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Index: trunk/rebuild_c++11
===================================================================
--- trunk/rebuild_c++11 (revision 436)
+++ trunk/rebuild_c++11 (revision 437)
@@ -1,7 +1,7 @@
autoreconf --force --install
setenv PKG_CONFIG_PATH /usr/local/lib/pkgconfig
setenv CXXFLAGS "-std=c++11 -g -O0 -Wall -W -Werror"
./configure --with-pic
-make
+make -j 2
Index: trunk/config.log
===================================================================
--- trunk/config.log (revision 436)
+++ trunk/config.log (revision 437)
@@ -1,929 +1,929 @@
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by npstat configure 4.1.0, which was
generated by GNU Autoconf 2.69. Invocation command line was
$ ./configure --with-pic
## --------- ##
## Platform. ##
## --------- ##
hostname = sam
uname -m = x86_64
uname -r = 4.0.7-200.fc21.x86_64
uname -s = Linux
uname -v = #1 SMP Mon Jun 29 22:11:52 UTC 2015
/usr/bin/uname -p = x86_64
/bin/uname -X = unknown
/bin/arch = x86_64
/usr/bin/arch -k = unknown
/usr/convex/getsysinfo = unknown
/usr/bin/hostinfo = unknown
/bin/machine = unknown
/usr/bin/oslevel = unknown
/bin/universe = unknown
PATH: /home/igv/local/bin
PATH: /home/igv/.local/bin
PATH: /home/igv/bin
PATH: /usr/local/bin
PATH: /usr/local/root/bin
PATH: /usr/local/bin
PATH: /usr/kerberos/bin
PATH: /bin
PATH: /usr/bin
PATH: /usr/X11R6/bin
PATH: /usr/local/dx/bin
PATH: /sbin
PATH: /usr/sbin
PATH: /usr/local/cmake/bin
PATH: /usr/local/kompozer
PATH: .
## ----------- ##
## Core tests. ##
## ----------- ##
configure:2401: checking for a BSD-compatible install
configure:2469: result: /bin/install -c
configure:2480: checking whether build environment is sane
configure:2535: result: yes
configure:2686: checking for a thread-safe mkdir -p
configure:2725: result: /bin/mkdir -p
configure:2732: checking for gawk
configure:2748: found /bin/gawk
configure:2759: result: gawk
configure:2770: checking whether make sets $(MAKE)
configure:2792: result: yes
configure:2821: checking whether make supports nested variables
configure:2838: result: yes
configure:3020: checking for pkg-config
configure:3038: found /bin/pkg-config
configure:3050: result: /bin/pkg-config
configure:3075: checking pkg-config is at least version 0.9.0
configure:3078: result: yes
configure:3088: checking for DEPS
configure:3095: $PKG_CONFIG --exists --print-errors "fftw3 >= 3.1.2 geners >= 1.3.0 kstest >= 2.0.0"
configure:3098: $? = 0
configure:3112: $PKG_CONFIG --exists --print-errors "fftw3 >= 3.1.2 geners >= 1.3.0 kstest >= 2.0.0"
configure:3115: $? = 0
configure:3173: result: yes
configure:3236: checking for g++
configure:3252: found /bin/g++
configure:3263: result: g++
configure:3290: checking for C++ compiler version
configure:3299: g++ --version >&5
g++ (GCC) 4.9.2 20150212 (Red Hat 4.9.2-6)
Copyright (C) 2014 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
configure:3310: $? = 0
configure:3299: g++ -v >&5
Using built-in specs.
COLLECT_GCC=g++
COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-redhat-linux/4.9.2/lto-wrapper
Target: x86_64-redhat-linux
Configured with: ../configure --prefix=/usr --mandir=/usr/share/man --infodir=/usr/share/info --with-bugurl=http://bugzilla.redhat.com/bugzilla --enable-bootstrap --enable-shared --enable-threads=posix --enable-checking=release --enable-multilib --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-gnu-unique-object --enable-linker-build-id --with-linker-hash-style=gnu --enable-languages=c,c++,objc,obj-c++,fortran,ada,go,lto --enable-plugin --enable-initfini-array --disable-libgcj --with-isl=/builddir/build/BUILD/gcc-4.9.2-20150212/obj-x86_64-redhat-linux/isl-install --with-cloog=/builddir/build/BUILD/gcc-4.9.2-20150212/obj-x86_64-redhat-linux/cloog-install --enable-gnu-indirect-function --with-tune=generic --with-arch_32=i686 --build=x86_64-redhat-linux
Thread model: posix
gcc version 4.9.2 20150212 (Red Hat 4.9.2-6) (GCC)
configure:3310: $? = 0
configure:3299: g++ -V >&5
g++: error: unrecognized command line option '-V'
g++: fatal error: no input files
compilation terminated.
configure:3310: $? = 4
configure:3299: g++ -qversion >&5
g++: error: unrecognized command line option '-qversion'
g++: fatal error: no input files
compilation terminated.
configure:3310: $? = 4
configure:3330: checking whether the C++ compiler works
configure:3352: g++ -std=c++11 -g -O0 -Wall -W -Werror conftest.cpp >&5
configure:3356: $? = 0
configure:3404: result: yes
configure:3407: checking for C++ compiler default output file name
configure:3409: result: a.out
configure:3415: checking for suffix of executables
configure:3422: g++ -o conftest -std=c++11 -g -O0 -Wall -W -Werror conftest.cpp >&5
configure:3426: $? = 0
configure:3448: result:
configure:3470: checking whether we are cross compiling
configure:3478: g++ -o conftest -std=c++11 -g -O0 -Wall -W -Werror conftest.cpp >&5
configure:3482: $? = 0
configure:3489: ./conftest
configure:3493: $? = 0
configure:3508: result: no
configure:3513: checking for suffix of object files
configure:3535: g++ -c -std=c++11 -g -O0 -Wall -W -Werror conftest.cpp >&5
configure:3539: $? = 0
configure:3560: result: o
configure:3564: checking whether we are using the GNU C++ compiler
configure:3583: g++ -c -std=c++11 -g -O0 -Wall -W -Werror conftest.cpp >&5
configure:3583: $? = 0
configure:3592: result: yes
configure:3601: checking whether g++ accepts -g
configure:3621: g++ -c -g conftest.cpp >&5
configure:3621: $? = 0
configure:3662: result: yes
configure:3696: checking for style of include used by make
configure:3724: result: GNU
configure:3750: checking dependency style of g++
configure:3861: result: gcc3
configure:3930: checking for g77
configure:3946: found /home/igv/bin/g77
configure:3957: result: g77
configure:3983: checking for Fortran 77 compiler version
configure:3992: g77 --version >&5
GNU Fortran (GCC) 4.9.2 20150212 (Red Hat 4.9.2-6)
Copyright (C) 2014 Free Software Foundation, Inc.
GNU Fortran comes with NO WARRANTY, to the extent permitted by law.
You may redistribute copies of GNU Fortran
under the terms of the GNU General Public License.
For more information about these matters, see the file named COPYING
configure:4003: $? = 0
configure:3992: g77 -v >&5
Using built-in specs.
COLLECT_GCC=g77
COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-redhat-linux/4.9.2/lto-wrapper
Target: x86_64-redhat-linux
Configured with: ../configure --prefix=/usr --mandir=/usr/share/man --infodir=/usr/share/info --with-bugurl=http://bugzilla.redhat.com/bugzilla --enable-bootstrap --enable-shared --enable-threads=posix --enable-checking=release --enable-multilib --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-gnu-unique-object --enable-linker-build-id --with-linker-hash-style=gnu --enable-languages=c,c++,objc,obj-c++,fortran,ada,go,lto --enable-plugin --enable-initfini-array --disable-libgcj --with-isl=/builddir/build/BUILD/gcc-4.9.2-20150212/obj-x86_64-redhat-linux/isl-install --with-cloog=/builddir/build/BUILD/gcc-4.9.2-20150212/obj-x86_64-redhat-linux/cloog-install --enable-gnu-indirect-function --with-tune=generic --with-arch_32=i686 --build=x86_64-redhat-linux
Thread model: posix
gcc version 4.9.2 20150212 (Red Hat 4.9.2-6) (GCC)
configure:4003: $? = 0
configure:3992: g77 -V >&5
g77: error: unrecognized command line option '-V'
g77: fatal error: no input files
compilation terminated.
configure:4003: $? = 4
configure:3992: g77 -qversion >&5
g77: error: unrecognized command line option '-qversion'
g77: fatal error: no input files
compilation terminated.
configure:4003: $? = 4
configure:4012: checking whether we are using the GNU Fortran 77 compiler
configure:4025: g77 -c conftest.F >&5
configure:4025: $? = 0
configure:4034: result: yes
configure:4040: checking whether g77 accepts -g
configure:4051: g77 -c -g conftest.f >&5
configure:4051: $? = 0
configure:4059: result: yes
configure:4092: checking build system type
configure:4106: result: x86_64-unknown-linux-gnu
configure:4126: checking host system type
configure:4139: result: x86_64-unknown-linux-gnu
configure:4164: checking how to get verbose linking output from g77
configure:4174: g77 -c -g -O2 conftest.f >&5
configure:4174: $? = 0
configure:4192: g77 -o conftest -g -O2 -v conftest.f
Using built-in specs.
Target: x86_64-redhat-linux
Thread model: posix
gcc version 4.9.2 20150212 (Red Hat 4.9.2-6) (GCC)
- /usr/libexec/gcc/x86_64-redhat-linux/4.9.2/f951 conftest.f -ffixed-form -quiet -dumpbase conftest.f -mtune=generic -march=x86-64 -auxbase conftest -g -O2 -version -fintrinsic-modules-path /usr/lib/gcc/x86_64-redhat-linux/4.9.2/finclude -o /tmp/cce1VepH.s
+ /usr/libexec/gcc/x86_64-redhat-linux/4.9.2/f951 conftest.f -ffixed-form -quiet -dumpbase conftest.f -mtune=generic -march=x86-64 -auxbase conftest -g -O2 -version -fintrinsic-modules-path /usr/lib/gcc/x86_64-redhat-linux/4.9.2/finclude -o /tmp/ccGjLYut.s
GNU Fortran (GCC) version 4.9.2 20150212 (Red Hat 4.9.2-6) (x86_64-redhat-linux)
compiled by GNU C version 4.9.2 20150212 (Red Hat 4.9.2-6), GMP version 6.0.0, MPFR version 3.1.2, MPC version 1.0.2
GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072
GNU Fortran (GCC) version 4.9.2 20150212 (Red Hat 4.9.2-6) (x86_64-redhat-linux)
compiled by GNU C version 4.9.2 20150212 (Red Hat 4.9.2-6), GMP version 6.0.0, MPFR version 3.1.2, MPC version 1.0.2
GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072
- as -v --64 -o /tmp/ccijQkVQ.o /tmp/cce1VepH.s
+ as -v --64 -o /tmp/cchyzCMX.o /tmp/ccGjLYut.s
GNU assembler version 2.24 (x86_64-redhat-linux) using BFD version version 2.24
Reading specs from /usr/lib/gcc/x86_64-redhat-linux/4.9.2/libgfortran.spec
rename spec lib to liborig
- /usr/libexec/gcc/x86_64-redhat-linux/4.9.2/collect2 -plugin /usr/libexec/gcc/x86_64-redhat-linux/4.9.2/liblto_plugin.so -plugin-opt=/usr/libexec/gcc/x86_64-redhat-linux/4.9.2/lto-wrapper -plugin-opt=-fresolution=/tmp/cc70b5r0.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lquadmath -plugin-opt=-pass-through=-lm -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc --build-id --no-add-needed --eh-frame-hdr --hash-style=gnu -m elf_x86_64 -dynamic-linker /lib64/ld-linux-x86-64.so.2 -o conftest /usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64/crt1.o /usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.9.2/crtbegin.o -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../.. /tmp/ccijQkVQ.o -lgfortran -lm -lgcc_s -lgcc -lquadmath -lm -lgcc_s -lgcc -lc -lgcc_s -lgcc /usr/lib/gcc/x86_64-redhat-linux/4.9.2/crtend.o /usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64/crtn.o
+ /usr/libexec/gcc/x86_64-redhat-linux/4.9.2/collect2 -plugin /usr/libexec/gcc/x86_64-redhat-linux/4.9.2/liblto_plugin.so -plugin-opt=/usr/libexec/gcc/x86_64-redhat-linux/4.9.2/lto-wrapper -plugin-opt=-fresolution=/tmp/cc6NMR4r.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lquadmath -plugin-opt=-pass-through=-lm -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc --build-id --no-add-needed --eh-frame-hdr --hash-style=gnu -m elf_x86_64 -dynamic-linker /lib64/ld-linux-x86-64.so.2 -o conftest /usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64/crt1.o /usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.9.2/crtbegin.o -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../.. /tmp/cchyzCMX.o -lgfortran -lm -lgcc_s -lgcc -lquadmath -lm -lgcc_s -lgcc -lc -lgcc_s -lgcc /usr/lib/gcc/x86_64-redhat-linux/4.9.2/crtend.o /usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64/crtn.o
configure:4275: result: -v
configure:4277: checking for Fortran 77 libraries of g77
configure:4300: g77 -o conftest -g -O2 -v conftest.f
Using built-in specs.
Target: x86_64-redhat-linux
Thread model: posix
gcc version 4.9.2 20150212 (Red Hat 4.9.2-6) (GCC)
- /usr/libexec/gcc/x86_64-redhat-linux/4.9.2/f951 conftest.f -ffixed-form -quiet -dumpbase conftest.f -mtune=generic -march=x86-64 -auxbase conftest -g -O2 -version -fintrinsic-modules-path /usr/lib/gcc/x86_64-redhat-linux/4.9.2/finclude -o /tmp/ccZRXM8J.s
+ /usr/libexec/gcc/x86_64-redhat-linux/4.9.2/f951 conftest.f -ffixed-form -quiet -dumpbase conftest.f -mtune=generic -march=x86-64 -auxbase conftest -g -O2 -version -fintrinsic-modules-path /usr/lib/gcc/x86_64-redhat-linux/4.9.2/finclude -o /tmp/cczEZmxu.s
GNU Fortran (GCC) version 4.9.2 20150212 (Red Hat 4.9.2-6) (x86_64-redhat-linux)
compiled by GNU C version 4.9.2 20150212 (Red Hat 4.9.2-6), GMP version 6.0.0, MPFR version 3.1.2, MPC version 1.0.2
GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072
GNU Fortran (GCC) version 4.9.2 20150212 (Red Hat 4.9.2-6) (x86_64-redhat-linux)
compiled by GNU C version 4.9.2 20150212 (Red Hat 4.9.2-6), GMP version 6.0.0, MPFR version 3.1.2, MPC version 1.0.2
GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072
- as -v --64 -o /tmp/cc9ZPVLT.o /tmp/ccZRXM8J.s
+ as -v --64 -o /tmp/ccyPWAVY.o /tmp/cczEZmxu.s
GNU assembler version 2.24 (x86_64-redhat-linux) using BFD version version 2.24
Reading specs from /usr/lib/gcc/x86_64-redhat-linux/4.9.2/libgfortran.spec
rename spec lib to liborig
- /usr/libexec/gcc/x86_64-redhat-linux/4.9.2/collect2 -plugin /usr/libexec/gcc/x86_64-redhat-linux/4.9.2/liblto_plugin.so -plugin-opt=/usr/libexec/gcc/x86_64-redhat-linux/4.9.2/lto-wrapper -plugin-opt=-fresolution=/tmp/ccqrUHp3.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lquadmath -plugin-opt=-pass-through=-lm -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc --build-id --no-add-needed --eh-frame-hdr --hash-style=gnu -m elf_x86_64 -dynamic-linker /lib64/ld-linux-x86-64.so.2 -o conftest /usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64/crt1.o /usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.9.2/crtbegin.o -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../.. /tmp/cc9ZPVLT.o -lgfortran -lm -lgcc_s -lgcc -lquadmath -lm -lgcc_s -lgcc -lc -lgcc_s -lgcc /usr/lib/gcc/x86_64-redhat-linux/4.9.2/crtend.o /usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64/crtn.o
+ /usr/libexec/gcc/x86_64-redhat-linux/4.9.2/collect2 -plugin /usr/libexec/gcc/x86_64-redhat-linux/4.9.2/liblto_plugin.so -plugin-opt=/usr/libexec/gcc/x86_64-redhat-linux/4.9.2/lto-wrapper -plugin-opt=-fresolution=/tmp/ccTHuukt.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lquadmath -plugin-opt=-pass-through=-lm -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc --build-id --no-add-needed --eh-frame-hdr --hash-style=gnu -m elf_x86_64 -dynamic-linker /lib64/ld-linux-x86-64.so.2 -o conftest /usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64/crt1.o /usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.9.2/crtbegin.o -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../.. /tmp/ccyPWAVY.o -lgfortran -lm -lgcc_s -lgcc -lquadmath -lm -lgcc_s -lgcc -lc -lgcc_s -lgcc /usr/lib/gcc/x86_64-redhat-linux/4.9.2/crtend.o /usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64/crtn.o
configure:4496: result: -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../.. -lgfortran -lm -lquadmath
configure:4558: checking how to print strings
configure:4585: result: printf
configure:4654: checking for gcc
configure:4670: found /bin/gcc
configure:4681: result: gcc
configure:4910: checking for C compiler version
configure:4919: gcc --version >&5
gcc (GCC) 4.9.2 20150212 (Red Hat 4.9.2-6)
Copyright (C) 2014 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
configure:4930: $? = 0
configure:4919: gcc -v >&5
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-redhat-linux/4.9.2/lto-wrapper
Target: x86_64-redhat-linux
Configured with: ../configure --prefix=/usr --mandir=/usr/share/man --infodir=/usr/share/info --with-bugurl=http://bugzilla.redhat.com/bugzilla --enable-bootstrap --enable-shared --enable-threads=posix --enable-checking=release --enable-multilib --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-gnu-unique-object --enable-linker-build-id --with-linker-hash-style=gnu --enable-languages=c,c++,objc,obj-c++,fortran,ada,go,lto --enable-plugin --enable-initfini-array --disable-libgcj --with-isl=/builddir/build/BUILD/gcc-4.9.2-20150212/obj-x86_64-redhat-linux/isl-install --with-cloog=/builddir/build/BUILD/gcc-4.9.2-20150212/obj-x86_64-redhat-linux/cloog-install --enable-gnu-indirect-function --with-tune=generic --with-arch_32=i686 --build=x86_64-redhat-linux
Thread model: posix
gcc version 4.9.2 20150212 (Red Hat 4.9.2-6) (GCC)
configure:4930: $? = 0
configure:4919: gcc -V >&5
gcc: error: unrecognized command line option '-V'
gcc: fatal error: no input files
compilation terminated.
configure:4930: $? = 4
configure:4919: gcc -qversion >&5
gcc: error: unrecognized command line option '-qversion'
gcc: fatal error: no input files
compilation terminated.
