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Fix CRAN check warnings/notes (#3988)

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* fix

* reorder declaration to match initialization
This commit is contained in:
Tong He 2018-12-12 06:23:20 -08:00 committed by Vadim Khotilovich
parent 4be5edaf92
commit 84a3af8dc0
8 changed files with 13 additions and 12 deletions
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3
Makefile
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@ -260,7 +260,8 @@ Rpack: clean_all
cp ./LICENSE xgboost cp ./LICENSE xgboost
cat R-package/src/Makevars.in|sed '2s/.*/PKGROOT=./' | sed '3s/.*/ENABLE_STD_THREAD=0/' > xgboost/src/Makevars.in cat R-package/src/Makevars.in|sed '2s/.*/PKGROOT=./' | sed '3s/.*/ENABLE_STD_THREAD=0/' > xgboost/src/Makevars.in
cp xgboost/src/Makevars.in xgboost/src/Makevars.win cp xgboost/src/Makevars.in xgboost/src/Makevars.win
sed -i -e 's/@OPENMP_CXXFLAGS@/$$\(SHLIB_OPENMP_CFLAGS\)/g' xgboost/src/Makevars.win sed -i -e 's/@OPENMP_CXXFLAGS@/$$\(SHLIB_OPENMP_CXXFLAGS\)/g' xgboost/src/Makevars.win
sed -i -e 's/-pthread/$$\(SHLIB_PTHREAD_FLAGS\)/g' xgboost/src/Makevars.win
bash R-package/remove_warning_suppression_pragma.sh bash R-package/remove_warning_suppression_pragma.sh
rm xgboost/remove_warning_suppression_pragma.sh rm xgboost/remove_warning_suppression_pragma.sh

2
R-package/R/xgb.plot.deepness.R
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@ -27,7 +27,7 @@
#' a tree's median absolute leaf weight changes through the iterations. #' a tree's median absolute leaf weight changes through the iterations.
#' #'
#' This function was inspired by the blog post #' This function was inspired by the blog post
#' \url{http://aysent.github.io/2015/11/08/random-forest-leaf-visualization.html}. #' \url{https://github.com/aysent/random-forest-leaf-visualization}.
#' #'
#' @return #' @return
#' #'

4
R-package/configure vendored
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@ -1667,12 +1667,12 @@ OPENMP_CXXFLAGS=""
if test `uname -s` = "Linux" if test `uname -s` = "Linux"
then then
OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CFLAGS)" OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CXXFLAGS)"
fi fi
if test `uname -s` = "Darwin" if test `uname -s` = "Darwin"
then then
OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CFLAGS)" OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CXXFLAGS)"
ac_pkg_openmp=no ac_pkg_openmp=no
{ $as_echo "$as_me:${as_lineno-$LINENO}: checking whether OpenMP will work in a package" >&5 { $as_echo "$as_me:${as_lineno-$LINENO}: checking whether OpenMP will work in a package" >&5
$as_echo_n "checking whether OpenMP will work in a package... " >&6; } $as_echo_n "checking whether OpenMP will work in a package... " >&6; }

4
R-package/configure.ac
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@ -8,12 +8,12 @@ OPENMP_CXXFLAGS=""
if test `uname -s` = "Linux" if test `uname -s` = "Linux"
then then
OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CFLAGS)" OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CXXFLAGS)"
fi fi
if test `uname -s` = "Darwin" if test `uname -s` = "Darwin"
then then
OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CFLAGS)" OPENMP_CXXFLAGS="\$(SHLIB_OPENMP_CXXFLAGS)"
ac_pkg_openmp=no ac_pkg_openmp=no
AC_MSG_CHECKING([whether OpenMP will work in a package]) AC_MSG_CHECKING([whether OpenMP will work in a package])
AC_LANG_CONFTEST( AC_LANG_CONFTEST(

2
R-package/man/xgb.plot.deepness.Rd
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@ -50,7 +50,7 @@ per tree with respect to tree number are created. And \code{which="med.weight"}
a tree's median absolute leaf weight changes through the iterations. a tree's median absolute leaf weight changes through the iterations.
This function was inspired by the blog post This function was inspired by the blog post
\url{http://aysent.github.io/2015/11/08/random-forest-leaf-visualization.html}. \url{https://github.com/aysent/random-forest-leaf-visualization}.
} }
\examples{ \examples{

