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Commit 577bd045 authored by Ignacio Pisso's avatar Ignacio Pisso
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clean create_tarball.sh

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create_tarball.sh
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#!/bin/bash #!/bin/bash
# Ignacio Pisso, May 2017 # Ignacio Pisso, May 2017
# Changes 2018-2019
echo CREATE A NEW FLEXPART DISTRIBUTION echo CREATE A NEW FLEXPART DISTRIBUTION
...@@ -42,17 +43,13 @@ if [ -d $tarball_tmp ]; then ...@@ -42,17 +43,13 @@ if [ -d $tarball_tmp ]; then
fi fi
# start packing # start packing
## needs in addition to the git repo ANCILLARY git repos ## needs in addition to the git repo ANCILLARY git repos
# VERIFY THESE RESOURCES EXIST BEFORE PACKING DISTRIBUTION # VERIFY THESE RESOURCES EXIST BEFORE PACKING DISTRIBUTION
#1 OH file OH_variables.bin || OH_variables=../flexin/OH_FIELDS/OH_variables.bin #1 OH file OH_variables.bin || OH_variables=../flexin/OH_FIELDS/OH_variables.bin
#2 flex_extract || flex_extract=../flex_extract_v7.0.4/ #2 flex_extract || flex_extract=../flex_extract_v7.0.4/
#3 flex_read_fortran from ../flex_read_matlab/export_basic TODO: add functions to ../flex_read_matlab/export/ #3 flex_read_fortran from ../flex_read_matlab/export_basic TODO: add functions to ../flex_read_matlab/export/
# flex_read_matlab_src=../flex_read_matlab/export_basic # flex_read_matlab_src=../flex_read_matlab/export_basic
#4 tests/examples ../flex_tests_examples/examples3/* #4 tests/examples ../flex_tests_examples/examples/*
#5
#6
...@@ -68,7 +65,6 @@ echo ...@@ -68,7 +65,6 @@ echo
# patnames # patnames
echo --------------------------------------------------------- echo ---------------------------------------------------------
echo ')' copy pathnames echo ')' copy pathnames
#cp pathnames_distribution $tarball_tmp/pathnames
cp pathnames $tarball_tmp/pathnames cp pathnames $tarball_tmp/pathnames
echo --------------------------------------------------------- echo ---------------------------------------------------------
...@@ -80,9 +76,7 @@ echo ')' copy src/ ...@@ -80,9 +76,7 @@ echo ')' copy src/
mkdir $tarball_tmp/src mkdir $tarball_tmp/src
cp src/*.f90 $tarball_tmp/src cp src/*.f90 $tarball_tmp/src
cp -r src/gributils $tarball_tmp/src cp -r src/gributils $tarball_tmp/src
# echo '3)' copy makefile
cp src/makefile $tarball_tmp/src cp src/makefile $tarball_tmp/src
#cp src/makefile.gfs $tarball_tmp/src
echo --------------------------------------------------------- echo ---------------------------------------------------------
echo echo
...@@ -91,15 +85,12 @@ echo ...@@ -91,15 +85,12 @@ echo
echo --------------------------------------------------------- echo ---------------------------------------------------------
echo ')' copy options/ echo ')' copy options/
echo --------------------------------------------------------- echo ---------------------------------------------------------
# (for the distribution they work with the defult flex_ecmwf test winds)
#cp -r options_flex_ecmwf_EA $tarball_tmp/options
mkdir $tarball_tmp/options mkdir $tarball_tmp/options
user_input_files="AGECLASSES COMMAND IGBP_int1.dat OUTGRID OUTGRID_NEST RECEPTORS RELEASES surfdata.t surfdepo.t" user_input_files="AGECLASSES COMMAND IGBP_int1.dat OUTGRID OUTGRID_NEST RECEPTORS RELEASES surfdata.t surfdepo.t"
for i in $user_input_files for i in $user_input_files
do do
echo $i echo $i
cp -r options/$i $tarball_tmp/options cp -r options/$i $tarball_tmp/options
#echo copy $i to $tarball_tmp/options
done done
mkdir $tarball_tmp/options/SPECIES mkdir $tarball_tmp/options/SPECIES
cp options/SPECIES/SPECIES* $tarball_tmp/options/SPECIES/ cp options/SPECIES/SPECIES* $tarball_tmp/options/SPECIES/
...@@ -122,7 +113,6 @@ echo ...@@ -122,7 +113,6 @@ echo
# AVAILABLE # AVAILABLE
echo --------------------------------------------------------- echo ---------------------------------------------------------
echo ')' copy AVAILABLE echo ')' copy AVAILABLE
#cp AVAILABLE_flex_ecmwf_EA $tarball_tmp/AVAILABLE
cp AVAILABLE $tarball_tmp/AVAILABLE cp AVAILABLE $tarball_tmp/AVAILABLE
echo --------------------------------------------------------- echo ---------------------------------------------------------
...@@ -143,16 +133,7 @@ echo --------------------------------------------------------- ...@@ -143,16 +133,7 @@ echo ---------------------------------------------------------
echo ')' preprocess/ echo ')' preprocess/
mkdir $tarball_tmp/preprocess mkdir $tarball_tmp/preprocess
echo -----------------flex_extract------------------- echo -----------------flex_extract-------------------
#echo '6)' mkdir $tarball_tmp/flex_extract [a separate repository]
#mkdir $tarball_tmp/preprocess
#mkdir $tarball_tmp/preprocess/flex_ecmwf
mkdir $tarball_tmp/preprocess/flex_extract mkdir $tarball_tmp/preprocess/flex_extract
#echo '7) add ECMWF retrieve routines (change EA wind files for latest source code)'
#mkdir $tarball_tmp/preprocess/flex_extract
#mkdir $tarball_tmp/preprocess/flex_extract/work
#cp -r flex_ecmwf_src/* $tarball_tmp/preprocess/flex_ecmwf/
#cp -r flex_ecmwf_src/* $tarball_tmp/preprocess/flex_extract/
## cp -r flex_extract/work/EA* $tarball_tmp/preprocess/flex_extract/work
flex_extract=../flex_extract_v7.0.4/ flex_extract=../flex_extract_v7.0.4/
echo include flex_extract v7.0.4 b7c1c04a204c91e53759ef590504bf52dfaece64 echo include flex_extract v7.0.4 b7c1c04a204c91e53759ef590504bf52dfaece64
echo from $flex_extract [use git modules?] IP 3/2018 echo from $flex_extract [use git modules?] IP 3/2018
...@@ -166,12 +147,6 @@ echo --------------------------------------------------------- ...@@ -166,12 +147,6 @@ echo ---------------------------------------------------------
echo AVAILABLE generation scripts? echo AVAILABLE generation scripts?
echo --------------------------------------------------------- echo ---------------------------------------------------------
#echo '10)' cp example generating scripts [a separate repository]
#echo moved below
#mkdir $tarball_tmp/examples
#cp -r examples/*.sh $tarball_tmp/examples/
#cp -r examples/Makefile $tarball_tmp/examples/
echo echo
# postprocess # postprocess
...@@ -182,8 +157,6 @@ postprocess=postprocess ...@@ -182,8 +157,6 @@ postprocess=postprocess
mkdir $tarball_tmp/$postprocess mkdir $tarball_tmp/$postprocess
echo -----------------flex_read_fortran------------------- echo -----------------flex_read_fortran-------------------
flex_read_fortran_src=$postprocess/flex_read_fortran/ flex_read_fortran_src=$postprocess/flex_read_fortran/
#echo ')' directory for reading routines
#echo '12)' add fortran reading routines [a separate repository]
mkdir $tarball_tmp/$postprocess/flex_read_fortran mkdir $tarball_tmp/$postprocess/flex_read_fortran
cp $postprocess/flex_read_fortran/*.f $tarball_tmp/$postprocess/flex_read_fortran cp $postprocess/flex_read_fortran/*.f $tarball_tmp/$postprocess/flex_read_fortran
cp $postprocess/flex_read_fortran/*.f90 $tarball_tmp/$postprocess/flex_read_fortran cp $postprocess/flex_read_fortran/*.f90 $tarball_tmp/$postprocess/flex_read_fortran
...@@ -195,47 +168,24 @@ flex_read_matlab_src=../flex_read_matlab/export_basic ...@@ -195,47 +168,24 @@ flex_read_matlab_src=../flex_read_matlab/export_basic
mkdir $tarball_tmp/$postprocess/flex_read_matlab mkdir $tarball_tmp/$postprocess/flex_read_matlab
cp -r $flex_read_matlab_src/* $tarball_tmp/$postprocess/flex_read_matlab cp -r $flex_read_matlab_src/* $tarball_tmp/$postprocess/flex_read_matlab
echo flex_read_fortran from $flex_read_matlab_src # NOT copied echo flex_read_fortran from $flex_read_matlab_src # NOT copied
# add matlab reading routines
#mkdir $tarball_tmp/postprocess/flex_read_matlab
#cp postprocess/flex_read_matlab/*.m $tarball_tmp/postprocess/flex_read_matlab
echo --------------------------------------------------------- echo ---------------------------------------------------------
echo echo
echo --------------------------------------------------------- echo ---------------------------------------------------------
echo ')' tests/ echo ')' tests/
###############################################################
#echo '13) tests' #echo '13) tests'
mkdir $tarball_tmp/tests mkdir $tarball_tmp/tests
#echo -----------------flex_read_fortran-------------------
#echo 'b) ./tests/flex_read_fortran/'
#echo fixme
#mkdir $tarball_tmp/tests/flex_read_fortran
#cp tests/flex_read_fortran/test_read_default.sh $tarball_tmp/tests/flex_read_fortran
###############################################################
echo ----------------- examples ------------------- echo ----------------- examples -------------------
#echo ') ./tests/examples/'
mkdir $tarball_tmp/tests/examples mkdir $tarball_tmp/tests/examples
#echo ') scripts'
#cp -r ./tests/examples/*.sh $tarball_tmp/tests/examples/
#echo ') makefile'
#cp -r ./tests/examples/Makefile $tarball_tmp/tests/examples/
# echo USAGE: ~/repos/flexpart/tests/examples'$' make run
cp -r ../flex_tests_examples/examples3/* $tarball_tmp/tests/examples/ cp -r ../flex_tests_examples/examples3/* $tarball_tmp/tests/examples/
echo ----------------- examples_reference ------------------- echo ----------------- examples_reference -------------------
cp -r ./tests/examples_reference $tarball_tmp/tests/ cp -r ./tests/examples_reference $tarball_tmp/tests/
###############################################################
# echo -----------------postprocess examples-------------------
echo -----------------read examples------------------- echo -----------------read examples-------------------
#echo '13 c) ./tests/read_examples/'
mkdir $tarball_tmp/tests/read_examples mkdir $tarball_tmp/tests/read_examples
cp tests/read_examples/declare_examples $tarball_tmp/tests/read_examples/ cp tests/read_examples/declare_examples $tarball_tmp/tests/read_examples/
...@@ -248,63 +198,36 @@ cp tests/read_examples/set_examples_all $tarball_tmp/tests/read_examples/ ...@@ -248,63 +198,36 @@ cp tests/read_examples/set_examples_all $tarball_tmp/tests/read_examples/
cp tests/read_examples/set_examples_3.sh $tarball_tmp/tests/read_examples/ cp tests/read_examples/set_examples_3.sh $tarball_tmp/tests/read_examples/
cp tests/read_examples/read_headers.sh $tarball_tmp/tests/read_examples/ cp tests/read_examples/read_headers.sh $tarball_tmp/tests/read_examples/
cp tests/read_examples/read_examples_output.txt $tarball_tmp/tests/ #read_examples/ cp tests/read_examples/read_examples_output.txt $tarball_tmp/tests/ #read_examples/
# echo USAGE ~/repos/flexpart/tests/read_examples'$'./read_grids.sh
###############################################################
echo ------------compare examples------------------- echo ------------compare examples-------------------
#echo tests/compare_examples.sh
mkdir $tarball_tmp/tests/compare_examples mkdir $tarball_tmp/tests/compare_examples
#mkdir $tarball_tmp/tests/compare_examples
#cp tests/compare_examples/compare_grids.sh $tarball_tmp/tests/compare_examples
#cp tests/compare_grids.sh $tarball_tmp/tests/
cp tests/compare_examples/*.sh $tarball_tmp/tests/compare_examples cp tests/compare_examples/*.sh $tarball_tmp/tests/compare_examples
cp tests/compare_examples/compare_grids_output.txt $tarball_tmp/tests/ #compare_examples cp tests/compare_examples/compare_grids_output.txt $tarball_tmp/tests/ #compare_examples
# list of examples with units
#cp tests/declare_examples $tarball_tmp/tests/
echo echo
# ~/repos/flexpart/tests$./compare_grids.sh
#echo mkdir $tarball_tmp/tests/examples2/
