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Update develop-ref after #1835. (#1846)
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* Update install_met_env.kiowa

Commented out items and added text to description

* #1817 Added to_north argument at two_to_one()

* #1817 Calls two_to_one() with false for the third argument, to_north, if latitude moves north to south

* Feature 1819 automation doc warnings (#1836)

* Removing "/lib" that should not be there.

* #1508 checking stat() methoid returns no error before looking at FILE flag

Co-authored-by: jprestop <[email protected]>
Co-authored-by: Howard Soh <[email protected]>
Co-authored-by: hsoh-u <[email protected]>
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@JohnHalleyGotway @jprestop @hsoh-u
4 people authored Jul 6, 2021
1 parent 626bb70 commit 7b3fa26
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25 changes: 25 additions & 0 deletions .github/jobs/build_documentation.sh
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@@ -0,0 +1,25 @@
#! /bin/bash

# path to docs directory relative to top level of repository
# $GITHUB_WORKSPACE is set if the actions/checkout@v2 action is run first

DOCS_DIR=${GITHUB_WORKSPACE}/met/docs

# run Make to build the documentation and return to previous directory
cd ${DOCS_DIR}
make clean html
cd -

# copy HTML output into directory to create an artifact
mkdir -p artifact/documentation
cp -r ${DOCS_DIR}/_build/html/* artifact/documentation

# check if the warnings.log file is empty
# Copy it into the artifact and documentation directories
# so it will be available in the artifacts
warning_file=${DOCS_DIR}/_build/warnings.log
if [ -s $warning_file ]; then
cp -r ${DOCS_DIR}/_build/warnings.log artifact/doc_warnings.log
cp artifact/doc_warnings.log artifact/documentation
exit 1
fi
22 changes: 6 additions & 16 deletions .github/workflows/main.yml → .github/workflows/documentation.yml
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@@ -1,4 +1,4 @@
name: MET CI/CD Workflow
name: Documentation
on:
push:
branches:
Expand All @@ -7,6 +7,8 @@ on:
- feature_*
- main_*
- bugfix_*
paths:
- met/docs/**
pull_request:
types: [opened, reopened, synchronize]

Expand All @@ -24,26 +26,14 @@ jobs:
python -m pip install --upgrade python-dateutil requests sphinx \
sphinx-gallery Pillow sphinx_rtd_theme
- name: Build docs
continue-on-error: true
run: |
DOCS_DIR=${GITHUB_WORKSPACE}/met/docs
cd ${DOCS_DIR}
make clean html
cd ${GITHUB_WORKSPACE}
warning_file=${DOCS_DIR}/_build/warnings.log
mkdir -p artifact/documentation
cp -r ${DOCS_DIR}/_build/html/* artifact/documentation
if [ -s $warning_file ]; then
cp -r ${DOCS_DIR}/_build/warnings.log artifact/doc_warnings.log
cp artifact/doc_warnings.log artifact/documentation
else
rm ${warning_file}
fi
run: ./.github/jobs/build_documentation.sh
- uses: actions/upload-artifact@v2
if: always()
with:
name: documentation
path: artifact/documentation
- uses: actions/upload-artifact@v2
if: failure()
with:
name: documentation_warnings.log
path: artifact/doc_warnings.log
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3 changes: 1 addition & 2 deletions met/src/basic/vx_log/file_fxns.cc
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Expand Up @@ -28,8 +28,7 @@ using namespace std;

bool is_regular_file(const char *path) {
struct stat path_stat;
stat(path, &path_stat);
return(S_ISREG(path_stat.st_mode));
return(!stat(path, &path_stat) && S_ISREG(path_stat.st_mode));
}

////////////////////////////////////////////////////////////////////////
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4 changes: 2 additions & 2 deletions met/src/basic/vx_util/data_plane.cc
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Expand Up @@ -410,7 +410,7 @@ return;

///////////////////////////////////////////////////////////////////////////////

int DataPlane::two_to_one(int x, int y) const {
int DataPlane::two_to_one(int x, int y, bool to_north) const {
int n;

if((x < 0) || (x >= Nx) || (y < 0) || (y >= Ny)) {
Expand All @@ -420,7 +420,7 @@ int DataPlane::two_to_one(int x, int y) const {
exit(1);
}

n = y*Nx + x; // don't change this! lots of downstream code depends on this!
n = (to_north ? y : (Ny-1-y))*Nx + x; // don't change this! lots of downstream code depends on this!