configure:4930: $? = 4
configure:4934: checking whether we are using the GNU C compiler
configure:4953: gcc -c conftest.c >&5
configure:4953: $? = 0
configure:4962: result: yes
configure:4971: checking whether gcc accepts -g
configure:4991: gcc -c -g conftest.c >&5
configure:4991: $? = 0
configure:5032: result: yes
configure:5049: checking for gcc option to accept ISO C89
configure:5112: gcc -c -g -O2 conftest.c >&5
configure:5112: $? = 0
configure:5125: result: none needed
configure:5150: checking whether gcc understands -c and -o together
configure:5172: gcc -c conftest.c -o conftest2.o
configure:5175: $? = 0
configure:5172: gcc -c conftest.c -o conftest2.o
configure:5175: $? = 0
configure:5187: result: yes
configure:5206: checking dependency style of gcc
configure:5317: result: gcc3
configure:5332: checking for a sed that does not truncate output
configure:5396: result: /bin/sed
configure:5414: checking for grep that handles long lines and -e
configure:5472: result: /bin/grep
configure:5477: checking for egrep
configure:5539: result: /bin/grep -E
configure:5544: checking for fgrep
configure:5606: result: /bin/grep -F
configure:5641: checking for ld used by gcc
configure:5708: result: /bin/ld
configure:5715: checking if the linker (/bin/ld) is GNU ld
configure:5730: result: yes
configure:5742: checking for BSD- or MS-compatible name lister (nm)
configure:5791: result: /bin/nm -B
configure:5921: checking the name lister (/bin/nm -B) interface
configure:5928: gcc -c -g -O2 conftest.c >&5
configure:5931: /bin/nm -B "conftest.o"
configure:5934: output
0000000000000000 B some_variable
configure:5941: result: BSD nm
configure:5944: checking whether ln -s works
configure:5948: result: yes
configure:5956: checking the maximum length of command line arguments
configure:6086: result: 1572864
configure:6103: checking whether the shell understands some XSI constructs
configure:6113: result: yes
configure:6117: checking whether the shell understands "+="
configure:6123: result: yes
configure:6158: checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format
configure:6198: result: func_convert_file_noop
configure:6205: checking how to convert x86_64-unknown-linux-gnu file names to toolchain format
configure:6225: result: func_convert_file_noop
configure:6232: checking for /bin/ld option to reload object files
configure:6239: result: -r
configure:6313: checking for objdump
configure:6329: found /bin/objdump
configure:6340: result: objdump
configure:6372: checking how to recognize dependent libraries
configure:6574: result: pass_all
configure:6659: checking for dlltool
configure:6689: result: no
configure:6719: checking how to associate runtime and link libraries
configure:6746: result: printf %s\n
configure:6807: checking for ar
configure:6823: found /bin/ar
configure:6834: result: ar
configure:6871: checking for archiver @FILE support
configure:6888: gcc -c -g -O2 conftest.c >&5
configure:6888: $? = 0
configure:6891: ar cru libconftest.a @conftest.lst >&5
configure:6894: $? = 0
configure:6899: ar cru libconftest.a @conftest.lst >&5
ar: conftest.o: No such file or directory
configure:6902: $? = 1
configure:6914: result: @
configure:6972: checking for strip
configure:6988: found /bin/strip
configure:6999: result: strip
configure:7071: checking for ranlib
configure:7087: found /bin/ranlib
configure:7098: result: ranlib
configure:7200: checking command to parse /bin/nm -B output from gcc object
configure:7320: gcc -c -g -O2 conftest.c >&5
configure:7323: $? = 0
configure:7327: /bin/nm -B conftest.o \| sed -n -e 's/^.*[ ]\([ABCDGIRSTW][ABCDGIRSTW]*\)[ ][ ]*\([_A-Za-z][_A-Za-z0-9]*\)$/\1 \2 \2/p' | sed '/ __gnu_lto/d' \> conftest.nm
configure:7330: $? = 0
configure:7396: gcc -o conftest -g -O2 conftest.c conftstm.o >&5
configure:7399: $? = 0
configure:7437: result: ok
configure:7474: checking for sysroot
configure:7504: result: no
configure:7581: gcc -c -g -O2 conftest.c >&5
configure:7584: $? = 0
configure:7766: checking for mt
configure:7796: result: no
configure:7816: checking if : is a manifest tool
configure:7822: : '-?'
configure:7830: result: no
configure:8472: checking how to run the C preprocessor
configure:8503: gcc -E conftest.c
configure:8503: $? = 0
configure:8517: gcc -E conftest.c
conftest.c:11:28: fatal error: ac_nonexistent.h: No such file or directory
#include <ac_nonexistent.h>
^
compilation terminated.
configure:8517: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "npstat"
| #define PACKAGE_TARNAME "npstat"
| #define PACKAGE_VERSION "4.1.0"
| #define PACKAGE_STRING "npstat 4.1.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "npstat"
| #define VERSION "4.1.0"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:8542: result: gcc -E
configure:8562: gcc -E conftest.c
configure:8562: $? = 0
configure:8576: gcc -E conftest.c
conftest.c:11:28: fatal error: ac_nonexistent.h: No such file or directory
#include <ac_nonexistent.h>
^
compilation terminated.
configure:8576: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "npstat"
| #define PACKAGE_TARNAME "npstat"
| #define PACKAGE_VERSION "4.1.0"
| #define PACKAGE_STRING "npstat 4.1.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "npstat"
| #define VERSION "4.1.0"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:8605: checking for ANSI C header files
configure:8625: gcc -c -g -O2 conftest.c >&5
configure:8625: $? = 0
configure:8698: gcc -o conftest -g -O2 conftest.c >&5
configure:8698: $? = 0
configure:8698: ./conftest
configure:8698: $? = 0
configure:8709: result: yes
configure:8722: checking for sys/types.h
configure:8722: gcc -c -g -O2 conftest.c >&5
configure:8722: $? = 0
configure:8722: result: yes
configure:8722: checking for sys/stat.h
configure:8722: gcc -c -g -O2 conftest.c >&5
configure:8722: $? = 0
configure:8722: result: yes
configure:8722: checking for stdlib.h
configure:8722: gcc -c -g -O2 conftest.c >&5
configure:8722: $? = 0
configure:8722: result: yes
configure:8722: checking for string.h
configure:8722: gcc -c -g -O2 conftest.c >&5
configure:8722: $? = 0
configure:8722: result: yes
configure:8722: checking for memory.h
configure:8722: gcc -c -g -O2 conftest.c >&5
configure:8722: $? = 0
configure:8722: result: yes
configure:8722: checking for strings.h
configure:8722: gcc -c -g -O2 conftest.c >&5
configure:8722: $? = 0
configure:8722: result: yes
configure:8722: checking for inttypes.h
configure:8722: gcc -c -g -O2 conftest.c >&5
configure:8722: $? = 0
configure:8722: result: yes
configure:8722: checking for stdint.h
configure:8722: gcc -c -g -O2 conftest.c >&5
configure:8722: $? = 0
configure:8722: result: yes
configure:8722: checking for unistd.h
configure:8722: gcc -c -g -O2 conftest.c >&5
configure:8722: $? = 0
configure:8722: result: yes
configure:8736: checking for dlfcn.h
configure:8736: gcc -c -g -O2 conftest.c >&5
configure:8736: $? = 0
configure:8736: result: yes
configure:8953: checking for objdir
configure:8968: result: .libs
configure:9239: checking if gcc supports -fno-rtti -fno-exceptions
configure:9257: gcc -c -g -O2 -fno-rtti -fno-exceptions conftest.c >&5
cc1: warning: command line option '-fno-rtti' is valid for C++/ObjC++ but not for C
configure:9261: $? = 0
configure:9274: result: no
configure:9601: checking for gcc option to produce PIC
configure:9608: result: -fPIC -DPIC
configure:9616: checking if gcc PIC flag -fPIC -DPIC works
configure:9634: gcc -c -g -O2 -fPIC -DPIC -DPIC conftest.c >&5
configure:9638: $? = 0
configure:9651: result: yes
configure:9680: checking if gcc static flag -static works
configure:9708: result: no
configure:9723: checking if gcc supports -c -o file.o
configure:9744: gcc -c -g -O2 -o out/conftest2.o conftest.c >&5
configure:9748: $? = 0
configure:9770: result: yes
configure:9778: checking if gcc supports -c -o file.o
configure:9825: result: yes
configure:9858: checking whether the gcc linker (/bin/ld -m elf_x86_64) supports shared libraries
configure:11011: result: yes
configure:11048: checking whether -lc should be explicitly linked in
configure:11056: gcc -c -g -O2 conftest.c >&5
configure:11059: $? = 0
configure:11074: gcc -shared -fPIC -DPIC conftest.o -v -Wl,-soname -Wl,conftest -o conftest 2\>\&1 \| /bin/grep -lc \>/dev/null 2\>\&1
configure:11077: $? = 0
configure:11091: result: no
configure:11251: checking dynamic linker characteristics
configure:11762: gcc -o conftest -g -O2 -Wl,-rpath -Wl,/foo conftest.c >&5
configure:11762: $? = 0
configure:11988: result: GNU/Linux ld.so
configure:12095: checking how to hardcode library paths into programs
configure:12120: result: immediate
configure:12660: checking whether stripping libraries is possible
configure:12665: result: yes
configure:12700: checking if libtool supports shared libraries
configure:12702: result: yes
configure:12705: checking whether to build shared libraries
configure:12726: result: yes
configure:12729: checking whether to build static libraries
configure:12733: result: yes
configure:12756: checking how to run the C++ preprocessor
configure:12783: g++ -E conftest.cpp
configure:12783: $? = 0
configure:12797: g++ -E conftest.cpp
conftest.cpp:23:28: fatal error: ac_nonexistent.h: No such file or directory
#include <ac_nonexistent.h>
^
compilation terminated.
configure:12797: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "npstat"
| #define PACKAGE_TARNAME "npstat"
| #define PACKAGE_VERSION "4.1.0"
| #define PACKAGE_STRING "npstat 4.1.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "npstat"
| #define VERSION "4.1.0"
| #define STDC_HEADERS 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_MEMORY_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_DLFCN_H 1
| #define LT_OBJDIR ".libs/"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:12822: result: g++ -E
configure:12842: g++ -E conftest.cpp
configure:12842: $? = 0
configure:12856: g++ -E conftest.cpp
conftest.cpp:23:28: fatal error: ac_nonexistent.h: No such file or directory
#include <ac_nonexistent.h>
^
compilation terminated.
configure:12856: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "npstat"
| #define PACKAGE_TARNAME "npstat"
| #define PACKAGE_VERSION "4.1.0"
| #define PACKAGE_STRING "npstat 4.1.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "npstat"
| #define VERSION "4.1.0"
| #define STDC_HEADERS 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_MEMORY_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_DLFCN_H 1
| #define LT_OBJDIR ".libs/"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:13025: checking for ld used by g++
configure:13092: result: /bin/ld -m elf_x86_64
configure:13099: checking if the linker (/bin/ld -m elf_x86_64) is GNU ld
configure:13114: result: yes
configure:13169: checking whether the g++ linker (/bin/ld -m elf_x86_64) supports shared libraries
configure:14174: result: yes
configure:14210: g++ -c -std=c++11 -g -O0 -Wall -W -Werror conftest.cpp >&5
configure:14213: $? = 0
configure:14733: checking for g++ option to produce PIC
configure:14740: result: -fPIC -DPIC
configure:14748: checking if g++ PIC flag -fPIC -DPIC works
configure:14766: g++ -c -std=c++11 -g -O0 -Wall -W -Werror -fPIC -DPIC -DPIC conftest.cpp >&5
configure:14770: $? = 0
configure:14783: result: yes
configure:14806: checking if g++ static flag -static works
configure:14834: result: no
configure:14846: checking if g++ supports -c -o file.o
configure:14867: g++ -c -std=c++11 -g -O0 -Wall -W -Werror -o out/conftest2.o conftest.cpp >&5
configure:14871: $? = 0
configure:14893: result: yes
configure:14898: checking if g++ supports -c -o file.o
configure:14945: result: yes
configure:14975: checking whether the g++ linker (/bin/ld -m elf_x86_64) supports shared libraries
configure:15011: result: yes
configure:15152: checking dynamic linker characteristics
configure:15823: result: GNU/Linux ld.so
configure:15876: checking how to hardcode library paths into programs
configure:15901: result: immediate
configure:16049: checking if libtool supports shared libraries
configure:16051: result: yes
configure:16054: checking whether to build shared libraries
configure:16074: result: yes
configure:16077: checking whether to build static libraries
configure:16081: result: yes
configure:16402: checking for g77 option to produce PIC
configure:16409: result: -fPIC
configure:16417: checking if g77 PIC flag -fPIC works
configure:16435: g77 -c -g -O2 -fPIC conftest.f >&5
configure:16439: $? = 0
configure:16452: result: yes
configure:16475: checking if g77 static flag -static works
configure:16503: result: no
configure:16515: checking if g77 supports -c -o file.o
configure:16536: g77 -c -g -O2 -o out/conftest2.o conftest.f >&5
configure:16540: $? = 0
configure:16562: result: yes
configure:16567: checking if g77 supports -c -o file.o
configure:16614: result: yes
configure:16644: checking whether the g77 linker (/bin/ld -m elf_x86_64) supports shared libraries
configure:17747: result: yes
configure:17888: checking dynamic linker characteristics
configure:18553: result: GNU/Linux ld.so
configure:18606: checking how to hardcode library paths into programs
configure:18631: result: immediate
configure:18831: checking that generated files are newer than configure
configure:18837: result: done
configure:18864: creating ./config.status
## ---------------------- ##
## Running config.status. ##
## ---------------------- ##
This file was extended by npstat config.status 4.1.0, which was
generated by GNU Autoconf 2.69. Invocation command line was
CONFIG_FILES =
CONFIG_HEADERS =
CONFIG_LINKS =
CONFIG_COMMANDS =
$ ./config.status
on sam
config.status:1137: creating Makefile
config.status:1137: creating npstat/nm/Makefile
config.status:1137: creating npstat/rng/Makefile
config.status:1137: creating npstat/stat/Makefile
config.status:1137: creating npstat/wrap/Makefile
config.status:1137: creating npstat/interfaces/Makefile
config.status:1137: creating npstat/emsunfold/Makefile
config.status:1137: creating npstat/Makefile
config.status:1137: creating examples/C++/Makefile
config.status:1137: creating npstat.pc
config.status:1309: executing depfiles commands
config.status:1309: executing libtool commands
## ---------------- ##
## Cache variables. ##
## ---------------- ##
ac_cv_build=x86_64-unknown-linux-gnu
ac_cv_c_compiler_gnu=yes
ac_cv_cxx_compiler_gnu=yes
ac_cv_env_CCC_set=
ac_cv_env_CCC_value=
ac_cv_env_CC_set=
ac_cv_env_CC_value=
ac_cv_env_CFLAGS_set=
ac_cv_env_CFLAGS_value=
ac_cv_env_CPPFLAGS_set=
ac_cv_env_CPPFLAGS_value=
ac_cv_env_CPP_set=
ac_cv_env_CPP_value=
ac_cv_env_CXXCPP_set=
ac_cv_env_CXXCPP_value=
ac_cv_env_CXXFLAGS_set=set
ac_cv_env_CXXFLAGS_value='-std=c++11 -g -O0 -Wall -W -Werror'
ac_cv_env_CXX_set=
ac_cv_env_CXX_value=
ac_cv_env_DEPS_CFLAGS_set=
ac_cv_env_DEPS_CFLAGS_value=
ac_cv_env_DEPS_LIBS_set=
ac_cv_env_DEPS_LIBS_value=
ac_cv_env_F77_set=
ac_cv_env_F77_value=
ac_cv_env_FFLAGS_set=
ac_cv_env_FFLAGS_value=
ac_cv_env_LDFLAGS_set=
ac_cv_env_LDFLAGS_value=
ac_cv_env_LIBS_set=
ac_cv_env_LIBS_value=
ac_cv_env_PKG_CONFIG_LIBDIR_set=
ac_cv_env_PKG_CONFIG_LIBDIR_value=
ac_cv_env_PKG_CONFIG_PATH_set=set
ac_cv_env_PKG_CONFIG_PATH_value=/usr/local/lib/pkgconfig
ac_cv_env_PKG_CONFIG_set=
ac_cv_env_PKG_CONFIG_value=
ac_cv_env_build_alias_set=
ac_cv_env_build_alias_value=
ac_cv_env_host_alias_set=
ac_cv_env_host_alias_value=
ac_cv_env_target_alias_set=
ac_cv_env_target_alias_value=
ac_cv_f77_compiler_gnu=yes
ac_cv_f77_libs=' -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../.. -lgfortran -lm -lquadmath'
ac_cv_header_dlfcn_h=yes
ac_cv_header_inttypes_h=yes
ac_cv_header_memory_h=yes
ac_cv_header_stdc=yes
ac_cv_header_stdint_h=yes
ac_cv_header_stdlib_h=yes
ac_cv_header_string_h=yes
ac_cv_header_strings_h=yes
ac_cv_header_sys_stat_h=yes
ac_cv_header_sys_types_h=yes
ac_cv_header_unistd_h=yes
ac_cv_host=x86_64-unknown-linux-gnu
ac_cv_objext=o
ac_cv_path_EGREP='/bin/grep -E'
ac_cv_path_FGREP='/bin/grep -F'
ac_cv_path_GREP=/bin/grep
ac_cv_path_SED=/bin/sed
ac_cv_path_ac_pt_PKG_CONFIG=/bin/pkg-config
ac_cv_path_install='/bin/install -c'
ac_cv_path_mkdir=/bin/mkdir
ac_cv_prog_AWK=gawk
ac_cv_prog_CPP='gcc -E'
ac_cv_prog_CXXCPP='g++ -E'
ac_cv_prog_ac_ct_AR=ar
ac_cv_prog_ac_ct_CC=gcc
ac_cv_prog_ac_ct_CXX=g++
ac_cv_prog_ac_ct_F77=g77
ac_cv_prog_ac_ct_OBJDUMP=objdump
ac_cv_prog_ac_ct_RANLIB=ranlib
ac_cv_prog_ac_ct_STRIP=strip
ac_cv_prog_cc_c89=
ac_cv_prog_cc_g=yes
ac_cv_prog_cxx_g=yes
ac_cv_prog_f77_g=yes
ac_cv_prog_f77_v=-v
ac_cv_prog_make_make_set=yes
am_cv_CC_dependencies_compiler_type=gcc3
am_cv_CXX_dependencies_compiler_type=gcc3
am_cv_make_support_nested_variables=yes
am_cv_prog_cc_c_o=yes
lt_cv_ar_at_file=@
lt_cv_archive_cmds_need_lc=no
lt_cv_deplibs_check_method=pass_all
lt_cv_file_magic_cmd='$MAGIC_CMD'
lt_cv_file_magic_test_file=
lt_cv_ld_reload_flag=-r
lt_cv_nm_interface='BSD nm'
lt_cv_objdir=.libs
lt_cv_path_LD=/bin/ld
lt_cv_path_LDCXX='/bin/ld -m elf_x86_64'
lt_cv_path_NM='/bin/nm -B'
lt_cv_path_mainfest_tool=no
lt_cv_prog_compiler_c_o=yes
lt_cv_prog_compiler_c_o_CXX=yes
lt_cv_prog_compiler_c_o_F77=yes
lt_cv_prog_compiler_pic='-fPIC -DPIC'
lt_cv_prog_compiler_pic_CXX='-fPIC -DPIC'
lt_cv_prog_compiler_pic_F77=-fPIC
lt_cv_prog_compiler_pic_works=yes
lt_cv_prog_compiler_pic_works_CXX=yes
lt_cv_prog_compiler_pic_works_F77=yes
lt_cv_prog_compiler_rtti_exceptions=no
lt_cv_prog_compiler_static_works=no
lt_cv_prog_compiler_static_works_CXX=no
lt_cv_prog_compiler_static_works_F77=no
lt_cv_prog_gnu_ld=yes
lt_cv_prog_gnu_ldcxx=yes
lt_cv_sharedlib_from_linklib_cmd='printf %s\n'
lt_cv_shlibpath_overrides_runpath=no
lt_cv_sys_global_symbol_pipe='sed -n -e '\''s/^.*[ ]\([ABCDGIRSTW][ABCDGIRSTW]*\)[ ][ ]*\([_A-Za-z][_A-Za-z0-9]*\)$/\1 \2 \2/p'\'' | sed '\''/ __gnu_lto/d'\'''
lt_cv_sys_global_symbol_to_c_name_address='sed -n -e '\''s/^: \([^ ]*\)[ ]*$/ {\"\1\", (void *) 0},/p'\'' -e '\''s/^[ABCDGIRSTW]* \([^ ]*\) \([^ ]*\)$/ {"\2", (void *) \&\2},/p'\'''
lt_cv_sys_global_symbol_to_c_name_address_lib_prefix='sed -n -e '\''s/^: \([^ ]*\)[ ]*$/ {\"\1\", (void *) 0},/p'\'' -e '\''s/^[ABCDGIRSTW]* \([^ ]*\) \(lib[^ ]*\)$/ {"\2", (void *) \&\2},/p'\'' -e '\''s/^[ABCDGIRSTW]* \([^ ]*\) \([^ ]*\)$/ {"lib\2", (void *) \&\2},/p'\'''
lt_cv_sys_global_symbol_to_cdecl='sed -n -e '\''s/^T .* \(.*\)$/extern int \1();/p'\'' -e '\''s/^[ABCDGIRSTW]* .* \(.*\)$/extern char \1;/p'\'''
lt_cv_sys_max_cmd_len=1572864
lt_cv_to_host_file_cmd=func_convert_file_noop
lt_cv_to_tool_file_cmd=func_convert_file_noop
pkg_cv_DEPS_CFLAGS='-I/usr/local/include '
pkg_cv_DEPS_LIBS='-L/usr/local/lib -lfftw3 -lgeners -lkstest '
## ----------------- ##
## Output variables. ##
## ----------------- ##
ACLOCAL='${SHELL} /home/igv/Hepforge/npstat/trunk/missing aclocal-1.14'
AMDEPBACKSLASH='\'
AMDEP_FALSE='#'
AMDEP_TRUE=''
AMTAR='$${TAR-tar}'
AM_BACKSLASH='\'
AM_DEFAULT_V='$(AM_DEFAULT_VERBOSITY)'
AM_DEFAULT_VERBOSITY='1'
AM_V='$(V)'
AR='ar'
AUTOCONF='${SHELL} /home/igv/Hepforge/npstat/trunk/missing autoconf'
AUTOHEADER='${SHELL} /home/igv/Hepforge/npstat/trunk/missing autoheader'
AUTOMAKE='${SHELL} /home/igv/Hepforge/npstat/trunk/missing automake-1.14'
AWK='gawk'
CC='gcc'
CCDEPMODE='depmode=gcc3'
CFLAGS='-g -O2'
CPP='gcc -E'
CPPFLAGS=''
CXX='g++'
CXXCPP='g++ -E'
CXXDEPMODE='depmode=gcc3'
CXXFLAGS='-std=c++11 -g -O0 -Wall -W -Werror'
CYGPATH_W='echo'
DEFS='-DPACKAGE_NAME=\"npstat\" -DPACKAGE_TARNAME=\"npstat\" -DPACKAGE_VERSION=\"4.1.0\" -DPACKAGE_STRING=\"npstat\ 4.1.0\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"npstat\" -DVERSION=\"4.1.0\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\"'
DEPDIR='.deps'
DEPS_CFLAGS='-I/usr/local/include '
DEPS_LIBS='-L/usr/local/lib -lfftw3 -lgeners -lkstest '
DLLTOOL='false'
DSYMUTIL=''
DUMPBIN=''
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EGREP='/bin/grep -E'
EXEEXT=''
F77='g77'
FFLAGS='-g -O2'
FGREP='/bin/grep -F'
FLIBS=' -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.9.2/../../.. -lgfortran -lm -lquadmath'
GREP='/bin/grep'
INSTALL_DATA='${INSTALL} -m 644'
INSTALL_PROGRAM='${INSTALL}'
INSTALL_SCRIPT='${INSTALL}'
INSTALL_STRIP_PROGRAM='$(install_sh) -c -s'
LD='/bin/ld -m elf_x86_64'
LDFLAGS=''
LIBOBJS=''
LIBS=''
LIBTOOL='$(SHELL) $(top_builddir)/libtool'
LIPO=''
LN_S='ln -s'
LTLIBOBJS=''
MAKEINFO='${SHELL} /home/igv/Hepforge/npstat/trunk/missing makeinfo'
MANIFEST_TOOL=':'
MKDIR_P='/bin/mkdir -p'
NM='/bin/nm -B'
NMEDIT=''
OBJDUMP='objdump'
OBJEXT='o'
OTOOL64=''
OTOOL=''
PACKAGE='npstat'
PACKAGE_BUGREPORT=''
PACKAGE_NAME='npstat'
PACKAGE_STRING='npstat 4.1.0'
PACKAGE_TARNAME='npstat'
PACKAGE_URL=''
PACKAGE_VERSION='4.1.0'
PATH_SEPARATOR=':'
PKG_CONFIG='/bin/pkg-config'
PKG_CONFIG_LIBDIR=''
PKG_CONFIG_PATH='/usr/local/lib/pkgconfig'
RANLIB='ranlib'
SED='/bin/sed'
SET_MAKE=''
SHELL='/bin/sh'
STRIP='strip'
VERSION='4.1.0'
ac_ct_AR='ar'
ac_ct_CC='gcc'
ac_ct_CXX='g++'
ac_ct_DUMPBIN=''
ac_ct_F77='g77'
am__EXEEXT_FALSE=''
am__EXEEXT_TRUE='#'
am__fastdepCC_FALSE='#'
am__fastdepCC_TRUE=''
am__fastdepCXX_FALSE='#'
am__fastdepCXX_TRUE=''
am__include='include'
am__isrc=''
am__leading_dot='.'
am__nodep='_no'
am__quote=''
am__tar='$${TAR-tar} chof - "$$tardir"'
am__untar='$${TAR-tar} xf -'
bindir='${exec_prefix}/bin'
build='x86_64-unknown-linux-gnu'
build_alias=''
build_cpu='x86_64'
build_os='linux-gnu'
build_vendor='unknown'
datadir='${datarootdir}'
datarootdir='${prefix}/share'
docdir='${datarootdir}/doc/${PACKAGE_TARNAME}'
dvidir='${docdir}'
exec_prefix='${prefix}'
host='x86_64-unknown-linux-gnu'
host_alias=''
host_cpu='x86_64'
host_os='linux-gnu'
host_vendor='unknown'
htmldir='${docdir}'
includedir='${prefix}/include'
infodir='${datarootdir}/info'
install_sh='${SHELL} /home/igv/Hepforge/npstat/trunk/install-sh'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
localedir='${datarootdir}/locale'
localstatedir='${prefix}/var'
mandir='${datarootdir}/man'
mkdir_p='$(MKDIR_P)'
oldincludedir='/usr/include'
pdfdir='${docdir}'
prefix='/usr/local'
program_transform_name='s,x,x,'
psdir='${docdir}'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
sysconfdir='${prefix}/etc'
target_alias=''
## ----------- ##
## confdefs.h. ##
## ----------- ##
/* confdefs.h */
#define PACKAGE_NAME "npstat"
#define PACKAGE_TARNAME "npstat"
#define PACKAGE_VERSION "4.1.0"
#define PACKAGE_STRING "npstat 4.1.0"
#define PACKAGE_BUGREPORT ""
#define PACKAGE_URL ""
#define PACKAGE "npstat"
#define VERSION "4.1.0"
#define STDC_HEADERS 1
#define HAVE_SYS_TYPES_H 1
#define HAVE_SYS_STAT_H 1
#define HAVE_STDLIB_H 1
#define HAVE_STRING_H 1
#define HAVE_MEMORY_H 1
#define HAVE_STRINGS_H 1
#define HAVE_INTTYPES_H 1
#define HAVE_STDINT_H 1
#define HAVE_UNISTD_H 1
#define HAVE_DLFCN_H 1
#define LT_OBJDIR ".libs/"
configure: exit 0
Index: trunk/tests/test_Distributions1D.cc
===================================================================
--- trunk/tests/test_Distributions1D.cc (revision 436)
+++ trunk/tests/test_Distributions1D.cc (revision 437)
@@ -1,871 +1,878 @@
#include <complex>
#include <iostream>
#include "UnitTest++.h"
#include "test_utils.hh"
#include "npstat/stat/Distributions1D.hh"
#include "npstat/stat/GaussianMixture1D.hh"
#include "npstat/stat/JohnsonCurves.hh"
#include "npstat/stat/TruncatedDistribution1D.hh"
#include "npstat/stat/LeftCensoredDistribution.hh"
#include "npstat/stat/RightCensoredDistribution.hh"
#include "npstat/stat/QuantileTable1D.hh"
#include "npstat/stat/DistributionMix1D.hh"
#include "npstat/stat/VerticallyInterpolatedDistribution1D.hh"
#include "npstat/stat/UGaussConvolution1D.hh"
#include "npstat/stat/RatioOfNormals.hh"
#include "npstat/stat/InterpolatedDistro1D1P.hh"
#include "npstat/stat/TransformedDistribution1D.hh"
#include "npstat/stat/distro1DStats.hh"
#include "npstat/stat/IdentityTransform1D.hh"
#include "npstat/stat/AsinhTransform1D.hh"
#include "npstat/stat/LogRatioTransform1D.hh"
#include "npstat/stat/LocationScaleTransform1.hh"
#include "npstat/stat/Distribution1DReader.hh"
#include "npstat/stat/DistributionTransform1DReader.hh"
#include "npstat/stat/arrayStats.hh"
#include "npstat/nm/EquidistantSequence.hh"
#include "npstat/nm/LinearMapper1d.hh"
#include "LogLogQuadratic1D.hh"
#include "geners/pseudoIO.hh"
using namespace npstat;
using namespace std;
struct Two : public npstat::ConstValue1<double,double>
{
inline Two() : npstat::ConstValue1<double,double>(2.0) {}
};
gs_enable_pseudo_io(Two)
struct Three : public npstat::ConstValue1<double,double>
{
inline Three() : npstat::ConstValue1<double,double>(3.0) {}
};
gs_enable_pseudo_io(Three)
struct Xsq
{
inline double operator()(const double x) const {return x*x;}
inline bool operator==(const Xsq&) const {return true;}
};
gs_enable_pseudo_io(Xsq)
struct Xp1
{
inline double operator()(const double x) const {return x + 1.0;}
inline bool operator==(const Xp1&) const {return true;}
};
gs_enable_pseudo_io(Xp1)
namespace {
void io_test(const AbsDistribution1D& d)
{
std::ostringstream os;
CHECK(d.classId().write(os));
CHECK(d.write(os));
std::istringstream is(os.str());
gs::ClassId id(is, 1);
AbsDistribution1D* phoenix = AbsDistribution1D::read(id, is);
CHECK(*phoenix == d);
delete phoenix;
}
void standard_test(const AbsDistribution1D& d, const double range,
const double eps, const bool do_io = true)
{
const double cdf0 = d.cdf(0.0);
for (unsigned i=0; i<100; ++i)
{
const double r = 2*range*(test_rng() - 0.5);
const double cdfr = d.cdf(r);
if (cdfr > 0.0 && cdfr < 1.0)
{
CHECK_CLOSE(cdfr, 1.0 - d.exceedance(r), eps);
CHECK_CLOSE(r, d.quantile(cdfr), eps);
const double integ = simpson_integral(
DensityFunctor1D(d), 0.0, r);
CHECK_CLOSE(integ, cdfr-cdf0, eps);
}
}
if (do_io)
io_test(d);
}
void invcdf_test(const AbsDistribution1D& d, const double eps)
{
for (unsigned i=0; i<1000; ++i)
{
const double r = test_rng();
const double x = d.quantile(r);
const double cdf = d.cdf(x);
CHECK_CLOSE(cdf, r, eps);
CHECK_CLOSE(cdf, 1.0 - d.exceedance(x), eps);
}
}
TEST(Distributions1D_Gauss)
{
Gauss1D g(0., 1.);
double value = simpson_integral(DensityFunctor1D(g), -6, 6);
CHECK_CLOSE(1.0, value, 1.e-8);
standard_test(g, 6, 1.e-7);
CHECK_CLOSE(7.61985302416e-24, g.cdf(-10.0), 1.e-34);
CHECK_CLOSE(7.61985302416e-24, g.exceedance(10.0), 1.e-34);
CHECK_CLOSE(2.75362411861e-89, g.cdf(-20.0), 1.e-99);
CHECK_CLOSE(2.75362411861e-89, g.exceedance(20.0), 1.e-99);
}
TEST(Distributions1D_Bifgauss_0)
{
const double lfrac = 0.3;
const double lsigma = lfrac*2.0;
const double rsigma = 2.0 - lsigma;
BifurcatedGauss1D g(0.0, 1.0, lfrac, 2.0, 1.5);
double value = simpson_integral(DensityFunctor1D(g),
-lsigma*g.nSigmasLeft(),
rsigma*g.nSigmasRight());
CHECK_CLOSE(1.0, value, 1.e-8);
standard_test(g, lsigma*g.nSigmasLeft(), 1.e-7);
}
TEST(Distributions1D_Bifgauss_1)
{
const double eps = 1.0e-12;
BifurcatedGauss1D g1(0.0, 2.0, 0.5, 2.0, 2.0);
TruncatedGauss1D g2(0.0, 2.0, 2.0);
for (unsigned i=0; i<100; ++i)
{
const double r = test_rng();
const double q1 = g1.quantile(r);
const double q2 = g2.quantile(r);
CHECK_CLOSE(q1, q2, eps);
CHECK_CLOSE(g1.density(q1), g2.density(q1), eps);
CHECK_CLOSE(g1.cdf(q1), g2.cdf(q1), eps);
CHECK_CLOSE(g1.exceedance(q1), g2.exceedance(q1), eps);
}
}
TEST(Distributions1D_Bifgauss_2)
{
BifurcatedGauss1D g(0.0, 1.0, 0.0, 2.0, 2.0);
double value = simpson_integral(DensityFunctor1D(g), 0.0, 4.0);
CHECK_CLOSE(1.0, value, 1.e-8);
standard_test(g, 4.0, 1.e-7);
}
TEST(Distributions1D_Bifgauss_3)
{
BifurcatedGauss1D g(0.0, 1.0, 1.0, 2.0, 2.0);
double value = simpson_integral(DensityFunctor1D(g), -4.0, 0.0);
CHECK_CLOSE(1.0, value, 1.e-8);
standard_test(g, 4.0, 1.e-7);
IdentityTransform1D it(5.0);
TransformedDistribution1D td(it, g);
value = simpson_integral(DensityFunctor1D(td), -4.0, 0.0);
CHECK_CLOSE(1.0, value, 1.e-8);
standard_test(td, 4.0, 1.e-7);
}
TEST(Distributions1D_uniform)
{
Uniform1D g(0., 1.);
double value = simpson_integral(DensityFunctor1D(g), -0.1, 1.1);
CHECK_CLOSE(1.0, value, 1.e-3);
standard_test(g, 1, 1.e-7);
}
TEST(Distributions1D_exp)
{
Exponential1D g(0., 1.);
standard_test(g, 20.0, 1.e-7);
g.setScale(3.);
standard_test(g, 60.0, 1.e-7);
}
TEST(Distributions1D_Pareto)
{
Pareto1D p1(0., 1., 1.5);
double value = simpson_integral(DensityFunctor1D(p1), 1, 6);
CHECK_CLOSE(0.93195861825602283, value, 1.e-8);
invcdf_test(p1, 1.e-10);
io_test(p1);
}
TEST(Distributions1D_MirroredGauss)
{
{
MirroredGauss1D g(0., 1., 0.3, 0.1);
const double value = simpson_integral(DensityFunctor1D(g), 0, 1);
CHECK_CLOSE(1.0, value, 1.e-12);
invcdf_test(g, 1.e-10);
io_test(g);
for (unsigned i=0; i<100; ++i)
{
const double y = test_rng();
const double cdfy = simpson_integral(DensityFunctor1D(g), 0, y);
CHECK_CLOSE(cdfy, g.cdf(y), 1.0e-10);
}
}
{
MirroredGauss1D g(0., 2., 0.7, 0.1);
const double value = simpson_integral(DensityFunctor1D(g), 0, 2);
CHECK_CLOSE(1.0, value, 1.e-12);
invcdf_test(g, 1.e-10);
io_test(g);
for (unsigned i=0; i<100; ++i)
{
const double y = 2.0*test_rng();
const double cdfy = simpson_integral(DensityFunctor1D(g), 0, y);
CHECK_CLOSE(cdfy, g.cdf(y), 1.0e-10);
}
}
}
TEST(Distributions1D_Huber)
{
Huber1D h1(0., 1., 0.0);
double value = simpson_integral(DensityFunctor1D(h1), -6, 6);
CHECK_CLOSE(1.0, value, 1.e-8);
standard_test(h1, 6, 1.e-7);
double tailW = 0.2;
double sigma = 0.8;
Huber1D h2(0., sigma, tailW);
CHECK_EQUAL(tailW, h2.tailWeight());
value = simpson_integral(DensityFunctor1D(h2), -20, 20, 10000);
CHECK_CLOSE(1.0, value, 1.e-8);
standard_test(h2, 6, 1.e-7);
const double a = sigma*h2.tailStart();
value = simpson_integral(DensityFunctor1D(h2), -a, a, 10000);
CHECK_CLOSE(1.0-tailW, value, 1.e-8);
for (unsigned i=0; i<1000; ++i)
{
const double rndx = 6*a*(test_rng() - 0.5);
const double cdf = h2.cdf(rndx);
value = simpson_integral(DensityFunctor1D(h2), -20, rndx, 10000);
CHECK_CLOSE(cdf, value, 1.e-8);
CHECK_CLOSE(h2.quantile(cdf), rndx, 1.e-8);
}
}
TEST(Distributions1D_Symbeta)
{
SymmetricBeta1D sb(0.0, 1.0, 3);
double value = simpson_integral(DensityFunctor1D(sb), -1, 1);
CHECK_CLOSE(1.0, value, 1.e-8);
for (unsigned i=0; i<10; ++i)
{
SymmetricBeta1D sb(0.0, 2.0, i);
standard_test(sb, 1.8, 1.e-8);
}
}
TEST(Distributions1D_Moyal)
{
Moyal1D mo(0.0, 1.0);
double value = simpson_integral(DensityFunctor1D(mo), -7, 1000, 100000);
CHECK_CLOSE(1.0, value, 1.e-9);
CHECK_CLOSE(0.24197072451914335, mo.density(0.0), 1.0e-14);
CHECK_CLOSE(0.20131624406488799, mo.density(1.0), 1.0e-14);
CHECK_CLOSE(0.31731050786291410, mo.cdf(0.0), 1.0e-12);
CHECK_CLOSE(0.54416242936230305, mo.cdf(1.0), 1.0e-12);
invcdf_test(mo, 1.e-8);
io_test(mo);
}
TEST(Distributions1D_StudentsT1D)
{
for (unsigned i=1; i<10; ++i)
{
StudentsT1D t(0.0, 1.0, i);
invcdf_test(t, 1.e-8);
}
}
TEST(Distributions1D_beta)
{
Beta1D b(0.0, 1.0, 3.0, 4.0);
double value = simpson_integral(DensityFunctor1D(b), 0, 1);
CHECK_CLOSE(1.0, value, 1.e-8);
for (unsigned i=1; i<5; ++i)
for (unsigned j=1; j<5; ++j)
{
Beta1D sb(0.5, 2.0, i, j);
standard_test(sb, 0.9, 1.e-3);
}
}
TEST(Distributions1D_gamma)
{
Gamma1D g1(0., 0.8, 1.0);
standard_test(g1, 20.0, 5.e-3);
Gamma1D g2(0., 0.9, 2.0);
standard_test(g2, 20.0, 2.e-5);
Gamma1D g3(0., 1.1, 3.0);
standard_test(g3, 20.0, 2.e-5);
}
TEST(UGaussConvolution1D)
{
UGaussConvolution1D ug(0, 1, -1, 1);
standard_test(ug, 6.0, 1.0e-6);
}
TEST(Distributions1D_Transformed)
{
StaticDistributionTransform1DReader::registerClass<
LocationScaleTransform1<Two,Three> >();
const double teps = 1.0e-12;
Two two;
Three three;
LocationScaleTransform1<Two,Three> tr(two, three);
Gauss1D g(0.0, 1.0);
TransformedDistribution1D d1(tr, g);
io_test(d1);
Gauss1D g1(2.0, 3.0);
for (unsigned i=0; i<100; ++i)
{
const double x = 10.0*(test_rng() - 0.5);
CHECK_CLOSE(g1.density(x), d1.density(x), teps);
CHECK_CLOSE(g1.cdf(x), d1.cdf(x), teps);
CHECK_CLOSE(g1.exceedance(x), d1.exceedance(x), teps);
const double y = test_rng();
CHECK_CLOSE(g1.quantile(y), d1.quantile(y), teps);
}
}
TEST(Distributions1D_JohnsonSu)
{
const double teps = 1.0e-12;
JohnsonSu jsu1(0.0, 1.0, 1.0, 10.0);
standard_test(jsu1, 6, 1.e-8);
AsinhTransform1D tr1(jsu1.getDelta(), jsu1.getLambda(),
jsu1.getGamma(), jsu1.getXi());
Gauss1D g(0.0, 1.0);
TransformedDistribution1D d1(tr1, g);
standard_test(d1, 6, 1.e-8);
for (unsigned i=0; i<100; ++i)
{
const double x = 10.0*(test_rng() - 0.5);
CHECK_CLOSE(jsu1.density(x), d1.density(x), teps);
CHECK_CLOSE(jsu1.cdf(x), d1.cdf(x), teps);
CHECK_CLOSE(jsu1.exceedance(x), d1.exceedance(x), teps);
const double y = test_rng();
CHECK_CLOSE(jsu1.quantile(y), d1.quantile(y), teps);
}
- JohnsonSu jsu2(0.0, 1.0, -1.0, 10.0);
+ JohnsonSu jsu2(0.1, 1.0, -1.0, 10.0);
standard_test(jsu2, 6, 1.e-8);
AsinhTransform1D tr2(jsu2.getDelta(), jsu2.getLambda(),
jsu2.getGamma(), jsu2.getXi());
TransformedDistribution1D d2(tr2, g);
- standard_test(d2, 6, 1.e-8);
+ standard_test(d2, 6, 1.e-8);
+
+ double mean, sigma, skew, kurt;
+ distro1DStats(jsu2, -30.0, 20.0, 500000, &mean, &sigma, &skew, &kurt);
+ CHECK_CLOSE(0.1, mean, 1.0e-5);
+ CHECK_CLOSE(1.0, sigma, 1.0e-4);
+ CHECK_CLOSE(-1.0, skew, 0.01);
+ CHECK_CLOSE(10.0, kurt, 0.2);
}
TEST(Distributions1D_JohnsonSb)
{
const double teps = 1.0e-12;
JohnsonSb jsb1(0.0, 1.0, 1.0, 2.9);
LogRatioTransform1D tr1(jsb1.getDelta(), jsb1.getLambda(),
jsb1.getGamma(), jsb1.getXi());
Gauss1D g(0.0, 1.0);
TransformedDistribution1D d1(tr1, g);
const double lolim = jsb1.getXi();
const double range = jsb1.getLambda();
for (unsigned i=0; i<100; ++i)
{
const double x = lolim + range*test_rng();
CHECK_CLOSE(jsb1.density(x), d1.density(x), teps);
CHECK_CLOSE(jsb1.cdf(x), d1.cdf(x), teps);
CHECK_CLOSE(jsb1.exceedance(x), d1.exceedance(x), teps);
const double y = test_rng();
CHECK_CLOSE(jsb1.quantile(y), d1.quantile(y), teps);
}
}
TEST(Distributions1D_LogNormal0)
{
LogNormal g(0., 1., 0.);
double value = simpson_integral(DensityFunctor1D(g), -6, 6);
CHECK_CLOSE(1.0, value, 1.e-8);
standard_test(g, 6, 1.e-6);
}
TEST(Distributions1D_LogNormal1)
{
LogNormal ln1(0., 1., 2.0);
double value = simpson_integral(DensityFunctor1D(ln1), -6, 20);
CHECK_CLOSE(1.0, value, 1.e-6);
standard_test(ln1, 7, 2.e-4);
}
TEST(Distributions1D_LogNormal2)
{
LogNormal ln2(0., 1., -2.0);
double value = simpson_integral(DensityFunctor1D(ln2), -20, 6);
CHECK_CLOSE(1.0, value, 1.e-6);
standard_test(ln2, 7, 4.e-4);
}
TEST(Distributions1D_LogNormal3)
{
LogNormal ln3(-0.5, 1., 2.0);
standard_test(ln3, 7, 1.e-3);
}
TEST(Distributions1D_LogNormal4)
{
LogNormal ln4(-0.5, 1., -2.0);
standard_test(ln4, 7, 1.e-3);
}
TEST(Distributions1D_LogNormal5)
{
LogNormal ln5(0.5, 2., 2.0);
standard_test(ln5, 7, 1.e-3);
}
TEST(Distributions1D_LogNormal6)
{
LogNormal ln6(0.5, 2., -2.0);
standard_test(ln6, 7, 1.e-3);
}
TEST(Distributions1D_LogNormal7)
{
LogNormal ln7(1., 2., 10.0);
standard_test(ln7, 7, 1.e-3);
}
TEST(Distributions1D_LogNormal8)
{
LogNormal ln8(1., 2., -10.0);
standard_test(ln8, 7, 1.e-3);
}
TEST(Distributions1D_misc)
{
Cauchy1D ch(0.0, 0.5);
standard_test(ch, 5, 1.e-8);
TruncatedGauss1D tg(0.0, 2.0, 3.0);
standard_test(tg, 6.0, 1.e-8);
Gauss1D gauss(0.0, 2.0);
TruncatedDistribution1D td(gauss, -6.0, 6.0);
standard_test(td, 6.0, 1.e-8);
CHECK_CLOSE(td.density(0.5), tg.density(0.5), 1.0e-14);
CHECK_CLOSE(td.cdf(0.5), tg.cdf(0.5), 1.0e-14);
CHECK_CLOSE(td.quantile(0.3), tg.quantile(0.3), 1.0e-14);
CHECK_CLOSE(td.exceedance(0.3), tg.exceedance(0.3), 1.0e-14);
}
TEST(Tabulated1D)
{
const double data[] = {0, 1, 2, 3, 3, 0};
const double location = 1.7;
const double width = 5.9;
for (unsigned deg = 0; deg<4; ++deg)
{
Tabulated1D t1(location, width,
data, sizeof(data)/sizeof(data[0]), deg);
invcdf_test(t1, 1.e-8);
double in = simpson_integral(DensityFunctor1D(t1), location,
location+width);
CHECK_CLOSE(1.0, in, 1.e-8);
}
}
TEST(QuantileTable1D)
{
const double data[] = {0.2, 0.25, 0.4, 0.5, 0.55};
const double location = 1.0;
const double width = 2.5;
QuantileTable1D qt(location, width, data, sizeof(data)/sizeof(data[0]));
invcdf_test(qt, 1.e-12);
standard_test(qt, 3.5, 5.0e-3);
}
TEST(BinnedDensity1D_1)
{
const double data[] = {0, 1, 3, 3, 3, 0, 8};
const double location = 1.7;
const double width = 5.9;
for (unsigned deg = 0; deg<2; ++deg)
{
BinnedDensity1D t1(location, width,
data, sizeof(data)/sizeof(data[0]), deg);
invcdf_test(t1, 1.e-8);
double in = simpson_integral(DensityFunctor1D(t1), location,
location+width);
CHECK_CLOSE(1.0, in, 1.e-3);
}
}
TEST(BinnedDensity1D_2)
{
const double data[] = {0, 0, 1, 11, 3, 7, 0, 8, 0, 0};
const double location = 0.0;
const double width = 1.0;
const unsigned nquant = 1000;
EquidistantInLinearSpace qs(0.0, 1.0, nquant);
std::vector<double> quantiles(nquant);
arrayQuantiles1D(data, sizeof(data)/sizeof(data[0]), 0.0, 1.0,
&qs[0], &quantiles[0], nquant);
BinnedDensity1D t1(location, width,
data, sizeof(data)/sizeof(data[0]), 0);
for (unsigned i=0; i<nquant; ++i)
CHECK_CLOSE(quantiles[i], t1.quantile(qs[i]), 1.0e-14);
}
TEST(Quadratic1D_1)
{
Quadratic1D q1(-1.0, 2.0, 0.5, 0.0);
standard_test(q1, 1.0, 1.e-10);
invcdf_test(q1, 1.e-12);
}
TEST(Quadratic1D_2)
{
Quadratic1D q1(-1.0, 2.0, 0.5, 0.2);
standard_test(q1, 1.0, 1.e-10);
invcdf_test(q1, 1.e-12);
}
TEST(LogQuadratic1D_1)
{
LogQuadratic1D q1(-1.0, 2.0, 0.5, 1.0);
standard_test(q1, 1.0, 1.e-10);
invcdf_test(q1, 1.e-14);
}
TEST(LogQuadratic1D_2)
{
LogQuadratic1D q1(-1.0, 2.0, 0.5, -1.0);
standard_test(q1, 1.0, 1.e-10);
invcdf_test(q1, 1.e-14);
}
TEST(LogQuadratic1D_3)
{
LogQuadratic1D q1(-1.0, 2.0, 0.5, 0.0);
standard_test(q1, 1.0, 1.e-10);
invcdf_test(q1, 1.e-14);
}
TEST(LogQuadratic1D_4)
{
LogQuadratic1D q1(-1.0, 2.0, -0.5, 0.0);
standard_test(q1, 1.0, 1.e-10);
invcdf_test(q1, 1.e-14);
}
TEST(LogQuadratic1D_5)
{
LogQuadratic1D q1(-1.0, 2.0, 0.0, -10.0);
standard_test(q1, 1.0, 1.e-10);
invcdf_test(q1, 1.e-14);
}
TEST(LogQuadratic1D_6)
{
LogQuadratic1D q1(-1.0, 2.0, 0.0, 10.0);
standard_test(q1, 1.0, 1.e-9);
invcdf_test(q1, 1.e-14);
}
TEST(LogLogQuadratic1D_1)
{
StaticDistribution1DReader::registerClass<LogLogQuadratic1D>();
LogLogQuadratic1D q1(1.0, 10.0, 0.5, 1.0);
standard_test(q1, 1.0, 1.e-9);
invcdf_test(q1, 1.e-14);
}
TEST(GaussianMixture1D_1)
{
std::vector<GaussianMixtureEntry> entries;
entries.push_back(GaussianMixtureEntry(3, 0, 1));
GaussianMixture1D g(0, 1, &entries[0], entries.size());
double value = simpson_integral(DensityFunctor1D(g), -6, 6);
CHECK_CLOSE(1.0, value, 1.e-8);
standard_test(g, 6, 1.e-7);
Gauss1D g2(0, 1);
DistributionMix1D mix;
mix.add(g2, 3.0);
value = simpson_integral(DensityFunctor1D(mix), -6, 6);
CHECK_CLOSE(1.0, value, 1.e-8);
standard_test(mix, 6, 1.e-7);
VerticallyInterpolatedDistribution1D shmix(1U);
shmix.add(g2, 3.0);
value = simpson_integral(DensityFunctor1D(shmix), -6, 6);
CHECK_CLOSE(1.0, value, 1.e-8);
standard_test(shmix, 6, 1.e-7, false);
for (unsigned i=0; i<100; ++i)
{
const double r = test_rng();
CHECK_CLOSE(shmix.quantile(r), mix.quantile(r), 1.e-15);
}
}
TEST(GaussianMixture1D_2)
{
for (unsigned i=0; i<100; ++i)
{
Gauss1D g(test_rng(), 0.1+test_rng());
GaussianMixture1D mix(g);
for (unsigned j=0; j<100; ++j)
{
const double x = -3 + 6*test_rng();
CHECK_CLOSE(g.density(x), mix.density(x), 1.0e-15);
CHECK_CLOSE(g.cdf(x), mix.cdf(x), 1.0e-15);
}
}
}
TEST(DistributionMix1D_2)
{
for (unsigned i=0; i<100; ++i)
{
Gauss1D g(test_rng(), 0.1+test_rng());
DistributionMix1D mix;
VerticallyInterpolatedDistribution1D shmix;
mix.add(g, 1);
shmix.add(g, 1);
for (unsigned j=0; j<100; ++j)
{
const double x = -3 + 6*test_rng();
CHECK_CLOSE(g.density(x), mix.density(x), 1.0e-15);
CHECK_CLOSE(g.cdf(x), mix.cdf(x), 1.0e-15);
CHECK_CLOSE(g.density(x), shmix.density(x), 1.0e-15);
CHECK_CLOSE(g.cdf(x), shmix.cdf(x), 1.0e-15);
}
}
}
TEST(GaussianMixture1D_3)
{
std::vector<GaussianMixtureEntry> entries;
entries.push_back(GaussianMixtureEntry(3, 0, 1));
entries.push_back(GaussianMixtureEntry(2, -0.5, 1.5));
entries.push_back(GaussianMixtureEntry(1, 0.5, 0.5));
GaussianMixture1D g(0, 1, &entries[0], entries.size());
double value = simpson_integral(DensityFunctor1D(g), -8, 8);
CHECK_CLOSE(1.0, value, 1.e-7);
standard_test(g, 4, 1.e-7);
}
TEST(DistributionMix1D_3)
{
DistributionMix1D mix;
VerticallyInterpolatedDistribution1D shmix(3);
Gauss1D g1(0, 1), g2(-0.5, 1.5), g3(0.5, 0.5);
mix.add(g1, 3);
mix.add(g2, 2);
mix.add(g3, 1);
shmix.add(g1, 3);
shmix.add(g2, 2);
shmix.add(g3, 1);
double value = simpson_integral(DensityFunctor1D(mix), -8, 8);
CHECK_CLOSE(1.0, value, 1.e-7);
value = simpson_integral(DensityFunctor1D(shmix), -8, 8);
CHECK_CLOSE(1.0, value, 1.e-7);
standard_test(mix, 4, 1.e-7);
standard_test(shmix, 4, 1.e-7, false);
}
TEST(GaussianMixture1D_4)
{
const double m0 = 1.3;
const double s0 = 3/2.0;
std::vector<GaussianMixtureEntry> entries;
entries.push_back(GaussianMixtureEntry(3, 0, 1));
entries.push_back(GaussianMixtureEntry(2, -0.5, 1.5));
entries.push_back(GaussianMixtureEntry(1, 0.5, 0.5));
GaussianMixture1D g(m0, s0, &entries[0], entries.size());
// G[x_, m_, s_] := 1/Sqrt[2 Pi]/s Exp[-(x - m)^2/s^2/2]
// w1 = 3/6; m1 = 0; s1 = 1
// w2 = 2/6; m2 = -1/2; s2 = 3/2
// w3 = 1/6; m3 = 1/2; s3 = 1/2
// m0 = 1 + 3/10
// s0 = 3/2
// f = (w1*G[(x-m0)/s0,m1,s1]+w2*G[(x-m0)/s0,m2,s2]+w3*G[(x-m0)/s0,m3,s3])/s0
// mean = Integrate[x f, {x, -Infinity, Infinity}]
// stdev = Sqrt[Integrate[(x - mean)^2 f, {x, -Infinity, Infinity}]]
// q0 = Integrate[f, {x, -Infinity, 5/2}]
// N[q0, 20]
const double expmean = 47.0/40;
const double expstdev = sqrt(203.0)/8.0;
const double expcdf = 0.78400933536932041748;
CHECK_CLOSE(expmean, g.mean(), 1.0e-15);
CHECK_CLOSE(expstdev, g.stdev(), 1.0e-15);
CHECK_CLOSE(expcdf, g.cdf(2.5), 1.0e-15);
CHECK_CLOSE(2.5, g.quantile(expcdf), 1.0e-12);
}
TEST(LeftCensoredDistribution)
{
const double cutoff = 0.1234;
const double eps = 1.0e-9;
const double infty = -100.0;
Gauss1D gauss(0.0, 1.0);
TruncatedDistribution1D td(gauss, cutoff, 100.0);
const double frac = gauss.exceedance(cutoff);
LeftCensoredDistribution lc(td, frac, infty);
CHECK_CLOSE(lc.cdf(cutoff-1.0), 1.0-frac, eps);
CHECK_CLOSE(lc.exceedance(cutoff-1.0), frac, eps);
CHECK_EQUAL(lc.cdf(infty-10.0), 0.0);
CHECK_EQUAL(lc.exceedance(infty-10.0), 1.0);
for (unsigned i=0; i<1000; ++i)
{
const double r = cutoff + test_rng()*5.0;
CHECK_CLOSE(gauss.density(r), lc.density(r), eps);
CHECK_CLOSE(gauss.exceedance(r), lc.exceedance(r), eps);
CHECK_CLOSE(gauss.cdf(r), lc.cdf(r), eps);
CHECK_CLOSE(lc.quantile(lc.cdf(r)), r, eps);
}
io_test(lc);
}
TEST(RightCensoredDistribution)
{
const double cutoff = 0.1234;
const double eps = 1.0e-10;
const double infty = 100.0;
Gauss1D gauss(0.0, 1.0);
TruncatedDistribution1D td(gauss, -100.0, cutoff);
const double frac = gauss.cdf(cutoff);
RightCensoredDistribution rc(td, frac, infty);
CHECK_CLOSE(rc.cdf(cutoff+1.0), frac, eps);
CHECK_CLOSE(rc.exceedance(cutoff+1.0), 1.0-frac, eps);
CHECK_EQUAL(rc.cdf(infty+10.0), 1.0);
CHECK_EQUAL(rc.exceedance(infty+10.0), 0.0);
for (unsigned i=0; i<1000; ++i)
{
const double r = cutoff - test_rng()*5.0;
CHECK_CLOSE(gauss.density(r), rc.density(r), eps);
CHECK_CLOSE(gauss.exceedance(r), rc.exceedance(r), eps);
CHECK_CLOSE(gauss.cdf(r), rc.cdf(r), eps);
CHECK_CLOSE(rc.quantile(rc.cdf(r)), r, eps);
}
io_test(rc);
}
TEST(RatioOfNormals)
{
RatioOfNormals r1(-2.0, 1.0, 0.5, 1.0, 0.7);
standard_test(r1, 10, 1.e-8);
}
TEST(InterpolatedDistro1D1P)
{
const double eps = 1.0e-8;
const double gridPoints[] = {1.0, 2.0};
double param = 1.3;
const unsigned nGridPoints = sizeof(gridPoints)/sizeof(gridPoints[0]);
GridAxis ax(std::vector<double>(gridPoints, gridPoints+nGridPoints));
std::vector<CPP11_shared_ptr<const AbsDistribution1D> > distros;
distros.push_back(CPP11_shared_ptr<const AbsDistribution1D>(new Gauss1D(1.0, 2.0)));
distros.push_back(CPP11_shared_ptr<const AbsDistribution1D>(new Gauss1D(-1.0, 1.0)));
InterpolatedDistro1D1P idist(ax, distros, param);
standard_test(idist, 10.0, 1.e-7);
LinearMapper1d meanmap(gridPoints[0], 1.0, gridPoints[1], -1.0);
LinearMapper1d sigmap(gridPoints[0], 2.0, gridPoints[1], 1.0);
for (unsigned i=0; i<100; ++i)
{
param = 1.0 + test_rng();
idist.setParameter(param);
Gauss1D g(meanmap(param), sigmap(param));
const double r = test_rng();
const double x = g.quantile(r);
CHECK_CLOSE(x, idist.quantile(r), eps);
CHECK_CLOSE(g.density(x), idist.density(x), eps);
CHECK_CLOSE(g.cdf(x), idist.cdf(x), eps);
}
}
TEST(distro1DStats_1)
{
const double eps = 1.0e-7;
for (unsigned i=0; i<100; ++i)
{
const double mean = test_rng();
const double sigma = 0.5 + test_rng();
double m, s, skew, kurt;
distro1DStats(Gauss1D(mean, sigma), -10., 11., 100000,
&m, &s, &skew, &kurt);
CHECK_CLOSE(mean, m, eps);
CHECK_CLOSE(sigma, s, eps);
CHECK_CLOSE(0.0, skew, eps);
CHECK_CLOSE(3.0, kurt, eps);
}
}
}
Index: trunk/autom4te.cache/requests
===================================================================
--- trunk/autom4te.cache/requests (revision 436)
+++ trunk/autom4te.cache/requests (revision 437)
@@ -1,2618 +1,2618 @@
# This file was generated.
# It contains the lists of macros which have been traced.
# It can be safely removed.
@request = (
bless( [
'0',
1,
[
'/usr/share/autoconf'
],
[
'/usr/share/autoconf/autoconf/autoconf.m4f',
'/usr/share/aclocal/libtool.m4',
'/usr/share/aclocal/pkg.m4',
'/usr/share/aclocal-1.9/amversion.m4',
'/usr/share/aclocal-1.9/auxdir.m4',
'/usr/share/aclocal-1.9/cond.m4',
'/usr/share/aclocal-1.9/depend.m4',
'/usr/share/aclocal-1.9/depout.m4',
'/usr/share/aclocal-1.9/init.m4',
'/usr/share/aclocal-1.9/install-sh.m4',
'/usr/share/aclocal-1.9/lead-dot.m4',
'/usr/share/aclocal-1.9/make.m4',
'/usr/share/aclocal-1.9/missing.m4',
'/usr/share/aclocal-1.9/mkdirp.m4',
'/usr/share/aclocal-1.9/options.m4',
'/usr/share/aclocal-1.9/runlog.m4',
'/usr/share/aclocal-1.9/sanity.m4',
'/usr/share/aclocal-1.9/strip.m4',
'/usr/share/aclocal-1.9/tar.m4',
'configure.ac'
],
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+ 'AM_MISSING_PROG' => 1,
+ '_LT_CC_BASENAME' => 1,
+ 'm4_pattern_forbid' => 1,
+ '_LT_PROG_ECHO_BACKSLASH' => 1,
+ 'AC_LTDL_ENABLE_INSTALL' => 1,
+ 'm4_pattern_allow' => 1,
+ '_LT_AC_PROG_ECHO_BACKSLASH' => 1,
+ 'AC_PROG_LD' => 1,
+ 'AC_LIBTOOL_LANG_F77_CONFIG' => 1,
+ 'AC_LIBTOOL_COMPILER_OPTION' => 1,
+ '_AM_AUTOCONF_VERSION' => 1,
+ 'AC_LIBTOOL_LANG_C_CONFIG' => 1,
+ 'PKG_NOARCH_INSTALLDIR' => 1,
+ 'LT_SYS_DLOPEN_SELF' => 1,
+ 'AC_DISABLE_STATIC' => 1,
+ 'AC_LIBLTDL_CONVENIENCE' => 1,
+ '_LT_AC_TRY_DLOPEN_SELF' => 1,
+ 'AM_OUTPUT_DEPENDENCY_COMMANDS' => 1,
+ 'AC_PROG_LIBTOOL' => 1,
+ 'AC_LTDL_PREOPEN' => 1,
+ 'AC_LTDL_SYMBOL_USCORE' => 1,
+ 'LT_FUNC_DLSYM_USCORE' => 1,
'AC_LIBTOOL_PROG_CC_C_O' => 1,
- 'LT_AC_PROG_SED' => 1,
- 'LTSUGAR_VERSION' => 1,
+ '_LT_AC_SHELL_INIT' => 1,
+ 'AC_CONFIG_MACRO_DIR_TRACE' => 1,
+ 'LT_SUPPORTED_TAG' => 1,
+ 'AC_CHECK_LIBM' => 1,
'_LT_AC_LANG_F77' => 1,
- 'AC_PATH_MAGIC' => 1,
- '_AM_CONFIG_MACRO_DIRS' => 1,
+ 'LTOPTIONS_VERSION' => 1,
+ 'AM_AUTOMAKE_VERSION' => 1,
+ 'PKG_CHECK_EXISTS' => 1,
+ 'LT_PROG_RC' => 1,
+ 'AM_RUN_LOG' => 1,
+ '_m4_warn' => 1,
'LT_OUTPUT' => 1,
- '_LT_AC_TAGCONFIG' => 1,
- 'AC_LIBTOOL_PROG_COMPILER_NO_RTTI' => 1,
- '_LT_AC_LANG_RC_CONFIG' => 1,
- 'AC_CHECK_LIBM' => 1,
- '_LT_PREPARE_SED_QUOTE_VARS' => 1,
- 'AC_LIBTOOL_LANG_CXX_CONFIG' => 1,
- 'AM_SUBST_NOTMAKE' => 1,
- '_AM_DEPENDENCIES' => 1,
- 'AC_CONFIG_MACRO_DIR_TRACE' => 1,
- '_LT_AC_TAGVAR' => 1,
- 'LT_PROG_RC' => 1
+ 'AC_PROG_LD_GNU' => 1,
+ 'AC_LIBTOOL_SYS_MAX_CMD_LEN' => 1
}
], 'Autom4te::Request' )
);
Index: trunk/npstat/stat/WeightedDistro1D.hh
===================================================================
--- trunk/npstat/stat/WeightedDistro1D.hh (revision 436)
+++ trunk/npstat/stat/WeightedDistro1D.hh (revision 437)
@@ -1,39 +0,0 @@
-#ifndef NPSTAT_WEIGHTEDDISTRO1D_HH_
-#define NPSTAT_WEIGHTEDDISTRO1D_HH_
-
-//======================================================================
-// WeightedDistro1D.hh
-//
-// This is an internal header which is subject to change without notice.
-// Application code should never use the classes declared/defined in
-// this header directly.
-//
-// Author: I. Volobouev
-//
-// June 2015
-//======================================================================
-
-#include "npstat/stat/AbsDistribution1D.hh"
-
-namespace npstat {
- namespace Private {
- struct WeightedDistro1D
- {
- inline WeightedDistro1D(const AbsDistribution1D& id, const double iw)
- : d(&id), w(iw) {}
-
- const AbsDistribution1D* d;
- double w;
-
- inline bool operator==(const WeightedDistro1D& r) const
- {return *d == *r.d && w == r.w;}
- inline bool operator!=(const WeightedDistro1D& r) const
- {return !(*this == r);}
-
- private:
- WeightedDistro1D();
- };
- }
-}
-
-#endif // NPSTAT_WEIGHTEDDISTRO1D_HH_
Index: trunk/npstat/stat/distro1DStats.cc
===================================================================
--- trunk/npstat/stat/distro1DStats.cc (revision 436)
+++ trunk/npstat/stat/distro1DStats.cc (revision 437)
@@ -1,68 +1,68 @@
#include <cmath>
#include <vector>
#include <stdexcept>
#include "npstat/stat/distro1DStats.hh"
namespace npstat {
void distro1DStats(const AbsDistribution1D& distro,
const double xmin, const double xmax,
const unsigned nPointsToUse,
double* pmean, double* pstdev,
double* pskewness, double* pkurtosis)
{
if (pmean || pstdev || pskewness || pkurtosis)
{
if (nPointsToUse < 2) throw std::invalid_argument(
"In npstat::distro1DStats: not enough points");
const double dx = (xmax - xmin)/nPointsToUse;
long double sum = 0.0L, wsum = 0.0L;
for (unsigned i=0; i<nPointsToUse; ++i)
{
const double x = xmin + (i + 0.5)*dx;
const double dens = distro.density(x);
sum += x*dens;
wsum += dens;
}
if (wsum <= 0.0L) throw std::invalid_argument(
- "In npstat::distro1DStats: "
- "density is zero with the requested interval sampling");
+ "In npstat::distro1DStats: the support of the density "
+ "is inconsistent with the requested interval sampling");
const double mean = sum/wsum;
if (pmean)
*pmean = mean;
if (pstdev || pskewness || pkurtosis)
{
long double sum2 = 0.0L, sum3 = 0.0L, sum4 = 0.0L;
for (unsigned i=0; i<nPointsToUse; ++i)
{
const double x = xmin + (i + 0.5)*dx;
const double dens = distro.density(x);
const double delta = x - mean;
const double delta2 = delta*delta;
const double delta3 = delta2*delta;
const double delta4 = delta2*delta2;
sum2 += delta2*dens;
sum3 += delta3*dens;
sum4 += delta4*dens;
}
const double mu2 = sum2/wsum;
if (mu2 <= 0.0) throw std::invalid_argument(
"In npstat::distro1DStats: standard deviation "
"is zero with the requested interval sampling");
const double stdev = sqrt(mu2);
if (pstdev)
*pstdev = stdev;
if (pskewness)
{
const double mu3 = sum3/wsum;
*pskewness = mu3/(mu2*stdev);
}
if (pkurtosis)
{
const double mu4 = sum4/wsum;
*pkurtosis = mu4/mu2/mu2;
}
}
}
}
}
Index: trunk/npstat/stat/VerticallyInterpolatedDistribution1D.cc
===================================================================
--- trunk/npstat/stat/VerticallyInterpolatedDistribution1D.cc (revision 436)
+++ trunk/npstat/stat/VerticallyInterpolatedDistribution1D.cc (revision 437)
@@ -1,228 +1,228 @@
#include <cassert>
#include <stdexcept>
#include <cfloat>
#include <cmath>
#include "npstat/stat/VerticallyInterpolatedDistribution1D.hh"
namespace npstat {
VerticallyInterpolatedDistribution1D::VerticallyInterpolatedDistribution1D()
: nExpected_(0), count_(0),
wsum_(0.0), xmin_(DBL_MAX), xmax_(-DBL_MAX),
autoNormalize_(true)
{
}
VerticallyInterpolatedDistribution1D::VerticallyInterpolatedDistribution1D(
const unsigned expectedNDistros)
: nExpected_(expectedNDistros), count_(0),
wsum_(0.0), xmin_(0.0), xmax_(0.0),
autoNormalize_(true)
{
wdmem_.reserve(nExpected_);
}
void VerticallyInterpolatedDistribution1D::clear()
{
wdmem_.clear();
wdmem_.reserve(nExpected_);
count_ = 0;
wsum_ = 0.0;
xmin_ = DBL_MAX;
xmax_ = -DBL_MAX;
}
void VerticallyInterpolatedDistribution1D::add(
const AbsDistribution1D& d, const double weight)
{
- wdmem_.push_back(Private::WeightedDistro1D(d, weight));
+ wdmem_.push_back(Private::WeightedDistro1DPtr(d, weight));
if (++count_ >= nExpected_)
normalize();
}
void VerticallyInterpolatedDistribution1D::replace(
const unsigned i, const AbsDistribution1D& d, const double weight)
{
- wdmem_.at(i) = Private::WeightedDistro1D(d, weight);
+ wdmem_.at(i) = Private::WeightedDistro1DPtr(d, weight);
if (count_ >= nExpected_)
normalize();
}
void VerticallyInterpolatedDistribution1D::setWeight(
const unsigned i, const double weight)
{
wdmem_.at(i).w = weight;
if (count_ >= nExpected_)
normalize();
}
void VerticallyInterpolatedDistribution1D::normalizeAutomatically(const bool allow)
{
autoNormalize_ = allow;
if (allow && count_ >= nExpected_)
normalize();
}
void VerticallyInterpolatedDistribution1D::normalize()
{
if (autoNormalize_)
{
- const Private::WeightedDistro1D* wd = &wdmem_[0];
+ const Private::WeightedDistro1DPtr* wd = &wdmem_[0];
wsum_ = 0.0;
xmin_ = DBL_MAX;
xmax_ = -DBL_MAX;
for (unsigned i=0; i<count_; ++i)
{
const double w = wd[i].w;
if (w)
{
wsum_ += w;
const double q0 = wd[i].d->quantile(0.0);
if (q0 < xmin_)
xmin_ = q0;
const double q1 = wd[i].d->quantile(1.0);
if (q1 > xmax_)
xmax_ = q1;
}
}
if (wsum_ <= 0.0) throw std::invalid_argument(
"In npstat::VerticallyInterpolatedDistribution1D::normalize: "
"sum of weights is not positive");
}
}
double VerticallyInterpolatedDistribution1D::density(const double x) const
{
if (!autoNormalize_) throw std::runtime_error(
"In npstat::VerticallyInterpolatedDistribution1D::density: "
"normalization must be enabled");
if (!(count_ && count_ >= nExpected_)) throw std::runtime_error(
"In npstat::VerticallyInterpolatedDistribution1D::density: "
"not enough distributions added");
if (x < xmin_ || x > xmax_)
return 0.0;
double dsum = 0.0;
- const Private::WeightedDistro1D* wd = &wdmem_[0];
+ const Private::WeightedDistro1DPtr* wd = &wdmem_[0];
for (unsigned i=0; i<count_; ++i)
{
const double w = wd[i].w;
if (w)
dsum += w*wd[i].d->density(x);
}
return dsum/wsum_;
}
double VerticallyInterpolatedDistribution1D::cdf(const double x) const
{
if (!autoNormalize_) throw std::runtime_error(
"In npstat::VerticallyInterpolatedDistribution1D::cdf: "
"normalization must be enabled");
if (!(count_ && count_ >= nExpected_)) throw std::runtime_error(
"In npstat::VerticallyInterpolatedDistribution1D::cdf: "
"not enough distributions added");
if (x <= xmin_)
return 0.0;
else if (x >= xmax_)
return 1.0;
else
{
double dsum = 0.0;
- const Private::WeightedDistro1D* wd = &wdmem_[0];
+ const Private::WeightedDistro1DPtr* wd = &wdmem_[0];
for (unsigned i=0; i<count_; ++i)
{
const double w = wd[i].w;
if (w)
dsum += w*wd[i].d->cdf(x);
}
return dsum/wsum_;
}
}
double VerticallyInterpolatedDistribution1D::exceedance(const double x) const
{
if (!autoNormalize_) throw std::runtime_error(
"In npstat::VerticallyInterpolatedDistribution1D::exceedance: "
"normalization must be enabled");
if (!(count_ && count_ >= nExpected_)) throw std::runtime_error(
"In npstat::VerticallyInterpolatedDistribution1D::exceedance: "
"not enough distributions added");
if (x <= xmin_)
return 1.0;
else if (x >= xmax_)
return 0.0;
else
{
double dsum = 0.0;
- const Private::WeightedDistro1D* wd = &wdmem_[0];
+ const Private::WeightedDistro1DPtr* wd = &wdmem_[0];
for (unsigned i=0; i<count_; ++i)
{
const double w = wd[i].w;
if (w)
dsum += w*wd[i].d->exceedance(x);
}
return dsum/wsum_;
}
}
double VerticallyInterpolatedDistribution1D::quantile(const double r1) const
{
if (!autoNormalize_) throw std::runtime_error(
"In npstat::VerticallyInterpolatedDistribution1D::quantile: "
"normalization must be enabled");
if (!(r1 >= 0.0 && r1 <= 1.0)) throw std::domain_error(
"In npstat::VerticallyInterpolatedDistribution1D::quantile: "
"cdf argument outside of [0, 1] interval");
double qmax = -DBL_MAX;
double qmin = DBL_MAX;
- const Private::WeightedDistro1D* wd = &wdmem_[0];
+ const Private::WeightedDistro1DPtr* wd = &wdmem_[0];
for (unsigned i=0; i<count_; ++i)
{
const double w = wd[i].w;
if (w)
{
const double q = wd[i].d->quantile(r1);
if (q > qmax)
qmax = q;
if (q < qmin)
qmin = q;
}
}
if (qmax == qmin)
return qmin;
if (r1 == 1.0)
return qmax;
if (r1 == 0.0)
return qmin;
const double fmin = cdf(qmin);
const double fmax = cdf(qmax);
if (!(fmin < r1 && r1 < fmax)) throw std::runtime_error(
"In npstat::VerticallyInterpolatedDistribution1D::quantile: "
"algorithm precondition error");
for (unsigned i=0; i<1000; ++i)
{
const double x = (qmin + qmax)/2.0;
if (fabs(qmax - qmin)/std::max(fabs(qmin), fabs(qmax)) <
2.0*DBL_EPSILON)
return x;
const double fval = cdf(x);
if (fval == r1)
return x;
else if (fval > r1)
qmax = x;
else
qmin = x;
if (qmax == qmin)
return qmin;
}
return (qmin + qmax)/2.0;
}
bool VerticallyInterpolatedDistribution1D::isEqual(
const AbsDistribution1D& otherBase) const
{
const VerticallyInterpolatedDistribution1D& r =
static_cast<const VerticallyInterpolatedDistribution1D&>(otherBase);
return count_ == r.count_ && wdmem_ == r.wdmem_ &&
nExpected_ == r.nExpected_;
}
}
Index: trunk/npstat/stat/Makefile.am
===================================================================
--- trunk/npstat/stat/Makefile.am (revision 436)
+++ trunk/npstat/stat/Makefile.am (revision 437)
@@ -1,333 +1,333 @@
AM_CPPFLAGS = -I@top_srcdir@/ $(DEPS_CFLAGS)
noinst_LTLIBRARIES = libstat.la
libstat_la_SOURCES = AbsDistribution1D.cc AbsUnfoldND.cc \
AbsDistributionND.cc amiseOptimalBandwidth.cc CompositeDistribution1D.cc \
CompositeDistributionND.cc CopulaInterpolationND.cc SymbetaParams1D.cc \
Distribution1DFactory.cc Distribution1DReader.cc DistributionNDReader.cc \
Distributions1D.cc DistributionsND.cc CrossCovarianceAccumulator.cc \
fitSbParameters.cc StatAccumulatorArr.cc HistoAxis.cc ResponseMatrix.cc \
InterpolatedDistribution1D.cc JohnsonCurves.cc JohnsonKDESmoother.cc \
LocalPolyFilter1D.cc logLikelihoodPeak.cc PolyFilterCollection1D.cc \
SbMomentsBigGamma.cc SbMomentsCalculator.cc gaussianResponseMatrix.cc \
SequentialCopulaSmoother.cc SequentialPolyFilterND.cc StatAccumulator.cc \
UnitMapInterpolationND.cc WeightedStatAccumulator.cc AbsNtuple.cc \
QuadraticOrthoPolyND.cc NMCombinationSequencer.cc Filter1DBuilders.cc \
StatAccumulatorPair.cc GridRandomizer.cc ConstantBandwidthSmoother1D.cc \
GaussianMixture1D.cc HistoNDCdf.cc scanDensityAsWeight.cc NUHistoAxis.cc \
distributionReadError.cc WeightedStatAccumulatorPair.cc AbsUnfold1D.cc \
ProductSymmetricBetaNDCdf.cc DualHistoAxis.cc multinomialCovariance1D.cc \
StorableMultivariateFunctor.cc StorableMultivariateFunctorReader.cc \
TruncatedDistribution1D.cc neymanPearsonWindow1D.cc AsinhTransform1D.cc \
LOrPEMarginalSmoother.cc LeftCensoredDistribution.cc QuantileTable1D.cc \
RightCensoredDistribution.cc AbsDiscreteDistribution1D.cc convertAxis.cc \
DiscreteDistribution1DReader.cc DiscreteDistributions1D.cc lorpeMise1D.cc \
BernsteinFilter1DBuilder.cc BetaFilter1DBuilder.cc AbsFilter1DBuilder.cc \
continuousDegreeTaper.cc RatioOfNormals.cc AbsCVCopulaSmoother.cc \
DensityScan1D.cc BoundaryHandling.cc SmoothedEMUnfold1D.cc Copulas.cc \
PearsonsChiSquared.cc BinnedKSTest1D.cc MultiscaleEMUnfold1D.cc \
AbsBinnedComparison1D.cc BinnedADTest1D.cc LocalPolyFilter1DReader.cc \
MemoizingSymbetaFilterProvider.cc UGaussConvolution1D.cc BinSummary.cc \
SmoothedEMUnfoldND.cc UnfoldingFilterNDReader.cc AbsUnfoldingFilterND.cc \
UnfoldingBandwidthScannerND.cc DistributionMix1D.cc ScalableGaussND.cc \
InterpolatedDistro1D1P.cc AbsDistributionTransform1D.cc LogTransform1D.cc \
DistributionTransform1DReader.cc TransformedDistribution1D.cc \
WeightTableFilter1DBuilder.cc VerticallyInterpolatedDistribution1D.cc \
LocalMultiFilter1D.cc LogRatioTransform1D.cc IdentityTransform1D.cc \
VariableBandwidthSmoother1D.cc AbsMarginalSmootherBase.cc \
buildInterpolatedHelpers.cc GridInterpolatedDistribution.cc \
AbsCopulaSmootherBase.cc BernsteinCopulaSmoother.cc distro1DStats.cc \
SequentialGroupedCopulaSmoother.cc UnfoldingBandwidthScanner1D.cc \
InterpolatedDistro1DNP.cc
includedir = ${prefix}/include/npstat/stat
include_HEADERS = AbsBandwidthCV.hh \
AbsBandwidthGCV.hh \
AbsBinnedComparison1D.hh \
AbsBinnedComparison1D.icc \
AbsCompositeDistroBuilder.hh \
AbsCompositeDistroBuilder.icc \
AbsCopulaSmootherBase.hh \
AbsCopulaSmootherBase.icc \
AbsCVCopulaSmoother.hh \
AbsDiscreteDistribution1D.hh \
AbsDistribution1D.hh \
AbsDistributionND.hh \
AbsDistributionND.icc \
AbsDistributionTransform1D.hh \
AbsDistro1DBuilder.hh \
AbsDistro1DBuilder.icc \
AbsFilter1DBuilder.hh \
AbsGridInterpolatedDistribution.hh \
AbsInterpolatedDistribution1D.hh \
AbsInterpolationAlgoND.hh \
AbsLossCalculator.hh \
AbsMarginalSmootherBase.hh \
AbsMarginalSmootherBase.icc \
AbsNtuple.hh \
AbsNtuple.icc \
AbsPolyFilter1D.hh \
AbsPolyFilterND.hh \
AbsResponseBoxBuilder.hh \
AbsResponseIntervalBuilder.hh \
AbsSymbetaFilterProvider.hh \
AbsUnfold1D.hh \
AbsUnfoldingFilterND.hh \
AbsUnfoldND.hh \
amiseOptimalBandwidth.hh \
amiseOptimalBandwidth.icc \
ArchivedNtuple.hh \
ArchivedNtuple.icc \
ArrayProjectors.hh \
ArrayProjectors.icc \
arrayStats.hh \
arrayStats.icc \
AsinhTransform1D.hh \
BandwidthCVLeastSquares1D.hh \
BandwidthCVLeastSquares1D.icc \
BandwidthCVLeastSquaresND.hh \
BandwidthCVLeastSquaresND.icc \
BandwidthCVPseudoLogli1D.hh \
BandwidthCVPseudoLogli1D.icc \
BandwidthCVPseudoLogliND.hh \
BandwidthCVPseudoLogliND.icc \
BandwidthGCVLeastSquares1D.hh \
BandwidthGCVLeastSquares1D.icc \
BandwidthGCVLeastSquaresND.hh \
BandwidthGCVLeastSquaresND.icc \
BandwidthGCVPseudoLogli1D.hh \
BandwidthGCVPseudoLogli1D.icc \
BandwidthGCVPseudoLogliND.hh \
BandwidthGCVPseudoLogliND.icc \
BernsteinCopulaSmoother.hh \
BernsteinFilter1DBuilder.hh \
betaKernelsBandwidth.hh \
betaKernelsBandwidth.icc \
BetaFilter1DBuilder.hh \
BinnedADTest1D.hh \
BinnedKSTest1D.hh \
BinSummary.hh \
BinSummary.icc \
BoundaryHandling.hh \
BoundaryMethod.hh \
buildInterpolatedCompositeDistroND.hh \
buildInterpolatedCompositeDistroND.icc \
buildInterpolatedDistro1DNP.hh \
buildInterpolatedDistro1DNP.icc \
buildInterpolatedHelpers.hh \
CensoredQuantileRegression.hh \
CensoredQuantileRegression.icc \
CircularBuffer.hh \
CircularBuffer.icc \
Column.hh \
Column.icc \
CompositeDistribution1D.hh \
CompositeDistributionND.hh \
CompositeDistributionND.icc \
CompositeDistros1D.hh \
ConstantBandwidthSmoother1D.hh \
ConstantBandwidthSmootherND.hh \
ConstantBandwidthSmootherND.icc \
continuousDegreeTaper.hh \
convertAxis.hh \
CopulaInterpolationND.hh \
Copulas.hh \
CrossCovarianceAccumulator.hh \
CrossCovarianceAccumulator.icc \
CVCopulaSmoother.hh \
CVCopulaSmoother.icc \
DensityAveScanND.hh \
DensityScan1D.hh \
DensityScanND.hh \
DiscreteDistribution1DReader.hh \
DiscreteDistributions1D.hh \
discretizationErrorND.hh \
Distribution1DFactory.hh \
Distribution1DReader.hh \
DistributionTransform1DReader.hh \
DistributionMix1D.hh \
DistributionNDReader.hh \
Distributions1D.hh \
Distributions1D.icc \
DistributionsND.hh \
DistributionsND.icc \
distributionReadError.hh \
distro1DStats.hh \
DualHistoAxis.hh \
DummyCompositeDistroBuilder.hh \
DummyDistro1DBuilder.hh \
DummyResponseBoxBuilder.hh \
DummyResponseIntervalBuilder.hh \
empiricalCopula.hh \
empiricalCopulaHisto.hh \
empiricalCopulaHisto.icc \
empiricalCopula.icc \
fillHistoFromText.hh \
fillHistoFromText.icc \
Filter1DBuilders.hh \
FitUtils.hh \
FitUtils.icc \
GaussianMixture1D.hh \
gaussianResponseMatrix.hh \
GCVCopulaSmoother.hh \
GCVCopulaSmoother.icc \
griddedRobustRegression.hh \
griddedRobustRegression.icc \
GriddedRobustRegressionStop.hh \
GridInterpolatedDistribution.hh \
GridRandomizer.hh \
HistoAxis.hh \
HistoND.hh \
HistoND.icc \
HistoNDCdf.hh \
HistoNDFunctorInstances.hh \
histoStats.hh \
histoStats.icc \
histoUtils.hh \
histoUtils.icc \
IdentityTransform1D.hh \
InMemoryNtuple.hh \
InMemoryNtuple.icc \
InterpolatedDistribution1D.hh \
InterpolatedDistro1D1P.hh \
InterpolatedDistro1DNP.hh \
interpolateHistoND.hh \
interpolateHistoND.icc \
InterpolationFunctorInstances.hh \
JohnsonCurves.hh \
JohnsonKDESmoother.hh \
KDECopulaSmoother.hh \
KDECopulaSmoother.icc \
KDEGroupedCopulaSmoother.hh \
KDEGroupedCopulaSmoother.icc \
KDEFilterND.hh \
KDEFilterND.icc \
kendallsTau.hh \
kendallsTau.icc \
LeftCensoredDistribution.hh \
LocalLogisticRegression.hh \
LocalLogisticRegression.icc \
LocalMultiFilter1D.hh \
LocalMultiFilter1D.icc \
LocalPolyFilter1D.hh \
LocalPolyFilter1D.icc \
LocalPolyFilter1DReader.hh \
LocalPolyFilterND.hh \
LocalPolyFilterND.icc \
LocalQuadraticLeastSquaresND.hh \
LocalQuadraticLeastSquaresND.icc \
LocalQuantileRegression.hh \
LocalQuantileRegression.icc \
LocationScaleTransform1.hh \
LocationScaleTransform1.icc \
logLikelihoodPeak.hh \
LogRatioTransform1D.hh \
LogTransform1D.hh \
LOrPECopulaSmoother.hh \
LOrPECopulaSmoother.icc \
LOrPEGroupedCopulaSmoother.hh \
LOrPEGroupedCopulaSmoother.icc \
LOrPEMarginalSmoother.hh \
lorpeBackgroundCVDensity1D.hh \
lorpeBackgroundCVDensity1D.icc \
lorpeBackground1D.hh \
lorpeBackground1D.icc \
lorpeMise1D.hh \
lorpeSmooth1D.hh \
lorpeSmooth1D.icc \
MemoizingSymbetaFilterProvider.hh \
MemoizingSymbetaFilterProvider.icc \
mergeTwoHistos.hh \
mergeTwoHistos.icc \
mirrorWeight.hh \
MultiscaleEMUnfold1D.hh \
multinomialCovariance1D.hh \
MultivariateSumAccumulator.hh \
MultivariateSumsqAccumulator.hh \
MultivariateSumsqAccumulator.icc \
MultivariateWeightedSumAccumulator.hh \
MultivariateWeightedSumsqAccumulator.hh \
MultivariateWeightedSumsqAccumulator.icc \
neymanPearsonWindow1D.hh \
NMCombinationSequencer.hh \
NonparametricCompositeBuilder.hh \
NonparametricCompositeBuilder.icc \
NonparametricDistro1DBuilder.hh \
NonparametricDistro1DBuilder.icc \
NtHistoFill.hh \
NtNtupleFill.hh \
NtRectangularCut.hh \
NtRectangularCut.icc \
NtupleBuffer.hh \
NtupleBuffer.icc \
NtupleRecordTypes.hh \
NtupleRecordTypesFwd.hh \
NtupleReference.hh \
NUHistoAxis.hh \
OrderedPointND.hh \
OrderedPointND.icc \
PearsonsChiSquared.hh \
PolyFilterCollection1D.hh \
productResponseMatrix.hh \
productResponseMatrix.icc \
ProductSymmetricBetaNDCdf.hh \
QuadraticOrthoPolyND.hh \
QuadraticOrthoPolyND.icc \
QuantileRegression1D.hh \
QuantileRegression1D.icc \
QuantileTable1D.hh \
RatioOfNormals.hh \
ResponseMatrix.hh \
RightCensoredDistribution.hh \
SampleAccumulator.hh \
SampleAccumulator.icc \
SbMomentsCalculator.hh \
ScalableGaussND.hh \
scanDensityAsWeight.hh \
SequentialCopulaSmoother.hh \
SequentialGroupedCopulaSmoother.hh \
SequentialPolyFilterND.hh \
SequentialPolyFilterND.icc \
SmoothedEMUnfold1D.hh \
SmoothedEMUnfoldND.hh \
spearmansRho.hh \
spearmansRho.icc \
StatAccumulator.hh \
StatAccumulatorArr.hh \
StatAccumulatorPair.hh \
StatUtils.hh \
StatUtils.icc \
StorableHistoNDFunctor.hh \
StorableHistoNDFunctor.icc \
StorableInterpolationFunctor.hh \
StorableInterpolationFunctor.icc \
StorableMultivariateFunctor.hh \
StorableMultivariateFunctorReader.hh \
SymbetaParams1D.hh \
TransformedDistribution1D.hh \
TruncatedDistribution1D.hh \
TwoPointsLTSLoss.hh \
TwoPointsLTSLoss.icc \
UGaussConvolution1D.hh \
UnfoldingBandwidthScanner1D.hh \
UnfoldingBandwidthScannerND.hh \
UnfoldingFilterNDReader.hh \
UnitMapInterpolationND.hh \
variableBandwidthSmooth1D.hh \
variableBandwidthSmooth1D.icc \
VariableBandwidthSmoother1D.hh \
VerticallyInterpolatedDistribution1D.hh \
weightedCopulaHisto.hh \
weightedCopulaHisto.icc \
- WeightedDistro1D.hh \
+ WeightedDistro1DPtr.hh \
WeightedLTSLoss.hh \
WeightedLTSLoss.icc \
WeightedSampleAccumulator.hh \
WeightedSampleAccumulator.icc \
WeightedStatAccumulator.hh \
WeightedStatAccumulatorPair.hh \
WeightTableFilter1DBuilder.hh
EXTRA_DIST = 00README.txt npstat_doxy.hh
Index: trunk/npstat/stat/buildInterpolatedCompositeDistroND.icc
===================================================================
--- trunk/npstat/stat/buildInterpolatedCompositeDistroND.icc (revision 436)
+++ trunk/npstat/stat/buildInterpolatedCompositeDistroND.icc (revision 437)
@@ -1,27 +1,27 @@
#include "npstat/stat/buildInterpolatedHelpers.hh"
namespace npstat {
template <class Point>
inline CPP11_auto_ptr<GridInterpolatedDistribution>
buildInterpolatedCompositeDistroND(
const std::vector<Point>& data,
const unsigned* dimPredictors, const unsigned nPredictors,
const std::string* predictorNames,
const unsigned* predictorNumBins, const int predictorSymbetaPower,
const double effectiveEventsPerBin, const bool stretchPredKernels,
const unsigned* dimResponses, const unsigned nResponseVars,
const AbsCompositeDistroBuilder<Point>& builder,
const bool interpolateCopulas, const unsigned reportFrequency)
{
if (nResponseVars < 2U) throw std::invalid_argument(
"In npstat::buildInterpolatedCompositeDistroND: "
"must use at least two response variables");
- return buildInterpolatedHelper<
+ return Private::buildInterpolatedHelper<
Point,GridInterpolatedDistribution,AbsCompositeDistroBuilder>(
data, dimPredictors, nPredictors, predictorNames,
predictorNumBins, predictorSymbetaPower,
effectiveEventsPerBin, stretchPredKernels,
dimResponses, nResponseVars, builder,
interpolateCopulas, reportFrequency);
}
}
Index: trunk/npstat/stat/00README.txt
===================================================================
--- trunk/npstat/stat/00README.txt (revision 436)
+++ trunk/npstat/stat/00README.txt (revision 437)
@@ -1,658 +1,672 @@
The code in this directory can depend on headers from the "nm" and "rng"
directories in the "npstat" package.
The classes implemented in this directory can be split into several
subgroups by their purpose:
Data representation
Descriptive statistics
Statistical distributions
Fitting of parametric models
Statistical testing
Local filtering
Nonparametric density estimation
Nonparametric regression
Interpolation of statistical distributions
Miscellaneous data analysis techniques
Convenience API
Utilities
I/O
Data representation
-------------------
AbsNtuple.hh -- interface class for ntuples. Implemented in InMemoryNtuple.hh,
ArchivedNtuple.hh. To be used by application code.
NtHistoFill.hh, NtNtupleFill.hh, NtRectangularCut.hh -- convenience classes
and functors for use inside "cycleOverRows", "conditionalCycleOverRows",
and other similar ntuple methods.
Column.hh -- helper class for AbsNtuple.hh. Can be used to refer to ntuple
columns either by name or by column number. Used by AbsNtuple.hh, and
should not be used separately.
ArchivedNtuple.hh -- class for storing huge ntuples which do not fit in the
computer memory. To be used by application code.
HistoAxis.hh -- representation of a histogram axis with equidistant bins.
NUHistoAxis.hh -- representation of a histogram axis with non-uniform bins.
DualHistoAxis.hh -- histogram axis which works reasonably well for both
uniform and non-uniform bins.
convertAxis.hh -- conversion functions between histogram and grid axes.
HistoND.hh -- arbitrary-dimensional histogram template.
interpolateHistoND.hh -- interpolation of histogram data to coordinate
values between bin centers.
mergeTwoHistos.hh -- a utility for smooth blending of two histograms.
ProductSymmetricBetaNDCdf.hh -- an interpolation function for blending
histograms.
InMemoryNtuple.hh -- class for storing small ntuples which completely fit
in the computer memory. Works faster than ArchivedNtuple.
NtupleBuffer.hh -- data buffer for data exchange between ArchivedNtuple and
disk-based archive.
OrderedPointND.hh -- a multidimensional point which can be sorted according
to multiple sorting criteria.
StorableMultivariateFunctor.hh -- Base class (and corresponding reader)
StorableMultivariateFunctorReader.hh for storable multivariate functors.
StorableHistoNDFunctor.hh -- Adaptation that represents HistoND as
a StorableMultivariateFunctor.
HistoNDFunctorInstances.hh -- A number of concrete typedefs for
StorableHistoNDFunctor template.
StorableInterpolationFunctor.hh -- Adaptation that represents
LinInterpolatedTableND as
a StorableMultivariateFunctor.
InterpolationFunctorInstances.hh -- A number of concrete typedefs for
StorableInterpolationFunctor template.
Descriptive statistics
----------------------
ArrayProjectors.hh -- helper classes for making lower-dimensional projections
of the ArrayND class. Calculate various statistics over projected
dimensions (mean, median, etc).
arrayStats.hh -- means, standard deviations, and covariance matrices of
multivariate arrays. skewness and kurtosis for 1-d arrays.
histoStats.hh -- means and covariance matrices for histograms.
kendallsTau.hh -- Kendall's rank correlation coefficient, from a sample
of points or from copula.
spearmansRho.hh -- Spearman's rank correlation coefficient, from a sample
of points or from copula.
logLikelihoodPeak.hh -- summary of a 1-d log-likelihood curve.
MultivariateSumAccumulator.hh -- classes in these files are
MultivariateSumsqAccumulator.hh intended for calculating
MultivariateWeightedSumAccumulator.hh covariance and correlation
MultivariateWeightedSumsqAccumulator.hh matrices of multivariate data
in a numerically stable manner.
These classes can serve as appropriate accumulator functors in various
"cycleOverRows" methods of AbsNtuple or as stand-alone pieces.
SampleAccumulator.hh -- accumulator of items for the purpose of calculating
statistical summaries. For use inside histograms, etc.
WeightedSampleAccumulator.hh -- similar class for use with weighted items.
CircularBuffer.hh -- accumulator of items with fixed length. When this
length is exceeded, the oldest items are discarded. Can calculate
statistical summaries (mean, stdev) that do not require element sorting.
StatAccumulator.hh -- simple, single-pass calculator of mean and standard
deviation. Updates a running average, so it works a bit better than
a "naive" version.
StatAccumulatorPair.hh -- simple, single-pass calculator of mean, standard
deviation, and covariance for two variables.
StatAccumulatorArr.hh -- simple, single-pass calculator of mean and standard
deviation for array sets.
CrossCovarianceAccumulator.hh -- single-pass calculator of covariances
and correlations for samples with elements represented by arrays.
WeightedStatAccumulator.hh -- single-pass calculator of mean and standard
deviation for weighted points.
WeightedStatAccumulatorPair.hh -- simple, single-pass calculator of mean,
standard deviation, and covariance for weighted points.
BinSummary.hh -- a five-number summary for SampleAccumulator, StatAccumulator,
WeightedSampleAccumulator, and WeightedSampleAccumulator which can be
used for making box plots, etc. Allows for direct manipulation of
the center value, upper and lower ranges, and min/max value.
Statistical distributions
-------------------------
AbsDistribution1D.hh -- interface classes for 1-d parametric and tabulated
statistical distributions.
AbsDiscreteDistribution1D.hh -- interface classes for 1-d discrete
statistical distributions. Implemented in DiscreteDistributions1D.hh.
AbsDistributionTransform1D.hh -- interface class for 1-d coordinate
transforms intended for subsequent use in constructing distributions
(in particular, with the TransformedDistribution1D class).
AsinhTransform1D.hh -- asinh transform (just like the one used to generate
Johnson's S_U curves).
LogRatioTransform1D.hh -- log(y/(1-y)) transform with scale and location
adjustment (just like the one used to generate Johnson's S_B curves).
LogTransform1D.hh -- transform y = log(1 + x).
AbsDistributionND.hh -- interface classes for multivariate statistical
distributions.
CompositeDistribution1D.hh -- represents univariate statistical distributions
whose cumulative distribution functions F(x) can be built by composition
of two other cumulative distribution functions: F(x) = G(H(x)).
CompositeDistributionND.hh -- represents multivariate statistical
distributions decomposed into copula and marginals.
Copulas.hh -- distributions which are copulas.
CompositeDistros1D.hh -- several implementations of CompositeDistribution1D.hh
using concrete distributions.
Distributions1D.hh -- a number of continuous 1-d statistical distributions.
DistributionsND.hh -- a number of continuous multivariate statistical
distributions.
DiscreteDistributions1D.hh -- several discrete statistical distributions,
including Poisson and tabulated.
DistributionMix1D.hh -- Mixtures of one-dimensional statistical distributions.
+distro1DStats.hh -- a utility for empirical calculation of distribution mean,
+ standard deviation, skewness, and kurtosis.
+
GaussianMixture1D.hh -- One-dimensional Gaussian mixtures.
GridRandomizer.hh -- class which knows how to map the unit hypercube into
a distribution whose density is represented on an n-d grid (and, therefore,
how to generate corresponding random numbers). Not intended for direct use
by application code (use class "BinnedDensityND" instead).
IdentityTransform1D.hh -- Identity coordinate transformation.
LocationScaleTransform1.hh -- Coordinate transformation of the type
y = (x - mu)/sigma, with mu and sigma depending on a single parameter
and calculated by two separate functors.
JohnsonCurves.hh -- Johnson frequency curves.
RatioOfNormals.hh -- Distribution generated when one Gaussian variable
is divided by another.
SbMomentsCalculator.hh -- Calculator of moments for S_b curves. Not for use
by application code.
ScalableGaussND.hh -- multivariate Gaussian with diagonal covariance matrix.
TransformedDistribution1D.hh -- 1-d distributions in x but whose density,
cdf, etc are specified in the y (transformed) space.
TruncatedDistribution1D.hh -- 1-d distributions with truncated support.
LeftCensoredDistribution.hh -- left-censored distribution.
RightCensoredDistribution.hh -- right-censored distribution.
distributionReadError.hh -- this code throws an appropriate exception if
input I/O operations fail for a distribution
previously stored on disk.
UGaussConvolution1D.hh -- convolution of uniform and Gaussian distributions.
Fitting of parametric models
----------------------------
FitUtils.hh -- fitting of 1-d histograms. See also headers
minuitFitJohnsonCurves.hh and MinuitDensityFitFcn1D.hh in the
"interfaces" directory.
Statistical testing
-------------------
AbsBinnedComparison1D.hh -- interface for comparisons of binned distributions
BinnedADTest1D.hh -- binned version of the Anderson-Darling test
BinnedKSTest1D.hh -- binned version of the Kolmogorov-Smirnov test
PearsonsChiSquared.hh -- chi-squared goodness-of-fit test
Local filtering
---------------
AbsFilter1DBuilder.hh -- interface classes for building local polynomial
filters in 1d. Implemented in Filter1DBuilders.hh, BetaFilter1DBuilder.hh,
WeightTableFilter1DBuilder.hh, BernsteinFilter1DBuilder.hh. Used by
LocalPolyFilter1D.hh.
AbsPolyFilter1D.hh -- interface class for building univariate smoothers
that can be optimized by cross-validation. Implemented in
ConstantBandwidthSmoother1D.hh, LocalPolyFilter1D.hh.
AbsPolyFilterND.hh -- interface class for building multivariate smoothers
that can be optimized by cross-validation. Implemented in
LocalPolyFilterND.hh, SequentialPolyFilterND.hh, and KDEFilterND.hh.
Used by AbsBandwidthCV.hh, BandwidthCVLeastSquaresND.hh,
BandwidthCVPseudoLogliND.hh.
AbsSymbetaFilterProvider.hh -- interface class for building local polynomial
filters in 1d using kernels from the symmetric beta family.
AbsUnfold1D.hh -- interface class for deconvolution density estimation in 1-d
(a.k.a. unfolding).
AbsUnfoldND.hh -- interface class for multivariate deconvolution density
estimation (a.k.a. unfolding).
AbsUnfoldingFilterND.hh -- interface class for smoothers used in multivariate
unfolding.
MemoizingSymbetaFilterProvider.hh -- implements AbsSymbetaFilterProvider
interface and allows for filter storage and lookup.
BernsteinFilter1DBuilder.hh -- concrete class for building filters which
smooth densities using Bernstein polynomials.
BetaFilter1DBuilder.hh -- concrete class for building filters which
smooth densities using beta functions (Bernstein polynomials of
non-integer degree).
betaKernelsBandwidth.hh -- optimal bandwidth for density estimation with beta
kernels.
BoundaryHandling.hh -- user API for handling LOrPE boundary methods.
BoundaryMethod.hh -- enums for handling LOrPE boundary methods.
continuousDegreeTaper.hh -- a method for generating tapers with effectively
continuous degree. Intended for use with LocalPolyFilter1D.
Filter1DBuilders.hh -- concrete classes for building local polynomial
filters in 1d. They differ by their treatment of the weight function
and boundary effects.
WeightTableFilter1DBuilder.hh -- concrete classes for building local
polynomial filters in 1d from density scans.
KDEFilterND.hh -- KDE filtering (Nadaraya-Watson regression) on a regularly
spaced 1-d grid.
LocalPolyFilter1D.hh -- local polynomial filtering (regression) on a regularly
spaced 1-d grid.
LocalPolyFilter1DReader.hh -- a reader factory for classes derived from
LocalPolyFilter1D.
LocalPolyFilterND.hh -- local polynomial filtering (regression) on a regularly
spaced multivariate grid.
LocalMultiFilter1D.hh -- local polynomial filtering with separate polynomials
from an orthogonal set.
LocalQuadraticLeastSquaresND.hh -- local quadratic polynomial filtering for
an irregular set of points (possibly including uncertainties).
lorpeSmooth1D.hh -- high level driver for LocalPolyFilter1D, etc. Intended
for density reconstruction from histograms.
lorpeBackground1D.hh -- high level driver for fitting mixed models in which
signal is parameterized and background is nonparametric.
lorpeBackgroundCVDensity1D.hh -- linearization of cross-validation calculations
for fitting mixed models with nonparametric background.
QuadraticOrthoPolyND.hh -- local quadratic polynomial filtering on a grid.
In comparison with LocalPolyFilterND.hh, supports a finer interface to
filtering functionality (direct support of an AbsDistributionND as
a weight, calculations of gradient and hessian for the fitted surface,
fitting is performed on functors rather than ArrayND objects, etc).
Used by LocalLogisticRegression.hh.
ResponseMatrix.hh -- sparse response matrix representation for multivariate
unfolding.
SequentialPolyFilterND.hh -- similar to LocalPolyFilterND.hh, but the
filtering is performed sequentially for each dimension using 1-d filters.
SmoothedEMUnfold1D.hh -- expectation-maximization (a.k.a. D'Agostini)
unfolding with smoothing for 1-d distributions.
MultiscaleEMUnfold1D.hh -- a variation of 1-d unfolding algorithm with
multiscale filtering and, potentially, faster convergence.
SmoothedEMUnfoldND.hh -- expectation-maximization unfolding with smoothing
for multivariate distributions.
SymbetaPolyCollection1D.hh -- class that builds LocalPolyFilter1D objects
and memoizes local polynomials for the bandwidth values used.
UnfoldingBandwidthScanner1D.hh -- class which gets various information from
1-d unfolding results in a convenient form.
UnfoldingBandwidthScannerND.hh -- class which gets various information from
multivariate unfolding results in a convenient form.
UnfoldingFilterNDReader.hh -- reader factory for classes derived from
AbsUnfoldingFilterND.
Nonparametric density estimation
--------------------------------
AbsBandwidthCV.hh -- interface classes for calculating 1-d and multivariate
cross-validation criteria for bandwidth and taper selection. Interfaces
declared in this file are implemented in BandwidthCVLeastSquares1D.hh,
BandwidthCVLeastSquaresND.hh, BandwidthCVPseudoLogli1D.hh, and
BandwidthCVPseudoLogliND.hh. These interfaces are used by classes in
CVCopulaSmoother.hh.
AbsBandwidthGCV.hh -- interface classes for calculating 1-d and multivariate
cross-validation criteria for bandwidth and taper selection. Interfaces
declared in this file are implemented in BandwidthGCVLeastSquares1D.hh,
BandwidthGCVLeastSquaresND.hh, BandwidthGCVPseudoLogli1D.hh, and
BandwidthGCVPseudoLogliND.hh. These interfaces are used by classes in
GCVCopulaSmoother.hh. The difference with the series of classes defined
in "AbsBandwidthCV.hh" is that the grouping (i.e., the binning) of data
is explicitly acknowledged, so that a substantially different set of
filters (removing the whole group) can be used for cross-validation.
AbsCompositeDistroBuilder.hh -- interface class for building composite
distrubutions (which consist of copula and marginals) out of data samples.
Implemented in DummyCompositeDistroBuilder.hh and
NonparametricCompositeBuilder.hh.
+AbsDistro1DBuilder.hh -- interface class for building 1-d distributions out
+ of data samples. Implemented in DummyDistro1DBuilder.hh and
+ NonparametricDistro1DBuilder.hh.
+
AbsCopulaSmootherBase.hh -- interface class for building copulas out of data
samples. Implemented in AbsCVCopulaSmoother.hh. Used by
NonparametricCompositeBuilder.hh.
AbsMarginalSmootherBase.hh -- interface class for building 1-d smoothers of
histograms. Implemented in JohnsonKDESmoother.hh, LOrPEMarginalSmoother.hh,
ConstantBandwidthSmoother1D.hh, and VariableBandwidthSmoother1D.hh. Used
by NonparametricCompositeBuilder.hh.
-AbsResponseBoxBuilder.hh -- interface class for making cuts in the response
- space when density estimation is performed in the regression context.
- Implemented in DummyResponseBoxBuilder.hh.
+AbsResponseIntervalBuilder.hh -- interface class for making cuts in the
+ inivariate response space when density estimation is performed in
+ the regression context. Implemented in DummyResponseIntervalBuilder.hh.
+
+AbsResponseBoxBuilder.hh -- interface class for making cuts in the
+ multivariate response space when density estimation is performed
+ in the regression context. Implemented in DummyResponseBoxBuilder.hh.
amiseOptimalBandwidth.hh -- function for selecting optimal LOrPE bandwidth
values by optimizing AMISE on a reference distribution. Used in
JohnsonKDESmoother.cc and ConstantBandwidthSmoother1D.cc.
Can also be used by application code.
BandwidthCVLeastSquares1D.hh -- class for calculating KDE or LOrPE
cross-validation MISE approximations for 1-d density estimates.
BandwidthCVLeastSquaresND.hh -- class for calculating KDE or LOrPE
cross-validation MISE approximations for multivariate density estimates.
BandwidthCVPseudoLogli1D.hh -- class for calculating KDE or LOrPE
cross-validation pseudo log likelihood, for 1-d density estimates.
BandwidthCVPseudoLogliND.hh -- Class for calculating KDE or LOrPE
cross-validation pseudo log likelihood, for multivariate density estimates.
buildInterpolatedCompositeDistroND.hh -- Multivariate density estimation
in the regression context, with interpolation.
+buildInterpolatedDistro1DNP.hh -- Univariate density estimation
+ in the regression context, with interpolation.
+
ConstantBandwidthSmoother1D.hh -- 1-d KDE implementation with constant
bandwidth. Implements AbsMarginalSmoother interface.
ConstantBandwidthSmootherND.hh -- multivariate KDE implementation with
constant bandwidth.
CVCopulaSmoother.hh -- an interface to copula smoothers which use constant
bandwidth LOrPE and select bandwidth by cross-validation. Implemented
in LOrPECopulaSmoother.hh, SequentialCopulaSmoother.hh,
KDECopulaSmoother.hh, and BernsteinCopulaSmoother.hh. Could be used by
application code if it needs to develop its own cross-validation method
for nonparametric copula estimation.
GCVCopulaSmoother.hh -- an interface to copula smoothers working with
grouped data and using substantially different filters for
cross-validation. Implemented in KDEGroupedCopulaSmoother.hh,
LOrPEGroupedCopulaSmoother.hh, and SequentialGroupedCopulaSmoother.hh.
empiricalCopula.hh -- functions for building empirical copulas by constructing
kd-tree for the data points and then doing lookups in this tree.
empiricalCopulaHisto.hh -- function for building empirical copula densities
by ordering the data points in multiple dimensions.
weightedCopulaHisto.hh -- function for building empirical copula densities
by ordering weighted data points in multiple dimensions.
HistoNDCdf.hh -- multivariate cumulative distribution function built
from a histogram. Its "coveringBox" method can be used to make
k-NN type density estimates (and for other purposes).
JohnsonKDESmoother.hh -- 1-d KDE implementation with adaptive bandwidth
(see comments in the header file for details). Implements
AbsMarginalSmoother interface. See also "fitCompositeJohnson.hh"
header in the "interfaces" directory for an alternative approach.
KDECopulaSmoother.hh -- constant bandwidth multivariate KDE copula
smoother in which the bandwidth is selected by cross-validation.
Implements CVCopulaSmoother.
LOrPECopulaSmoother.hh -- constant bandwidth multivariate LOrPE copula
smoother in which the bandwidth is selected by cross-validation.
Implements CVCopulaSmoother.
LOrPEMarginalSmoother.hh -- 1-d LOrPE for fitting margins of composite
distributions. Basically, interfaces "lorpeSmooth1D" to AbsMarginalSmoother.
lorpeMise1D.hh -- Deterministic MISE calculation for reconstructing
an arbitrary 1-d density.
NonparametricCompositeBuilder.hh -- an implementation of
AbsCompositeDistroBuilder. Uses separate density estimation procedures
for copula and marginals.
PolyFilterCollection1D.hh -- collection of LocalPolyFilter1D objects with
the same kernel but different bandwidth values. Intended for use with
bandwidth scans (for example, in cross-validation scenarios).
QuantileTable1D.hh -- density function defined by its quantile table.
Can be easily constructed using "empiricalQuantile" function from
StatUtils.hh.
SequentialCopulaSmoother.hh -- similar to LOrPECopulaSmoother, but the
filters are limited to tensor products of univariate filters.
variableBandwidthSmooth1D.hh -- KDE with adaptive bandwidth. Used by
JohnsonKDESmoother.hh.
Nonparametric regression
------------------------
LocalLogisticRegression.hh -- facilities for performing local linear and
quadratic logistic regression. The interface is designed for use
together with Minuit. See also the header "minuitLocalRegression.hh"
in the "interfaces" directory.
QuantileRegression1D.hh -- nonparametric quantile regression with one
predictor. Supports polynomials of arbitrary degrees. Useful for
constructing Neyman belts. See also "minuitLocalQuantileRegression1D.hh"
header in the "interfaces" directory.
LocalQuantileRegression.hh -- multivariate local linear or quadratic
quantile regression. Can be used to fit histograms or collections
of points. See also "minuitQuantileRegression.hh" header in the
"interfaces" directory.
CensoredQuantileRegression.hh -- multivariate local linear or quadratic
quantile regression which can be used for data samples affected by
a one-sided cut.
griddedRobustRegression.hh -- framework for local robust regression
(in particular, for local least trimmed squares).
GriddedRobustRegressionStop.hh -- simple functor for stopping robust
regression sequence.
AbsLossCalculator.hh -- abstract class for calculating local loss for
local robust regression. Implemented in "WeightedLTSLoss.hh" and
"TwoPointsLTSLoss.hh".
WeightedLTSLoss.hh -- functor for calculating local least trimmed squares
with one point removed.
TwoPointsLTSLoss.hh -- functor for calculating local least trimmed squares
with two points or 1-d stripes removed.
Interpolation of statistical distributions
------------------------------------------
AbsGridInterpolatedDistribution.hh -- interface class for interpolating
between probability distributions placed at the points of a rectangular
parameter grid. Implemented in GridInterpolatedDistribution.hh. To be
used by application code.
AbsInterpolatedDistribution1D.hh -- interface class for univariate density
interpolation algorithms. Implemented by InterpolatedDistribution1D.hh
and VerticallyInterpolatedDistribution1D.hh.
AbsInterpolationAlgoND.hh -- interface class for multivariate density
interpolation algorithms. Implemented by CopulaInterpolationND.hh
and UnitMapInterpolationND.hh. Used by GridInterpolatedDistribution.hh.
CopulaInterpolationND.hh -- interpolation of distributions represented by
CompositeDistributionND. Copulas and quantile functions of the marginals
are combined with externally provided weights.
UnitMapInterpolationND.hh -- interpolation of distributions mapped to the
unit cube by conditional quantile functions.
GridInterpolatedDistribution.hh -- class which represents a complete
multivariate distribution interpolated in parameters. Constructed
incrementally, by adding distributions to the grid points.
InterpolatedDistribution1D.hh -- 1-d continuous statistical distribution
which interpolates between other distributions by performing linear
interpolation of the quantile function.
InterpolatedDistro1D1P.hh -- 1-d continuous statistical distribution
interpolation on a 1-d parameter grid, with linear interpolation
of weights between parameter values. Supports both interpolation
of quantile functions and vertical interpolation.
InterpolatedDistro1DNP.hh -- 1-d continuous statistical distribution
interpolation on a multivariate parameter grid, with multilinear
interpolation of weights between parameter values. Supports both
interpolation of quantile functions and vertical interpolation.
UnitMapInterpolationND.hh -- this class interpolates between multivariate
distributions by interpolating between their unit maps.
Miscellaneous data analysis techniques
--------------------------------------
neymanPearsonWindow1D.hh -- search for likelihood ratio maximum and
determination of optimal cuts in 1-d based on likelihood ratio
between signal and background.
Convenience API
---------------
DensityScan1D.hh -- utility class for discretizing 1-d densities.
DensityScanND.hh -- functor for filling multidimensional arrays with
multivariate density scans. Calculates the density in the bin center.
discretizationErrorND.hh -- function for calculating the ISE due to
discretization of multivariate densities.
DensityAveScanND.hh -- functor for filling multidimensional arrays with
multivariate density scans. Integrates the density over the bin area.
Distribution1DFactory.hh -- creation of a number of 1-d distributions from
a uniform interface.
scanDensityAsWeight.hh -- determines density support and scans a multivariate
density in a manner suitable for subsequent construction of orthogonal
polynomial systems.
Utilities
---------
StatUtils.hh -- a few useful functions which did not fit
naturally anywhere else.
histoUtils.hh -- utilities related to special ways of filling
histograms, etc.
NMCombinationSequencer.hh -- helper class for a certain type of integer
permutations (distinct ways of choosing M
out of N objects). Used by Copulas.cc.
mirrorWeight.hh -- helper function for scanning multivariate
densities. Used by LocalPolyFilterND and
KDEFilterND codes.
multinomialCovariance1D.hh -- helper function for building multinomial
distribution covariance matrices.
gaussianResponseMatrix.hh -- helper function for building response matrices
for one-dimensional unfolding problems.
productResponseMatrix.hh -- helper function for building sparse response
matrices for multivariate unfolding problems.
SymbetaParams1D.hh -- collects the parameters of symmetric beta
kernels.
I/O
---
Distribution1DReader.hh -- factory for deserializing 1-d distribution functions.
DistributionNDReader.hh -- factory for deserializing N-d distribution functions.
DiscreteDistribution1DReader.hh -- factory for deserializing 1-d discrete
distributions.
DistributionTransform1DReader.hh -- factory for deserializing 1-d transforms.
NtupleRecordTypes.hh -- mechanisms for locating parts of the ArchivedNtuple
NtupleRecordTypesFwd.hh in the archive. Not for use by application code.
NtupleReference.hh -- special reference type for ArchivedNtuple.
fillHistoFromText.hh -- utility for filling histograms from text files.
