIBS}/gcc10/hdf4/4.2.14/include -I${JARVIS_LIBS}/gcc10/cairo/1.16.0/include -I${JARVIS_LIBS}/gcc10/FreeType/2.1.9/include -I${JARVIS_LIBS}/gcc10/udunits/2.2.28/include -I${JARVIS_LIBS}/gcc10/g2clib/1.6.0/include -I${JARVIS_LIBS}/gcc10/hdf-eos2/2.20/include -I${JARVIS_LIBS}/gcc10/hdf-eos5/1.16/include' ./Site +#define RootPath ${JARVIS_LIBS}/gcc10.3.0/ncl \ +#define BinPath ${JARVIS_LIBS}/gcc10.3.0/ncl/bin \ +#define LibPath ${JARVIS_LIBS}/gcc10.3.0/ncl/lib \ +#define IncPath ${JARVIS_LIBS}/gcc10.3.0/ncl/include \ +#define ManPath ${JARVIS_LIBS}/gcc10.3.0/ncl/man \ +#define LibSearch -L/usr/local/lib -L${JARVIS_LIBS}/gcc10.3.0/jasper/1.900.2/lib -L${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib -L${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10.3.0/pixman/0.38.0/lib -L${JARVIS_MPI}/openmpi4-gcc10.3.0/4.1.2/lib -L${JARVIS_LIBS}/gcc10.3.0/hdf5/1.10.4/lib -L${JARVIS_LIBS}/gcc10.3.0/gsl/2.6/lib -L${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/lib -L${JARVIS_LIBS}/gcc10.3.0/hdf4/4.2.14/lib -L${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10.3.0/freetype/2.5.1/lib -L${JARVIS_LIBS}/gcc10.3.0/udunits/2.2.28/lib -L${JARVIS_LIBS}/gcc10.3.0/g2clib/1.6.0/lib -L${JARVIS_LIBS}/gcc10.3.0/hdf-eos2/2.20/lib -L${JARVIS_LIBS}/gcc10.3.0/hdf-eos5/1.16/lib\ +#define IncSearch -I/usr/local/include -I${JARVIS_MPI}/openmpi4-gcc10.3.0/4.1.2/include -I${JARVIS_LIBS}/gcc10.3.0/hdf5/1.10.4/include -I${JARVIS_LIBS}/gcc10.3.0/gsl/2.6/include -I${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/include -I${JARVIS_LIBS}/gcc10.3.0/hdf4/4.2.14/include -I${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/include -I${JARVIS_LIBS}/gcc10.3.0/freetype/2.5.1/include -I${JARVIS_LIBS}/gcc10.3.0/udunits/2.2.28/include -I${JARVIS_LIBS}/gcc10.3.0/g2clib/1.6.0/include -I${JARVIS_LIBS}/gcc10.3.0/hdf-eos2/2.20/include -I${JARVIS_LIBS}/gcc10.3.0/hdf-eos5/1.16/include' ./Site sed -i '/#ifdef hostshavano/a\ #define BuildNCL 1 \ @@ -149,16 +149,16 @@ ac_cv_func_malloc_0_nonnull=yes ac_cv_func_realloc_0_nonnull=yes ./Configure -nc sed -i "34c\ r = (iand(index, RMASK) / int(Z'0000FFFF')) / 255." ncarg2d/src/libncarg_gks/bwi/argb2ci.f sed -i "35c\ g = (iand(index, GMASK) / int(Z'000000FF')) / 255." ncarg2d/src/libncarg_gks/bwi/argb2ci.f -C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc10/g2clib/include:${JARVIS_LIBS}/gcc10/udunits/include:${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include:${JARVIS_LIBS}/gcc10/hdf4/4.2.14/include +C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc10.3.0/g2clib/include:${JARVIS_LIBS}/gcc10.3.0/udunits/include:${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/include:${JARVIS_LIBS}/gcc10.3.0/hdf4/4.2.14/include CC=gcc FC=`which gfortran` \ -EXTRA_CCOPTIONS='-I${JARVIS_LIBS}/gcc10/cairo/1.16.0/include -I${JARVIS_LIBS}/gcc10/FreeType/2.1.9/include -L${JARVIS_LIBS}/gcc10/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10/pixman/0.38.0/lib' +EXTRA_CCOPTIONS='-I${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/include -I${JARVIS_LIBS}/gcc10.3.0/freetype/2.5.1/include -L${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10.3.0/pixman/0.38.0/lib' EXTRA_FCOPTIONS='-fallow-argument-mismatch -fallow-invalid-boz' \ make Everything >& make-output make install >& install-output -export PATH=$PATH:${JARVIS_LIBS}/gcc10/ncl/bin +export PATH=$PATH:${JARVIS_LIBS}/gcc10.3.0/ncl/bin [RUN] -run = export PATH=$PATH:${JARVIS_LIBS}/gcc10/ncl/bin && ncl -V && ng4ex gsun01n && ncl gsun01n.ncl +run = export PATH=$PATH:${JARVIS_LIBS}/gcc10.3.0/ncl/bin && ncl -V && ng4ex gsun01n && ncl gsun01n.ncl binary = nodes = 1 -- Gitee From 4f640078bd6b4f985b5ae4f92908df5e4eac084e Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 20:10:40 +0800 Subject: [PATCH 08/51] pkgconfig --- package/pkg-config/0.29/install.sh | 10 ++++++++++ 1 file changed, 10 insertions(+) create mode 100755 package/pkg-config/0.29/install.sh diff --git a/package/pkg-config/0.29/install.sh b/package/pkg-config/0.29/install.sh new file mode 100755 index 0000000..5924128 --- /dev/null +++ b/package/pkg-config/0.29/install.sh @@ -0,0 +1,10 @@ +#!/bin/bash +set -x +set -e +. ${DOWNLOAD_TOOL} -u http://pkgconfig.freedesktop.org/releases/pkg-config-0.29.tar.gz +cd ${JARVIS_TMP} +tar xvf ${JARVIS_DOWNLOAD}/pkg-config-0.29.tar.gz +cd pkg-config-0.29 +./configure --prefix=$1 --enable-shared +make -j +make install -- Gitee From 8978f59ddfd956b1ef34475fbcd84cb762276476 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 20:15:14 +0800 Subject: [PATCH 09/51] pkg fix --- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 12 +++++++----- 1 file changed, 7 insertions(+), 5 deletions(-) diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index ffbccc2..3cd75f9 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -17,21 +17,23 @@ module load libjpeg module load openmpi -./jarvis -install freetype/2.5.1 gcc + ./jarvis -install libpng/1.6.37 gcc ./jarvis -install pkg-config/0.29 gcc + +export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${FREETYPE_PATH}/lib/pkgconfig/:${LIBPNG_PATH}/lib/pkgconfig ./jarvis -install pixman/0.38.0 gcc ./jarvis -install szip/2.1.1 gcc - +./jarvis -install freetype/2.5.1 gcc module load libpng/1.6.37 module load pkg-config/0.29 module load pixman/0.38.0 module load freetype/2.5.1 -export PATH=${JARVIS_LIBS}/gcc/pkg-config/0.29/bin:$PATH +export PATH=${JARVIS_LIBS}/gcc10.3.0/pkg-config/0.29/bin:$PATH export png_REQUIRES="libpng16" -export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${FREETYPE_PATH}/lib/pkgconfig/:${LIBPNG_PATH}/lib/pkgconfig:${JARVIS_LIBS}/gcc/pixman/0.38.0/lib/pkgconfig/:${JARVIS_LIBS}/gcc/pkg-config/0.29 -export C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc/libpng/1.6.37/include:${JARVIS_LIBS}/gcc/freetype/2.5.1/include:${JARVIS_LIBS}/gcc/hdf5/1.12.0/include:${JARVIS_LIBS}/gcc/netcdf/4.7.4/include +export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${FREETYPE_PATH}/lib/pkgconfig/:${JARVIS_LIBS}/gcc10.3.0/pixman/0.38.0/lib/pkgconfig/:${JARVIS_LIBS}/gcc10.3.0/pkg-config/0.29 +export C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc10.3.0/libpng/1.6.37/include:${JARVIS_LIBS}/gcc10.3.0/freetype/2.5.1/include:${JARVIS_LIBS}/gcc10.3.0/hdf5/1.12.0/include:${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/include export FREETYPE_CONFIG="-lfreetype2" module load pixman/0.38.0 LDFLAGS=-lpng ./jarvis -install cairo/1.16.0 gcc -- Gitee From 09a4d0f5b437748028e5ec99611ccef3a95f6c73 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 20:16:36 +0800 Subject: [PATCH 10/51] pkg fix --- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index 3cd75f9..3468856 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -21,7 +21,7 @@ module load openmpi ./jarvis -install libpng/1.6.37 gcc ./jarvis -install pkg-config/0.29 gcc -export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${FREETYPE_PATH}/lib/pkgconfig/:${LIBPNG_PATH}/lib/pkgconfig +export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${LIBPNG_PATH}/lib/pkgconfig ./jarvis -install pixman/0.38.0 gcc ./jarvis -install szip/2.1.1 gcc ./jarvis -install freetype/2.5.1 gcc -- Gitee From d99f2059e709502b86f1b736f2ef1c251e9025e8 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 20:20:01 +0800 Subject: [PATCH 11/51] pkg fix --- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 9 +++++---- 1 file changed, 5 insertions(+), 4 deletions(-) diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index 3468856..62e8c97 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -20,19 +20,20 @@ module load openmpi ./jarvis -install libpng/1.6.37 gcc ./jarvis -install pkg-config/0.29 gcc - -export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${LIBPNG_PATH}/lib/pkgconfig +module load libpng/1.6.37 +export LIBPNG_CFLAG=${LIBPNG_PATH}/include +export LIBPNG_LDFLAG=${LIBPNG_PATH}/lib ./jarvis -install pixman/0.38.0 gcc ./jarvis -install szip/2.1.1 gcc ./jarvis -install freetype/2.5.1 gcc -module load libpng/1.6.37 + module load pkg-config/0.29 module load pixman/0.38.0 module load freetype/2.5.1 export PATH=${JARVIS_LIBS}/gcc10.3.0/pkg-config/0.29/bin:$PATH export png_REQUIRES="libpng16" -export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${FREETYPE_PATH}/lib/pkgconfig/:${JARVIS_LIBS}/gcc10.3.0/pixman/0.38.0/lib/pkgconfig/:${JARVIS_LIBS}/gcc10.3.0/pkg-config/0.29 +export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${FREETYPE_PATH}/lib/pkgconfig/:${LIBPNG_PATH}/lib/pkgconfig:${JARVIS_LIBS}/gcc10.3.0/pixman/0.38.0/lib/pkgconfig/:${JARVIS_LIBS}/gcc10.3.0/pkg-config/0.29 export C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc10.3.0/libpng/1.6.37/include:${JARVIS_LIBS}/gcc10.3.0/freetype/2.5.1/include:${JARVIS_LIBS}/gcc10.3.0/hdf5/1.12.0/include:${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/include export FREETYPE_CONFIG="-lfreetype2" module load pixman/0.38.0 -- Gitee From 00f3c42be4e2f9fba708160d984d65a722b4bdba Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 21:09:15 +0800 Subject: [PATCH 12/51] jasper --- package/jasper/{1.900.2 => 1.900.1}/install.sh | 4 ++-- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 2 -- 2 files changed, 2 insertions(+), 4 deletions(-) rename package/jasper/{1.900.2 => 1.900.1}/install.sh (81%) diff --git a/package/jasper/1.900.2/install.sh b/package/jasper/1.900.1/install.sh similarity index 81% rename from package/jasper/1.900.2/install.sh rename to package/jasper/1.900.1/install.sh index ade3fa5..597ad15 100755 --- a/package/jasper/1.900.2/install.sh +++ b/package/jasper/1.900.1/install.sh @@ -5,8 +5,8 @@ set -e . ${DOWNLOAD_TOOL} -u https://www.ece.uvic.ca/~frodo/jasper/software/jasper-1.900.2.tar.gz cd ${JARVIS_TMP} rm -rf jasper-1.900.2 -tar -xvf ${JARVIS_DOWNLOAD}/jasper-1.900.2.tar.gz -cd jasper-1.900.2 +tar -xvf ${JARVIS_DOWNLOAD}/jasper_1.900.1.orig.tar.gz +cd jasper-1.900.1 #export CC=clang CXX=clang++ ./configure --prefix=$1 make -j diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index 62e8c97..10e2361 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -40,8 +40,6 @@ module load pixman/0.38.0 LDFLAGS=-lpng ./jarvis -install cairo/1.16.0 gcc -./jarvis -install pnetcdf/1.12.1 gcc -module load pnetcdf/1.12.1 sed -i '9c ./configure --prefix=$1 --enable-netcdf-4 --disable-shared' package/szip/2.1.1/install.sh ./jarvis -install szip/2.1.1 gcc -- Gitee From 3e8c9824ac5b49a593f7067e9533915bff951b65 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 21:27:51 +0800 Subject: [PATCH 13/51] hdfeos5 fix --- package/hdf-eos5/1.16/install.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/package/hdf-eos5/1.16/install.sh b/package/hdf-eos5/1.16/install.sh index 5a884d5..1a18153 100755 --- a/package/hdf-eos5/1.16/install.sh +++ b/package/hdf-eos5/1.16/install.sh @@ -15,7 +15,7 @@ cd ${JARVIS_TMP} tar -xvf ${JARVIS_DOWNLOAD}/HDF-EOS5.1.16.tar cd hdfeos5 -./configure CC=${JARVIS_LIBS}/gcc10/hdf5/1.12.0/bin/h5pcc --with-hdf4=${JARVIS_LIBS}/gcc10/hdf5/1.12.0 --with-zlib=/usr/local --prefix=$1 +./configure CC=${HDF5_PATH}/bin/h5pcc --with-hdf4=${JARVIS_LIBS}/gcc10/hdf5/1.12.0 --with-zlib=/usr/local --prefix=$1 make -j make install cp -r include $1/ \ No newline at end of file -- Gitee From e13c2a2081d4c21a89082596a0ab4a80518a9e71 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 21:32:03 +0800 Subject: [PATCH 14/51] hdfeos fix --- package/gdal/2.2.4/install.sh | 4 ++-- package/hdf-eos2/2.20/install.sh | 2 +- package/hdf-eos5/1.16/install.sh | 2 +- 3 files changed, 4 insertions(+), 4 deletions(-) diff --git a/package/gdal/2.2.4/install.sh b/package/gdal/2.2.4/install.sh index b1e276a..087c761 100755 --- a/package/gdal/2.2.4/install.sh +++ b/package/gdal/2.2.4/install.sh @@ -12,8 +12,8 @@ cd ${JARVIS_TMP} tar -xvf ${JARVIS_DOWNLOAD}/gdal-2.2.4.tar.gz cd gdal-2.2.4 -./configure --with-static-proj4=${JARVIS_LIBS}/gcc10/proj/5.2.0 --prefix=$1 --with-png=/usr/local --with-gif=internal --with-libtiff=internal \ - --with-geotiff=internal --with-jpeg=${JARVIS_LIBS}/gcc10/libjpeg/v9b --with-libz=/usr/local \ +./configure --with-static-proj4=${PROJ_PATH} --prefix=$1 --with-png=/usr/local --with-gif=internal --with-libtiff=internal \ + --with-geotiff=internal --with-jpeg=${LIBJPEG_PATH} --with-libz=/usr/local \ --with-sqlite3=no --with-expat=no --with-curl=no --without-ld-shared \ --with-hdf4=no --with-hdf5=no --with-pg=no --without-grib --disable-shared \ --with-freexl=no --with-geos=no --with-openjpeg=no --with-mysql=no \ diff --git a/package/hdf-eos2/2.20/install.sh b/package/hdf-eos2/2.20/install.sh index 0b2a90d..8433eec 100755 --- a/package/hdf-eos2/2.20/install.sh +++ b/package/hdf-eos2/2.20/install.sh @@ -9,7 +9,7 @@ set -e . ${DOWNLOAD_TOOL} -u https://git.earthdata.nasa.gov/rest/git-lfs/storage/DAS/hdfeos/cb0f900d2732ab01e51284d6c9e90d0e852d61bba9bce3b43af0430ab5414903?response-content-disposition=attachment%3B%20filename%3D%22HDF-EOS2.20v1.00.tar.Z%22%3B%20filename*%3Dutf-8%27%27HDF-EOS2.20v1.00.tar.Z cd ${JARVIS_DOWNLOAD} -mv cb0f900d2732ab01e51284d6c9e90d0e852d61bba9bce3b43af0430ab5414903* HDF-EOS2.20v1.00.tar +cp -f cb0f900d2732ab01e51284d6c9e90d0e852d61bba9bce3b43af0430ab5414903* HDF-EOS2.20v1.00.tar cd ${JARVIS_TMP} # gzip -d ${JARVIS_DOWNLOAD}/HDF-EOS2.20v1.00.tar tar -xvf ${JARVIS_DOWNLOAD}/HDF-EOS2.20v1.00.tar diff --git a/package/hdf-eos5/1.16/install.sh b/package/hdf-eos5/1.16/install.sh index 1a18153..9c47d5b 100755 --- a/package/hdf-eos5/1.16/install.sh +++ b/package/hdf-eos5/1.16/install.sh @@ -9,7 +9,7 @@ set -e . ${DOWNLOAD_TOOL} -u https://git.earthdata.nasa.gov/rest/git-lfs/storage/DAS/hdfeos5/7054de24b90b6d9533329ef8dc89912c5227c83fb447792103279364e13dd452?response-content-disposition=attachment%3B%20filename%3D%22HDF-EOS5.1.16.tar.Z%22%3B%20filename*%3Dutf-8%27%27HDF-EOS5.1.16.tar.Z cd ${JARVIS_DOWNLOAD} -mv 7054de24b90b6d9533329ef8dc89912c5227c83fb447792103279364e13dd452* HDF-EOS5.1.16.tar +cp -f 7054de24b90b6d9533329ef8dc89912c5227c83fb447792103279364e13dd452* HDF-EOS5.1.16.tar cd ${JARVIS_TMP} # gzip -d ${JARVIS_DOWNLOAD}/HDF-EOS2.20v1.00.tar tar -xvf ${JARVIS_DOWNLOAD}/HDF-EOS5.1.16.tar -- Gitee From 258b644b44b00f29eba39a5f06f60e0a6f81d308 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 21:33:49 +0800 Subject: [PATCH 15/51] netcdf fix --- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 1 + 1 file changed, 1 insertion(+) diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index 10e2361..bf827c5 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -46,6 +46,7 @@ sed -i '9c ./configure --prefix=$1 --enable-netcdf-4 --disable-shared' package/ sed -i '11c CC=`which mpicc` ./configure --prefix=$1 --with-zlib=/usr/local --enable-fortran --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib' package/hdf5/1.12.0/install.sh ./jarvis -install hdf5/1.12.0 gcc module load hdf5/1.12.0 +sed -i './configure --prefix=$1 ${build_type} --enable-shared --disable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-pnetcdf --enable-largefile CPPFLAGS="-O3 -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" ' package/netcdf/4.7.4/install.sh ./jarvis -install netcdf/4.7.4 gcc ./jarvis -install hdf4/4.2.14 gcc -- Gitee From 3a4392a2d98a0a8328f283885e0e2991bbc375ee Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 21:35:04 +0800 Subject: [PATCH 16/51] netcdf fix --- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index bf827c5..054d048 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -46,7 +46,7 @@ sed -i '9c ./configure --prefix=$1 --enable-netcdf-4 --disable-shared' package/ sed -i '11c CC=`which mpicc` ./configure --prefix=$1 --with-zlib=/usr/local --enable-fortran --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib' package/hdf5/1.12.0/install.sh ./jarvis -install hdf5/1.12.0 gcc module load hdf5/1.12.0 -sed -i './configure --prefix=$1 ${build_type} --enable-shared --disable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-pnetcdf --enable-largefile CPPFLAGS="-O3 -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" ' package/netcdf/4.7.4/install.sh +sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --disable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-pnetcdf --enable-largefile CPPFLAGS="-O3 -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" ' package/netcdf/4.7.4/install.sh ./jarvis -install netcdf/4.7.4 gcc ./jarvis -install hdf4/4.2.14 gcc -- Gitee From ad258c7f54cadefaad6954383cd62d5ee697ea4a Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 21:44:23 +0800 Subject: [PATCH 17/51] fix many path --- package/gdal/2.2.4/install.sh | 2 +- package/hdf-eos2/2.20/install.sh | 2 +- package/hdf-eos5/1.16/install.sh | 2 +- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 2 +- 4 files changed, 4 insertions(+), 4 deletions(-) diff --git a/package/gdal/2.2.4/install.sh b/package/gdal/2.2.4/install.sh index 087c761..031ebe7 100755 --- a/package/gdal/2.2.4/install.sh +++ b/package/gdal/2.2.4/install.sh @@ -12,7 +12,7 @@ cd ${JARVIS_TMP} tar -xvf ${JARVIS_DOWNLOAD}/gdal-2.2.4.tar.gz cd gdal-2.2.4 -./configure --with-static-proj4=${PROJ_PATH} --prefix=$1 --with-png=/usr/local --with-gif=internal --with-libtiff=internal \ +./configure --with-static-proj4=${PROJ_PATH} --prefix=$1 --with-png=${LIBPNG_PATH} --with-gif=internal --with-libtiff=internal \ --with-geotiff=internal --with-jpeg=${LIBJPEG_PATH} --with-libz=/usr/local \ --with-sqlite3=no --with-expat=no --with-curl=no --without-ld-shared \ --with-hdf4=no --with-hdf5=no --with-pg=no --without-grib --disable-shared \ diff --git a/package/hdf-eos2/2.20/install.sh b/package/hdf-eos2/2.20/install.sh index 8433eec..ed1381c 100755 --- a/package/hdf-eos2/2.20/install.sh +++ b/package/hdf-eos2/2.20/install.sh @@ -15,7 +15,7 @@ cd ${JARVIS_TMP} tar -xvf ${JARVIS_DOWNLOAD}/HDF-EOS2.20v1.00.tar cd hdfeos -ac_cv_func_malloc_0_nonnull=yes ac_cv_func_realloc_0_nonnull=yes ./configure --with-hdf4=${JARVIS_LIBS}/gcc10/hdf4/4.2.14 --with-jpeg=${JARVIS_LIBS}/gcc10/libjpeg/'*'/ --with-zlib=/usr/local --prefix=$1 +ac_cv_func_malloc_0_nonnull=yes ac_cv_func_realloc_0_nonnull=yes ./configure --with-hdf4=${HDF4_PATH} --with-jpeg=${LIBJPEG_PATH} --with-zlib=/usr/local --prefix=$1 make -j make install cp -r include $1/ \ No newline at end of file diff --git a/package/hdf-eos5/1.16/install.sh b/package/hdf-eos5/1.16/install.sh index 9c47d5b..91f72e6 100755 --- a/package/hdf-eos5/1.16/install.sh +++ b/package/hdf-eos5/1.16/install.sh @@ -15,7 +15,7 @@ cd ${JARVIS_TMP} tar -xvf ${JARVIS_DOWNLOAD}/HDF-EOS5.1.16.tar cd hdfeos5 -./configure CC=${HDF5_PATH}/bin/h5pcc --with-hdf4=${JARVIS_LIBS}/gcc10/hdf5/1.12.0 --with-zlib=/usr/local --prefix=$1 +./configure CC=${HDF5_PATH}/bin/h5pcc --with-hdf4=${HDF5_PATH} --with-zlib=/usr/local --prefix=$1 make -j make install cp -r include $1/ \ No newline at end of file diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index 054d048..13b1cc9 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -46,7 +46,7 @@ sed -i '9c ./configure --prefix=$1 --enable-netcdf-4 --disable-shared' package/ sed -i '11c CC=`which mpicc` ./configure --prefix=$1 --with-zlib=/usr/local --enable-fortran --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib' package/hdf5/1.12.0/install.sh ./jarvis -install hdf5/1.12.0 gcc module load hdf5/1.12.0 -sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --disable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-pnetcdf --enable-largefile CPPFLAGS="-O3 -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" ' package/netcdf/4.7.4/install.sh +sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --disable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-largefile CPPFLAGS="-O3 -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" ' package/netcdf/4.7.4/install.sh ./jarvis -install netcdf/4.7.4 gcc ./jarvis -install hdf4/4.2.14 gcc -- Gitee From c2f6754b7f47a377cc372612f28d029c5996dd0e Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 22:08:31 +0800 Subject: [PATCH 18/51] vis5d+ --- package/vis5dplus/1.3.0/install.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/package/vis5dplus/1.3.0/install.sh b/package/vis5dplus/1.3.0/install.sh index 2dbf227..e3e2fcd 100755 --- a/package/vis5dplus/1.3.0/install.sh +++ b/package/vis5dplus/1.3.0/install.sh @@ -15,7 +15,7 @@ cd vis5d+-1.3.0-beta sed -i '40c extern float vis_round( float x ); ' src/misc.h sed -i '150c float vis_round(float x)' src/misc.c -FFLAGS='-fno-range-check -fallow-rank-mismatch' LDFLAGS=-L${JARVIS_LIBS}/gcc10/mesa/3.1/lib CPPFLAGS=-I${JARVIS_LIBS}/gcc10/mesa/3.1/include ./configure --prefix=$1 --disable-fortran --with-netcdf=${JARVIS_LIBS}/gcc10/netcdf/4.7.4 --disable-shared +FFLAGS='-fno-range-check -fallow-rank-mismatch' LDFLAGS=-L${JARVIS_LIBS}/gcc10/mesa/3.1/lib CPPFLAGS=-I${MESA_PATH}/include ./configure --prefix=$1 --disable-fortran --with-netcdf=${JARVIS_LIBS}/gcc10/netcdf/4.7.4 --disable-shared make > make-output 2>&1 make install \ No newline at end of file -- Gitee From cd277f2171e2fe61c507f45e8918d43de1314b96 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 22:10:18 +0800 Subject: [PATCH 19/51] vis5d+ --- package/vis5dplus/1.3.0/install.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/package/vis5dplus/1.3.0/install.sh b/package/vis5dplus/1.3.0/install.sh index e3e2fcd..12bbb34 100755 --- a/package/vis5dplus/1.3.0/install.sh +++ b/package/vis5dplus/1.3.0/install.sh @@ -15,7 +15,7 @@ cd vis5d+-1.3.0-beta sed -i '40c extern float vis_round( float x ); ' src/misc.h sed -i '150c float vis_round(float x)' src/misc.c -FFLAGS='-fno-range-check -fallow-rank-mismatch' LDFLAGS=-L${JARVIS_LIBS}/gcc10/mesa/3.1/lib CPPFLAGS=-I${MESA_PATH}/include ./configure --prefix=$1 --disable-fortran --with-netcdf=${JARVIS_LIBS}/gcc10/netcdf/4.7.4 --disable-shared +FFLAGS='-fno-range-check -fallow-rank-mismatch' LDFLAGS=-L${MESA_PATH}/lib CPPFLAGS=-I${MESA_PATH}/include ./configure --prefix=$1 --disable-fortran --with-netcdf=${NETCDF_PATH} --disable-shared make > make-output 2>&1 make install \ No newline at end of file -- Gitee From c659af3e68e38668e091b8cd5d93edaab1767aae Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 22:11:36 +0800 Subject: [PATCH 20/51] hdf4 fix --- package/hdf4/4.2.14/install.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/package/hdf4/4.2.14/install.sh b/package/hdf4/4.2.14/install.sh index 6073220..8a74093 100755 --- a/package/hdf4/4.2.14/install.sh +++ b/package/hdf4/4.2.14/install.sh @@ -6,6 +6,6 @@ cd ${JARVIS_TMP} rm -rf hdf-4.2.14 tar -xvf ${JARVIS_DOWNLOAD}/hdf-4.2.14.tar.gz cd hdf-4.2.14 -FFLAGS+='-fallow-argument-mismatch' ./configure --prefix=$1 --with-zlib=/usr/local --with-jpeg=${JARVIS_LIBS}/gcc10/libjpeg/*/ --disable-netcdf +FFLAGS+='-fallow-argument-mismatch' ./configure --prefix=$1 --with-zlib=/usr/local --with-jpeg=${LIBJPEG_PATH} --disable-netcdf make -j make install -- Gitee From 5ac0ce5a08c5ddafb3c7be937d768e2d74cbe22c Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 22:34:23 +0800 Subject: [PATCH 21/51] fix hdf4 --- package/hdf4/{4.2.14 => 4.2.15}/install.sh | 8 ++++---- package/vis5dplus/1.3.0/install.sh | 4 ++-- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 6 +++--- 3 files changed, 9 insertions(+), 9 deletions(-) rename package/hdf4/{4.2.14 => 4.2.15}/install.sh (69%) diff --git a/package/hdf4/4.2.14/install.sh b/package/hdf4/4.2.15/install.sh similarity index 69% rename from package/hdf4/4.2.14/install.sh rename to package/hdf4/4.2.15/install.sh index 8a74093..f358183 100755 --- a/package/hdf4/4.2.14/install.sh +++ b/package/hdf4/4.2.15/install.sh @@ -1,11 +1,11 @@ #!/bin/bash set -x set -e -. ${DOWNLOAD_TOOL} -u https://support.hdfgroup.org/ftp/HDF/releases/HDF4.2.14/src/hdf-4.2.14.tar.gz +. ${DOWNLOAD_TOOL} -u https://support.hdfgroup.org/ftp/HDF/releases/HDF4.2.14/src/hdf-4.2.15.tar.gz cd ${JARVIS_TMP} -rm -rf hdf-4.2.14 -tar -xvf ${JARVIS_DOWNLOAD}/hdf-4.2.14.tar.gz -cd hdf-4.2.14 +rm -rf hdf-4.2.15 +tar -xvf ${JARVIS_DOWNLOAD}/hdf-4.2.15.tar.gz +cd hdf-4.2.15 FFLAGS+='-fallow-argument-mismatch' ./configure --prefix=$1 --with-zlib=/usr/local --with-jpeg=${LIBJPEG_PATH} --disable-netcdf make -j make install diff --git a/package/vis5dplus/1.3.0/install.sh b/package/vis5dplus/1.3.0/install.sh index 12bbb34..e99a510 100755 --- a/package/vis5dplus/1.3.0/install.sh +++ b/package/vis5dplus/1.3.0/install.sh @@ -15,7 +15,7 @@ cd vis5d+-1.3.0-beta sed -i '40c extern float vis_round( float x ); ' src/misc.h sed -i '150c float vis_round(float x)' src/misc.c -FFLAGS='-fno-range-check -fallow-rank-mismatch' LDFLAGS=-L${MESA_PATH}/lib CPPFLAGS=-I${MESA_PATH}/include ./configure --prefix=$1 --disable-fortran --with-netcdf=${NETCDF_PATH} --disable-shared +FFLAGS='-fno-range-check -fallow-rank-mismatch' LDFLAGS=-L${MESA_PATH}/lib CFLAGS=-I${MESA_PATH}/include CPPFLAGS=-I${MESA_PATH}/include ./configure --prefix=$1 --disable-fortran --with-netcdf=${NETCDF_PATH} --disable-shared -make > make-output 2>&1 +make make install \ No newline at end of file diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index 13b1cc9..b4be695 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -49,12 +49,12 @@ module load hdf5/1.12.0 sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --disable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-largefile CPPFLAGS="-O3 -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" ' package/netcdf/4.7.4/install.sh ./jarvis -install netcdf/4.7.4 gcc -./jarvis -install hdf4/4.2.14 gcc +./jarvis -install hdf4/4.2.15 gcc -./jarvis -install gsl/2.6.0 gcc -./jarvis -install jasper/1.900.2 gcc +./jarvis -install gsl/2.6 gcc +./jarvis -install jasper/1.900.1 gcc ./jarvis -install proj/5.2.0 gcc ./jarvis -install gdal/2.2.4 gcc ./jarvis -install hdf-eos2/2.20 gcc -- Gitee From 5678224209fee741e07ea982e8f9abb149e40acf Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 22:37:44 +0800 Subject: [PATCH 22/51] jasper --- package/jasper/1.900.1/install.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/package/jasper/1.900.1/install.sh b/package/jasper/1.900.1/install.sh index 597ad15..c1aebc6 100755 --- a/package/jasper/1.900.1/install.sh +++ b/package/jasper/1.900.1/install.sh @@ -2,7 +2,7 @@ #!/bin/bash set -x set -e -. ${DOWNLOAD_TOOL} -u https://www.ece.uvic.ca/~frodo/jasper/software/jasper-1.900.2.tar.gz +. ${DOWNLOAD_TOOL} -u https://www.ece.uvic.ca/~frodo/jasper/software/jasper_1.900.1.orig.tar.gz cd ${JARVIS_TMP} rm -rf jasper-1.900.2 tar -xvf ${JARVIS_DOWNLOAD}/jasper_1.900.1.orig.tar.gz -- Gitee From 6b4790c4f07ce1bc769a75a1088eccd96b22948f Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 22:44:37 +0800 Subject: [PATCH 23/51] link fix --- package/hdf4/4.2.15/install.sh | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/package/hdf4/4.2.15/install.sh b/package/hdf4/4.2.15/install.sh index f358183..32f1689 100755 --- a/package/hdf4/4.2.15/install.sh +++ b/package/hdf4/4.2.15/install.sh @@ -1,10 +1,10 @@ #!/bin/bash set -x set -e -. ${DOWNLOAD_TOOL} -u https://support.hdfgroup.org/ftp/HDF/releases/HDF4.2.14/src/hdf-4.2.15.tar.gz +. ${DOWNLOAD_TOOL} -u https://support.hdfgroup.org/ftp/HDF/releases/HDF4.2.15/src/hdf-4.2.15.tar.gz cd ${JARVIS_TMP} rm -rf hdf-4.2.15 -tar -xvf ${JARVIS_DOWNLOAD}/hdf-4.2.15.tar.gz +tar -xvf ${JARVIS_DOWNLOAD}/hdf-4.2.j15.tar.gz cd hdf-4.2.15 FFLAGS+='-fallow-argument-mismatch' ./configure --prefix=$1 --with-zlib=/usr/local --with-jpeg=${LIBJPEG_PATH} --disable-netcdf make -j -- Gitee From aa65d258edf786565241c02806df04818a95abf9 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 23:00:42 +0800 Subject: [PATCH 24/51] fix --- package/hdf4/4.2.15/install.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/package/hdf4/4.2.15/install.sh b/package/hdf4/4.2.15/install.sh index 32f1689..58d4234 100755 --- a/package/hdf4/4.2.15/install.sh +++ b/package/hdf4/4.2.15/install.sh @@ -4,7 +4,7 @@ set -e . ${DOWNLOAD_TOOL} -u https://support.hdfgroup.org/ftp/HDF/releases/HDF4.2.15/src/hdf-4.2.15.tar.gz cd ${JARVIS_TMP} rm -rf hdf-4.2.15 -tar -xvf ${JARVIS_DOWNLOAD}/hdf-4.2.j15.tar.gz +tar -xvf ${JARVIS_DOWNLOAD}/hdf-4.2.15.tar.gz cd hdf-4.2.15 FFLAGS+='-fallow-argument-mismatch' ./configure --prefix=$1 --with-zlib=/usr/local --with-jpeg=${LIBJPEG_PATH} --disable-netcdf make -j -- Gitee From 77d871f40eea3827e1b4a34a646e9617df529e84 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sat, 28 Jan 2023 23:29:00 +0800 Subject: [PATCH 25/51] hdf4 --- package/hdf4/4.2.15/install.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/package/hdf4/4.2.15/install.sh b/package/hdf4/4.2.15/install.sh index 58d4234..dcadcb0 100755 --- a/package/hdf4/4.2.15/install.sh +++ b/package/hdf4/4.2.15/install.sh @@ -6,6 +6,6 @@ cd ${JARVIS_TMP} rm -rf hdf-4.2.15 tar -xvf ${JARVIS_DOWNLOAD}/hdf-4.2.15.tar.gz cd hdf-4.2.15 -FFLAGS+='-fallow-argument-mismatch' ./configure --prefix=$1 --with-zlib=/usr/local --with-jpeg=${LIBJPEG_PATH} --disable-netcdf +FFLAGS+='-fallow-argument-mismatch' ./configure --prefix=$1 --with-zlib=/usr/local --disable-fortran --with-jpeg=${LIBJPEG_PATH} --disable-netcdf make -j make install -- Gitee From e02b7658a0df7d980c7507ce43267e82c0eb9301 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sun, 29 Jan 2023 01:03:38 +0800 Subject: [PATCH 26/51] fix --- package/g2clib/1.6.0/install.sh | 2 +- package/mesa/3.1/install.sh | 2 +- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 4 ++-- 3 files changed, 4 insertions(+), 4 deletions(-) diff --git a/package/g2clib/1.6.0/install.sh b/package/g2clib/1.6.0/install.sh index eef6161..7afbc2a 100755 --- a/package/g2clib/1.6.0/install.sh +++ b/package/g2clib/1.6.0/install.sh @@ -13,7 +13,7 @@ cd ${JARVIS_TMP} tar -xvf ${JARVIS_DOWNLOAD}/g2clib-image/g2clib-1.6.0-patch.tar.gz cd g2clib-1.6.0-patch -sed -i '22c INC=-I/glade/p/work/haley/dev/external/gnu/4.7.2/include -I${JARVIS_LIBS}/gcc10/jasper/1.900.2/include' makefile +sed -i '22c INC=-I/glade/p/work/haley/dev/external/gnu/4.7.2/include -I${JSAPER_PATH}/include' makefile make all mkdir $1/lib mkdir $1/include diff --git a/package/mesa/3.1/install.sh b/package/mesa/3.1/install.sh index 015335c..99be14a 100755 --- a/package/mesa/3.1/install.sh +++ b/package/mesa/3.1/install.sh @@ -9,7 +9,7 @@ set -e . ${DOWNLOAD_TOOL} -u https://archive.mesa3d.org/older-versions/3.x/MesaLib-3.1.tar.gz cd ${JARVIS_TMP} - +rm -rf Mesa-3.1 tar -xvf ${JARVIS_DOWNLOAD}/MesaLib-3.1.tar.gz cd Mesa-3.1 cp -f /usr/share/libtool/build-aux/config.guess ./ diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index b4be695..c7c642f 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -49,8 +49,8 @@ module load hdf5/1.12.0 sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --disable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-largefile CPPFLAGS="-O3 -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" ' package/netcdf/4.7.4/install.sh ./jarvis -install netcdf/4.7.4 gcc -./jarvis -install hdf4/4.2.15 gcc - +CFLAGS='-I/usr/include/tirpc' LDFLAGS='-ltirpc' ./jarvis -install hdf4/4.2.15 gcc +module load hdf4/4.2.15 ./jarvis -install gsl/2.6 gcc -- Gitee From 6b4133d68f4c88b109e74b6d66bb4e061c0664ee Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sun, 29 Jan 2023 01:05:01 +0800 Subject: [PATCH 27/51] fix --- package/g2clib/1.6.0/install.sh | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/package/g2clib/1.6.0/install.sh b/package/g2clib/1.6.0/install.sh index 7afbc2a..4cd1f94 100755 --- a/package/g2clib/1.6.0/install.sh +++ b/package/g2clib/1.6.0/install.sh @@ -13,7 +13,7 @@ cd ${JARVIS_TMP} tar -xvf ${JARVIS_DOWNLOAD}/g2clib-image/g2clib-1.6.0-patch.tar.gz cd g2clib-1.6.0-patch -sed -i '22c INC=-I/glade/p/work/haley/dev/external/gnu/4.7.2/include -I${JSAPER_PATH}/include' makefile +sed -i '22c INC=-I/glade/p/work/haley/dev/external/gnu/4.7.2/include -I${JASPER_PATH}/include' makefile make all mkdir $1/lib mkdir $1/include -- Gitee From 688e97be9a8e8676eb34f574da18487d26c17986 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sun, 29 Jan 2023 01:06:57 +0800 Subject: [PATCH 28/51] config --- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 30 ++++++++++++++------- 1 file changed, 20 insertions(+), 10 deletions(-) diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index c7c642f..902324b 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -13,7 +13,8 @@ module use ./software/modulefiles module load gcc/10.3.0 ./jarvis -install libjpeg/v9b gcc ./jarvis -install openmpi/4.1.2 gcc -module load libjpeg +./jarvis -install libjpeg/v9b gcc +module load libjpeg/v9b module load openmpi @@ -37,7 +38,11 @@ export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${FREETYPE_PATH}/lib/pkgconfig/:${LIBPNG export C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc10.3.0/libpng/1.6.37/include:${JARVIS_LIBS}/gcc10.3.0/freetype/2.5.1/include:${JARVIS_LIBS}/gcc10.3.0/hdf5/1.12.0/include:${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/include export FREETYPE_CONFIG="-lfreetype2" module load pixman/0.38.0 -LDFLAGS=-lpng ./jarvis -install cairo/1.16.0 gcc + + + +CC=`which gcc` +./jarvis -install cairo/1.16.0 gcc sed -i '9c ./configure --prefix=$1 --enable-netcdf-4 --disable-shared' package/szip/2.1.1/install.sh @@ -55,13 +60,17 @@ module load hdf4/4.2.15 ./jarvis -install gsl/2.6 gcc ./jarvis -install jasper/1.900.1 gcc +module load jasper/1.900.1 +./jarvis -install g2clib/1.6.0 gcc +module load g2clib/1.6.0 ./jarvis -install proj/5.2.0 gcc ./jarvis -install gdal/2.2.4 gcc ./jarvis -install hdf-eos2/2.20 gcc ./jarvis -install hdf-eos5/1.16 gcc - +./jarvis -install udunits/2.28 gcc ./jarvis -install mesa/3.1 gcc module load mesa/3.1 + ./jarvis -install vis5dplus/1.3.0 gcc @@ -71,7 +80,7 @@ module purge module use ./software/modulefiles module load gcc/10.3.0 -module load openmpi4 +module load openmpi module load libjpeg module load hdf5/1.12.0 module load libpng/1.6.37 @@ -79,22 +88,22 @@ module load pkg-config/0.29 module load pixman/0.38.0 module load pnetcdf/1.12.1 module load netcdf/4.7.4 -module load hdf4/4.2.14 -module load hdf5/1.10.4 +module load hdf4/4.2.15 +module load hdf5/1.12.0 module load g2clib/1.6.0 module load gsl/2.6 module load hdf-eos2/2.20 module load hdf-eos5/1.16 -module load jasper/1.900.2 +module load jasper/1.900.1 module load proj/5.2.0 module load gdal/2.2.4 -module load udunits/2.2.28 + module load mesa/3.1 module load vis5dplus/1.3.0 export CC=`which mpicc` export F77=`which mpif77` export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib:${JARVIS_LIBS}/gcc10.3.0/libjpeg/v9b/lib:${JARVIS_LIBS}/gcc10.3.0/gsl/2.6/lib - +mkdir ${JARVIS_LIBS}/gcc10.3.0/ncl [APP] @@ -114,7 +123,8 @@ unzip triangle.zip 'triangle.*' -d ./ni/src/lib/hlu/ rm -f triangle.zip cd config - +export CC=`which mpicc` +export F77=`which mpif77` make -f Makefile.ini ./ymake -config `pwd` -- Gitee From 6eb2c4ac3435117ec87a10ecafbd5cc32d178784 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sun, 29 Jan 2023 01:11:22 +0800 Subject: [PATCH 29/51] config --- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index 902324b..8094c8c 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -67,7 +67,7 @@ module load g2clib/1.6.0 ./jarvis -install gdal/2.2.4 gcc ./jarvis -install hdf-eos2/2.20 gcc ./jarvis -install hdf-eos5/1.16 gcc -./jarvis -install udunits/2.28 gcc +./jarvis -install udunits/2.2.28 gcc ./jarvis -install mesa/3.1 gcc module load mesa/3.1 @@ -97,7 +97,7 @@ module load hdf-eos5/1.16 module load jasper/1.900.1 module load proj/5.2.0 module load gdal/2.2.4 - +module load udunits/2.2.28 module load mesa/3.1 module load vis5dplus/1.3.0 export CC=`which mpicc` -- Gitee From 294f8ea57581212b17b7977f7e4bd2af3fbaa666 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sun, 29 Jan 2023 16:05:30 +0800 Subject: [PATCH 30/51] fix cotainer --- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 30 +++++++++++---------- 1 file changed, 16 insertions(+), 14 deletions(-) diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index 8094c8c..aeb86c1 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -35,7 +35,7 @@ module load freetype/2.5.1 export PATH=${JARVIS_LIBS}/gcc10.3.0/pkg-config/0.29/bin:$PATH export png_REQUIRES="libpng16" export PKG_CONFIG_PATH=$PKG_CONFIG_PATH:${FREETYPE_PATH}/lib/pkgconfig/:${LIBPNG_PATH}/lib/pkgconfig:${JARVIS_LIBS}/gcc10.3.0/pixman/0.38.0/lib/pkgconfig/:${JARVIS_LIBS}/gcc10.3.0/pkg-config/0.29 -export C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc10.3.0/libpng/1.6.37/include:${JARVIS_LIBS}/gcc10.3.0/freetype/2.5.1/include:${JARVIS_LIBS}/gcc10.3.0/hdf5/1.12.0/include:${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/include +export C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc10.3.0/libpng/1.6.37/include:${JARVIS_LIBS}/gcc10.3.0/hdf5/1.10.4/include:${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/include export FREETYPE_CONFIG="-lfreetype2" module load pixman/0.38.0 @@ -48,10 +48,11 @@ CC=`which gcc` sed -i '9c ./configure --prefix=$1 --enable-netcdf-4 --disable-shared' package/szip/2.1.1/install.sh ./jarvis -install szip/2.1.1 gcc -sed -i '11c CC=`which mpicc` ./configure --prefix=$1 --with-zlib=/usr/local --enable-fortran --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib' package/hdf5/1.12.0/install.sh -./jarvis -install hdf5/1.12.0 gcc -module load hdf5/1.12.0 -sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --disable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-largefile CPPFLAGS="-O3 -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" ' package/netcdf/4.7.4/install.sh +sed -i '11c CC=`which mpicc` ./configure --prefix=$1 --with-zlib=/usr/local --enable-fortran --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib' package/hdf5/1.10.4/install.sh +./jarvis -install hdf5/1.10.4 gcc +module load hdf5/1.10.4 +echo ${HDF5_PATH} +sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --enable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-largefile CPPFLAGS="-O3 -I${OPENMPI_PATH}/include -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" ' package/netcdf/4.7.4/install.sh ./jarvis -install netcdf/4.7.4 gcc CFLAGS='-I/usr/include/tirpc' LDFLAGS='-ltirpc' ./jarvis -install hdf4/4.2.15 gcc @@ -73,7 +74,7 @@ module load mesa/3.1 ./jarvis -install vis5dplus/1.3.0 gcc - +mkdir ${JARVIS_LIBS}/gcc10.3.0/ncl [ENV] module purge @@ -82,14 +83,13 @@ module use ./software/modulefiles module load gcc/10.3.0 module load openmpi module load libjpeg -module load hdf5/1.12.0 +module load hdf5/1.10.4 module load libpng/1.6.37 module load pkg-config/0.29 module load pixman/0.38.0 -module load pnetcdf/1.12.1 module load netcdf/4.7.4 module load hdf4/4.2.15 -module load hdf5/1.12.0 +module load hdf5/1.10.4 module load g2clib/1.6.0 module load gsl/2.6 module load hdf-eos2/2.20 @@ -103,7 +103,7 @@ module load vis5dplus/1.3.0 export CC=`which mpicc` export F77=`which mpif77` export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib:${JARVIS_LIBS}/gcc10.3.0/libjpeg/v9b/lib:${JARVIS_LIBS}/gcc10.3.0/gsl/2.6/lib -mkdir ${JARVIS_LIBS}/gcc10.3.0/ncl + [APP] @@ -143,8 +143,9 @@ sed -i '/#define ManRoot/a \ #define LibPath ${JARVIS_LIBS}/gcc10.3.0/ncl/lib \ #define IncPath ${JARVIS_LIBS}/gcc10.3.0/ncl/include \ #define ManPath ${JARVIS_LIBS}/gcc10.3.0/ncl/man \ -#define LibSearch -L/usr/local/lib -L${JARVIS_LIBS}/gcc10.3.0/jasper/1.900.2/lib -L${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib -L${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10.3.0/pixman/0.38.0/lib -L${JARVIS_MPI}/openmpi4-gcc10.3.0/4.1.2/lib -L${JARVIS_LIBS}/gcc10.3.0/hdf5/1.10.4/lib -L${JARVIS_LIBS}/gcc10.3.0/gsl/2.6/lib -L${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/lib -L${JARVIS_LIBS}/gcc10.3.0/hdf4/4.2.14/lib -L${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10.3.0/freetype/2.5.1/lib -L${JARVIS_LIBS}/gcc10.3.0/udunits/2.2.28/lib -L${JARVIS_LIBS}/gcc10.3.0/g2clib/1.6.0/lib -L${JARVIS_LIBS}/gcc10.3.0/hdf-eos2/2.20/lib -L${JARVIS_LIBS}/gcc10.3.0/hdf-eos5/1.16/lib\ -#define IncSearch -I/usr/local/include -I${JARVIS_MPI}/openmpi4-gcc10.3.0/4.1.2/include -I${JARVIS_LIBS}/gcc10.3.0/hdf5/1.10.4/include -I${JARVIS_LIBS}/gcc10.3.0/gsl/2.6/include -I${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/include -I${JARVIS_LIBS}/gcc10.3.0/hdf4/4.2.14/include -I${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/include -I${JARVIS_LIBS}/gcc10.3.0/freetype/2.5.1/include -I${JARVIS_LIBS}/gcc10.3.0/udunits/2.2.28/include -I${JARVIS_LIBS}/gcc10.3.0/g2clib/1.6.0/include -I${JARVIS_LIBS}/gcc10.3.0/hdf-eos2/2.20/include -I${JARVIS_LIBS}/gcc10.3.0/hdf-eos5/1.16/include' ./Site +#define LibSearch -L/usr/lib64 -L/usr/local/lib -ltirpc -L${LIBJPEG_PATH}/lib -L${LIBPNG_PATH}/lib -L${JARVIS_LIBS}/gcc10.3.0/jasper/1.900.1/lib -L${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib -L${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10.3.0/pixman/0.38.0/lib -L${JARVIS_MPI}/openmpi4.1.2-gcc10.3.0/4.1.2/lib -L${JARVIS_LIBS}/gcc10.3.0/hdf5/1.10.4/lib -L${JARVIS_LIBS}/gcc10.3.0/gsl/2.6/lib -L${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/lib -L${JARVIS_LIBS}/gcc10.3.0/hdf4/4.2.15/lib -L${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10.3.0/udunits/2.2.28/lib -L${JARVIS_LIBS}/gcc10.3.0/g2clib/1.6.0/lib -L${JARVIS_LIBS}/gcc10.3.0/hdf-eos2/2.20/lib -L${JARVIS_LIBS}/gcc10.3.0/hdf-eos5/1.16/lib\ +#define IncSearch -I/usr/local/include -I${LIBPNG_PATH}/include -I${JARVIS_MPI}/openmpi4.1.2-gcc10.3.0/4.1.2/include -I${JARVIS_LIBS}/gcc10.3.0/hdf5/1.10.4/include -I${JARVIS_LIBS}/gcc10.3.0/gsl/2.6/include -I${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/include -I${JARVIS_LIBS}/gcc10.3.0/hdf4/4.2.15/include -I${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/include -I${JARVIS_LIBS}/gcc10.3.0/freetype/2.5.1/include -I${JARVIS_LIBS}/gcc10.3.0/udunits/2.2.28/include -I${JARVIS_LIBS}/gcc10.3.0/g2clib/1.6.0/include -I${JARVIS_LIBS}/gcc10.3.0/hdf-eos2/2.20/include -I${JARVIS_LIBS}/gcc10.3.0/hdf-eos5/1.16/include\ +#define XdrLibrary -ltirpc' ./Site sed -i '/#ifdef hostshavano/a\ #define BuildNCL 1 \ @@ -161,9 +162,10 @@ ac_cv_func_malloc_0_nonnull=yes ac_cv_func_realloc_0_nonnull=yes ./Configure -nc sed -i "34c\ r = (iand(index, RMASK) / int(Z'0000FFFF')) / 255." ncarg2d/src/libncarg_gks/bwi/argb2ci.f sed -i "35c\ g = (iand(index, GMASK) / int(Z'000000FF')) / 255." ncarg2d/src/libncarg_gks/bwi/argb2ci.f -C_INCLUDE_PATH=$C_INCLUDE_PATH:${JARVIS_LIBS}/gcc10.3.0/g2clib/include:${JARVIS_LIBS}/gcc10.3.0/udunits/include:${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/include:${JARVIS_LIBS}/gcc10.3.0/hdf4/4.2.14/include + +C_INCLUDE_PATH=$C_INCLUDE_PATH:${LIBPNG_PATH}/include:${JARVIS_LIBS}/gcc10.3.0/g2clib/include:${JARVIS_LIBS}/gcc10.3.0/udunits/include:${JARVIS_LIBS}/gcc10.3.0/netcdf/4.7.4/include:${JARVIS_LIBS}/gcc10.3.0/hdf4/4.2.15/include CC=gcc FC=`which gfortran` \ -EXTRA_CCOPTIONS='-I${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/include -I${JARVIS_LIBS}/gcc10.3.0/freetype/2.5.1/include -L${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10.3.0/pixman/0.38.0/lib' +EXTRA_CCOPTIONS='-L/usr/lib64 -ltirpc -L${LIBPNG_PATH}/lib -I${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/include -I${LIBPNG_PATH}/include -I${JARVIS_LIBS}/gcc10.3.0/freetype/2.5.1/include -L${JARVIS_LIBS}/gcc10.3.0/cairo/1.16.0/lib -L${JARVIS_LIBS}/gcc10.3.0/pixman/0.38.0/lib' EXTRA_FCOPTIONS='-fallow-argument-mismatch -fallow-invalid-boz' \ make Everything >& make-output make install >& install-output -- Gitee From 42dd6c725175257941541e21b7b68d55604de69a Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sun, 29 Jan 2023 17:33:06 +0800 Subject: [PATCH 31/51] nco --- ...ta.NCO.amd.cpu.config => data.NCO.x86.cpu.config} | 12 ++++++++---- 1 file changed, 8 insertions(+), 4 deletions(-) rename templates/nco/5.1.4/{data.NCO.amd.cpu.config => data.NCO.x86.cpu.config} (53%) diff --git a/templates/nco/5.1.4/data.NCO.amd.cpu.config b/templates/nco/5.1.4/data.NCO.x86.cpu.config similarity index 53% rename from templates/nco/5.1.4/data.NCO.amd.cpu.config rename to templates/nco/5.1.4/data.NCO.x86.cpu.config index ce08ec3..88c0319 100644 --- a/templates/nco/5.1.4/data.NCO.amd.cpu.config +++ b/templates/nco/5.1.4/data.NCO.x86.cpu.config @@ -10,14 +10,18 @@ set -x module purge ./jarvis -install gcc/10.3.0 com module use ./software/modulefiles -module load gcc10/10.3.0 +module load gcc/10.3.0 ./jarvis -install libjpeg/v9b gcc ./jarvis -install openmpi/4.1.2 gcc module load libjpeg -module load openmpi4 - +module load openmpi +./jarvis -install pnetcdf/1.12.1 gcc +module load pnetcdf/1.12.1 +./jarvis -install hdf5/1.12.0 gcc +module load hdf5/1.12.0 +sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --enable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-largefile CPPFLAGS="-O3 -I${OPENMPI_PATH}/include -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" ' package/netcdf/4.7.4/install.sh ./jarvis -install netcdf/4.7.4 gcc ./jarvis -install gsl/2.6 gcc ./jarvis -install antlr/2.7.7 gcc @@ -53,7 +57,7 @@ rm -rf nco-5.1.4 tar zxvf ${JARVIS_DOWNLOAD}/nco-5.1.4.tar.gz cd nco-5.1.4 -./configure CPPFLAGS="-I${JARVIS_LIBS}/gcc10/antlr/2.7.7/include" CFLAGS="-I${JARVIS_LIBS}/gcc10/udunits/2.2.28/include -L${JARVIS_LIBS}/gcc10/udunits/2.2.28/lib " --prefix=${JARVIS_LIBS}/gcc10/nco NETCDF_INC=${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include NETCDF_LIB=${JARVIS_LIBS}/gcc10/netcdf/4.7.4/lib +./configure CPPFLAGS="-I${ANTLR_PATH}/include" CFLAGS="-I${UDUNITS_PATH}/include -L${UDUNITS_PATH}/lib " --prefix=${JARVIS_LIBS}/gcc10/nco NETCDF_INC=${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include NETCDF_LIB=${JARVIS_LIBS}/gcc10/netcdf/4.7.4/lib make make install -- Gitee From b57ec9d2100edff364d1cb1ce6fe167700859bb5 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sun, 29 Jan 2023 17:34:21 +0800 Subject: [PATCH 32/51] nco --- templates/nco/5.1.4/data.NCO.x86.cpu.config | 7 +++++-- 1 file changed, 5 insertions(+), 2 deletions(-) diff --git a/templates/nco/5.1.4/data.NCO.x86.cpu.config b/templates/nco/5.1.4/data.NCO.x86.cpu.config index 88c0319..71f70dc 100644 --- a/templates/nco/5.1.4/data.NCO.x86.cpu.config +++ b/templates/nco/5.1.4/data.NCO.x86.cpu.config @@ -32,8 +32,11 @@ sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --enable-netcd module purge module use ./software/modulefiles -module load gcc10/10.3.0 -module load openmpi4 + +module load gcc/10.3.0 +module load openmpi +module load pnetcdf/1.12.1 +module load hdf5/1.12.0 module load netcdf/4.7.4 module load gsl/2.6 module load antlr/2.7.7 -- Gitee From 3e21b22d878fc5380cf932f1d481c36e756c33fd Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sun, 29 Jan 2023 17:48:02 +0800 Subject: [PATCH 33/51] nco --- templates/nco/5.1.4/data.NCO.x86.cpu.config | 2 -- 1 file changed, 2 deletions(-) diff --git a/templates/nco/5.1.4/data.NCO.x86.cpu.config b/templates/nco/5.1.4/data.NCO.x86.cpu.config index 71f70dc..8572e14 100644 --- a/templates/nco/5.1.4/data.NCO.x86.cpu.config +++ b/templates/nco/5.1.4/data.NCO.x86.cpu.config @@ -17,8 +17,6 @@ module load libjpeg module load openmpi -./jarvis -install pnetcdf/1.12.1 gcc -module load pnetcdf/1.12.1 ./jarvis -install hdf5/1.12.0 gcc module load hdf5/1.12.0 sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --enable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-largefile CPPFLAGS="-O3 -I${OPENMPI_PATH}/include -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" ' package/netcdf/4.7.4/install.sh -- Gitee From 422dcd8c896ebf63e5100661ee90465fc72672c6 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sun, 29 Jan 2023 17:56:22 +0800 Subject: [PATCH 34/51] nco --- templates/nco/5.1.4/data.NCO.x86.cpu.config | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/templates/nco/5.1.4/data.NCO.x86.cpu.config b/templates/nco/5.1.4/data.NCO.x86.cpu.config index 8572e14..542e352 100644 --- a/templates/nco/5.1.4/data.NCO.x86.cpu.config +++ b/templates/nco/5.1.4/data.NCO.x86.cpu.config @@ -58,7 +58,7 @@ rm -rf nco-5.1.4 tar zxvf ${JARVIS_DOWNLOAD}/nco-5.1.4.tar.gz cd nco-5.1.4 -./configure CPPFLAGS="-I${ANTLR_PATH}/include" CFLAGS="-I${UDUNITS_PATH}/include -L${UDUNITS_PATH}/lib " --prefix=${JARVIS_LIBS}/gcc10/nco NETCDF_INC=${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include NETCDF_LIB=${JARVIS_LIBS}/gcc10/netcdf/4.7.4/lib +./configure CPPFLAGS="-I${ANTLR_PATH}/include" CFLAGS="-I${NETCDF_PATH}/include -I${UDUNITS_PATH}/include -L${UDUNITS_PATH}/lib " --prefix=${JARVIS_LIBS}/gcc10/nco NETCDF_INC=${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include NETCDF_LIB=${JARVIS_LIBS}/gcc10/netcdf/4.7.4/lib make make install -- Gitee From 