return(n);
}
Expand Down
2 changes: 1 addition & 1 deletion met/src/basic/vx_util/data_plane.h
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Expand Up @@ -109,7 +109,7 @@ class DataPlane {

void replace_bad_data(const double value);

int two_to_one(int x, int y) const;
int two_to_one(int x, int y, bool to_north=true) const;
void one_to_two(int n, int &x, int &y) const;

bool s_is_on(int x, int y) const;
Expand Down
63 changes: 42 additions & 21 deletions met/src/tools/other/point2grid/point2grid.cc
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Expand Up @@ -328,7 +328,6 @@ void process_command_line(int argc, char **argv) {
////////////////////////////////////////////////////////////////////////

void process_data_file() {
DataPlane fr_dp;
Grid fr_grid, to_grid;
GrdFileType ftype;
ConcatString run_cs;
Expand Down Expand Up @@ -1282,10 +1281,11 @@ void regrid_nc_variable(NcFile *nc_in, Met2dDataFile *fr_mtddf,
exit(1);
}
else {
bool is_to_north = !fr_grid.get_swap_to_north();
float *from_data = new float[from_data_size];
for (int xIdx=0; xIdx<from_lon_cnt; xIdx++) {
for (int yIdx=0; yIdx<from_lat_cnt; yIdx++) {
int offset = fr_dp.two_to_one(xIdx,yIdx);
int offset = fr_dp.two_to_one(xIdx,yIdx,is_to_north);
from_data[offset] = fr_dp.get(xIdx,yIdx);
}
}
Expand Down Expand Up @@ -1313,7 +1313,6 @@ void regrid_nc_variable(NcFile *nc_in, Met2dDataFile *fr_mtddf,
int offset = to_dp.two_to_one(xIdx,yIdx);
cellArray = cellMapping[offset];
if (0 < cellArray.n()) {
int valid_cnt = 0;
dataArray.clear();
dataArray.extend(cellArray.n());
for (int dIdx=0; dIdx<cellArray.n(); dIdx++) {
Expand All @@ -1330,14 +1329,13 @@ void regrid_nc_variable(NcFile *nc_in, Met2dDataFile *fr_mtddf,
if (from_min_value > data_value) from_min_value = data_value;
if (from_max_value < data_value) from_max_value = data_value;
}

valid_cnt++;
}

if (0 < dataArray.n()) {
int data_cnt = dataArray.n();
float to_value;
if (RGInfo.method == InterpMthd_Min) to_value = dataArray.min();
int data_cnt = dataArray.n();
if (1 == data_cnt) to_value = dataArray[0];
else if (RGInfo.method == InterpMthd_Min) to_value = dataArray.min();
else if (RGInfo.method == InterpMthd_Max) to_value = dataArray.max();
else if (RGInfo.method == InterpMthd_Median) {
dataArray.sort_array();
Expand All @@ -1349,12 +1347,23 @@ void regrid_nc_variable(NcFile *nc_in, Met2dDataFile *fr_mtddf,

to_dp.set(to_value, xIdx, yIdx);
to_cell_cnt++;
mlog << Debug(9) << method_name
<< "max: " << dataArray.max()
<< ", min: " << dataArray.min()
<< ", mean: " << dataArray.sum()/data_cnt
<< " from " << valid_cnt << " out of "
<< data_cnt << " data values.\n";
if(mlog.verbosity_level() >= 9) {
double to_lat, to_lon;
to_grid.xy_to_latlon(xIdx,yIdx, to_lat, to_lon);
to_lon *= -1;
if (1 == data_cnt)
mlog << Debug(9) << method_name
<< "value: " << to_value << " to (" << to_lon << ", " << to_lat
<< ") from offset " << from_index << ".\n";
else
mlog << Debug(9) << method_name
<< "value: " << to_value
<< ", max: " << dataArray.max()
<< ", min: " << dataArray.min()
<< ", mean: " << dataArray.sum()/data_cnt
<< " from " << data_cnt << " (out of " << cellArray.n()
<< ") data values to (" << to_lon << ", " << to_lat << ").\n";
}
}
}
else {
Expand Down Expand Up @@ -1685,7 +1694,7 @@ void check_lat_lon(int data_size, float *latitudes, float *longitudes) {
for (int idx=0; idx<data_size; idx++) {
if (cnt_printed < 10 && latitudes[idx] > MISSING_LATLON
&& longitudes[idx] > MISSING_LATLON) {
mlog << Debug(7) << method_name << "index: " << idx << " lat: "
mlog << Debug(11) << method_name << "index: " << idx << " lat: "
<< latitudes[idx] << ", lon: " << longitudes[idx] << "\n";
cnt_printed++;
}
Expand Down Expand Up @@ -1790,8 +1799,9 @@ static bool get_grid_mapping(Grid to_grid, IntArray *cellMapping,
static void get_grid_mapping_latlon(
DataPlane from_dp, DataPlane to_dp, Grid to_grid,
IntArray *cellMapping, float *latitudes, float *longitudes,
int from_lat_count, int from_lon_count, bool *skip_times) {
int from_lat_count, int from_lon_count, bool *skip_times, bool to_north) {
double x, y;
double to_ll_lat, to_ll_lon;
float lat, lon;
int idx_x, idx_y, to_offset;
int count_in_grid = 0;
Expand All @@ -1807,11 +1817,14 @@ static void get_grid_mapping_latlon(
for (int xIdx=0; xIdx<to_size; xIdx++) to_cell_counts[xIdx] = 0;
for (int xIdx=0; xIdx<data_size; xIdx++) mapping_indices[xIdx] = bad_data_int;

to_grid.xy_to_latlon(0, 0, to_ll_lat, to_ll_lon);
mlog << Debug(5) << method_name << " to_grid ll corner: (" << to_ll_lon << ", " << to_ll_lat << ")\n";

