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cdo: Remove obsolete patch (#11854)

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Commit ea3e1521fe removed version
1.9.7rc2, making the patch for gcc@9 obsolete.
This commit is contained in:
Michael Kuhn 2019-06-27 02:36:42 +02:00 committed by Adam J. Stewart
parent 0ef3b4c578
commit 75adb54d51
2 changed files with 0 additions and 207 deletions
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202
var/spack/repos/builtin/packages/cdo/gcc9-openmp-1.9.7rc2.patch
View file

@ -1,202 +0,0 @@
Only in cdo-1.9.7rc2: .spack_patched
diff -ru cdo-1.9.7rc2.orig/src/after_sptrans.cc cdo-1.9.7rc2/src/after_sptrans.cc
--- cdo-1.9.7rc2.orig/src/after_sptrans.cc 2019-04-23 08:10:06.000000000 +0200
+++ cdo-1.9.7rc2/src/after_sptrans.cc 2019-05-15 08:24:25.815215686 +0200
@@ -300,7 +300,7 @@
#endif
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(nlat, poli, pold, pdev, pol2, pol3, coslat, gmu, gwt, PlanetRadius)
+#pragma omp parallel for default(none) shared(nlat, poli, pold, pdev, pol2, pol3, coslat, gmu, gwt, PlanetRadius) firstprivate(dimsp, waves)
#endif
for (long jgl = 0; jgl < nlat; ++jgl)
{
@@ -357,7 +357,7 @@
for (long jgl = 0; jgl < nlat; ++jgl) coslat[jgl] = sqrt(1.0 - gmu[jgl] * gmu[jgl]);
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(nlat, ntr, pnm2, work2, gwt, gmu, poli, pold)
+#pragma omp parallel for default(none) shared(nlat, ntr, pnm2, work2, gwt, gmu, poli, pold) firstprivate(waves)
#endif
for (long jgl = 0; jgl < nlat / 2; jgl++)
{
diff -ru cdo-1.9.7rc2.orig/src/Detrend.cc cdo-1.9.7rc2/src/Detrend.cc
--- cdo-1.9.7rc2.orig/src/Detrend.cc 2019-04-25 08:15:01.000000000 +0200
+++ cdo-1.9.7rc2/src/Detrend.cc 2019-05-15 08:23:37.141221282 +0200
@@ -116,7 +116,7 @@
for (levelID = 0; levelID < nlevels; levelID++)
{
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(array1, array2, vars, varID, levelID)
+#pragma omp parallel for default(none) shared(array1, array2, vars, varID, levelID) firstprivate(gridsize, nsteps, missval)
#endif
for (size_t i = 0; i < gridsize; i++)
{
diff -ru cdo-1.9.7rc2.orig/src/Ensstat3.cc cdo-1.9.7rc2/src/Ensstat3.cc
--- cdo-1.9.7rc2.orig/src/Ensstat3.cc 2019-04-29 08:29:05.000000000 +0200
+++ cdo-1.9.7rc2/src/Ensstat3.cc 2019-05-15 08:23:37.141221282 +0200
@@ -289,7 +289,7 @@
for (int recID = 0; recID < nrecs0; recID++)
{
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(ef) private(streamID, nmiss) lastprivate(varID, levelID)
+#pragma omp parallel for default(none) shared(ef) private(streamID, nmiss) lastprivate(varID, levelID) firstprivate(nfiles)
#endif
for (int fileID = 0; fileID < nfiles; fileID++)
{
diff -ru cdo-1.9.7rc2.orig/src/field2.cc cdo-1.9.7rc2/src/field2.cc
--- cdo-1.9.7rc2.orig/src/field2.cc 2019-04-23 08:52:14.000000000 +0200
+++ cdo-1.9.7rc2/src/field2.cc 2019-05-15 08:23:37.141221282 +0200
@@ -178,7 +178,7 @@
else
{
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(array1, array2, w)
+#pragma omp parallel for default(none) shared(array1, array2, w) firstprivate(len)
#endif
for (size_t i = 0; i < len; i++) array1[i] += w * array2[i];
}
@@ -188,7 +188,7 @@
* Compute the occurrence of values in field, if they do not equal refval.
* This can be used to compute the lengths of multiple periods in a timeseries.
* Missing field values are handled like refval, i.e. they stop a running period.
- * If there is missing data in the occurence field, missing fields values do not
+ * If there is missing data in the occurence field, missing fields values do not
* change anything (they do not start a non-period by setting occurrence to zero).
*/
void
diff -ru cdo-1.9.7rc2.orig/src/Fillmiss.cc cdo-1.9.7rc2/src/Fillmiss.cc
--- cdo-1.9.7rc2.orig/src/Fillmiss.cc 2019-04-23 09:36:07.000000000 +0200
+++ cdo-1.9.7rc2/src/Fillmiss.cc 2019-05-15 08:23:37.141221282 +0200
@@ -469,7 +469,7 @@
#ifdef _OPENMP
#pragma omp parallel for default(none) \
- shared(knnWeights, findex, mindex, vindex, array1, array2, xvals, yvals, gps, numNeighbors)
+ shared(knnWeights, findex, mindex, vindex, array1, array2, xvals, yvals, gps, numNeighbors) firstprivate(nmiss)
#endif
for (size_t i = 0; i < nmiss; ++i)
{
diff -ru cdo-1.9.7rc2.orig/src/grid_area.cc cdo-1.9.7rc2/src/grid_area.cc
--- cdo-1.9.7rc2.orig/src/grid_area.cc 2019-05-09 14:03:25.000000000 +0200
+++ cdo-1.9.7rc2/src/grid_area.cc 2019-05-15 08:23:37.141221282 +0200
@@ -365,7 +365,7 @@
Progress::init();
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(nlon, findex, area, nv, grid_corner_lon, grid_corner_lat)
+#pragma omp parallel for default(none) shared(nlon, findex, area, nv, grid_corner_lon, grid_corner_lat) firstprivate(gridsize)
#endif
for (size_t i = 0; i < gridsize; ++i)
{
@@ -501,7 +501,7 @@
#ifdef _OPENMP
#pragma omp parallel for default(none) \
- shared(findex, area, grid_corner_lon, grid_corner_lat, grid_center_lon, grid_center_lat)
+ shared(findex, area, grid_corner_lon, grid_corner_lat, grid_center_lon, grid_center_lat) firstprivate(gridsize, nv)
#endif
for (size_t i = 0; i < gridsize; ++i)
{
diff -ru cdo-1.9.7rc2.orig/src/Intlevel.cc cdo-1.9.7rc2/src/Intlevel.cc
--- cdo-1.9.7rc2.orig/src/Intlevel.cc 2019-03-07 08:32:03.000000000 +0100
+++ cdo-1.9.7rc2/src/Intlevel.cc 2019-05-15 08:23:37.141221282 +0200
@@ -74,7 +74,7 @@
const double *var1L2 = vardata1 + gridsize * idx2;
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(gridsize, var2, var1L1, var1L2, missval)
+#pragma omp parallel for default(none) shared(gridsize, var2, var1L1, var1L2, missval) firstprivate(wgt1, wgt2)
#endif
for (size_t i = 0; i < gridsize; ++i)
{
@@ -96,7 +96,7 @@
double *var2 = vardata2 + offset;
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(gridsize, vardata1, var2, lev_idx1, lev_idx2, lev_wgt1, lev_wgt2, missval)
+#pragma omp parallel for default(none) shared(gridsize, vardata1, var2, lev_idx1, lev_idx2, lev_wgt1, lev_wgt2, missval) firstprivate(offset)
#endif
for (size_t i = 0; i < gridsize; i++)
{
diff -ru cdo-1.9.7rc2.orig/src/Runstat.cc cdo-1.9.7rc2/src/Runstat.cc
--- cdo-1.9.7rc2.orig/src/Runstat.cc 2019-04-04 08:17:54.000000000 +0200
+++ cdo-1.9.7rc2/src/Runstat.cc 2019-05-15 08:23:37.141221282 +0200
@@ -164,7 +164,7 @@
for (size_t i = 0; i < fieldsize; i++) samp1[tsID][varID][levelID].vec[i] = (double) imask[i];
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(tsID, imask, samp1, varID, levelID)
+#pragma omp parallel for default(none) shared(tsID, imask, samp1, varID, levelID) firstprivate(fieldsize)
#endif
for (int inp = 0; inp < tsID; inp++)
{
@@ -200,7 +200,7 @@
else
{
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(tsID, vars1, varID, levelID, rvars1)
+#pragma omp parallel for default(none) shared(tsID, vars1, varID, levelID, rvars1) firstprivate(operfunc)
#endif
for (int inp = 0; inp < tsID; inp++)
{
@@ -314,7 +314,7 @@
for (size_t i = 0; i < fieldsize; i++) samp1[ndates - 1][varID][levelID].vec[i] = (double) imask[i];
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(imask, samp1, varID, levelID)
+#pragma omp parallel for default(none) shared(imask, samp1, varID, levelID) firstprivate(ndates, fieldsize)
#endif
for (int inp = 0; inp < ndates - 1; inp++)
{
@@ -328,7 +328,7 @@
{
vfarmoq(vars2[ndates - 1][varID][levelID], vars1[ndates - 1][varID][levelID]);
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(vars1, vars2, varID, levelID, rvars1)
+#pragma omp parallel for default(none) shared(vars1, vars2, varID, levelID, rvars1) firstprivate(ndates)
#endif
for (int inp = 0; inp < ndates - 1; inp++)
{
@@ -339,7 +339,7 @@
else if (lrange)
{
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(vars1, vars2, varID, levelID, rvars1)
+#pragma omp parallel for default(none) shared(vars1, vars2, varID, levelID, rvars1) firstprivate(ndates)
#endif
for (int inp = 0; inp < ndates - 1; inp++)
{
@@ -350,7 +350,7 @@
else
{
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(vars1, varID, levelID, rvars1)
+#pragma omp parallel for default(none) shared(vars1, varID, levelID, rvars1) firstprivate(ndates, operfunc)
#endif
for (int inp = 0; inp < ndates - 1; inp++)
{
diff -ru cdo-1.9.7rc2.orig/src/Timsort.cc cdo-1.9.7rc2/src/Timsort.cc
--- cdo-1.9.7rc2.orig/src/Timsort.cc 2019-03-18 08:17:00.000000000 +0100
+++ cdo-1.9.7rc2/src/Timsort.cc 2019-05-15 08:23:37.141221282 +0200
@@ -109,7 +109,7 @@
for (levelID = 0; levelID < nlevels; levelID++)
{
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(sarray, vars, varID, levelID)
+#pragma omp parallel for default(none) shared(sarray, vars, varID, levelID) firstprivate(gridsize, nts)
#endif
for (size_t i = 0; i < gridsize; i++)
{
diff -ru cdo-1.9.7rc2.orig/src/Tstepcount.cc cdo-1.9.7rc2/src/Tstepcount.cc
--- cdo-1.9.7rc2.orig/src/Tstepcount.cc 2019-04-23 09:44:13.000000000 +0200
+++ cdo-1.9.7rc2/src/Tstepcount.cc 2019-05-15 08:23:37.141221282 +0200
@@ -120,7 +120,7 @@
for (levelID = 0; levelID < nlevels; levelID++)
{
#ifdef _OPENMP
-#pragma omp parallel for default(none) shared(mem, vars, varID, levelID) schedule(dynamic, 1)
+#pragma omp parallel for default(none) shared(mem, vars, varID, levelID) schedule(dynamic, 1) firstprivate(gridsize, nts, refval, missval)
#endif
for (size_t i = 0; i < gridsize; i++)
{

5
var/spack/repos/builtin/packages/cdo/package.py
View file

@ -29,11 +29,6 @@ class Cdo(AutotoolsPackage):
version('1.8.2', '6a2e2f99b7c67ee9a512c40a8d4a7121', url='https://code.mpimet.mpg.de/attachments/download/14686/cdo-1.8.2.tar.gz')
version('1.7.2', 'f08e4ce8739a4f2b63fc81a24db3ee31', url='https://code.mpimet.mpg.de/attachments/download/12760/cdo-1.7.2.tar.gz')
# The build fails due to changes to OpenMP data sharing in GCC 9.
# See: https://gcc.gnu.org/gcc-9/porting_to.html#ompdatasharing
# See: https://code.mpimet.mpg.de/issues/9038 (not public)
patch('gcc9-openmp-1.9.7rc2.patch', when='@1.9.7rc2%gcc@9:')
variant('netcdf', default=True, description='Enable NetCDF support')
variant('grib2', default='eccodes', values=('eccodes', 'grib-api', 'none'),
description='Specify GRIB2 backend')