95f2aabde3739989e633df8646636e923ea78ee6 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Sun, 29 Jan 2023 18:18:26 +0800 Subject: [PATCH 35/51] nco --- templates/nco/5.1.4/data.NCO.x86.cpu.config | 15 +++++++++------ 1 file changed, 9 insertions(+), 6 deletions(-) diff --git a/templates/nco/5.1.4/data.NCO.x86.cpu.config b/templates/nco/5.1.4/data.NCO.x86.cpu.config index 542e352..afa39ac 100644 --- a/templates/nco/5.1.4/data.NCO.x86.cpu.config +++ b/templates/nco/5.1.4/data.NCO.x86.cpu.config @@ -33,7 +33,7 @@ module use ./software/modulefiles module load gcc/10.3.0 module load openmpi -module load pnetcdf/1.12.1 + module load hdf5/1.12.0 module load netcdf/4.7.4 module load gsl/2.6 @@ -47,10 +47,10 @@ export CC=`which gcc` [APP] -app_name = NCL +app_name = NCO build_dir = ${JARVIS_TMP}/ncl_ncarg-6.6.2 -binary_dir = ${JARVIS_LIBS}/gcc10/nco/bin -case_dir = ${JARVIS_LIBS}/gcc10/ncl/bin +binary_dir = ${JARVIS_LIBS}/gcc10.3.0/nco/bin +case_dir = ${JARVIS_LIBS}/gcc10.3.0/nco/bin [BUILD] cd ${JARVIS_TMP} @@ -58,7 +58,10 @@ rm -rf nco-5.1.4 tar zxvf ${JARVIS_DOWNLOAD}/nco-5.1.4.tar.gz cd nco-5.1.4 -./configure CPPFLAGS="-I${ANTLR_PATH}/include" CFLAGS="-I${NETCDF_PATH}/include -I${UDUNITS_PATH}/include -L${UDUNITS_PATH}/lib " --prefix=${JARVIS_LIBS}/gcc10/nco NETCDF_INC=${JARVIS_LIBS}/gcc10/netcdf/4.7.4/include NETCDF_LIB=${JARVIS_LIBS}/gcc10/netcdf/4.7.4/lib +echo ${UDUNITS_PATH} +export NETCDF_INC=${NETCDF_PATH}/include +export NETCDF_LIB=${NETCDF_PATH}/lib +./configure CPPFLAGS="-I${ANTLR_PATH}/include -I${UDUNITS_PATH}/include" CFLAGS="-L${ANTLR_PATH}/lib -I${NETCDF_PATH}/include -I${UDUNITS_PATH}/include -L${UDUNITS_PATH}/lib " --prefix=${JARVIS_LIBS}/gcc10.3.0/nco make make install @@ -67,6 +70,6 @@ make install [RUN] -run = ncl -V && ng4ex gsun01n && ncl gsun01n.ncl +run = ./ncap2 -v binary = nodes = 1 -- Gitee From a9993f358908f2018889fe8d9aff8ee6f55c3b0e Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Mon, 30 Jan 2023 00:23:52 +0800 Subject: [PATCH 36/51] ncview --- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 4 +++- ...a.ncview.amd.cpu.config => data.ncview.x86.cpu.config} | 8 ++++---- 2 files changed, 7 insertions(+), 5 deletions(-) rename templates/ncview/2.1.7/{data.ncview.amd.cpu.config => data.ncview.x86.cpu.config} (90%) diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index aeb86c1..e19cfca 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -170,7 +170,9 @@ EXTRA_FCOPTIONS='-fallow-argument-mismatch -fallow-invalid-boz' \ make Everything >& make-output make install >& install-output export PATH=$PATH:${JARVIS_LIBS}/gcc10.3.0/ncl/bin - +export DISPLAY=:0.0 +export DISPLAY=128.117.14.12:0 +export DISPLAY=localhost:13.0 [RUN] run = export PATH=$PATH:${JARVIS_LIBS}/gcc10.3.0/ncl/bin && ncl -V && ng4ex gsun01n && ncl gsun01n.ncl diff --git a/templates/ncview/2.1.7/data.ncview.amd.cpu.config b/templates/ncview/2.1.7/data.ncview.x86.cpu.config similarity index 90% rename from templates/ncview/2.1.7/data.ncview.amd.cpu.config rename to templates/ncview/2.1.7/data.ncview.x86.cpu.config index 0ecf4b6..13d1f15 100644 --- a/templates/ncview/2.1.7/data.ncview.amd.cpu.config +++ b/templates/ncview/2.1.7/data.ncview.x86.cpu.config @@ -6,7 +6,7 @@ module use ./software/modulefiles module purge ./jarvis -install gcc/10.3.0 com -module load gcc10/10.3.0 +module load gcc/10.3.0 ./jarvis -install openmpi/4.1.2 gcc module load openmpi4 sed -i '11c CC=`which mpicc` FC=`which mpifort` ./configure --prefix=$1 --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/bisheng2.3.0/szip/2.1.1/lib' package/hdf5/1.10.4/install.sh @@ -18,8 +18,8 @@ sed -i '11c CC=`which mpicc` FC=`which mpifort` ./configure --prefix=$1 --enable [ENV] module purge module use ${JARVIS_ROOT}/software/modulefiles -module load gcc10 -module add openmpi4 +module load gcc +module add openmpi export CC=mpicc CXX=mpicxx FC=mpifort F77=mpifort [APP] @@ -29,7 +29,7 @@ binary_dir = case_dir = [BUILD] - +./jarvis -install netcdf/4.7.4 gcc sed -i '13c NETCDF_DIR=${1%/*/*}/netcdf/4.7.4' package/ncview/2.1.7/install.sh ./jarvis -install ncview/2.1.7 gcc [RUN] -- Gitee From f3b6f63cc4691a77bc1ff93a37d99738a2354d1e Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Mon, 30 Jan 2023 00:44:41 +0800 Subject: [PATCH 37/51] fix --- templates/ncview/2.1.7/data.ncview.x86.cpu.config | 3 +++ 1 file changed, 3 insertions(+) diff --git a/templates/ncview/2.1.7/data.ncview.x86.cpu.config b/templates/ncview/2.1.7/data.ncview.x86.cpu.config index 13d1f15..5e9a05a 100644 --- a/templates/ncview/2.1.7/data.ncview.x86.cpu.config +++ b/templates/ncview/2.1.7/data.ncview.x86.cpu.config @@ -20,6 +20,9 @@ module purge module use ${JARVIS_ROOT}/software/modulefiles module load gcc module add openmpi +module load hdf5/1.10.4 +module load netcdf/4.7.4 +module load udunits/2.2.28 export CC=mpicc CXX=mpicxx FC=mpifort F77=mpifort [APP] -- Gitee From 496533ab5da0cf7bb2f5a076866439fa7269a8b3 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Mon, 30 Jan 2023 00:46:17 +0800 Subject: [PATCH 38/51] fix --- templates/ncview/2.1.7/data.ncview.x86.cpu.config | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/templates/ncview/2.1.7/data.ncview.x86.cpu.config b/templates/ncview/2.1.7/data.ncview.x86.cpu.config index 5e9a05a..f55f6bd 100644 --- a/templates/ncview/2.1.7/data.ncview.x86.cpu.config +++ b/templates/ncview/2.1.7/data.ncview.x86.cpu.config @@ -11,7 +11,7 @@ module load gcc/10.3.0 module load openmpi4 sed -i '11c CC=`which mpicc` FC=`which mpifort` ./configure --prefix=$1 --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/bisheng2.3.0/szip/2.1.1/lib' package/hdf5/1.10.4/install.sh ./jarvis -install hdf5/1.10.4 gcc - +export CC=mpicc CXX=mpicxx FC=mpifort F77=mpifort ./jarvis -install netcdf/4.7.4 gcc ./jarvis -install udunits/2.2.28 gcc -- Gitee From 596fd26244edb241abb6a31ab63a6e0669689bf3 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Mon, 30 Jan 2023 00:50:21 +0800 Subject: [PATCH 39/51] fix --- templates/ncview/2.1.7/data.ncview.x86.cpu.config | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/templates/ncview/2.1.7/data.ncview.x86.cpu.config b/templates/ncview/2.1.7/data.ncview.x86.cpu.config index f55f6bd..ee210e8 100644 --- a/templates/ncview/2.1.7/data.ncview.x86.cpu.config +++ b/templates/ncview/2.1.7/data.ncview.x86.cpu.config @@ -8,10 +8,10 @@ module purge ./jarvis -install gcc/10.3.0 com module load gcc/10.3.0 ./jarvis -install openmpi/4.1.2 gcc -module load openmpi4 +module load openmpi/4.1.2 sed -i '11c CC=`which mpicc` FC=`which mpifort` ./configure --prefix=$1 --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/bisheng2.3.0/szip/2.1.1/lib' package/hdf5/1.10.4/install.sh ./jarvis -install hdf5/1.10.4 gcc -export CC=mpicc CXX=mpicxx FC=mpifort F77=mpifort +export CC=`which mpicc` FC=`which mpifort ./jarvis -install netcdf/4.7.4 gcc ./jarvis -install udunits/2.2.28 gcc -- Gitee From 2361cb357f3ecf386f3047361bd65a3b104a7a5d Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Mon, 30 Jan 2023 00:51:06 +0800 Subject: [PATCH 40/51] fix --- templates/ncview/2.1.7/data.ncview.x86.cpu.config | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/templates/ncview/2.1.7/data.ncview.x86.cpu.config b/templates/ncview/2.1.7/data.ncview.x86.cpu.config index ee210e8..954e0a9 100644 --- a/templates/ncview/2.1.7/data.ncview.x86.cpu.config +++ b/templates/ncview/2.1.7/data.ncview.x86.cpu.config @@ -11,7 +11,7 @@ module load gcc/10.3.0 module load openmpi/4.1.2 sed -i '11c CC=`which mpicc` FC=`which mpifort` ./configure --prefix=$1 --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/bisheng2.3.0/szip/2.1.1/lib' package/hdf5/1.10.4/install.sh ./jarvis -install hdf5/1.10.4 gcc -export CC=`which mpicc` FC=`which mpifort +export CC=`which mpicc` FC=`which mpifort` ./jarvis -install netcdf/4.7.4 gcc ./jarvis -install udunits/2.2.28 gcc -- Gitee From 1fd3aa0792cdbffaae636b68ddffff892d893e36 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Mon, 30 Jan 2023 00:52:20 +0800 Subject: [PATCH 41/51] fix --- templates/ncview/2.1.7/data.ncview.x86.cpu.config | 1 + 1 file changed, 1 insertion(+) diff --git a/templates/ncview/2.1.7/data.ncview.x86.cpu.config b/templates/ncview/2.1.7/data.ncview.x86.cpu.config index 954e0a9..d54bbbc 100644 --- a/templates/ncview/2.1.7/data.ncview.x86.cpu.config +++ b/templates/ncview/2.1.7/data.ncview.x86.cpu.config @@ -11,6 +11,7 @@ module load gcc/10.3.0 module load openmpi/4.1.2 sed -i '11c CC=`which mpicc` FC=`which mpifort` ./configure --prefix=$1 --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/bisheng2.3.0/szip/2.1.1/lib' package/hdf5/1.10.4/install.sh ./jarvis -install hdf5/1.10.4 gcc +module load hdf5/1.10.4 export CC=`which mpicc` FC=`which mpifort` ./jarvis -install netcdf/4.7.4 gcc ./jarvis -install udunits/2.2.28 gcc -- Gitee From 41ea01b12bbc24a1f4968304aedde7ea21e03085 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Mon, 30 Jan 2023 00:56:40 +0800 Subject: [PATCH 42/51] fix --- templates/ncl/6.6.2/data.NCL.x86.cpu.config | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index e19cfca..44907a5 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -51,7 +51,8 @@ sed -i '9c ./configure --prefix=$1 --enable-netcdf-4 --disable-shared' package/ sed -i '11c CC=`which mpicc` ./configure --prefix=$1 --with-zlib=/usr/local --enable-fortran --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/gcc10.3.0/szip/2.1.1/lib' package/hdf5/1.10.4/install.sh ./jarvis -install hdf5/1.10.4 gcc module load hdf5/1.10.4 -echo ${HDF5_PATH} +./jarvis -install pnetcdf/1.11.2 gcc +module load pnetcdf/1.11.2 sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --enable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-largefile CPPFLAGS="-O3 -I${OPENMPI_PATH}/include -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" ' package/netcdf/4.7.4/install.sh ./jarvis -install netcdf/4.7.4 gcc -- Gitee From 76222eab94345233f1cf8b0e9ea38e1f36c4ca8c Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Mon, 30 Jan 2023 00:57:30 +0800 Subject: [PATCH 43/51] fix --- templates/ncview/2.1.7/data.ncview.x86.cpu.config | 2 ++ 1 file changed, 2 insertions(+) diff --git a/templates/ncview/2.1.7/data.ncview.x86.cpu.config b/templates/ncview/2.1.7/data.ncview.x86.cpu.config index d54bbbc..f8e0b9d 100644 --- a/templates/ncview/2.1.7/data.ncview.x86.cpu.config +++ b/templates/ncview/2.1.7/data.ncview.x86.cpu.config @@ -13,6 +13,8 @@ sed -i '11c CC=`which mpicc` FC=`which mpifort` ./configure --prefix=$1 --enable ./jarvis -install hdf5/1.10.4 gcc module load hdf5/1.10.4 export CC=`which mpicc` FC=`which mpifort` +./jarvis -install pnetcdf/1.11.2 gcc +module load pnetcdf/1.11.2 ./jarvis -install netcdf/4.7.4 gcc ./jarvis -install udunits/2.2.28 gcc -- Gitee From f2ab7d6862e69674e6a3d99eafc5dc0ddeb9570b Mon Sep 17 00:00:00 2001 From: root <1157057422@qq.com> Date: Mon, 30 Jan 2023 01:12:35 +0800 Subject: [PATCH 44/51] arm ncl --- package/hdf4/4.2.13/install.sh | 10 ++ templates/ncl/6.6.2/data.NCL.arm.cpu.config | 124 ++++++++++++++++++++ 2 files changed, 134 insertions(+) create mode 100755 package/hdf4/4.2.13/install.sh create mode 100644 templates/ncl/6.6.2/data.NCL.arm.cpu.config diff --git a/package/hdf4/4.2.13/install.sh b/package/hdf4/4.2.13/install.sh new file mode 100755 index 0000000..09137b5 --- /dev/null +++ b/package/hdf4/4.2.13/install.sh @@ -0,0 +1,10 @@ +#!/bin/bash +set -x +set -e +. ${DOWNLOAD_TOOL} -u https://rpmfind.net/linux/epel/8/Everything/aarch64/Packages/h/hdf-4.2.14-5.el8.aarch64.rpm +cd ${JARVIS_TMP} +rm -rf hdf-4.2.15 +mkdir hdf-4.2.15 +cd hdf-4.2.15 +rpm2cpio ${JARVIS_DOWNLOAD}/hdf-4.2.14-5.el8.aarch64.rpm | cpio -div +cp -r usr/* $1/ diff --git a/templates/ncl/6.6.2/data.NCL.arm.cpu.config b/templates/ncl/6.6.2/data.NCL.arm.cpu.config new file mode 100644 index 0000000..3c7cccf --- /dev/null +++ b/templates/ncl/6.6.2/data.NCL.arm.cpu.config @@ -0,0 +1,124 @@ +[SERVER] +11.11.11.11 + +[DOWNLOAD] +NCL/6.6.2 https://rpmfind.net/linux/epel/8/Everything/aarch64/Packages/n/ncl-6.6.2-12.el8.aarch64.rpm + +[DEPENDENCY] +set -e +set -x +module purge +sed -i '1a export bisheng_ver='bisheng-compiler-2.3.0'' package/bisheng/2.3.0/install.sh +./jarvis -install kgcc/10.3.1 com +./jarvis -install bisheng/2.3.0 com +module use ./software/modulefiles +module load bisheng +CC=`which clang` +CXX=`which clang++` +FC=`which flang` +sed -i '9c ./configure --prefix=$1 CFLAGS="-fPIC"' package/libjpeg/v9b/install.sh +./jarvis -install libjpeg/v9b bisheng +./jarvis -install hmpi/1.2.0 bisheng +module load libjpeg + +module load hmpi/1.2.0 + + + + + +CC=`which mpicc` + +./jarvis -install pnetcdf/1.12.1 bisheng +module load pnetcdf/1.12.1 +sed -i '9c ./configure --prefix=$1 --enable-netcdf-4 --disable-shared' package/szip/2.1.1/install.sh + + +sed -i '11c CC=`which mpicc` FC=`which mpifort` ./configure --with-zlib=/usr/lib --prefix=$1 --enable-static=yes --enable-parallel --enable-shared --with-szlib=${JARVIS_LIBS}/bisheng2.3.0/szip/2.1.1/lib' package/hdf5/1.10.4/install.sh +sed -i 's/# sed/sed/g' package/hdf5/1.12.0/install.sh +./jarvis -install hdf5/1.12.0 bisheng + +export CC=`which clang` +export CXX=`which clang++` +export FC=`which flang` +module load hdf5/1.12.0 + +sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --enable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --disable-pnetcdf --enable-largefile CPPFLAGS="-O3 -I${HMPI_PATH}/include -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include"' package/netcdf/4.7.4/install.sh +./jarvis -install netcdf/4.7.4 bisheng +module load netcdf/4.7.4 +ln -s -f ${NETCDF_PATH}/lib/libnetcdf.so.18 ${NETCDF_PATH}/lib/libnetcdf.so.15 +./jarvis -install hdf4/4.2.13 bisheng + + +module load hdf5/1.12.0 +ln -s -f ${HDF5_PATH}/lib/libhdf5_hl.so.200.0.0 ${HDF5_PATH}/lib/libhdf5_hl.so.100 +ln -s -f ${HDF5_PATH}/lib/libhdf5.so.200.0.0 ${HDF5_PATH}/lib/libhdf5.so.103 +./jarvis -install jasper/1.900.1 bisheng +module load jasper +ln -s -f ${JASPER_PATH}/lib/libjasper.so.1.0.0 ${JASPER_PATH}/lib/libjasper.so.4 + +./jarvis -install proj/5.2.0 bisheng +./jarvis -install gdal/2.2.4 bisheng +module load gdal/2.2.4 +module load proj/5.2.0 +ln -s -f ${GDAL_PATH}/lib/libgdal.so.20.3.3 ${GDAL_PATH}/lib/libgdal.so.26 +ln -s -f ${PROJ_PATH}/lib/libproj.so ${PROJ_PATH}/lib/libproj.so.15 + +export CC=`which clang` +export CXX=`which clang++` +export FC=`which flang` + +./jarvis -install udunits/2.2.28 bisheng +./jarvis -install gsl/2.6 bisheng +module load gsl/2.6 +ln -s -f ${GSL_PATH}/lib/libgsl.so.25.0.0 ${GSL_PATH}/lib/libgsl.so.23 +./jarvis -install openblas/0.3.18 bisheng +module load openblas/0.3.18 + + + + +[ENV] +module purge +module use ./software/modulefiles + +module load bisheng/2.3.0 +module load hmpi/1.2.0 +module load libjpeg +module load hdf5/1.12.0 +module load netcdf/4.7.4 +module load hdf4-clang/4.2.15 +module load hdf5/1.10.4 +module load gsl/2.6 +module load jasper/1.900.1 +module load proj/5.2.0 +module load gdal/2.2.4 +module load udunits/2.2.28 +module load openblas +module load kgcc +export CC=`which mpicc` +export F77=`which mpif77` +export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:${JARVIS_LIBS}/bisheng2.3.0/szip/2.1.1/lib:${JARVIS_LIBS}/bisheng2.3.0/libjpeg/v9b/lib:${JARVIS_LIBS}/bisheng2.3.0/gsl/2.6/lib + + + +[APP] +app_name = NCL +build_dir = ${JARVIS_TMP}/ncl_ncarg-6.6.2 +binary_dir = ${JARVIS_LIBS}/bisheng2.3.0/ncl/bin +case_dir = ${JARVIS_LIBS}/bisheng2.3.0/ncl/bin + +[BUILD] +cd ${JARVIS_TMP} +rm -rf ncl_ncarg_6.6.2 +mkdir ncl_ncarg_6.6.2 +cd ncl_ncarg_6.6.2 +rpm2cpio ${JARVIS_DOWNLOAD}/ncl-6.6.2-12.el8.aarch64.rpm | cpio -div +cp -r usr/* ${JARVIS_LIBS}/bisheng2.3.0/ncl +export PATH=$PATH:${JARVIS_LIBS}/bisheng2.3.0/ncl/bin +export NCARG_ROOT=${binary_dir} + +[RUN] +run = export PATH=$PATH:${JARVIS_LIBS}/bisheng2.3.0/ncl/bin && export NCARG_ROOT=${JARVIS_LIBS}/bisheng2.3.0/ncl && export NCARG_COLORMAPS=$NCARG_ROOT/lib64/ncarg/colormaps && ncl -Q +binary = +nodes = 1 -- Gitee From a062eb20e03e9e29dae222a006ae73854872b42b Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Mon, 30 Jan 2023 01:24:08 +0800 Subject: [PATCH 45/51] fix --- templates/nco/5.1.4/data.NCO.x86.cpu.config | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/templates/nco/5.1.4/data.NCO.x86.cpu.config b/templates/nco/5.1.4/data.NCO.x86.cpu.config index afa39ac..1ab5609 100644 --- a/templates/nco/5.1.4/data.NCO.x86.cpu.config +++ b/templates/nco/5.1.4/data.NCO.x86.cpu.config @@ -48,7 +48,7 @@ export CC=`which gcc` [APP] app_name = NCO -build_dir = ${JARVIS_TMP}/ncl_ncarg-6.6.2 +build_dir = ${JARVIS_TMP}/nco-5.1.4 binary_dir = ${JARVIS_LIBS}/gcc10.3.0/nco/bin case_dir = ${JARVIS_LIBS}/gcc10.3.0/nco/bin -- Gitee From a7bd8587abda0f637ffaccccdca06a7988e75182 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Mon, 30 Jan 2023 01:26:42 +0800 Subject: [PATCH 46/51] fix --- templates/ncview/2.1.7/data.ncview.x86.cpu.config | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/templates/ncview/2.1.7/data.ncview.x86.cpu.config b/templates/ncview/2.1.7/data.ncview.x86.cpu.config index f8e0b9d..657b8e9 100644 --- a/templates/ncview/2.1.7/data.ncview.x86.cpu.config +++ b/templates/ncview/2.1.7/data.ncview.x86.cpu.config @@ -13,8 +13,8 @@ sed -i '11c CC=`which mpicc` FC=`which mpifort` ./configure --prefix=$1 --enable ./jarvis -install hdf5/1.10.4 gcc module load hdf5/1.10.4 export CC=`which mpicc` FC=`which mpifort` -./jarvis -install pnetcdf/1.11.2 gcc -module load pnetcdf/1.11.2 +./jarvis -install pnetcdf/1.12.1 gcc +module load pnetcdf/1.12.1 ./jarvis -install netcdf/4.7.4 gcc ./jarvis -install udunits/2.2.28 gcc -- Gitee From 891f53ecd68e4ebe184b8cd4640a276aecca402c Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Mon, 30 Jan 2023 01:31:14 +0800 Subject: [PATCH 47/51] fix --- templates/ncview/2.1.7/data.ncview.x86.cpu.config | 1 + 1 file changed, 1 insertion(+) diff --git a/templates/ncview/2.1.7/data.ncview.x86.cpu.config b/templates/ncview/2.1.7/data.ncview.x86.cpu.config index 657b8e9..be1744a 100644 --- a/templates/ncview/2.1.7/data.ncview.x86.cpu.config +++ b/templates/ncview/2.1.7/data.ncview.x86.cpu.config @@ -13,6 +13,7 @@ sed -i '11c CC=`which mpicc` FC=`which mpifort` ./configure --prefix=$1 --enable ./jarvis -install hdf5/1.10.4 gcc module load hdf5/1.10.4 export CC=`which mpicc` FC=`which mpifort` +sed -i '9c FLAGS=-fallow-argument-mismatch ./configure --prefix=$1 --build=aarch64-linux --enable-shared --enable-fortran --enable-large-file-test' package/pnetcdf/1.12.1/install.sh ./jarvis -install pnetcdf/1.12.1 gcc module load pnetcdf/1.12.1 ./jarvis -install netcdf/4.7.4 gcc -- Gitee From 24c04972f6df4e18dc3e166e5f43927ea1acbae3 Mon Sep 17 00:00:00 2001 From: root <1157057422@qq.com> Date: Mon, 30 Jan 2023 02:08:58 +0800 Subject: [PATCH 48/51] nco --- templates/nco/5.1.4/data.NCO.arm.cpu.config | 75 +++++++++++++++++++++ 1 file changed, 75 insertions(+) create mode 100644 templates/nco/5.1.4/data.NCO.arm.cpu.config diff --git a/templates/nco/5.1.4/data.NCO.arm.cpu.config b/templates/nco/5.1.4/data.NCO.arm.cpu.config new file mode 100644 index 0000000..ece0222 --- /dev/null +++ b/templates/nco/5.1.4/data.NCO.arm.cpu.config @@ -0,0 +1,75 @@ +[SERVER] +11.11.11.11 + +[DOWNLOAD] +NCO/5.1.4 https://sourceforge.net/projects/nco/files/nco-5.1.4.tar.gz + +[DEPENDENCY] +set -e +set -x +module purge +./jarvis -install bisheng/2.3.0 com +module use ./software/modulefiles +module load bisheng/2.3.0 +sed -i '9c ./configure --prefix=$1 CFLAGS="-fPIC"' package/libjpeg/v9b/install.sh +./jarvis -install libjpeg/v9b bisheng +./jarvis -install hmpi/1.2.0 bisheng +module load libjpeg + + +module load hmpi/1.2.0 + +sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --enable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --disable-pnetcdf --enable-largefile CPPFLAGS="-O3 -I${HMPI_PATH}/include -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include"' package/netcdf/4.7.4/install.sh +./jarvis -install netcdf/4.7.4 bisheng +module load netcdf/4.7.4 +./jarvis -install gsl/2.6 bisheng +sed -i '14c --disable-python --build=arm-linux' package/antlr/2.7.7/install.sh +./jarvis -install antlr/2.7.7 bisheng +./jarvis -install udunits/2.2.28 bisheng + + +[ENV] +module purge +module use ./software/modulefiles + +module load bisheng +module load hmpi +module load netcdf/4.7.4 +module load gsl/2.6 +module load antlr/2.7.7 +module load udunits/2.2.28 + +export CC=`which gcc` + + + + + +[APP] +app_name = NCO +build_dir = ${JARVIS_TMP}/nco-5.1.4 +binary_dir = ${JARVIS_LIBS}/bisheng2.3.0/nco/bin +case_dir = ${JARVIS_LIBS}/bisheng2.3.0/nco/bin + +[BUILD] +cd ${JARVIS_TMP} +rm -rf nco-5.1.4 + +tar zxvf ${JARVIS_DOWNLOAD}/nco-5.1.4.tar.gz +cd nco-5.1.4 +echo ${UDUNITS_PATH} +export NETCDF_INC=${NETCDF_PATH}/include +export NETCDF_LIB=${NETCDF_PATH}/lib +./configure CPPFLAGS="-I${ANTLR_PATH}/include -I${UDUNITS_PATH}/include" CFLAGS="-L${ANTLR_PATH}/lib -I${NETCDF_PATH}/include -I${UDUNITS_PATH}/include -L${UDUNITS_PATH}/lib " --prefix=${JARVIS_LIBS}/bisheng2.3.0/nco +make +make install + + + + + +[RUN] +run = ./ncap2 -v +binary = +nodes = 1 + -- Gitee From 75bc9568315d8557af819df13291463d8b6a0f57 Mon Sep 17 00:00:00 2001 From: linruoxuan <1157057422@qq.com> Date: Mon, 30 Jan 2023 12:01:07 +0800 Subject: [PATCH 49/51] ncl nco ncview doc --- container/ncl/data.NCL.x86.cpu.config.def | 36 + container/nco/data.NCO.x86.cpu.config.def | 37 + .../ncview/data.ncview.x86.cpu.config.def | 35 + ...25\346\212\245\345\221\212\343\200\213.md" | 784 ++++++++++++++++++ ...15\346\214\207\345\215\227\343\200\213.md" | 574 +++++++++++++ package/freetype/2.5.1/install.sh | 6 - package/g2clib/1.6.0/install.sh | 5 - package/gdal/2.2.4/install.sh | 6 - package/hdf-eos2/2.20/install.sh | 6 - package/hdf-eos5/1.16/install.sh | 7 - .../jasper/{1.900.1 => 1.900.2}/install.sh | 5 +- package/mesa/3.1/install.sh | 5 - package/proj/5.2.0/install.sh | 6 - package/vis5dplus/1.3.0/install.sh | 6 - templates/ncl/6.6.2/data.NCL.x86.cpu.config | 6 +- .../ncview/2.1.7/data.ncview.x86.cpu.config | 4 +- 16 files changed, 1473 insertions(+), 55 deletions(-) create mode 100644 container/ncl/data.NCL.x86.cpu.config.def create mode 100644 container/nco/data.NCO.x86.cpu.config.def create mode 100644 container/ncview/data.ncview.x86.cpu.config.def create mode 100644 "doc/ncl_nco_ncview/\343\200\212\345\237\272\344\272\216openEuler\347\232\204ncl_nco_ncview\350\275\257\344\273\266\346\265\213\350\257\225\346\212\245\345\221\212\343\200\213.md" create mode 100644 "doc/ncl_nco_ncview/\343\200\212\345\237\272\344\272\216openEuler\347\232\204ncl_nco_ncview\350\275\257\344\273\266\347\247\273\346\244\215\346\214\207\345\215\227\343\200\213.md" rename package/jasper/{1.900.1 => 1.900.2}/install.sh (56%) diff --git a/container/ncl/data.NCL.x86.cpu.config.def b/container/ncl/data.NCL.x86.cpu.config.def new file mode 100644 index 0000000..8f8b66c --- /dev/null +++ b/container/ncl/data.NCL.x86.cpu.config.def @@ -0,0 +1,36 @@ +BootStrap: docker +From: openeuler/openeuler:20.03 + +%environment + source /etc/profile || true + cd /hpcrunner + source env.sh + +%post + # Install the necessary development environment + yum install -y environment-modules git dmidecode pciutils wget vim glib2-devel zlib libX11 libX11-devel flex fontconfig flex-devel byacc libXext xz libXmu-devel expat-devel + # Install base gcc + yum install -y gcc gcc-c++ gcc-gfortran glibc-devel make libgfortran imake bzip2 bzip2-devel libXrender-devel libXaw libXaw-devel libcurl-devel libcurl + # install network package + yum install -y tcsh tcl lsof tk bc + source /etc/profile || true + git config --global http.sslVerify false + git clone https://gitee.com/openeuler/hpcrunner + cd hpcrunner + source ./init.sh + # add your personal files here + sed -i '12c make -j2 && make install' package/gcc/10.3.0/install.sh + sed -i '$c make -j2 install' package/openmpi/4.1.2/install.sh + sed -i '4c\ . ${DOWNLOAD_TOOL} -u https://mirrors.tuna.tsinghua.edu.cn/gnu/gcc/gcc-10.3.0/gcc-10.3.0.tar.gz' package/gcc/10.3.0/install.sh + # Switch config + ./jarvis -use templates/ncl/6.6.2/data.NCL.x86.cpu.config + # download dependency + ./jarvis -d + # install dependency + ./jarvis -dp + # build hpc + ./jarvis -b + # run hpc + ./jarvis -r + # clean tmp directory + rm -rf downloads tmp diff --git a/container/nco/data.NCO.x86.cpu.config.def b/container/nco/data.NCO.x86.cpu.config.def new file mode 100644 index 0000000..66e8dc7 --- /dev/null +++ b/container/nco/data.NCO.x86.cpu.config.def @@ -0,0 +1,37 @@ +BootStrap: docker +From: openeuler/openeuler:20.03 + +%environment + source /etc/profile || true + cd /hpcrunner + source env.sh + +%post + # Install the necessary development environment + yum install -y environment-modules git dmidecode pciutils wget vim glib2-devel zlib libX11 libX11-devel flex fontconfig flex-devel byacc libXext xz libXmu-devel expat-devel + # Install base gcc + yum install -y gcc gcc-c++ gcc-gfortran glibc-devel make libgfortran imake bzip2 bzip2-devel libXrender-devel libXaw libXaw-devel libcurl-devel libcurl + # install network package + yum install -y tcsh tcl lsof tk bc + source /etc/profile || true + git config --global http.sslVerify false + git clone https://gitee.com/openeuler/hpcrunner + cd hpcrunner + source ./init.sh + # add your personal files here + sed -i '12c make -j2 && make install' package/gcc/10.3.0/install.sh + sed -i '$c make -j2 install' package/openmpi/4.1.2/install.sh + sed -i '4c\ . ${DOWNLOAD_TOOL} -u https://mirrors.tuna.tsinghua.edu.cn/gnu/gcc/gcc-10.3.0/gcc-10.3.0.tar.gz' package/gcc/10.3.0/install.sh + # Switch config + ./jarvis -use templates/nco/5.1.4/data.NCO.x86.cpu.config + # download dependency + exit + ./jarvis -d + # install dependency + ./jarvis -dp + # build hpc + ./jarvis -b + # run hpc + ./jarvis -r + # clean tmp directory + rm -rf downloads tmp diff --git a/container/ncview/data.ncview.x86.cpu.config.def b/container/ncview/data.ncview.x86.cpu.config.def new file mode 100644 index 0000000..dfe9572 --- /dev/null +++ b/container/ncview/data.ncview.x86.cpu.config.def @@ -0,0 +1,35 @@ +BootStrap: docker +From: openeuler/openeuler:20.03 + +%environment + source /etc/profile || true + cd /hpcrunner + source env.sh + +%post + # Install the necessary development environment + yum install -y environment-modules git dmidecode pciutils wget vim glib2-devel zlib libX11 libX11-devel flex fontconfig flex-devel byacc libXext xz libXmu-devel expat-devel + # Install base gcc + yum install -y gcc gcc-c++ gcc-gfortran glibc-devel make libgfortran imake bzip2 bzip2-devel libXrender-devel libXaw libXaw-devel libcurl-devel libcurl # install network package + yum install -y tcsh tcl lsof tk bc + source /etc/profile || true + git config --global http.sslVerify false + git clone https://gitee.com/openeuler/hpcrunner + cd hpcrunner + source ./init.sh + # add your personal files here + sed -i '12c make -j2 && make install' package/gcc/10.3.0/install.sh + sed -i '$c make -j2 install' package/openmpi/4.1.2/install.sh + sed -i '4c\ . ${DOWNLOAD_TOOL} -u https://mirrors.tuna.tsinghua.edu.cn/gnu/gcc/gcc-10.3.0/gcc-10.3.0.tar.gz' package/gcc/10.3.0/install.sh + # Switch config + ./jarvis -use templates/ncview/2.1.7/data.ncview.x86.cpu.config + # download dependency + ./jarvis -d + # install dependency + ./jarvis -dp + # build hpc + ./jarvis -b + # run hpc + ./jarvis -r + # clean tmp directory + rm -rf downloads tmp diff --git "a/doc/ncl_nco_ncview/\343\200\212\345\237\272\344\272\216openEuler\347\232\204ncl_nco_ncview\350\275\257\344\273\266\346\265\213\350\257\225\346\212\245\345\221\212\343\200\213.md" "b/doc/ncl_nco_ncview/\343\200\212\345\237\272\344\272\216openEuler\347\232\204ncl_nco_ncview\350\275\257\344\273\266\346\265\213\350\257\225\346\212\245\345\221\212\343\200\213.md" new file mode 100644 index 0000000..4316eac --- /dev/null +++ "b/doc/ncl_nco_ncview/\343\200\212\345\237\272\344\272\216openEuler\347\232\204ncl_nco_ncview\350\275\257\344\273\266\346\265\213\350\257\225\346\212\245\345\221\212\343\200\213.md" @@ -0,0 +1,784 @@ +# 《基于openEuler的NCL/NCO/NCVIEW软件测试报告》 + +## 1.规范性自检 + +项目使用了Artistic Style对文件进行格式化 + +AStyle，即Artistic Style，是一个可用于C, C++, C++/CLI, Objective‑C, C# 和Java编程语言格式化和美化的工具。我们在使用编辑器的缩进（TAB）功能时，由于不同编辑器的差别，有的插入的是制表符，有的是2个空格，有的是4个空格。这样如果别人用另一个编辑器来阅读程序时，可能会由于缩进的不同，导致阅读效果一团糟。为了解决这个问题，使用C++开发了一个插件，它可以自动重新缩进，并手动指定空格的数量，自动格式化源文件。它是可以通过命令行使用，也可以作为插件，在其他IDE中使用。 + +文件格式化配置参考文件`config/mfem.astylerc`，文件内容如下 + +```astylerc +--style=allman +--indent=spaces=3 +--keep-one-line-statements +--keep-one-line-blocks +--pad-header +--max-code-length=80 +--max-instatement-indent=80 +--min-conditional-indent=0 +--indent-col1-comments +--indent-labels +--break-after-logical +--add-brackets +--indent-switches +--convert-tabs +--lineend=linux +--suffix=none +--preserve-date +--formatted +``` + +检查代码规范性，可以通过使用AStyle对所有源码进行重新格式化，然后使用git查看文件修改。 + +统计代码不规范内容。 +## NCL +### 1.1.选择统计文件类型 + +统计项目文件类型及其文件数量 + +使用python编写脚本文件 + +```python +import os + +print(os.getcwd()) + +def getAllFiles(targetDir): + files = [] + listFiles = os.listdir(targetDir) + for i in range(0, len(listFiles)): + path = os.path.join(targetDir, listFiles[i]) + if os.path.isdir(path): + files.extend(getAllFiles(path)) + elif os.path.isfile(path): + files.append(path) + return files + +all_files = getAllFiles(os.curdir) +type_dict = dict() + +for each_file in all_files: + if os.path.isdir(each_file): + type_dict.setdefault("directory", 0) + type_dict["directory"] += 1 + else: + ext = os.path.splitext(each_file)[1] + type_dict.setdefault(ext, 0) + type_dict[ext] += 1 + +for each_type in dict(sorted(type_dict.items(), reverse=True, key=lambda item: item[1])).keys(): + print("当前文件夹下共有[%s]的文件%d个" % (each_type, type_dict[each_type])) +``` + +在NCL项目根目录下运行,运行结果如下 + +```bash +当前文件夹下共有[.f]的文件3857个 +当前文件夹下共有[.c]的文件1481个 +当前文件夹下共有[.m]的文件882个 +当前文件夹下共有[]的文件852个 +当前文件夹下共有[.h]的文件826个 +当前文件夹下共有[.table]的文件618个 +当前文件夹下共有[.rgb]的文件270个 +当前文件夹下共有[.ncl]的文件259个 +当前文件夹下共有[.sed]的文件84个 +当前文件夹下共有[.res]的文件63个 +当前文件夹下共有[.nc]的文件58个 +当前文件夹下共有[.sh]的文件52个 +当前文件夹下共有[.gc]的文件43个 +当前文件夹下共有[.cdf]的文件36个 +当前文件夹下共有[.specific]的文件32个 +当前文件夹下共有[.fc]的文件31个 +当前文件夹下共有[.dat]的文件27个 +当前文件夹下共有[.f90]的文件23个 +当前文件夹下共有[.gp]的文件22个 +当前文件夹下共有[.csh]的文件14个 +当前文件夹下共有[.asc]的文件14个 +当前文件夹下共有[.ttf]的文件13个 +当前文件夹下共有[.o]的文件12个 +当前文件夹下共有[.doc]的文件11个 +当前文件夹下共有[.py]的文件9个 +当前文件夹下共有[.ncmap]的文件8个 +当前文件夹下共有[.txt]的文件6个 +当前文件夹下共有[.xml]的文件6个 +当前文件夹下共有[.md]的文件5个 +当前文件夹下共有[.grb2]的文件5个 +当前文件夹下共有[.l]的文件4个 +当前文件夹下共有[.areas]的文件4个 +当前文件夹下共有[.java]的文件4个 +当前文件夹下共有[.ksh]的文件3个 +当前文件夹下共有[.PGI]的文件3个 +当前文件夹下共有[.INTEL]的文件3个 +当前文件夹下共有[.GNU]的文件3个 +当前文件夹下共有[.yml]的文件3个 +当前文件夹下共有[.csv]的文件2个 +当前文件夹下共有[.dbf]的文件2个 +当前文件夹下共有[.shx]的文件2个 +当前文件夹下共有[.shp]的文件2个 +当前文件夹下共有[.prj]的文件2个 +当前文件夹下共有[.null]的文件2个 +当前文件夹下共有[.y]的文件2个 +当前文件夹下共有[.template]的文件2个 +当前文件夹下共有[.64]的文件2个 +当前文件夹下共有[.tiff]的文件1个 +当前文件夹下共有[.bit]的文件1个 +当前文件夹下共有[.xbm]的文件1个 +当前文件夹下共有[.ad]的文件1个 +当前文件夹下共有[.tbl]的文件1个 +当前文件夹下共有[.PS]的文件1个 +当前文件夹下共有[.CO]的文件1个 +当前文件夹下共有[.3]的文件1个 +当前文件夹下共有[.1]的文件1个 +当前文件夹下共有[.US]的文件1个 +当前文件夹下共有[.2]的文件1个 +当前文件夹下共有[.4]的文件1个 +当前文件夹下共有[.PO]的文件1个 +当前文件夹下共有[.png]的文件1个 +当前文件夹下共有[.pngi]的文件1个 +当前文件夹下共有[.form]的文件1个 +当前文件夹下共有[.pre]的文件1个 +当前文件夹下共有[.imagen]的文件1个 +当前文件夹下共有[.file]的文件1个 +当前文件夹下共有[.grib2]的文件1个 +当前文件夹下共有[.grb]的文件1个 +当前文件夹下共有[.hdf]的文件1个 +当前文件夹下共有[.he2]的文件1个 +当前文件夹下共有[.he5]的文件1个 +当前文件夹下共有[.cocos]的文件1个 +当前文件夹下共有[.cpt]的文件1个 +当前文件夹下共有[.bin]的文件1个 +当前文件夹下共有[.ctl]的文件1个 +当前文件夹下共有[.mdl]的文件1个 +当前文件夹下共有[.xlsx]的文件1个 +当前文件夹下共有[.F90]的文件1个 +当前文件夹下共有[.xsl]的文件1个 +当前文件夹下共有[.pl]的文件1个 +当前文件夹下共有[.ifort]的文件1个 +当前文件夹下共有[.xl]的文件1个 +当前文件夹下共有[.absoft]的文件1个 +当前文件夹下共有[.man]的文件1个 +当前文件夹下共有[.amd64]的文件1个 +当前文件夹下共有[.g95]的文件1个 +当前文件夹下共有[.IA64]的文件1个 +当前文件夹下共有[.ini]的文件1个 +当前文件夹下共有[.32]的文件1个 +当前文件夹下共有[.n32]的文件1个 +当前文件夹下共有[.patch]的文件1个 + +``` + +查看上述结果可知主要源码文件后缀名为 `c`,`h`,`f` + +### 1.2.统计源码总行数 + +统计所有源码文件的代码行数 + +```bash + find ./ -regex ".*\.f\|.*\.c\|.*\.h\|"\ + | xargs wc -l +``` + +统计结果 + +```bash + 1001123 total +``` + +### 1.3.统计不符合要求的总行数 + +对文件后缀名为 `h`,`c` 的所有文件进行格式 +通过git与astyle结合的方式进行统计 +```bash +# astyle -R ./*.cpp,*.h,*.hpp -v +... +------------------------------------------------------------ + 2,179 formatted 128 unchanged 14.4 seconds 1,095,902 lines +``` + +### 1.4.统计结果 + +综上信息，项目中代码规范性自检检查结果为 + +通过率 : 0.2% 1-96213/96400*100% + +不通过率 : 99.8% 96213/96400*100% + +# 2.功能性测试 + +ncl作为图形软件，并无内置测试用例，通过判断ncl软件是否编译成功来进行功能性测试，官方文档中，只有满足所有依赖安装并正确链接方可有ncl软件生成 +```bash +ncl -v +``` +## 2.2.运行结果 + +```bash +Running NCL... + Copyright (C) 1995-2019 - All Rights Reserved + University Corporation for Atmospheric Research + NCAR Command Language Version 6.6.2 + The use of this software is governed by a License Agreement. + See http://www.ncl.ucar.edu/ for more details. +``` + + +测试结果 + +ncl软件存在，编译过程满足各项依赖 + +## 3.性能测试 + +ncl作为图形软件，需要环境支持图形，作为云端服务器，图形环境不满足，如DISPLAY等环境变量并无设定 + +## NCO +### 1.1.选择统计文件类型 + +统计项目文件类型及其文件数量 + +使用python编写脚本文件 + +代码同NCL + +在NCL项目根目录下运行,运行结果如下 + +```bash +当前文件夹下共有[.c]的文件68个 +当前文件夹下共有[]的文件59个 +当前文件夹下共有[.h]的文件56个 +当前文件夹下共有[.cdl]的文件56个 +当前文件夹下共有[.nco]的文件34个 +当前文件夹下共有[.txt]的文件32个 +当前文件夹下共有[.sh]的文件30个 +当前文件夹下共有[.hh]的文件26个 +当前文件夹下共有[.cc]的文件21个 +当前文件夹下共有[.png]的文件17个 +当前文件夹下共有[.1]的文件16个 +当前文件夹下共有[.in]的文件14个 +当前文件夹下共有[.am]的文件8个 +当前文件夹下共有[.shtml]的文件8个 +当前文件夹下共有[.pl]的文件7个 +当前文件夹下共有[.m4]的文件7个 +当前文件夹下共有[.hpp]的文件6个 +当前文件夹下共有[.eps]的文件6个 +当前文件夹下共有[.py]的文件3个 +当前文件夹下共有[.cpp]的文件3个 +当前文件夹下共有[.ncl]的文件3个 +当前文件夹下共有[.pm]的文件3个 +当前文件夹下共有[.xcf]的文件3个 +当前文件夹下共有[.old]的文件2个 +当前文件夹下共有[.cu]的文件2个 +当前文件夹下共有[.po]的文件2个 +当前文件夹下共有[.md]的文件2个 +当前文件夹下共有[.bat]的文件2个 +当前文件夹下共有[.yml]的文件2个 +当前文件夹下共有[.texi]的文件2个 +当前文件夹下共有[.ac]的文件1个 +当前文件夹下共有[.spec]的文件1个 +当前文件夹下共有[.guess]的文件1个 +当前文件夹下共有[.sub]的文件1个 +当前文件夹下共有[.tex]的文件1个 +当前文件夹下共有[.l]的文件1个 +当前文件夹下共有[.g]的文件1个 +当前文件夹下共有[.pot]的文件1个 +当前文件夹下共有[.log]的文件1个 +当前文件夹下共有[.cmd]的文件1个 +当前文件夹下共有[.eg]的文件1个 +当前文件夹下共有[.in2]的文件1个 +当前文件夹下共有[.xsd]的文件1个 +当前文件夹下共有[.slurm]的文件1个 +当前文件夹下共有[.dat]的文件1个 +当前文件夹下共有[.css]的文件1个 +当前文件夹下共有[.pptx]的文件1个 +当前文件夹下共有[.html]的文件1个 +当前文件夹下共有[.ods]的文件1个 +当前文件夹下共有[.3]的文件1个 +当前文件夹下共有[.pdf]的文件1个 +当前文件夹下共有[.odp]的文件1个 +当前文件夹下共有[.jpg]的文件1个 +当前文件夹下共有[.svg]的文件1个 + +``` + +查看上述结果可知主要源码文件后缀名为 `c`,`h` + +### 1.2.统计源码总行数 + +统计所有源码文件的代码行数 + +```bash + find ./ -regex ".*\.f\|.*\.c\|.*\.h\|"\ + | xargs wc -l +``` + +统计结果 + +```bash + 116955 total +``` + +### 1.3.统计不符合要求的总行数 + +对文件后缀名为 `h`,`c` 的所有文件进行格式 +通过git与astyle结合的方式进行统计 +```bash +# astyle -R ./*.c,*.h,*.hpp -v +... +Unchanged src/nco/nco_var_utl.c +Unchanged src/nco/nco_var_utl.h +Unchanged src/nco/ncpdq.c +Unchanged src/nco/ncra.c +Unchanged src/nco/ncrename.c +Unchanged src/nco/ncwa.c +------------------------------------------------------------ + 124 formatted 124 unchanged 4.6 seconds 244,852 lines +``` +```bash + 248 files changed, 126025 insertions(+), 106164 deletions(-) + create mode 100644 bld/libnco_tst.c.orig + rewrite doc/cdtime.c (72%) + copy doc/{cdtime.c => cdtime.c.orig} (100%) + create mode 100644 src/nco/libnco.h.orig + rewrite src/nco/mpncbo.c (91%) + copy src/nco/{mpncbo.c => mpncbo.c.orig} (100%) + rewrite src/nco/mpncecat.c (91%) + copy src/nco/{mpncecat.c => mpncecat.c.orig} (100%) + rewrite src/nco/mpncflint.c (92%) + copy src/nco/{mpncflint.c => mpncflint.c.orig} (100%) + rewrite src/nco/mpncpdq.c (89%) + copy src/nco/{mpncpdq.c => mpncpdq.c.orig} (100%) + rewrite src/nco/mpncra.c (86%) + copy src/nco/{mpncra.c => mpncra.c.orig} (100%) + rewrite src/nco/mpncwa.c (92%) + copy src/nco/{mpncwa.c => mpncwa.c.orig} (100%) + rewrite src/nco/ncap_utl.c (91%) + copy src/nco/{ncap_utl.c => ncap_utl.c.orig} (100%) + create mode 100644 src/nco/ncap_utl.h.orig + rewrite src/nco/ncatted.c (72%) + copy src/nco/{ncatted.c => ncatted.c.orig} (100%) + rewrite src/nco/ncbo.c (89%) + copy src/nco/{ncbo.c => ncbo.c.orig} (100%) + rewrite src/nco/ncecat.c (91%) + copy src/nco/{ncecat.c => ncecat.c.orig} (100%) + rewrite src/nco/ncflint.c (91%) + copy src/nco/{ncflint.c => ncflint.c.orig} (100%) + rewrite src/nco/ncks.c (91%) + copy src/nco/{ncks.c => ncks.c.orig} (100%) + create mode 100644 src/nco/nco.h.orig + rewrite src/nco/nco_att_utl.c (88%) + copy src/nco/{nco_att_utl.c => nco_att_utl.c.orig} (100%) + create mode 100644 src/nco/nco_att_utl.h.orig + rewrite src/nco/nco_aux.c (83%) + copy src/nco/{nco_aux.c => nco_aux.c.orig} (100%) + create mode 100644 src/nco/nco_aux.h.orig + rewrite src/nco/nco_bnr.c (75%) + copy src/nco/{nco_bnr.c => nco_bnr.c.orig} (100%) + create mode 100644 src/nco/nco_bnr.h.orig + rewrite src/nco/nco_cln_utl.c (80%) + copy src/nco/{nco_cln_utl.c => nco_cln_utl.c.orig} (100%) + rewrite src/nco/nco_cln_utl.h (76%) + copy src/nco/{nco_cln_utl.h => nco_cln_utl.h.orig} (100%) + rewrite src/nco/nco_cnf_dmn.c (92%) + copy src/nco/{nco_cnf_dmn.c => nco_cnf_dmn.c.orig} (100%) + create mode 100644 src/nco/nco_cnf_dmn.h.orig + rewrite src/nco/nco_cnf_typ.c (92%) + copy src/nco/{nco_cnf_typ.c => nco_cnf_typ.c.orig} (100%) + create mode 100644 src/nco/nco_cnf_typ.h.orig + rewrite src/nco/nco_cnk.c (85%) + copy src/nco/{nco_cnk.c => nco_cnk.c.orig} (100%) + create mode 100644 src/nco/nco_cnk.h.orig + rewrite src/nco/nco_cnv_arm.c (79%) + copy src/nco/{nco_cnv_arm.c => nco_cnv_arm.c.orig} (100%) + create mode 100644 src/nco/nco_cnv_arm.h.orig + rewrite src/nco/nco_cnv_csm.c (90%) + copy src/nco/{nco_cnv_csm.c => nco_cnv_csm.c.orig} (100%) + create mode 100644 src/nco/nco_cnv_csm.h.orig + create mode 100644 src/nco/nco_crt.c.orig + create mode 100644 src/nco/nco_crt.h.orig + rewrite src/nco/nco_ctl.c (89%) + copy src/nco/{nco_ctl.c => nco_ctl.c.orig} (100%) + create mode 100644 src/nco/nco_ctl.h.orig + rewrite src/nco/nco_dbg.c (61%) + copy src/nco/{nco_dbg.c => nco_dbg.c.orig} (100%) + create mode 100644 src/nco/nco_dbg.h.orig + rewrite src/nco/nco_dmn_utl.c (69%) + copy src/nco/{nco_dmn_utl.c => nco_dmn_utl.c.orig} (100%) + create mode 100644 src/nco/nco_dmn_utl.h.orig + rewrite src/nco/nco_fl_utl.c (89%) + copy src/nco/{nco_fl_utl.c => nco_fl_utl.c.orig} (100%) + create mode 100644 src/nco/nco_fl_utl.h.orig + rewrite src/nco/nco_flt.c (88%) + copy src/nco/{nco_flt.c => nco_flt.c.orig} (100%) + create mode 100644 src/nco/nco_flt.h.orig + rewrite src/nco/nco_getopt.c (71%) + copy src/nco/{nco_getopt.c => nco_getopt.c.orig} (100%) + create mode 100644 src/nco/nco_getopt.h.orig + rewrite src/nco/nco_grp_trv.c (72%) + copy src/nco/{nco_grp_trv.c => nco_grp_trv.c.orig} (100%) + create mode 100644 src/nco/nco_grp_trv.h.orig + rewrite src/nco/nco_grp_utl.c (80%) + copy src/nco/{nco_grp_utl.c => nco_grp_utl.c.orig} (100%) + create mode 100644 src/nco/nco_grp_utl.h.orig + create mode 100644 src/nco/nco_kd.c.orig + create mode 100644 src/nco/nco_kd.h.orig + rewrite src/nco/nco_lmt.c (92%) + copy src/nco/{nco_lmt.c => nco_lmt.c.orig} (100%) + create mode 100644 src/nco/nco_lmt.h.orig + rewrite src/nco/nco_lst_utl.c (76%) + copy src/nco/{nco_lst_utl.c => nco_lst_utl.c.orig} (100%) + create mode 100644 src/nco/nco_lst_utl.h.orig + rewrite src/nco/nco_map.c (92%) + copy src/nco/{nco_map.c => nco_map.c.orig} (100%) + rewrite src/nco/nco_map.h (73%) + copy src/nco/{nco_map.h => nco_map.h.orig} (100%) + create mode 100644 src/nco/nco_md5.c.orig + create mode 100644 src/nco/nco_md5.h.orig + rewrite src/nco/nco_mmr.c (83%) + copy src/nco/{nco_mmr.c => nco_mmr.c.orig} (100%) + create mode 100644 src/nco/nco_mmr.h.orig + create mode 100644 src/nco/nco_mpi.h.orig + rewrite src/nco/nco_msa.c (87%) + copy src/nco/{nco_msa.c => nco_msa.c.orig} (100%) + create mode 100644 src/nco/nco_msa.h.orig + rewrite src/nco/nco_mss_val.c (90%) + copy src/nco/{nco_mss_val.c => nco_mss_val.c.orig} (100%) + create mode 100644 src/nco/nco_mss_val.h.orig + rewrite src/nco/nco_mta.c (77%) + copy src/nco/{nco_mta.c => nco_mta.c.orig} (100%) + rewrite src/nco/nco_mta.h (69%) + copy src/nco/{nco_mta.h => nco_mta.h.orig} (100%) + rewrite src/nco/nco_netcdf.c (75%) + copy src/nco/{nco_netcdf.c => nco_netcdf.c.orig} (100%) + create mode 100644 src/nco/nco_netcdf.h.orig + rewrite src/nco/nco_omp.c (88%) + copy src/nco/{nco_omp.c => nco_omp.c.orig} (100%) + create mode 100644 src/nco/nco_omp.h.orig + rewrite src/nco/nco_pck.c (87%) + copy src/nco/{nco_pck.c => nco_pck.c.orig} (100%) + create mode 100644 src/nco/nco_pck.h.orig + rewrite src/nco/nco_ply.c (86%) + copy src/nco/{nco_ply.c => nco_ply.c.orig} (100%) + rewrite src/nco/nco_ply.h (62%) + copy src/nco/{nco_ply.h => nco_ply.h.orig} (100%) + rewrite src/nco/nco_ply_lst.c (92%) + copy src/nco/{nco_ply_lst.c => nco_ply_lst.c.orig} (100%) + create mode 100644 src/nco/nco_ply_lst.h.orig + rewrite src/nco/nco_ppc.c (92%) + copy src/nco/{nco_ppc.c => nco_ppc.c.orig} (100%) + create mode 100644 src/nco/nco_ppc.h.orig + rewrite src/nco/nco_prn.c (92%) + copy src/nco/{nco_prn.c => nco_prn.c.orig} (100%) + create mode 100644 src/nco/nco_prn.h.orig + rewrite src/nco/nco_rec_var.c (81%) + copy src/nco/{nco_rec_var.c => nco_rec_var.c.orig} (100%) + create mode 100644 src/nco/nco_rec_var.h.orig + rewrite src/nco/nco_rgr.c (88%) + copy src/nco/{nco_rgr.c => nco_rgr.c.orig} (100%) + rewrite src/nco/nco_rgr.h (68%) + copy src/nco/{nco_rgr.h => nco_rgr.h.orig} (100%) + rewrite src/nco/nco_rth_flt.c (67%) + copy src/nco/{nco_rth_flt.c => nco_rth_flt.c.orig} (100%) + create mode 100644 src/nco/nco_rth_flt.h.orig + rewrite src/nco/nco_rth_utl.c (84%) + copy src/nco/{nco_rth_utl.c => nco_rth_utl.c.orig} (100%) + create mode 100644 src/nco/nco_rth_utl.h.orig + rewrite src/nco/nco_s1d.c (95%) + copy src/nco/{nco_s1d.c => nco_s1d.c.orig} (100%) + create mode 100644 src/nco/nco_s1d.h.orig + rewrite src/nco/nco_scl_utl.c (71%) + copy src/nco/{nco_scl_utl.c => nco_scl_utl.c.orig} (100%) + create mode 100644 src/nco/nco_scl_utl.h.orig + rewrite src/nco/nco_scm.c (89%) + copy src/nco/{nco_scm.c => nco_scm.c.orig} (100%) + create mode 100644 src/nco/nco_scm.h.orig + rewrite src/nco/nco_sld.c (92%) + copy src/nco/{nco_sld.c => nco_sld.c.orig} (100%) + rewrite src/nco/nco_sld.h (60%) + copy src/nco/{nco_sld.h => nco_sld.h.orig} (100%) + rewrite src/nco/nco_sng_utl.c (84%) + copy src/nco/{nco_sng_utl.c => nco_sng_utl.c.orig} (100%) + rewrite src/nco/nco_sng_utl.h (74%) + copy src/nco/{nco_sng_utl.h => nco_sng_utl.h.orig} (100%) + rewrite src/nco/nco_sph.c (82%) + copy src/nco/{nco_sph.c => nco_sph.c.orig} (100%) + create mode 100644 src/nco/nco_sph.h.orig + rewrite src/nco/nco_srm.c (75%) + copy src/nco/{nco_srm.c => nco_srm.c.orig} (100%) + create mode 100644 src/nco/nco_srm.h.orig + create mode 100644 src/nco/nco_typ.h.orig + create mode 100644 src/nco/nco_uthash.h.orig + rewrite src/nco/nco_var_avg.c (93%) + copy src/nco/{nco_var_avg.c => nco_var_avg.c.orig} (100%) + create mode 100644 src/nco/nco_var_avg.h.orig + rewrite src/nco/nco_var_lst.c (85%) + copy src/nco/{nco_var_lst.c => nco_var_lst.c.orig} (100%) + create mode 100644 src/nco/nco_var_lst.h.orig + rewrite src/nco/nco_var_rth.c (73%) + copy src/nco/{nco_var_rth.c => nco_var_rth.c.orig} (100%) + rewrite src/nco/nco_var_rth.h (86%) + copy src/nco/{nco_var_rth.h => nco_var_rth.h.orig} (100%) + rewrite src/nco/nco_var_scv.c (86%) + copy src/nco/{nco_var_scv.c => nco_var_scv.c.orig} (100%) + rewrite src/nco/nco_var_scv.h (77%) + copy src/nco/{nco_var_scv.h => nco_var_scv.h.orig} (100%) + rewrite src/nco/nco_var_utl.c (88%) + copy src/nco/{nco_var_utl.c => nco_var_utl.c.orig} (100%) + rewrite src/nco/nco_var_utl.h (81%) + copy src/nco/{nco_var_utl.h => nco_var_utl.h.orig} (100%) + rewrite src/nco/ncpdq.c (91%) + copy src/nco/{ncpdq.c => ncpdq.c.orig} (100%) + rewrite src/nco/ncra.c (92%) + copy src/nco/{ncra.c => ncra.c.orig} (100%) + rewrite src/nco/ncrename.c (89%) + copy src/nco/{ncrename.c => ncrename.c.orig} (100%) + rewrite src/nco/ncwa.c (91%) + copy src/nco/{ncwa.c => ncwa.c.orig} (100%) +``` +### 1.4.统计结果 + +综上信息，项目中代码规范性自检检查结果为 + +通过率 : 7% 79800/1,095,902*100% + +不通过率 : 93% 1-79800/1,095,902*100% + +# 2.功能性测试 + +NCO作为netCDF的operator，并无内置测试用例，判断软件是否正常运行,官方也并未给出测试集 + +```bash +ncdiff +``` +## 2.2.运行结果 + +```bash +ncdiff Command line options cheatsheet (full details at http://nco.sf.net/nco.html#ncdiff): +ncdiff [-3] [-4] [-5] [-6] [-7] [-A] [--bfr byt] [-C] [-c] [--cmp sng] [--cnk_byt byt] [--cnk_csh byt] [--cnk_dmn nm,lmn] [--cnk_map map] [--cnk_min byt] [--cnk_plc plc] [--cnk_scl sz] [-D dbg_lvl] [-d ...] [-F] [--fl_fmt fmt] [-G grp:lvl] [-g ...] [--glb ...] [-H] [-h] [--hdf] [--hdr_pad nbr] [--hpss] [-L lvl] [-l path] [--msa] [-n ...] [--no_cll_msr] [--no_frm_trm] [--no_tmp_fl] [-O] [-o out.nc] [-p path] [-R] [-r] [--ram_all] [-t thr_nbr] [--uio] [--unn] [-v ...] [-X box] [-x] [-y op_typ] in1.nc in2.nc [out.nc] + +-3, --3, classic Output file in netCDF3 CLASSIC (32-bit offset) storage format +-4, --4, netcdf4 Output file in netCDF4 (HDF5) storage format +-5, --5, 64bit_data Output file in netCDF3 64-bit data (i.e., CDF5, PnetCDF) storage format +-6, --6, 64, 64bit_offset Output file in netCDF3 64-bit offset storage format +-7, --7, netcdf4_classic Output file in netCDF4 CLASSIC format (3+4=7) +-A, --apn, append Append to existing output file, if any + --bfr_sz, buffer_size sz Buffer size to open files with +-C, --no_crd, xcl_ass_var Exclude coordinates, CF-associated variables (ancillary, bounds, ...) +-c, --crd, xtr_ass_var Extract coordinates, CF-associated variables (ancillary, bounds, ...) + --cmp cmp_sng Compression string (e.g., 'gbr,3|zstd,1') + --cnk_byt, chunk_byte sz_byt Chunksize in bytes + --cnk_csh, chunk_cache sz_byt Chunk cache size in bytes + --cnk_dmn, chunk_dimension nm,sz_lmn Chunksize of dimension nm (in elements not bytes) + --cnk_map, chunk_map map Chunking map [dmn,lfp,nc4,nco,prd,rd1,rew,scl,xpl,xst] + --cnk_min, chunk_min sz_byt Minimum size [B] of variable to chunk + --cnk_plc, chunk_policy plc Chunking policy [all,g2d,g3d,xpl,xst,uck] + --cnk_scl, chunk_scalar sz_lmn Chunksize scalar (in elements not bytes) (for all dimensions) +-D, --dbg_lvl, debug-level lvl Debug-level is lvl +-d, --dmn, dimension dim,[min][,[max]][,[stride]] Dimension's limits and stride in hyperslab +-F, --ftn, fortran Fortran indexing conventions (1-based) for I/O + --fl_fmt, file_format fmt File format for output [classic,64bit_offset,64bit_data,netcdf4,netcdf4_classic] +-G, --gpe [grp_nm][:[lvl]] Group Path Editing path, levels to replace +-g, --grp grp1[,grp2[...]] Group(s) to process (regular expressions supported) + --glb_att_add nm=val Global attribute to add +-H, --fl_lst_in, file_list Do not create "input_file_list" global attribute that stores stdin filenames +-h, --hst, history Do not append to "history" global attribute + --hdf_upk, hdf_unpack HDF unpack convention: unpacked=scale_factor*(packed-add_offset) + --hdr_pad, header_pad Pad output header with nbr bytes + --hpss, hpss_try Search for unfound files on HPSS with 'hsi get ...' +-L, --dfl_lvl, deflate lvl Lempel-Ziv deflation/compression (lvl=0..9) for netCDF4 output +-l, --lcl, local path Local storage path for remotely-retrieved files + --msa, msa_usr_rdr Multi-Slab-Algorithm output in User-Order +-n, --nintap nbr_files,[nbr_numeric_chars[,increment]] NINTAP-style abbreviation of file list + --no_cll_msr Do not extract cell_measures variables + --no_frm_trm Do not extract formula_terms variables + --no_tmp_fl Do not write output to temporary file +-O, --ovr, overwrite Overwrite existing output file, if any +-o, --output, fl_out Output file name (or use last positional argument) +-p, --pth, path path Path prefix for all input filenames +-R, --rtn, retain Retain remotely-retrieved files after use +-r, --revision, version Compile-time configuration and/or program version + --ram_all, diskless_all Open netCDF3 files and create output files in RAM +-t, --thr_nbr, threads, omp_num_threads thr_nbr Thread number for OpenMP + --uio, share_all Unbuffered I/O to read/write netCDF3 file(s) + --unn, union Select union of specified groups and variables +-v, --variable var1[,var2[...]] Variable(s) to process (regular expressions supported) +-X, --auxiliary lon_min,lon_max,lat_min,lat_max Auxiliary coordinate bounding box +-x, --xcl, exclude Extract all variables EXCEPT those specified with -v +-y, --op_typ, operation op_typ Binary arithmetic operation: add,sbt,mlt,dvd (+,-,*,/) +in1.nc in2.nc Input file names (or use stdin) +[out.nc] Output file name (or use -o option) + +Eight ways to find more help on ncdiff and/or NCO: +1. Examples: http://nco.sf.net/nco.html#xmp_ncdiff +2. Ref. manual: http://nco.sf.net/nco.html#ncdiff +3. User Guide: http://nco.sf.net#RTFM +4. Manual pages: 'man ncdiff', 'man nco', ... +5. Homepage: http://nco.sf.net +6. Code: http://github.com/nco/nco +7. Help Forum: http://sf.net/p/nco/discussion/9830 +8. Publications: http://nco.sf.net#pub +Post questions, suggestions, patches at http://sf.net/projects/nco +``` + + +测试结果 + +nco可正常执行 +## NCVIEW +### 1.1.选择统计文件类型 + +统计项目文件类型及其文件数量 + +使用python编写脚本文件 +代码同上 + +``` + +在NCVIEW项目根目录下运行,运行结果如下 + +```bash +当前文件夹下共有[.f]的文件3857个 +当前文件夹下共有[.c]的文件1481个 +当前文件夹下共有[.m]的文件882个 +当前文件夹下共有[]的文件852个 +当前文件夹下共有[.h]的文件826个 +当前文件夹下共有[.table]的文件618个 +当前文件夹下共有[.rgb]的文件270个 +当前文件夹下共有[.ncl]的文件259个 +当前文件夹下共有[.sed]的文件84个 +当前文件夹下共有[.res]的文件63个 +当前文件夹下共有[.nc]的文件58个 +当前文件夹下共有[.sh]的文件52个 +当前文件夹下共有[.gc]的文件43个 +当前文件夹下共有[.cdf]的文件36个 +当前文件夹下共有[.specific]的文件32个 +当前文件夹下共有[.fc]的文件31个 +当前文件夹下共有[.dat]的文件27个 +当前文件夹下共有[.f90]的文件23个 +当前文件夹下共有[.gp]的文件22个 +当前文件夹下共有[.csh]的文件14个 +当前文件夹下共有[.asc]的文件14个 +当前文件夹下共有[.ttf]的文件13个 +当前文件夹下共有[.o]的文件12个 +当前文件夹下共有[.doc]的文件11个 +当前文件夹下共有[.py]的文件9个 +当前文件夹下共有[.ncmap]的文件8个 +当前文件夹下共有[.txt]的文件6个 +当前文件夹下共有[.xml]的文件6个 +当前文件夹下共有[.md]的文件5个 +当前文件夹下共有[.grb2]的文件5个 +当前文件夹下共有[.l]的文件4个 +当前文件夹下共有[.areas]的文件4个 +当前文件夹下共有[.java]的文件4个 +当前文件夹下共有[.ksh]的文件3个 +当前文件夹下共有[.PGI]的文件3个 +当前文件夹下共有[.INTEL]的文件3个 +当前文件夹下共有[.GNU]的文件3个 +当前文件夹下共有[.yml]的文件3个 +当前文件夹下共有[.csv]的文件2个 +当前文件夹下共有[.dbf]的文件2个 +当前文件夹下共有[.shx]的文件2个 +当前文件夹下共有[.shp]的文件2个 +当前文件夹下共有[.prj]的文件2个 +当前文件夹下共有[.null]的文件2个 +当前文件夹下共有[.y]的文件2个 +当前文件夹下共有[.template]的文件2个 +当前文件夹下共有[.64]的文件2个 +当前文件夹下共有[.tiff]的文件1个 +当前文件夹下共有[.bit]的文件1个 +当前文件夹下共有[.xbm]的文件1个 +当前文件夹下共有[.ad]的文件1个 +当前文件夹下共有[.tbl]的文件1个 +当前文件夹下共有[.PS]的文件1个 +当前文件夹下共有[.CO]的文件1个 +当前文件夹下共有[.3]的文件1个 +当前文件夹下共有[.1]的文件1个 +当前文件夹下共有[.US]的文件1个 +当前文件夹下共有[.2]的文件1个 +当前文件夹下共有[.4]的文件1个 +当前文件夹下共有[.PO]的文件1个 +当前文件夹下共有[.png]的文件1个 +当前文件夹下共有[.pngi]的文件1个 +当前文件夹下共有[.form]的文件1个 +当前文件夹下共有[.pre]的文件1个 +当前文件夹下共有[.imagen]的文件1个 +当前文件夹下共有[.file]的文件1个 +当前文件夹下共有[.grib2]的文件1个 +当前文件夹下共有[.grb]的文件1个 +当前文件夹下共有[.hdf]的文件1个 +当前文件夹下共有[.he2]的文件1个 +当前文件夹下共有[.he5]的文件1个 +当前文件夹下共有[.cocos]的文件1个 +当前文件夹下共有[.cpt]的文件1个 +当前文件夹下共有[.bin]的文件1个 +当前文件夹下共有[.ctl]的文件1个 +当前文件夹下共有[.mdl]的文件1个 +当前文件夹下共有[.xlsx]的文件1个 +当前文件夹下共有[.F90]的文件1个 +当前文件夹下共有[.xsl]的文件1个 +当前文件夹下共有[.pl]的文件1个 +当前文件夹下共有[.ifort]的文件1个 +当前文件夹下共有[.xl]的文件1个 +当前文件夹下共有[.absoft]的文件1个 +当前文件夹下共有[.man]的文件1个 +当前文件夹下共有[.amd64]的文件1个 +当前文件夹下共有[.g95]的文件1个 +当前文件夹下共有[.IA64]的文件1个 +当前文件夹下共有[.ini]的文件1个 +当前文件夹下共有[.32]的文件1个 +当前文件夹下共有[.n32]的文件1个 +当前文件夹下共有[.patch]的文件1个 + +``` + +查看上述结果可知主要源码文件后缀名为 `c`,`h`,`f` + +### 1.2.统计源码总行数 + +统计所有源码文件的代码行数 + +```bash + find ./ -regex ".*\.f\|.*\.c\|.*\.h\|"\ + | xargs wc -l +``` + +统计结果 + +```bash + 1001123 total +``` + +### 1.3.统计不符合要求的总行数 + +对文件后缀名为 `h`,`c` 的所有文件进行格式 +通过git与astyle结合的方式进行统计 +```bash +# astyle -R ./*.cpp,*.h,*.hpp -v +... +------------------------------------------------------------ + 2,179 formatted 128 unchanged 14.4 seconds 1,095,902 lines +``` + +### 1.4.统计结果 + +综上信息，项目中代码规范性自检检查结果为 + +通过率 : 0.2% 1-96213/96400*100% + +不通过率 : 99.8% 96213/96400*100% + +# 2.功能性测试 +NCVIEW作为netCDF的operator，并无内置测试用例，判断软件是否正常运行,官方也并未给出测试集 + +```bash +ncview +``` +## 2.2.运行结果 +```bash +Ncview 2.1.7 David W. Pierce 29 March 2016 +http://meteora.ucsd.edu:80/~pierce/ncview_home_page.html +Copyright (C) 1993 through 2015, David W. Pierce +Ncview comes with ABSOLUTELY NO WARRANTY; for details type `ncview -w'. +This is free software licensed under the Gnu General Public License version 3; type `ncview -c' for redistribution details. +``` +测试结果 + +ncview可正常执行 \ No newline at end of file diff --git "a/doc/ncl_nco_ncview/\343\200\212\345\237\272\344\272\216openEuler\347\232\204ncl_nco_ncview\350\275\257\344\273\266\347\247\273\346\244\215\346\214\207\345\215\227\343\200\213.md" "b/doc/ncl_nco_ncview/\343\200\212\345\237\272\344\272\216openEuler\347\232\204ncl_nco_ncview\350\275\257\344\273\266\347\247\273\346\244\215\346\214\207\345\215\227\343\200\213.md" new file mode 100644 index 0000000..bcea9ef --- /dev/null +++ "b/doc/ncl_nco_ncview/\343\200\212\345\237\272\344\272\216openEuler\347\232\204ncl_nco_ncview\350\275\257\344\273\266\347\247\273\346\244\215\346\214\207\345\215\227\343\200\213.md" @@ -0,0 +1,574 @@ +# 《基于openEuler的NCL/NCO/NCVIEW软件移植指南》 +## 鉴于NCL，NCO，NCVIEW依赖相近，因此在本指南中一并介绍 + +## 1.介绍 +## NCL +- NCL(The NCAR Command Language)是一种专门为科学数据处理以及数据可视化设计的高级语言，很适合用在气象数据的处理和可视化上 + +- 官网地址： + +- 特性： + + - 有独特的语法，可以访问数据文件中的变量 + - 数据处理功能，比如求数据的平均值，做线性回归等 +## NCO +- netCDF Operators (NCO) 工具用来操作和分析 netCDF 自描述数据存储格式 + +- 官网地址： + +- 特性： + + - 简单的算术运算(加、减、乘、除、广播)、插值、统计、数据合并等等 + - 提供了大量的命令可以编辑变量和属性信息，比如属性和变量重命名、变量和属性值更改\添加、缺失值处理等。 + ## NCVIEW +- ncview能非常方便的对netCDF文件进行可视化。 + +- 官网地址： + +- 特性： + + - 提供了非常便捷的方式扩充 ncview 的colormap +## 2.环境要求 + +- 操作系统：OpenEuler arm/x86 (本文档以 x86 架构为例) + +## 3.配置编译环境 + +配置环境指导，手动进行配置依赖环境。 + +### 3.1.环境总览 + +- 编译器： gcc + +- MPI：openmpi + +- 其他类库：freetype, netcdf,hdf4,hdf5,hdf-eos2,hdf-eos5s,antlr,pkg-config,cairo,jasper,gsl,mesa,vis5d+,libjpeg,libpng + + 具体版本和下载地址如下 + +| 名称 | 版本 | 软件下载地址 | +| -------- | ------ | ---------------------------------------------------------------------------------------------- | +| openmpi | 4.1.2 | | +| gcc | 10.3.0 | | +| antlr | 2.7.7 | | +| cairo | 1.16.0 | | +| freetype | 2.5.1 | | +| gdal | 2.2.4 | | +| hdf-eos2 | 2.20 | | +| hdf-eos5 | 1.16 | | +| hdf4 | 4.2.14 | | +| hdf5 | 1.12.0 | | +| jasper | 1.900.1 | | +| libjpeg | v9b | | +| libpng | 1.6.37 | | +| Mesa | 3.1 | | +| pixman | 0.38.0 | | +| pkg-config | 0.28 | | +| proj | 5.2.0 | | +| vis5d+ | 1.3.0 | | + +### 3.2.创建文件夹 + +```bash +mkdir -p $HOME/build +mkdir -p $HOME/install +mkdir -p $HOME/tmp +``` + +### 3.3.安装预设 + +设置环境变量，方便修改自定义安装目录 + +- 编译目录为 $HOME/build , 根据实际情况进行修改 +- 软件安装目录为 $HOME/install , 根据实际情况进行修改 +- 下载目录为 $HOME/tmp , 根据实际情况进行修改 + +```bash +#为了方便自定义软件安装目录 +#环境变量DEP_INSTALL_DIR将在后文中作为软件安装目录的根目录 +export DEP_INSTALL_DIR=$HOME/install +#环境变量DEP_BUILD_DIR将在后文中作为编译的根目录 +export DEP_BUILD_DIR=$HOME/build +#环境变量DEP_DOWNLOAD_DIR将在后文中作为下载文件的保存目录 +export DEP_DOWNLOAD_DIR=$HOME/tmp + +#注： 以上变量只在一次会话中有效。如果中途断开ssh会话，则在后续的安装过程中不会生效，需要重新运行 +``` + +### 3.4.安装环境依赖和gcc编译器 + +```bash +#环境依赖 +yum -y install wget tar expat + +#安装gcc编译器 +wget -P $DEP_DOWNLOAD_DIR https://ftp.gnu.org/gnu/gcc/gcc-10.3.0/gcc-10.3.0.tar.gz +tar -xf $DEP_DOWNLOAD_DIR/gcc-10.3.0.tar.gz -C $DEP_INSTALL_DIR +./contrib/download_prerequisites +./configure --disable-multilib --enable-languages="c,c++,fortran" --prefix=$1 --disable-static --enable-shared +make -j && make install + + +#设置环境变量 +echo "export PATH=$DEP_INSTALL_DIR/gcc-10.3.0/bin:$PATH" >> ~/.bashrc && source ~/.bashrc +export CC=`which gcc` +export CXX=`which g++` +``` + +## 3.5.下载并编译openmpi + +```bash +yum -y install libstdc++ libstdc++-devel +yum -y install unzip make autoconf automake git libtool +#下载解压源码文件 +wget https://download.open-mpi.org/release/open-mpi/v4.1/openmpi-4.1.2.tar.gz -O $DEP_DOWNLOAD_DIR +cd $DEP_BUILD_DIR +tar zxvf $DEP_DOWNLOAD_DIR openmpi-4.1.2.tar.gz +cd openmpi-4.1.2 +./configure CC=gcc CXX=g++ FC=gfortran --prefix=$1 --enable-pretty-print-stacktrace --enable-orterun-prefix-by-default --enable-mpi1-compatibility +make -j install + +yum -y install flex +``` +## 以下是NCL依赖各库 +## 3.6.下载并编译各库 + +```bash + +#libjpeg +. wget -u http://www.ijg.org/files/jpegsrc.v9b.tar.gz +cd $DEP_BUILD_DIR +rm -rf jpeg-9b +tar xvf $DEP_DOWNLOAD_DIR/jpegsrc.v9b.tar.gz +cd jpeg-9b +./configure --prefix=$1 +make -j +make install + +#libpng + +#pkg-config +. wget -u http://pkgconfig.freedesktop.org/releases/pkg-config-0.29.tar.gz +cd $DEP_BUILD_DIR +tar xvf $DEP_DOWNLOAD_DIR/pkg-config-0.29.tar.gz +cd pkg-config-0.29 +./configure --prefix=$1 --enable-shared +make -j +make install + +#pnetcdf +pnetcdf_version='1.12.1' +. wget -u http://cucis.ece.northwestern.edu/projects/PnetCDF/Release/pnetcdf-${pnetcdf_version}.tar.gz +cd $DEP_BUILD_DIR +tar zxvf $DEP_DOWNLOAD_DIR/pnetcdf-${pnetcdf_version}.tar.gz +cd pnetcdf-${pnetcdf_version} +FCFLAGS=-fallow-argument-mismatch FFLAGS=-fallow-argument-mismatch ./configure --prefix=$1 --enable-shared --enable-fortran --enable-large-file-test +make -j16 +make install + +#pixman +. wget -u https://www.cairographics.org/releases/pixman-0.38.0.tar.gz +cd $DEP_BUILD_DIR + +tar xvf $DEP_DOWNLOAD_DIR/pixman-0.38.0.tar.gz +cd pixman-0.38.0 +./configure --prefix=$1 +make -j +make install + +#freetype +. wget -u https://sourceforge.net/projects/freetype/files/freetype2/2.5.1/freetype-2.5.1.tar.gz +cd $DEP_BUILD_DIR +tar -xvf $DEP_DOWNLOAD_DIR/freetype-2.5.1.tar.gz +cd freetype-2.5.1 + +./configure --enable-shared --prefix=$1 +make -j +make install +cd include +cp -r * $1/include + +#gdal +. wget -u http://download.osgeo.org/gdal/2.2.4/gdal-2.2.4.tar.gz +cd $DEP_BUILD_DIR +tar -xvf $DEP_DOWNLOAD_DIR/gdal-2.2.4.tar.gz +cd gdal-2.2.4 + +./configure --with-static-proj4=${PROJ_PATH} --prefix=$1 --with-png=${LIBPNG_PATH} --with-gif=internal --with-libtiff=internal \ + --with-geotiff=internal --with-jpeg=${LIBJPEG_PATH} --with-libz=/usr/local \ + --with-sqlite3=no --with-expat=no --with-curl=no --without-ld-shared \ + --with-hdf4=no --with-hdf5=no --with-pg=no --without-grib --disable-shared \ + --with-freexl=no --with-geos=no --with-openjpeg=no --with-mysql=no \ + --with-ecw=no --with-fgdb=no --with-odbc=no --with-xml2=no --with-ogdi=no\ + --with-pcraster=no --with-xerces=no +make all install + +#gsl +. wget -u http://mirrors.ustc.edu.cn/gnu/gsl/gsl-2.6.tar.gz +cd $DEP_BUILD_DIR +rm -rf gsl-2.6 +tar -xvf $DEP_DOWNLOAD_DIR/gsl-2.6.tar.gz +cd gsl-2.6 +./configure --prefix=$1 +make -j +make install + +#hdf-eos2 +. wget -u https://git.earthdata.nasa.gov/rest/git-lfs/storage/DAS/hdfeos/cb0f900d2732ab01e51284d6c9e90d0e852d61bba9bce3b43af0430ab5414903?response-content-disposition=attachment%3B%20filename%3D%22HDF-EOS2.20v1.00.tar.Z%22%3B%20filename*%3Dutf-8%27%27HDF-EOS2.20v1.00.tar.Z +cd $DEP_DOWNLOAD_DIR +cp -f cb0f900d2732ab01e51284d6c9e90d0e852d61bba9bce3b43af0430ab5414903* HDF-EOS2.20v1.00.tar +cd $DEP_BUILD_DIR + +tar -xvf $DEP_DOWNLOAD_DIR/HDF-EOS2.20v1.00.tar +cd hdfeos + +ac_cv_func_malloc_0_nonnull=yes ac_cv_func_realloc_0_nonnull=yes ./configure --with-hdf4=${HDF4_PATH} --with-jpeg=${LIBJPEG_PATH} --with-zlib=/usr/local --prefix=$1 +make -j +make install +cp -r include $1/ + +#hdf4 +. wget -u https://support.hdfgroup.org/ftp/HDF/releases/HDF4.2.15/src/hdf-4.2.15.tar.gz +cd $DEP_BUILD_DIR +rm -rf hdf-4.2.15 +tar -xvf $DEP_DOWNLOAD_DIR/hdf-4.2.15.tar.gz +cd hdf-4.2.15 +FFLAGS+='-fallow-argument-mismatch' ./configure --prefix=$1 --with-zlib=/usr/local --disable-fortran --with-jpeg=${LIBJPEG_PATH} --disable-netcdf +make -j +make install + +#hdf5 +hdf5_big_version='1.12' +hdf5_version="${hdf5_big_version}.0" +. wget -u https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-${hdf5_big_version}/hdf5-${hdf5_version}/src/hdf5-${hdf5_version}.tar.gz +cd $DEP_BUILD_DIR +rm -rf hdf5-${hdf5_version} +tar -xvf $DEP_DOWNLOAD_DIR/hdf5-${hdf5_version}.tar.gz +cd hdf5-${hdf5_version} +./configure --prefix=$1 --enable-fortran --enable-static=yes --enable-parallel --enable-shared +make -j +make install +#netcdf +netcdf_c_version='4.7.4' +netcdf_f_version='4.5.3' +. wget -u https://codeload.github.com/Unidata/netcdf-fortran/tar.gz/refs/tags/v${netcdf_f_version} -f netcdf-fortran-${netcdf_f_version}.tar.gz +. wget -u https://codeload.github.com/Unidata/netcdf-c/tar.gz/refs/tags/v${netcdf_c_version} -f netcdf-c-${netcdf_c_version}.tar.gz +cd $DEP_BUILD_DIR +rm -rf netcdf-c-${netcdf_c_version} netcdf-fortran-${netcdf_f_version} +tar -xvf $DEP_DOWNLOAD_DIR/netcdf-c-${netcdf_c_version}.tar.gz +tar -xvf $DEP_DOWNLOAD_DIR/netcdf-fortran-${netcdf_f_version}.tar.gz +cd netcdf-c-${netcdf_c_version} +if [ x"$(arch)" = xaarch64 ];then + build_type='--build=aarch64-unknown-linux-gnu' +else + build_type='' +fi +HDF5_DIR=${HDF5_PATH} +PNETCDF_DIR=${PNETCDF_PATH} +./configure --prefix=$1 ${build_type} --enable-shared --enable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --enable-pnetcdf --enable-largefile CPPFLAGS="-O3 -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" + +make -j16 +make install + +export PATH=$1/bin:$PATH +export LD_LIBRARY_PATH=$1/lib:$LD_LIBRARY_PATH +export NETCDF=${1} + +cd ../netcdf-fortran-${netcdf_f_version} +./configure --prefix=$1 ${build_type} --disable-shared --with-pic --disable-doxygen --enable-largefile --enable-static CPPFLAGS="-O3 -I${HDF5_DIR}/include -I${1}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${1}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${1}/lib" CFLAGS="-O3 -L${HDF5_DIR}/HDF5/lib -L${1}/lib -I${HDF5_DIR}/include -I${1}/include" CXXFLAGS="-O3 -L${HDF5_DIR}/lib -L${1}/lib -I${HDF5_DIR}/include -I${1}/include" FCFLAGS="-O3 -L${HDF5_DIR}/lib -L${1}/lib -I${HDF5_DIR}/include -I${1}/include" +make -j16 +make install + +#hdf-eos5 +. wget -u https://git.earthdata.nasa.gov/rest/git-lfs/storage/DAS/hdfeos5/7054de24b90b6d9533329ef8dc89912c5227c83fb447792103279364e13dd452?response-content-disposition=attachment%3B%20filename%3D%22HDF-EOS5.1.16.tar.Z%22%3B%20filename*%3Dutf-8%27%27HDF-EOS5.1.16.tar.Z +cd $DEP_DOWNLOAD_DIR +cp -f 7054de24b90b6d9533329ef8dc89912c5227c83fb447792103279364e13dd452* HDF-EOS5.1.16.tar +cd $DEP_BUILD_DIR +# gzip -d $DEP_DOWNLOAD_DIR/HDF-EOS2.20v1.00.tar +tar -xvf $DEP_DOWNLOAD_DIR/HDF-EOS5.1.16.tar +cd hdfeos5 + +./configure CC=${HDF5_PATH}/bin/h5pcc --with-hdf4=${HDF5_PATH} --with-zlib=/usr/local --prefix=$1 +make -j +make install +cp -r include $1/ +#proj +. wget -u http://download.osgeo.org/proj/proj-5.2.0.tar.gz +cd $DEP_BUILD_DIR +rm -rf proj-5.2.0 +tar -xvf $DEP_DOWNLOAD_DIR/proj-5.2.0.tar.gz +cd proj-5.2.0 + +./configure --enable-shared --enable-static --prefix=$1 +make all install + +#jasper +. wget -u https://www.ece.uvic.ca/~frodo/jasper/software/jasper_1.900.1.orig.tar.gz +cd $DEP_BUILD_DIR +rm -rf jasper-1.900.2 +tar -xvf $DEP_DOWNLOAD_DIR/jasper_1.900.1.orig.tar.gz +cd jasper-1.900.1 +./configure --prefix=$1 +make -j +make install + +#mesa +. wget -u https://archive.mesa3d.org/older-versions/3.x/MesaLib-3.1.tar.gz +cd $DEP_BUILD_DIR +rm -rf Mesa-3.1 +tar -xvf $DEP_DOWNLOAD_DIR/MesaLib-3.1.tar.gz +cd Mesa-3.1 +cp -f /usr/share/libtool/build-aux/config.guess ./ +cp -f /usr/share/libtool/build-aux/config.sub ./ +./configure --prefix=$1 +make +make install + +#udunits +. wget -u https://artifacts.unidata.ucar.edu/repository/downloads-udunits/2.2.28/udunits-2.2.28.tar.gz +cd $DEP_BUILD_DIR +tar xvf $DEP_DOWNLOAD_DIR/udunits-2.2.28.tar.gz +cd udunits-2.2.28 +./configure --prefix=$1 +make -j +make install + +#vis5d+ +. wget -u https://sourceforge.net/projects/vis5d/files/vis5d/vis5d%2B-1.3.0-beta/vis5d%2B-1.3.0-beta.tar.gz +cd $DEP_BUILD_DIR +rm -rf vis5d+-1.3.0-beta +tar -xvf $DEP_DOWNLOAD_DIR/vis5d%2B-1.3.0-beta.tar.gz +cd vis5d+-1.3.0-beta +sed -i '40c extern float vis_round( float x ); ' src/misc.h +sed -i '150c float vis_round(float x)' src/misc.c + +FFLAGS='-fno-range-check -fallow-rank-mismatch' LDFLAGS=-L${MESA_PATH}/lib CFLAGS=-I${MESA_PATH}/include CPPFLAGS=-I${MESA_PATH}/include ./configure --prefix=$1 --disable-fortran --with-netcdf=${NETCDF_PATH} --disable-shared + +make +make install + +``` + +## 以下是NCO依赖各库 +NCO依赖为netcdf hdf4 hdf5 gsl udunits antlr + +```bash +#antlr +. wget -u https://www.antlr2.org/download/antlr-2.7.7.tar.gz +cd $DEP_BUILD_DIR +tar xvf $DEP_DOWNLOAD_DIR/antlr-2.7.7.tar.gz +cd antlr-2.7.7 +sed -i "13a #include " lib/cpp/antlr/CharScanner.hpp +sed -i "14a #include " lib/cpp/antlr/CharScanner.hpp +./configure \ +--prefix=$1 \ +--disable-csharp \ +--disable-java \ +--disable-python +make -j +make install +#其余同上 +``` + +## 以下为NCVIEW依赖 +ncview依赖为 hdf5 pnetcdf netcdf udunits +```bash +#同上NCL +``` + +## 4.编译 + +### 4.1.下载并编译wannier90 + +获取QMCPACK软件源码并解压文件 + +```bash + +# 下载源码文件 +cd $DEP_DOWNLOAD_DIR +git clone https://github.com/wannier-developers/wannier90.git +# 解压源码文件 +cd $DEP_BUILD_DIR/wannier90 +#编译源码 +cp config/make.inc.gfortran ./make.inc +sed -i '4c F90 = gfortran' make.inc +sed -i '8c MPIF90 = mpif90' make.inc +sed -i '7c COMMS= mpi' make.inc +sed -i '14c FCOPTS = -fstrict-aliasing -fno-omit-frame-pointer -fno-realloc-lhs -fcheck=bounds,do,recursion,pointer -ffree-form -Wall -Waliasing -Wsurprising -Wline-truncation -Wno-tabs -Wno-uninitialized -Wno-unused-dummy-argument -Wno-unused -Wno-character-truncation -O1 -g -fbacktrace' make.inc +sed -i '15c LDOPTS = -fstrict-aliasing -fno-omit-frame-pointer -fno-realloc-lhs -fcheck=bounds,do,recursion,pointer -ffree-form -Wall -Waliasing -Wsurprising -Wline-truncation -Wno-tabs -Wno-uninitialized -Wno-unused-dummy-argument -Wno-unused -Wno-character-truncation -O1 -g -fbacktrace' make.inc + +make +make install +``` + +### 4.2. 