//Count the number of cells to be mapped to TO_GRID
//Following the logic at DataPlane::two_to_one(int x, int y) n = y*Nx + x;
for (int xIdx=0; xIdx<from_lat_count; xIdx++) {
for (int yIdx=0; yIdx<from_lon_count; yIdx++) {
int coord_offset = from_dp.two_to_one(yIdx, xIdx);
for (int yIdx=0; yIdx<from_lat_count; yIdx++) {
for (int xIdx=0; xIdx<from_lon_count; xIdx++) {
int coord_offset = from_dp.two_to_one(xIdx, yIdx, to_north);
if( skip_times != 0 && skip_times[coord_offset] ) continue;
lat = latitudes[coord_offset];
lon = longitudes[coord_offset];
Expand All @@ -1824,6 +1837,12 @@ static void get_grid_mapping_latlon(
mapping_indices[coord_offset] = to_offset;
to_cell_counts[to_offset] += 1;
count_in_grid++;
if(mlog.verbosity_level() >= 15) {
double to_lat, to_lon;
to_grid.xy_to_latlon(idx_x, idx_y, to_lat, to_lon);
mlog << Debug(15) << method_name << " [" << xIdx << "," << yIdx << "] to " << coord_offset
<< " (" << lon << ", " << lat << ") to (" << (to_lon*-1) << ", " << to_lat << ")\n";
}
}
}
}
Expand Down Expand Up @@ -1918,7 +1937,8 @@ static bool get_grid_mapping(Grid fr_grid, Grid to_grid, IntArray *cellMapping,
if( status ) {
get_grid_mapping_latlon(from_dp, to_dp, to_grid, cellMapping,
latitudes, longitudes, from_lat_count,
from_lon_count, skip_times);
from_lon_count, skip_times,
!fr_grid.get_swap_to_north());
}
if( latitudes ) delete [] latitudes;
if( longitudes ) delete [] longitudes;
Expand Down Expand Up @@ -2129,7 +2149,8 @@ void get_grid_mapping(Grid fr_grid, Grid to_grid, IntArray *cellMapping,
else {
check_lat_lon(data_size, latitudes, longitudes);
get_grid_mapping_latlon(from_dp, to_dp, to_grid, cellMapping, latitudes,
longitudes, from_lat_count, from_lon_count, 0);
longitudes, from_lat_count, from_lon_count, 0,
!fr_grid.get_swap_to_north());
}

if (latitudes_buf) delete [] latitudes_buf;
Expand Down
18 changes: 9 additions & 9 deletions scripts/installation/config/install_met_env.kiowa
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Original file line number Diff line number Diff line change
Expand Up @@ -11,13 +11,13 @@ export SET_D64BIT=FALSE
export CFLAGS="-Wall -g"
export CXXFLAGS="-Wall -g"

#If you've already compiled these and don't need to compile them again, set the following
# If you've already compiled these and don't need to compile them again, set the following;
# Otherwise, if you do need to install these libraries, comment out the variables below
export EXTERNAL_LIBS=/d1/personal/jpresto/MET/MET_testing/mod_script/external_libs
export MET_GRIB2CLIB=${EXTERNAL_LIBS}/lib
export MET_GRIB2CINC=${EXTERNAL_LIBS}/include
export GRIB2CLIB_NAME=-lgrib2c
export MET_BUFRLIB=${EXTERNAL_LIBS}/lib
export BUFRLIB_NAME=-lbufr
export MET_NETCDF=${EXTERNAL_LIBS}/lib
# Also, don't forget to set the following options to zero within the compile script if you've already compiled those libraries as well: COMPILE_GSL, COMPILE_HDF, COMPILE_HDFEOS, COMPILE_CAIRO, COMPILE_FREETYPE

#export MET_GRIB2CLIB=${EXTERNAL_LIBS}/lib
#export MET_GRIB2CINC=${EXTERNAL_LIBS}/include
#export GRIB2CLIB_NAME=-lgrib2c
#export MET_BUFRLIB=${EXTERNAL_LIBS}/lib
#export BUFRLIB_NAME=-lbufr
#export MET_NETCDF=${EXTERNAL_LIBS}

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