#echo cp tests/examples2/setup.sh $tarball_tmp/tests/examples2/
# echo --repeat examples-------------------
# echo FIXME
###############################################################
#echo -----------------ctbto-------------------
# mkdir $tarball_tmp/tests/ctbto
# cp -r tests/NILU/test_1 $tarball_tmp/tests/
# cp -r tests/default_cases $tarball_tmp/tests/
echo --------------------------------------------------------- echo ---------------------------------------------------------
echo create tarball echo create tarball
#tar cvf $tarball $tarball_tmp
#tar cf $tarball $tarball_tmp
#cd
cd $targetdir cd $targetdir
tar cf $distribution_name.tar $distribution_name tar cf $distribution_name.tar $distribution_name
pwd pwd
echo tarball $tarball complete echo tarball $tarball complete
echo exported untarred files in $tarball_tmp echo exported untarred files in $tarball_tmp
echo verify:
echo cp -r preprocess/flex_extract/work $tarball_tmp/preprocess/flex_extract/ echo cp -r preprocess/flex_extract/work $tarball_tmp/preprocess/flex_extract/
echo cd $tarball_tmp/src echo cd $tarball_tmp/src
echo $HOME/repos/flexpart/src/make_in_laptop.sh echo $HOME/repos/flexpart/src/make_in_laptop.sh
echo cd .. ';' ./src/FLEXPART echo cd .. ';' ./src/FLEXPART
echo cd postprocess/flex_read_fortran echo cd postprocess/flex_read_fortran
echo make test echo make test
echo max: 0.115784094 mean: 4.70877676E-05 echo e.g.: max: 0.115784094 mean: 4.70877676E-05
#echo cd $tarball_tmp/tests/examples ';' make run
echo cd ../../tests/examples ';' make run echo cd ../../tests/examples ';' make run
#echo cd $tarball_tmp/tests/read_examples
echo cd ../read_examples echo cd ../read_examples
echo ./read_examples.sh echo ./read_examples.sh
echo ./read_examples.sh '>' ../read_examples_output.txt echo ./read_examples.sh '>' ../read_examples_output.txt
...@@ -314,69 +237,3 @@ echo ./compare_grids.sh '>' ../compare_grids_output.txt ...@@ -314,69 +237,3 @@ echo ./compare_grids.sh '>' ../compare_grids_output.txt
echo e.g. tar --append --file=$tarball_tmp/ ../compare_grids_output.txt ../read_examples_output.txt echo e.g. tar --append --file=$tarball_tmp/ ../compare_grids_output.txt ../read_examples_output.txt
exit
#return
###############################################################
# obtain $FLEXHOME (and set)
#1 cd $FLEXHOME/src
#2 compile
#
#[laptop] source /Users/ignacio/repos/flexpart/src/make_in_laptop.sh
# [njord] make
# ->created executable (FLEXPART)
#3 execute in src (absolute paths)
#
#[laptop] cp /Users/ignacio/repos/flexpart/src/pathnames .
#[njord] FIXME
#
# mkdir output
# ./FLEXPART
# ->created output in output/
#4 read output
# cd $FLEXHOME/postprocess/flex_read_fortran/
# make
# -> printheader* printgrid* flex_read_compare2*
#/postprocess/flex_read_fortran$./printheader ../../src/output/
#/postprocess/flex_read_fortran$./printgrid ../../src/output/ conc
# -> output in stdout (max: 11122924.0 sum: 90330784.0)
#5 execute in $FLEXHOME
# cd $FLEXHOME
# get winds
#[laptop] cp -r ~/repos/flex_winds/work/ ./preprocess/flex_extract/
#[njord] curl https://folk.nilu.no/~ignacio/FLEXPART/EA120101.tar --output EA120101.tar ; tar -xvf EA120101.tar ; mv flex_extract/work preprocess/flex_extract/ ; rmdir flex_extract
# src/FLEXPART
# -> output in $FLEXHOME/output/
#6 read output
# postprocess/flex_read_fortran/printheader output/
# postprocess/flex_read_fortran/printgrid output/ conc
# -> output in stdout ( max: 11578738.0 sum: 104058720.)
#7 gnererate examples
# cd $FLEXHOME/tests/examples
#make run
#make examples
#make batch
#./run_batch_cl.sh
#make (set_default_example.sh)
#tests/examples$../../src/FLEXPART
#output
#8 read examples:
#cd $FLEXHOME/tests/read_examples
# ./read_headers.sh
# ./read_grids.sh
#9 compare examples with reference
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