运行测试 + +ncl为图形应用，官方并未给出过多用例，所以验证ncl程序是否成功编译， + +```bash +export PATH=$PATH:$INSTALL_DIR/bin +ncl -v +``` + +## 附A：使用hpcrunner进行一键安装ncl、nco、ncview + +推荐使用hpcrunner进行安装ncl、nco、ncview + +### 1.克隆仓库 + +```bash +git clone https://gitee.com/openeuler/hpcrunner.git +``` + +## 2.初始化hpcrunner 和 安装必要软件包 + +初始化项目助手 + +```bash +cd hpcrunner +source init.sh +``` + +安装必要软件包 + +**arm / x86 需要的软件包不同，根据实际环境进行选择** + +```bash +# arm +yum install -y environment-odules git wget unzip make flex tar +# x86 +yum install -y environment-modules git wget unzip make flex tar +yum install -y gcc gcc-c++ gcc-gfortran glibc-devel libgfortran +yum install -y tcsh tcl lsof tk bc +``` + +### 3.选择平台对应配置文件 +## NCL +- arm平台的配置文件为 `templates/ncl/6.6.2/data.NCL.arm.cpu.config` + + ```bash + ./jarvis -use templates/ncl/6.6.2/data.NCL.arm.cpu.config + ``` + +- x86 平台的配置文件为 `templates/ncl/6.6.2/data.ncl.x86.cpu.config` + + ```bash + ./jarvis -use templates/wannier90/3.1.0/data.wannier90.amd.cpu.config + ``` +## NCO +- arm平台的配置文件为 `templates/nco/5.1.4/data.NCO.arm.cpu.config` + + ```bash + ./jarvis -use templates/wannier90/3.1.0/data.wannier90.arm.cpu.config + ``` + +- x86 平台的配置文件为 `templates/nco/5.1.4/data.NCO.x86.cpu.config` + + ```bash + ./jarvis -use templates/wannier90/3.1.0/data.wannier90.amd.cpu.config + ``` + ## NCVIEW + - arm平台的配置文件为 `templates/ncview/2.1.7/data.ncview.arm.cpu.config` + + ```bash + ./jarvis -use templates/wannier90/3.1.0/data.wannier90.arm.cpu.config + ``` + +- x86 平台的配置文件为 `templates/ncview/2.1.7/data.ncview.x86.cpu.config` + + ```bash + ./jarvis -use templates/wannier90/3.1.0/data.wannier90.amd.cpu.config + ``` +### 4.下载QMCPACK源码 + +```bash +./jarvis -d +``` + +### 5.一键配置依赖环境 + +```bash +./jarvis -dp +``` + +### 6.一键进行编译 + +```bash +./jarvis -b +``` + +### 7.一键进行运行测试 + +```bash +./jarvis -r +``` + +## 附B：使用singularity运行容器 + +### 使用教程 + +### 下载容器镜像 + +通过链接下载： + +[百度云盘](https://pan.baidu.com/s/1fxKHH5cIaKVt2boYUhVxmQ?pwd=ic13) + + +#### 1.安装singularity + +安装singularity， + +具体步骤如下 + +```bash +mkdir -p ~/install +mkdir -p ~/build + +#安装编译所需依赖 +yum -y install libatomic libstdc++ libstdc++-devel libseccomp-devel glib2-devel gcc squashfs-tools tar + +#安装bisheng编译器 +cd ~/build +wget https://mirrors.huaweicloud.com/kunpeng/archive/compiler/bisheng_compiler/bisheng-compiler-2.1.0-aarch64-linux.tar.gz +tar -C ~/install -xf bisheng-compiler-2.1.0-aarch64-linux.tar.gz +echo "export PATH=$HOME/install/bisheng-compiler-2.1.0-aarch64-linux/bin:$PATH" >> ~/.bashrc && source ~/.bashrc +export CC=`which clang` +export CXX=`which clang++` + +#安装go编译器 +cd ~/build +wget https://go.dev/dl/go1.19.linux-arm64.tar.gz +tar -C ~/install -xf go1.19.linux-arm64.tar.gz +echo "export PATH=$HOME/install/go/bin:$PATH" >> ~/.bashrc && source ~/.bashrc + +#安装singularity +cd ~/build +wget https://github.com/sylabs/singularity/releases/download/v3.10.2/singularity-ce-3.10.2.tar.gz +tar -xf singularity-ce-3.10.2.tar.gz +cd singularity-ce-3.10.2 +./mconfig --prefix=$HOME/install/singularity +make -C ./builddir +make -C ./builddir install +echo "export PATH=$HOME/install/singularity/bin:$PATH" >> ~/.bashrc && source ~/.bashrc +``` + +#### 2.构建镜像 + +```shell +# x86 +singularity build ./name-of-image.sif openeuler-gcc-9.3.0-hmpi1-qmcpack-3.13.0.def +# arm +singularity build ./name-of-image.sif openeuler-bisheng2-hmpi1-qmcpack-3.13.0.def +# 转换为沙盒 +singularity build --sandbox image-sandbox name-of-image.sif +``` + +#### 3.在沙盒中运行 + +```shell +#进入沙盒 +singularity shell -w image-sandbox +#在沙盒中运行内置的测试案例 +cd /hpcrunner +./jarvis -r +``` diff --git a/package/freetype/2.5.1/install.sh b/package/freetype/2.5.1/install.sh index 7a04568..9a87d86 100755 --- a/package/freetype/2.5.1/install.sh +++ b/package/freetype/2.5.1/install.sh @@ -1,12 +1,6 @@ #!/bin/bash set -x set -e -# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 - -# cd ${JARVIS_TMP} -# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 -# cd freetype-2.1.9 - . ${DOWNLOAD_TOOL} -u https://sourceforge.net/projects/freetype/files/freetype2/2.5.1/freetype-2.5.1.tar.gz cd ${JARVIS_TMP} tar -xvf ${JARVIS_DOWNLOAD}/freetype-2.5.1.tar.gz diff --git a/package/g2clib/1.6.0/install.sh b/package/g2clib/1.6.0/install.sh index 4cd1f94..a29d992 100755 --- a/package/g2clib/1.6.0/install.sh +++ b/package/g2clib/1.6.0/install.sh @@ -1,11 +1,6 @@ #!/bin/bash set -x set -e -# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 - -# cd ${JARVIS_TMP} -# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 -# cd freetype-2.1.9 cd ${JARVIS_DOWNLOAD} rm -rf g2clib-image git clone https://gitee.com/linruoxuan/g2clib-image.git diff --git a/package/gdal/2.2.4/install.sh b/package/gdal/2.2.4/install.sh index 031ebe7..b8b32c2 100755 --- a/package/gdal/2.2.4/install.sh +++ b/package/gdal/2.2.4/install.sh @@ -1,12 +1,6 @@ #!/bin/bash set -x set -e -# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 - -# cd ${JARVIS_TMP} -# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 -# cd freetype-2.1.9 - . ${DOWNLOAD_TOOL} -u http://download.osgeo.org/gdal/2.2.4/gdal-2.2.4.tar.gz cd ${JARVIS_TMP} tar -xvf ${JARVIS_DOWNLOAD}/gdal-2.2.4.tar.gz diff --git a/package/hdf-eos2/2.20/install.sh b/package/hdf-eos2/2.20/install.sh index ed1381c..e31ee5f 100755 --- a/package/hdf-eos2/2.20/install.sh +++ b/package/hdf-eos2/2.20/install.sh @@ -1,12 +1,6 @@ #!/bin/bash set -x set -e -# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 - -# cd ${JARVIS_TMP} -# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 -# cd freetype-2.1.9 - . ${DOWNLOAD_TOOL} -u https://git.earthdata.nasa.gov/rest/git-lfs/storage/DAS/hdfeos/cb0f900d2732ab01e51284d6c9e90d0e852d61bba9bce3b43af0430ab5414903?response-content-disposition=attachment%3B%20filename%3D%22HDF-EOS2.20v1.00.tar.Z%22%3B%20filename*%3Dutf-8%27%27HDF-EOS2.20v1.00.tar.Z cd ${JARVIS_DOWNLOAD} cp -f cb0f900d2732ab01e51284d6c9e90d0e852d61bba9bce3b43af0430ab5414903* HDF-EOS2.20v1.00.tar diff --git a/package/hdf-eos5/1.16/install.sh b/package/hdf-eos5/1.16/install.sh index 91f72e6..b627928 100755 --- a/package/hdf-eos5/1.16/install.sh +++ b/package/hdf-eos5/1.16/install.sh @@ -1,17 +1,10 @@ #!/bin/bash set -x set -e -# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 - -# cd ${JARVIS_TMP} -# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 -# cd freetype-2.1.9 - . ${DOWNLOAD_TOOL} -u https://git.earthdata.nasa.gov/rest/git-lfs/storage/DAS/hdfeos5/7054de24b90b6d9533329ef8dc89912c5227c83fb447792103279364e13dd452?response-content-disposition=attachment%3B%20filename%3D%22HDF-EOS5.1.16.tar.Z%22%3B%20filename*%3Dutf-8%27%27HDF-EOS5.1.16.tar.Z cd ${JARVIS_DOWNLOAD} cp -f 7054de24b90b6d9533329ef8dc89912c5227c83fb447792103279364e13dd452* HDF-EOS5.1.16.tar cd ${JARVIS_TMP} -# gzip -d ${JARVIS_DOWNLOAD}/HDF-EOS2.20v1.00.tar tar -xvf ${JARVIS_DOWNLOAD}/HDF-EOS5.1.16.tar cd hdfeos5 diff --git a/package/jasper/1.900.1/install.sh b/package/jasper/1.900.2/install.sh similarity index 56% rename from package/jasper/1.900.1/install.sh rename to package/jasper/1.900.2/install.sh index c1aebc6..ae4995b 100755 --- a/package/jasper/1.900.1/install.sh +++ b/package/jasper/1.900.2/install.sh @@ -1,11 +1,10 @@ -#download from https://www.ece.uvic.ca/~frodo/jasper/software/jasper-1.900.2.tar.gz #!/bin/bash set -x set -e -. ${DOWNLOAD_TOOL} -u https://www.ece.uvic.ca/~frodo/jasper/software/jasper_1.900.1.orig.tar.gz +. ${DOWNLOAD_TOOL} -u https://www.ece.uvic.ca/~frodo/jasper/software/jasper-1.900.2.tar.gz cd ${JARVIS_TMP} rm -rf jasper-1.900.2 -tar -xvf ${JARVIS_DOWNLOAD}/jasper_1.900.1.orig.tar.gz +tar -xvf ${JARVIS_DOWNLOAD}/jasper-1.900.2.tar.gz cd jasper-1.900.1 #export CC=clang CXX=clang++ ./configure --prefix=$1 diff --git a/package/mesa/3.1/install.sh b/package/mesa/3.1/install.sh index 99be14a..d695cd0 100755 --- a/package/mesa/3.1/install.sh +++ b/package/mesa/3.1/install.sh @@ -1,11 +1,6 @@ #!/bin/bash set -x set -e -# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 - -# cd ${JARVIS_TMP} -# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 -# cd freetype-2.1.9 . ${DOWNLOAD_TOOL} -u https://archive.mesa3d.org/older-versions/3.x/MesaLib-3.1.tar.gz cd ${JARVIS_TMP} diff --git a/package/proj/5.2.0/install.sh b/package/proj/5.2.0/install.sh index 8d5a3e7..20a26f8 100755 --- a/package/proj/5.2.0/install.sh +++ b/package/proj/5.2.0/install.sh @@ -1,12 +1,6 @@ #!/bin/bash set -x set -e -# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 - -# cd ${JARVIS_TMP} -# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 -# cd freetype-2.1.9 - . ${DOWNLOAD_TOOL} -u http://download.osgeo.org/proj/proj-5.2.0.tar.gz cd ${JARVIS_TMP} rm -rf proj-5.2.0 diff --git a/package/vis5dplus/1.3.0/install.sh b/package/vis5dplus/1.3.0/install.sh index e99a510..2c1aa8b 100755 --- a/package/vis5dplus/1.3.0/install.sh +++ b/package/vis5dplus/1.3.0/install.sh @@ -1,12 +1,6 @@ #!/bin/bash set -x set -e -# . ${DOWNLOAD_TOOL} -u http://prdownloads.sourceforge.net/freetype/freetype-2.1.9.tar.bz2 - -# cd ${JARVIS_TMP} -# tar -jxvf ${JARVIS_DOWNLOAD}/freetype-2.1.9.tar.bz2 -# cd freetype-2.1.9 - . ${DOWNLOAD_TOOL} -u https://sourceforge.net/projects/vis5d/files/vis5d/vis5d%2B-1.3.0-beta/vis5d%2B-1.3.0-beta.tar.gz cd ${JARVIS_TMP} rm -rf vis5d+-1.3.0-beta diff --git a/templates/ncl/6.6.2/data.NCL.x86.cpu.config b/templates/ncl/6.6.2/data.NCL.x86.cpu.config index 44907a5..8d8502b 100644 --- a/templates/ncl/6.6.2/data.NCL.x86.cpu.config +++ b/templates/ncl/6.6.2/data.NCL.x86.cpu.config @@ -61,8 +61,8 @@ module load hdf4/4.2.15 ./jarvis -install gsl/2.6 gcc -./jarvis -install jasper/1.900.1 gcc -module load jasper/1.900.1 +./jarvis -install jasper/1.900.2 gcc +module load jasper/1.900.2 ./jarvis -install g2clib/1.6.0 gcc module load g2clib/1.6.0 ./jarvis -install proj/5.2.0 gcc @@ -95,7 +95,7 @@ module load g2clib/1.6.0 module load gsl/2.6 module load hdf-eos2/2.20 module load hdf-eos5/1.16 -module load jasper/1.900.1 +module load jasper/1.900.2 module load proj/5.2.0 module load gdal/2.2.4 module load udunits/2.2.28 diff --git a/templates/ncview/2.1.7/data.ncview.x86.cpu.config b/templates/ncview/2.1.7/data.ncview.x86.cpu.config index be1744a..bd0e040 100644 --- a/templates/ncview/2.1.7/data.ncview.x86.cpu.config +++ b/templates/ncview/2.1.7/data.ncview.x86.cpu.config @@ -13,7 +13,7 @@ sed -i '11c CC=`which mpicc` FC=`which mpifort` ./configure --prefix=$1 --enable ./jarvis -install hdf5/1.10.4 gcc module load hdf5/1.10.4 export CC=`which mpicc` FC=`which mpifort` -sed -i '9c FLAGS=-fallow-argument-mismatch ./configure --prefix=$1 --build=aarch64-linux --enable-shared --enable-fortran --enable-large-file-test' package/pnetcdf/1.12.1/install.sh +sed -i '9c FFLAGS=-fallow-argument-mismatch ./configure --prefix=$1 --enable-shared --enable-fortran --enable-large-file-test' package/pnetcdf/1.12.1/install.sh ./jarvis -install pnetcdf/1.12.1 gcc module load pnetcdf/1.12.1 ./jarvis -install netcdf/4.7.4 gcc @@ -27,7 +27,7 @@ module add openmpi module load hdf5/1.10.4 module load netcdf/4.7.4 module load udunits/2.2.28 -export CC=mpicc CXX=mpicxx FC=mpifort F77=mpifort +export CC=`which mpicc` [APP] app_name = ncview -- Gitee From 6cfe149ab21a479d1d1a1d38860141fb2c2a1f19 Mon Sep 17 00:00:00 2001 From: root <1157057422@qq.com> Date: Mon, 30 Jan 2023 12:20:47 +0800 Subject: [PATCH 50/51] add arm ncl nco ncview --- container/ncl/data.NCL.arm.cpu.config.def | 34 +++++++++++++++++++++ container/nco/data.NCO.arm.cpu.config.def | 34 +++++++++++++++++++++ templates/nco/5.1.4/data.NCO.arm.cpu.config | 10 +++--- 3 files changed, 74 insertions(+), 4 deletions(-) create mode 100644 container/ncl/data.NCL.arm.cpu.config.def create mode 100644 container/nco/data.NCO.arm.cpu.config.def diff --git a/container/ncl/data.NCL.arm.cpu.config.def b/container/ncl/data.NCL.arm.cpu.config.def new file mode 100644 index 0000000..16c01d7 --- /dev/null +++ b/container/ncl/data.NCL.arm.cpu.config.def @@ -0,0 +1,34 @@ +BootStrap: docker +From: openeuler/openeuler:20.03 + +%environment + source /etc/profile || true + cd /hpcrunner + source env.sh + +%post + # Install the necessary development environment + yum install -y environment-modules git dmidecode pciutils wget vim + # Install base gcc + yum install -y gcc gcc-c++ gcc-gfortran glibc-devel make libgfortran + # install network package + yum install -y tcsh tcl lsof tk bc + source /etc/profile || true + git config --global http.sslVerify false + git clone https://gitee.com/openeuler/hpcrunner + cd hpcrunner + source ./init.sh + # add your personal files here + + # Switch config + ./jarvis -use templates/ncl/6.6.2/data.NCL.arm.cpu.config + # download dependency + ./jarvis -d + # install dependency + ./jarvis -dp + # build hpc + ./jarvis -b + # run hpc + ./jarvis -r + # clean tmp directory + rm -rf downloads tmp diff --git a/container/nco/data.NCO.arm.cpu.config.def b/container/nco/data.NCO.arm.cpu.config.def new file mode 100644 index 0000000..a9ece4f --- /dev/null +++ b/container/nco/data.NCO.arm.cpu.config.def @@ -0,0 +1,34 @@ +BootStrap: docker +From: openeuler/openeuler:20.03 + +%environment + source /etc/profile || true + cd /hpcrunner + source env.sh + +%post + # Install the necessary development environment + yum install -y environment-modules git dmidecode pciutils wget vim expat-devel + # Install base gcc + yum install -y gcc gcc-c++ gcc-gfortran glibc-devel make libgfortran + # install network package + yum install -y tcsh tcl lsof tk bc + source /etc/profile || true + git config --global http.sslVerify false + git clone https://gitee.com/openeuler/hpcrunner + cd hpcrunner + source ./init.sh + # add your personal files here + + # Switch config + ./jarvis -use templates/nco/5.1.4/data.NCO.arm.cpu.config + # download dependency + ./jarvis -d + # install dependency + ./jarvis -dp + # build hpc + ./jarvis -b + # run hpc + ./jarvis -r + # clean tmp directory + rm -rf downloads tmp diff --git a/templates/nco/5.1.4/data.NCO.arm.cpu.config b/templates/nco/5.1.4/data.NCO.arm.cpu.config index ece0222..6cd6e72 100644 --- a/templates/nco/5.1.4/data.NCO.arm.cpu.config +++ b/templates/nco/5.1.4/data.NCO.arm.cpu.config @@ -18,7 +18,9 @@ module load libjpeg module load hmpi/1.2.0 - +sed -i '5c hdf5_version="${hdf5_big_version}.0"' package/hdf5/1.12.0/clang/install.sh +CC=`which mpicc` ./jarvis -install hdf5/1.12.0/clang bisheng +module load hdf5-clang/1.12.0 sed -i '21c ./configure --prefix=$1 ${build_type} --enable-shared --enable-netcdf-4 --disable-dap --with-pic --disable-doxygen --enable-static --disable-pnetcdf --enable-largefile CPPFLAGS="-O3 -I${HMPI_PATH}/include -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include" LDFLAGS="-L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -Wl,-rpath=${HDF5_DIR}/lib -Wl,-rpath=${PNETCDF_DIR}/lib" CFLAGS="-O3 -L${HDF5_DIR}/lib -L${PNETCDF_DIR}/lib -I${HDF5_DIR}/include -I${PNETCDF_DIR}/include"' package/netcdf/4.7.4/install.sh ./jarvis -install netcdf/4.7.4 bisheng module load netcdf/4.7.4 @@ -32,14 +34,14 @@ sed -i '14c --disable-python --build=arm-linux' package/antlr/2.7.7/install.sh module purge module use ./software/modulefiles -module load bisheng -module load hmpi +module load bisheng/2.3.0 +module load hmpi/1.2.0 module load netcdf/4.7.4 module load gsl/2.6 module load antlr/2.7.7 module load udunits/2.2.28 -export CC=`which gcc` +export CC=`which clang` -- Gitee From 54ef79de6637f9ccea8cd8fe425d9e4eda602b0c Mon Sep 17 00:00:00 2001 From: root <1157057422@qq.com> Date: Mon, 30 Jan 2023 12:33:29 +0800 Subject: [PATCH 51/51] fix def --- container/nco/data.NCO.x86.cpu.config.def | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/container/nco/data.NCO.x86.cpu.config.def b/container/nco/data.NCO.x86.cpu.config.def index 66e8dc7..37774cd 100644 --- a/container/nco/data.NCO.x86.cpu.config.def +++ b/container/nco/data.NCO.x86.cpu.config.def @@ -25,7 +25,7 @@ From: openeuler/openeuler:20.03 # Switch config ./jarvis -use templates/nco/5.1.4/data.NCO.x86.cpu.config # download dependency - exit + ./jarvis -d # install dependency ./jarvis -dp -- Gitee