4
R-package/src/Makevars.in
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@ -17,8 +17,8 @@ endif
$(foreach v, $(XGB_RFLAGS), $(warning $(v))) $(foreach v, $(XGB_RFLAGS), $(warning $(v)))
PKG_CPPFLAGS= -I$(PKGROOT)/include -I$(PKGROOT)/dmlc-core/include -I$(PKGROOT)/rabit/include -I$(PKGROOT) $(XGB_RFLAGS) PKG_CPPFLAGS= -I$(PKGROOT)/include -I$(PKGROOT)/dmlc-core/include -I$(PKGROOT)/rabit/include -I$(PKGROOT) $(XGB_RFLAGS)
PKG_CXXFLAGS= @OPENMP_CXXFLAGS@ $(SHLIB_PTHREAD_FLAGS) PKG_CXXFLAGS= @OPENMP_CXXFLAGS@ -pthread
PKG_LIBS = @OPENMP_CXXFLAGS@ $(SHLIB_PTHREAD_FLAGS) PKG_LIBS = @OPENMP_CXXFLAGS@ -pthread
OBJECTS= ./xgboost_R.o ./xgboost_custom.o ./xgboost_assert.o ./init.o\ OBJECTS= ./xgboost_R.o ./xgboost_custom.o ./xgboost_assert.o ./init.o\
$(PKGROOT)/amalgamation/xgboost-all0.o $(PKGROOT)/amalgamation/dmlc-minimum0.o\ $(PKGROOT)/amalgamation/xgboost-all0.o $(PKGROOT)/amalgamation/dmlc-minimum0.o\
$(PKGROOT)/rabit/src/engine_empty.o $(PKGROOT)/rabit/src/c_api.o $(PKGROOT)/rabit/src/engine_empty.o $(PKGROOT)/rabit/src/c_api.o

4
R-package/src/Makevars.win
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@ -29,8 +29,8 @@ endif
$(foreach v, $(XGB_RFLAGS), $(warning $(v))) $(foreach v, $(XGB_RFLAGS), $(warning $(v)))
PKG_CPPFLAGS= -I$(PKGROOT)/include -I$(PKGROOT)/dmlc-core/include -I$(PKGROOT)/rabit/include -I$(PKGROOT) $(XGB_RFLAGS) PKG_CPPFLAGS= -I$(PKGROOT)/include -I$(PKGROOT)/dmlc-core/include -I$(PKGROOT)/rabit/include -I$(PKGROOT) $(XGB_RFLAGS)
PKG_CXXFLAGS= $(SHLIB_OPENMP_CFLAGS) $(SHLIB_PTHREAD_FLAGS) PKG_CXXFLAGS= $(SHLIB_OPENMP_CXXFLAGS) $(SHLIB_PTHREAD_FLAGS)
PKG_LIBS = $(SHLIB_OPENMP_CFLAGS) $(SHLIB_PTHREAD_FLAGS) PKG_LIBS = $(SHLIB_OPENMP_CXXFLAGS) $(SHLIB_PTHREAD_FLAGS)
OBJECTS= ./xgboost_R.o ./xgboost_custom.o ./xgboost_assert.o ./init.o\ OBJECTS= ./xgboost_R.o ./xgboost_custom.o ./xgboost_assert.o ./init.o\
$(PKGROOT)/amalgamation/xgboost-all0.o $(PKGROOT)/amalgamation/dmlc-minimum0.o\ $(PKGROOT)/amalgamation/xgboost-all0.o $(PKGROOT)/amalgamation/dmlc-minimum0.o\
$(PKGROOT)/rabit/src/engine_empty.o $(PKGROOT)/rabit/src/c_api.o $(PKGROOT)/rabit/src/engine_empty.o $(PKGROOT)/rabit/src/c_api.o

2
src/common/transform.h
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@ -172,8 +172,8 @@ class Transform {
/*! \brief Range object specifying parallel threads index range. */ /*! \brief Range object specifying parallel threads index range. */
Range range_; Range range_;
/*! \brief Whether resharding for vectors is required. */ /*! \brief Whether resharding for vectors is required. */
bool reshard_;
GPUDistribution distribution_; GPUDistribution distribution_;
bool reshard_;
}; };
public: public: