-Fix parallel make

cran-comments.md

@@ -1,8 +1,6 @@
 ## Resubmission
 
-Re-submission of archived package 'rsofun'.
-Causes of rejection have been addressed (compilation warnings and runtime errors), as well as 
-new features added, leading to a new major version v5.0.0
+- Fix parallel make errors
 
 ## R CMD check
 

src/Makevars

@@ -1,35 +1,20 @@
-#################################
-# For debugging purpose, the following can be added to your local ~/.R/Makevars file
-#PKG_FFLAGS = -frecursive -fbounds-check -fcheck=all -Wall -Wextra -pedantic -g -O0 -fbacktrace -ffpe-trap=invalid,zero,overflow -finit-real=snan -finit-integer=-9999999 -finit-derived
-# -frecursive: to avoid "Warning: Array 'out_biosphere' at (1) is larger than limit ..."
-# -fbounds-check: https://scicomp.stackexchange.com/questions/36045/ifort-everithing-ok-but-with-gfortran-segmentation-fault
-# -Wall -Wextra -Wpedantic: to get more warnings
-# -fbacktrace: Specify that, when a runtime error is encountered, the Fortran runtime library should output a backtrace of the error. This option only has influence for compilation of the Fortran main program.
-# -fcheck=all: enable "run-time tests", such as, for instance, array bounds checks.
-# -ffpe-trap=invalid,zero,overflow: Traps usual FP exceptions (for better debugging)
-# The following are useful for debugging uninitialized values. It should not be used in production!
-# -finit-real=snan -finit-integer=-9999999: Initialize uninitialized values to NaN for reals, and -9999999 for integers.
-# -finit-derived: applies the settings above to fields in derive types too
-
-# Link-time optimization, see https://cran.r-project.org/doc/manuals/R-admin.html#LTO-with-GCC-1
-#LTO_OPT = -flto
-#LTO_FC_OPT = -flto
-#IN ADDITION,to adding these flags to ~/.R/Makevars, run 'R CMD INSTALL --use-LTO '
-##################################
-
 # C objects
 C_OBJS = wrappersc.o
 
 # Fortran objects: refer to file names <name.o>, order reflects dependency structure
-FT_OBJS = params_core.mod.o sofunutils.mod.o grid_siterun.mod.o params_siml_pmodel.mod.o params_siml_biomee.mod.o forcing_siterun_pmodel.mod.o forcing_siterun_biomee.mod.o interface_biosphere_pmodel.mod.o interface_biosphere_biomee.mod.o tile_pmodel.mod.o plant_pmodel.mod.o soiltemp_sitch.mod.o waterbal_splash.mod.o vegdynamics_pmodel.mod.o gpp_pmodel.mod.o gpp_biomee.mod.o photosynth_pmodel.mod.o biosphere_pmodel.mod.o biosphere_biomee.mod.o vegetation_biomee.mod.o soil_biomee.mod.o sofun_r.o
+FT_OBJS = params_core.mod.o sofunutils.mod.o grid_siterun.mod.o params_siml_pmodel.mod.o params_siml_biomee.mod.o \
+    forcing_siterun_pmodel.mod.o forcing_siterun_biomee.mod.o interface_biosphere_pmodel.mod.o interface_biosphere_biomee.mod.o \
+    tile_pmodel.mod.o plant_pmodel.mod.o soiltemp_sitch.mod.o waterbal_splash.mod.o vegdynamics_pmodel.mod.o gpp_pmodel.mod.o \
+    gpp_biomee.mod.o photosynth_pmodel.mod.o biosphere_pmodel.mod.o biosphere_biomee.mod.o vegetation_biomee.mod.o soil_biomee.mod.o sofun_r.o
 
-all: $(SHLIB) clean
+all: $(SHLIB)
 
 $(SHLIB): $(FT_OBJS) $(C_OBJS)
 
-# Dependency of objects (?)
+# Source (object) of Fortran modules
 # <name.o>: <modulename.o>
-sofun_r.o: interface_biosphere_pmodel.mod.o interface_biosphere_biomee.mod.o params_core.mod.o params_core.mod.o params_siml_pmodel.mod.o params_siml_biomee.mod.o
+sofun_r.o: interface_biosphere_pmodel.mod.o interface_biosphere_biomee.mod.o params_core.mod.o params_core.mod.o \
+    biosphere_pmodel.mod.o biosphere_biomee.mod.o params_siml_pmodel.mod.o params_siml_biomee.mod.o
 interface_biosphere_pmodel.mod.o: forcing_siterun_pmodel.mod.o params_siml_pmodel.mod.o params_core.mod.o
 interface_biosphere_biomee.mod.o: forcing_siterun_biomee.mod.o params_siml_biomee.mod.o params_core.mod.o
 forcing_siterun_pmodel.mod.o: params_core.mod.o params_siml_pmodel.mod.o grid_siterun.mod.o sofunutils.mod.o
@@ -42,42 +27,20 @@ photosynth_pmodel.mod.o: params_core.mod.o sofunutils.mod.o
 soiltemp_sitch.mod.o: params_core.mod.o sofunutils.mod.o tile_pmodel.mod.o interface_biosphere_pmodel.mod.o
 plant_pmodel.mod.o: params_core.mod.o sofunutils.mod.o interface_biosphere_pmodel.mod.o
 vegdynamics_pmodel.mod.o: params_core.mod.o tile_pmodel.mod.o plant_pmodel.mod.o gpp_pmodel.mod.o waterbal_splash.mod.o
-biosphere_pmodel.mod.o: params_core.mod.o classdefs.mod.o sofunutils.mod.o plant_pmodel.mod.o waterbal_splash.mod.o gpp_pmodel.mod.o vegdynamics_pmodel.mod.o tile_pmodel.mod.o interface_biosphere_pmodel.mod.o soiltemp_sitch.mod.o vegdynamics_pmodel.mod.o
-biosphere_biomee.mod.o: params_core.mod.o interface_biosphere_biomee.mod.o datatypes.mod.o soil_biomee.mod.o vegetation_biomee.mod.o soiltemp_sitch.mod.o sofunutils.mod.o
+biosphere_pmodel.mod.o: params_core.mod.o classdefs.mod.o sofunutils.mod.o plant_pmodel.mod.o waterbal_splash.mod.o \
+    gpp_pmodel.mod.o vegdynamics_pmodel.mod.o tile_pmodel.mod.o interface_biosphere_pmodel.mod.o soiltemp_sitch.mod.o vegdynamics_pmodel.mod.o
+biosphere_biomee.mod.o: params_core.mod.o interface_biosphere_biomee.mod.o datatypes.mod.o soil_biomee.mod.o vegetation_biomee.mod.o \
+    soiltemp_sitch.mod.o sofunutils.mod.o
 soil_biomee.mod.o: datatypes.mod.o sofunutils.mod.o
 vegetation_biomee.mod.o: datatypes.mod.o soil_biomee.mod.o gpp_biomee.mod.o
 datatypes.mod.o: interface_biosphere_biomee.mod.o params_core.mod.o classdefs.mod.o
 sofunutils.mod.o: params_core.mod.o
-
-# Source (object) of Fortran modules
-# <modulename.mod>: <filename.o>
-sofun_r_mod.mod: sofun_r.o
-md_params_core.mod: params_core.mod.o
-md_params_siml_pmodel.mod: params_siml_pmodel.mod.o
-md_params_siml_biomee.mod: params_siml_biomee.mod.o
-md_forcing_pmodel.mod: forcing_siterun_pmodel.mod.o
-md_forcing_biomee.mod: forcing_siterun_biomee.mod.o
-md_interface_pmodel.mod: interface_biosphere_pmodel.mod.o
-md_interface_biomee.mod: interface_biosphere_biomee.mod.o
-md_grid.mod: grid_siterun.mod.o
-md_biosphere_pmodel.mod: biosphere_pmodel.mod.o
-md_biosphere_biomee.mod: biosphere_biomee.mod.o
-md_classdefs.mod: classdefs.mod.o
-md_plant_pmodel.mod: plant_pmodel.mod.o
-md_waterbal.mod: waterbal_splash.mod.o
-md_sofunutils.mod: sofunutils.mod.o
-md_tile_pmodel.mod: tile_pmodel.mod.o
-md_gpp_pmodel.mod: gpp_pmodel.mod.o
-md_gpp_biomee.mod: gpp_biomee.mod.o
-md_photosynth.mod: photosynth_pmodel.mod.o
-md_soiltemp.mod: soiltemp_sitch.mod.o
-md_vegdynamics_pmodel.mod: vegdynamics_pmodel.mod.o
-datatypes.mod: datatypes.o
-md_soil_biomee.mod: soil_biomee.o
-md_vegetation_biomee.mod: vegetation_biomee.o
+params_siml_biomee.mod.o: params_core.mod.o
+params_siml_pmodel.mod.o: params_core.mod.o
+classdefs.mod.o: params_core.mod.o
 
 # Dependency of the C wrapper
-wrappersc.o: sofun_r_mod.mod
+wrappersc.o: sofun_r.o
 
 clean:
-	@rm -rf *.mod *.o
+	@rm -rf *.o