Index: trunk/npstat/stat/Makefile
===================================================================
--- trunk/npstat/stat/Makefile (revision 436)
+++ trunk/npstat/stat/Makefile (revision 437)
@@ -1,1121 +1,1121 @@
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griddedRobustRegression.hh \
griddedRobustRegression.icc \
GriddedRobustRegressionStop.hh \
GridInterpolatedDistribution.hh \
GridRandomizer.hh \
HistoAxis.hh \
HistoND.hh \
HistoND.icc \
HistoNDCdf.hh \
HistoNDFunctorInstances.hh \
histoStats.hh \
histoStats.icc \
histoUtils.hh \
histoUtils.icc \
IdentityTransform1D.hh \
InMemoryNtuple.hh \
InMemoryNtuple.icc \
InterpolatedDistribution1D.hh \
InterpolatedDistro1D1P.hh \
InterpolatedDistro1DNP.hh \
interpolateHistoND.hh \
interpolateHistoND.icc \
InterpolationFunctorInstances.hh \
JohnsonCurves.hh \
JohnsonKDESmoother.hh \
KDECopulaSmoother.hh \
KDECopulaSmoother.icc \
KDEGroupedCopulaSmoother.hh \
KDEGroupedCopulaSmoother.icc \
KDEFilterND.hh \
KDEFilterND.icc \
kendallsTau.hh \
kendallsTau.icc \
LeftCensoredDistribution.hh \
LocalLogisticRegression.hh \
LocalLogisticRegression.icc \
LocalMultiFilter1D.hh \
LocalMultiFilter1D.icc \
LocalPolyFilter1D.hh \
LocalPolyFilter1D.icc \
LocalPolyFilter1DReader.hh \
LocalPolyFilterND.hh \
LocalPolyFilterND.icc \
LocalQuadraticLeastSquaresND.hh \
LocalQuadraticLeastSquaresND.icc \
LocalQuantileRegression.hh \
LocalQuantileRegression.icc \
LocationScaleTransform1.hh \
LocationScaleTransform1.icc \
logLikelihoodPeak.hh \
LogRatioTransform1D.hh \
LogTransform1D.hh \
LOrPECopulaSmoother.hh \
LOrPECopulaSmoother.icc \
LOrPEGroupedCopulaSmoother.hh \
LOrPEGroupedCopulaSmoother.icc \
LOrPEMarginalSmoother.hh \
lorpeBackgroundCVDensity1D.hh \
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lorpeBackground1D.hh \
lorpeBackground1D.icc \
lorpeMise1D.hh \
lorpeSmooth1D.hh \
lorpeSmooth1D.icc \
MemoizingSymbetaFilterProvider.hh \
MemoizingSymbetaFilterProvider.icc \
mergeTwoHistos.hh \
mergeTwoHistos.icc \
mirrorWeight.hh \
MultiscaleEMUnfold1D.hh \
multinomialCovariance1D.hh \
MultivariateSumAccumulator.hh \
MultivariateSumsqAccumulator.hh \
MultivariateSumsqAccumulator.icc \
MultivariateWeightedSumAccumulator.hh \
MultivariateWeightedSumsqAccumulator.hh \
MultivariateWeightedSumsqAccumulator.icc \
neymanPearsonWindow1D.hh \
NMCombinationSequencer.hh \
NonparametricCompositeBuilder.hh \
NonparametricCompositeBuilder.icc \
NonparametricDistro1DBuilder.hh \
NonparametricDistro1DBuilder.icc \
NtHistoFill.hh \
NtNtupleFill.hh \
NtRectangularCut.hh \
NtRectangularCut.icc \
NtupleBuffer.hh \
NtupleBuffer.icc \
NtupleRecordTypes.hh \
NtupleRecordTypesFwd.hh \
NtupleReference.hh \
NUHistoAxis.hh \
OrderedPointND.hh \
OrderedPointND.icc \
PearsonsChiSquared.hh \
PolyFilterCollection1D.hh \
productResponseMatrix.hh \
productResponseMatrix.icc \
ProductSymmetricBetaNDCdf.hh \
QuadraticOrthoPolyND.hh \
QuadraticOrthoPolyND.icc \
QuantileRegression1D.hh \
QuantileRegression1D.icc \
QuantileTable1D.hh \
RatioOfNormals.hh \
ResponseMatrix.hh \
RightCensoredDistribution.hh \
SampleAccumulator.hh \
SampleAccumulator.icc \
SbMomentsCalculator.hh \
ScalableGaussND.hh \
scanDensityAsWeight.hh \
SequentialCopulaSmoother.hh \
SequentialGroupedCopulaSmoother.hh \
SequentialPolyFilterND.hh \
SequentialPolyFilterND.icc \
SmoothedEMUnfold1D.hh \
SmoothedEMUnfoldND.hh \
spearmansRho.hh \
spearmansRho.icc \
StatAccumulator.hh \
StatAccumulatorArr.hh \
StatAccumulatorPair.hh \
StatUtils.hh \
StatUtils.icc \
StorableHistoNDFunctor.hh \
StorableHistoNDFunctor.icc \
StorableInterpolationFunctor.hh \
StorableInterpolationFunctor.icc \
StorableMultivariateFunctor.hh \
StorableMultivariateFunctorReader.hh \
SymbetaParams1D.hh \
TransformedDistribution1D.hh \
TruncatedDistribution1D.hh \
TwoPointsLTSLoss.hh \
TwoPointsLTSLoss.icc \
UGaussConvolution1D.hh \
UnfoldingBandwidthScanner1D.hh \
UnfoldingBandwidthScannerND.hh \
UnfoldingFilterNDReader.hh \
UnitMapInterpolationND.hh \
variableBandwidthSmooth1D.hh \
variableBandwidthSmooth1D.icc \
VariableBandwidthSmoother1D.hh \
VerticallyInterpolatedDistribution1D.hh \
weightedCopulaHisto.hh \
weightedCopulaHisto.icc \
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WeightedLTSLoss.hh \
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Index: trunk/npstat/stat/VerticallyInterpolatedDistribution1D.hh
===================================================================
--- trunk/npstat/stat/VerticallyInterpolatedDistribution1D.hh (revision 436)
+++ trunk/npstat/stat/VerticallyInterpolatedDistribution1D.hh (revision 437)
@@ -1,111 +1,112 @@
#ifndef NPSTAT_VERTICALLYINTERPOLATEDDISTRIBUTION1D_HH_
#define NPSTAT_VERTICALLYINTERPOLATEDDISTRIBUTION1D_HH_
/*!
// \file VerticallyInterpolatedDistribution1D.hh
//
// \brief Interpolation of 1-d distributions via linear interpolation
// of densities
//
// Author: I. Volobouev
//
// July 2015
*/
#include <vector>
-#include "npstat/stat/WeightedDistro1D.hh"
+#include "npstat/stat/WeightedDistro1DPtr.hh"
#include "npstat/stat/AbsInterpolatedDistribution1D.hh"
namespace npstat {
/**
// 1-d continuous statistical distribution which interpolates between
- // other distributions by performing linear interpolation of the
- // density.
+ // other distributions by performing linear interpolation of their
+ // densities.
//
// Note that the interpolated distributions must still exist while this
// object is in use (this class neither owns nor copies them).
*/
- class VerticallyInterpolatedDistribution1D : public AbsInterpolatedDistribution1D
+ class VerticallyInterpolatedDistribution1D :
+ public AbsInterpolatedDistribution1D
{
public:
/**
// It is expected that the object will be constructed
// incrementally: first, the constructor will be called
// using the expected number of distributions to use
// and then function "add" will be used to put the
// distributions and weights in. Use the default constructor
// if the number of distributions is not known in advance
// (the class will still operate as expected but the
// performance will take a hit).
*/
explicit VerticallyInterpolatedDistribution1D(unsigned expectedNDistros);
VerticallyInterpolatedDistribution1D();
inline virtual ~VerticallyInterpolatedDistribution1D() {}
inline virtual VerticallyInterpolatedDistribution1D* clone() const
{return new VerticallyInterpolatedDistribution1D(*this);}
/**
// Add a new distribution. Note that, unlike DistributionMix1D,
// this class will continue using the reference instead of making
// a copy of the distribution.
*/
void add(const AbsDistribution1D& d, double weight);
/** Replace an existing distribution */
void replace(unsigned i, const AbsDistribution1D& d, double weight);
/** Modify the weight for an existing dostribution */
void setWeight(unsigned i, double weight);
/** Clear all distributions */
void clear();
/**
// The following function should be called to disable
// (and later enable) automatic weight normalization
// if you want to use the "setWeight" or "replace" methods
// many times and, especially, if at some point in this process
// the sum of the weights becomes zero. The "density" method
// can not be called if normalization is not enabled.
*/
void normalizeAutomatically(bool allow);
/** The number of distributions participating in the interpolation */
inline unsigned size() const {return count_;}
inline unsigned expectedSize() const {return nExpected_;}
// Methods inherited from AbsDistribution1D
double density(double x) const;
double cdf(double x) const;
double exceedance(double x) const;
double quantile(double x) const;
// Methods needed for I/O
virtual gs::ClassId classId() const {return gs::ClassId(*this);}
static inline const char* classname()
{return "npstat::VerticallyInterpolatedDistribution1D";}
static inline unsigned version() {return 1;}
protected:
virtual bool isEqual(const AbsDistribution1D&) const;
private:
void normalize();
- std::vector<Private::WeightedDistro1D> wdmem_;
+ std::vector<Private::WeightedDistro1DPtr> wdmem_;
unsigned nExpected_;
unsigned count_;
double wsum_;
double xmin_;
double xmax_;
bool autoNormalize_;
};
}
#endif // NPSTAT_VERTICALLYINTERPOLATEDDISTRIBUTION1D_HH_
Index: trunk/npstat/stat/InterpolatedDistribution1D.cc
===================================================================
--- trunk/npstat/stat/InterpolatedDistribution1D.cc (revision 436)
+++ trunk/npstat/stat/InterpolatedDistribution1D.cc (revision 437)
@@ -1,227 +1,227 @@
#include <cassert>
#include <stdexcept>
#include <cfloat>
#include <cmath>
#include "npstat/stat/InterpolatedDistribution1D.hh"
namespace npstat {
InterpolatedDistribution1D::InterpolatedDistribution1D()
: nExpected_(0), count_(0),
wsum_(0.0), xmin_(0.0), xmax_(0.0),
autoNormalize_(true)
{
}
InterpolatedDistribution1D::InterpolatedDistribution1D(
const unsigned expectedNDistros)
: nExpected_(expectedNDistros), count_(0),
wsum_(0.0), xmin_(0.0), xmax_(0.0),
autoNormalize_(true)
{
wdmem_.reserve(nExpected_);
}
void InterpolatedDistribution1D::clear()
{
wdmem_.clear();
wdmem_.reserve(nExpected_);
count_ = 0;
wsum_ = 0.0;
xmin_ = 0.0;
xmax_ = 0.0;
}
void InterpolatedDistribution1D::add(
const AbsDistribution1D& d, const double weight)
{
- wdmem_.push_back(Private::WeightedDistro1D(d, weight));
+ wdmem_.push_back(Private::WeightedDistro1DPtr(d, weight));
if (++count_ >= nExpected_)
normalize();
}
void InterpolatedDistribution1D::replace(
const unsigned i, const AbsDistribution1D& d, const double weight)
{
- wdmem_.at(i) = Private::WeightedDistro1D(d, weight);
+ wdmem_.at(i) = Private::WeightedDistro1DPtr(d, weight);
if (count_ >= nExpected_)
normalize();
}
void InterpolatedDistribution1D::setWeight(
const unsigned i, const double weight)
{
wdmem_.at(i).w = weight;
if (count_ >= nExpected_)
normalize();
}
void InterpolatedDistribution1D::normalizeAutomatically(const bool allow)
{
autoNormalize_ = allow;
if (allow && count_ >= nExpected_)
normalize();
}
void InterpolatedDistribution1D::normalize()
{
if (autoNormalize_)
{
- const Private::WeightedDistro1D* wd = &wdmem_[0];
+ const Private::WeightedDistro1DPtr* wd = &wdmem_[0];
wsum_ = 0.0;
xmin_ = 0.0;
xmax_ = 0.0;
for (unsigned i=0; i<count_; ++i)
{
const double weight(wd[i].w);
wsum_ += weight;
xmin_ += wd[i].d->quantile(0.0)*weight;
xmax_ += wd[i].d->quantile(1.0)*weight;
}
if (wsum_ <= 0.0) throw std::invalid_argument(
"In npstat::InterpolatedDistribution1D::normalize: "
"sum of weights is not positive");
xmin_ /= wsum_;
xmax_ /= wsum_;
}
}
void InterpolatedDistribution1D::densityAndCdf(
const double x, double* pdensity, double* pcdf) const
{
if (!autoNormalize_) throw std::runtime_error(
"In npstat::InterpolatedDistribution1D::densityAndCdf: "
"normalization must be enabled");
assert(pdensity);
assert(pcdf);
if (x <= xmin_)
{
*pdensity = 0.0;
*pcdf = 0.0;
return;
}
if (x >= xmax_)
{
*pdensity = 0.0;
*pcdf = 1.0;
return;
}
// Go to the cdf space
const double y = cdf(x);
*pcdf = y;
// Figure out a reasonable step size
double h = pow(DBL_EPSILON, 1.0/3.0);
if (y + h >= 1.0)
h = (1.0 - y)/2.0;
if (y - h <= 0.0)
h = y / 2.0;
if (h == 0.0)
{
*pdensity = 0.0;
return;
}
// Calculate the derivative of the quantile function
const volatile double yp = y + h;
const volatile double ym = y - h;
const double dq = (quantile(yp) - quantile(ym))/(yp - ym);
if (dq > 0.0)
*pdensity = 1.0/dq;
else
*pdensity = DBL_MAX;
}
double InterpolatedDistribution1D::density(const double x) const
{
if (!autoNormalize_) throw std::runtime_error(
"In npstat::InterpolatedDistribution1D::density: "
"normalization must be enabled");
if (x <= xmin_ || x >= xmax_)
return 0.0;
// Go to the cdf space
const double y = cdf(x);
// Figure out a reasonable step size
double h = 2.0*sqrt(DBL_EPSILON);
if (y + h >= 1.0)
h = (1.0 - y)/2.0;
if (y - h <= 0.0)
h = y / 2.0;
if (h == 0.0)
return 0.0;
// Calculate the derivative of the quantile function
const volatile double yp = y + h;
const volatile double ym = y - h;
const double dq = (quantile(yp) - quantile(ym))/(yp - ym);
if (dq > 0.0)
return 1.0/dq;
else
return DBL_MAX;
}
double InterpolatedDistribution1D::cdf(const double x) const
{
if (!autoNormalize_) throw std::runtime_error(
"In npstat::InterpolatedDistribution1D::cdf: "
"normalization must be enabled");
if (x <= xmin_)
return 0.0;
else if (x >= xmax_)
return 1.0;
else
{
// Need to return such y that quantile(y) = x
const double eps = 2.0*DBL_EPSILON;
double yhi = 1.0;
double ylo = 0.0;
while ((yhi - ylo)/(yhi + ylo + DBL_EPSILON) > eps)
{
const double half = (yhi + ylo)/2.0;
if (quantile(half) >= x)
yhi = half;
else
ylo = half;
}
return (yhi + ylo)/2.0;
}
}
double InterpolatedDistribution1D::exceedance(const double x) const
{
return 1.0 - cdf(x);
}
double InterpolatedDistribution1D::quantile(const double x) const
{
if (!autoNormalize_) throw std::runtime_error(
"In npstat::InterpolatedDistribution1D::quantile: "
"normalization must be enabled");
if (!(count_ && count_ >= nExpected_)) throw std::runtime_error(
"In npstat::InterpolatedDistribution1D::quantile: "
"not enough distributions added");
double qsum = 0.0;
- const Private::WeightedDistro1D* wd = &wdmem_[0];
+ const Private::WeightedDistro1DPtr* wd = &wdmem_[0];
for (unsigned i=0; i<count_; ++i)
{
const double w = wd[i].w;
if (w)
qsum += w*wd[i].d->quantile(x);
}
return qsum/wsum_;
}
bool InterpolatedDistribution1D::isEqual(
const AbsDistribution1D& otherBase) const
{
const InterpolatedDistribution1D& r =
static_cast<const InterpolatedDistribution1D&>(otherBase);
return count_ == r.count_ && wdmem_ == r.wdmem_ &&
nExpected_ == r.nExpected_;
}
}
Index: trunk/npstat/stat/buildInterpolatedDistro1DNP.icc
===================================================================
--- trunk/npstat/stat/buildInterpolatedDistro1DNP.icc (revision 436)
+++ trunk/npstat/stat/buildInterpolatedDistro1DNP.icc (revision 437)
@@ -1,24 +1,24 @@
#include "npstat/stat/buildInterpolatedHelpers.hh"
namespace npstat {
template <class Point>
inline CPP11_auto_ptr<InterpolatedDistro1DNP>
buildInterpolatedDistro1DNP(
const std::vector<Point>& data,
const unsigned* dimPredictors, const unsigned nPredictors,
const std::string* predictorNames,
const unsigned* predictorNumBins, const int predictorSymbetaPower,
const double effectiveEventsPerBin, const bool stretchPredKernels,
const unsigned responseDimToUse,
const AbsDistro1DBuilder<Point>& builder,
const bool interpolateVertically, const unsigned reportFrequency)
{
- return buildInterpolatedHelper<
+ return Private::buildInterpolatedHelper<
Point,InterpolatedDistro1DNP,AbsDistro1DBuilder>(
data, dimPredictors, nPredictors, predictorNames,
predictorNumBins, predictorSymbetaPower,
effectiveEventsPerBin, stretchPredKernels,
&responseDimToUse, 1U, builder,
interpolateVertically, reportFrequency);
}
}
Index: trunk/npstat/stat/WeightedDistro1DPtr.hh
===================================================================
--- trunk/npstat/stat/WeightedDistro1DPtr.hh (revision 0)
+++ trunk/npstat/stat/WeightedDistro1DPtr.hh (revision 437)
@@ -0,0 +1,40 @@
+#ifndef NPSTAT_WEIGHTEDDISTRO1DPTR_HH_
+#define NPSTAT_WEIGHTEDDISTRO1DPTR_HH_
+
+//======================================================================
+// WeightedDistro1DPtr.hh
+//
+// This is an internal header which is subject to change without notice.
+// Application code should never use the classes declared/defined in
+// this header directly.
+//
+// Author: I. Volobouev
+//
+// June 2015
+//======================================================================
+
+#include "npstat/stat/AbsDistribution1D.hh"
+
+namespace npstat {
+ namespace Private {
+ struct WeightedDistro1DPtr
+ {
+ inline WeightedDistro1DPtr(const AbsDistribution1D& id,
+ const double weight)
+ : d(&id), w(weight) {}
+
+ const AbsDistribution1D* d;
+ double w;
+
+ inline bool operator==(const WeightedDistro1DPtr& r) const
+ {return *d == *r.d && w == r.w;}
+ inline bool operator!=(const WeightedDistro1DPtr& r) const
+ {return !(*this == r);}
+
+ private:
+ WeightedDistro1DPtr();
+ };
+ }
+}
+
+#endif // NPSTAT_WEIGHTEDDISTRO1DPTR_HH_
Index: trunk/npstat/stat/AbsDistro1DBuilder.hh
===================================================================
--- trunk/npstat/stat/AbsDistro1DBuilder.hh (revision 436)
+++ trunk/npstat/stat/AbsDistro1DBuilder.hh (revision 437)
@@ -1,97 +1,97 @@
#ifndef NPSTAT_ABSDISTRO1DBUILDER_HH_
#define NPSTAT_ABSDISTRO1DBUILDER_HH_
/*!
// \file AbsDistro1DBuilder.hh
//
-// \brief Interface definition for classes which build univariate distrubutions
+// \brief Interface definition for classes which reconstruct univariate
+// distrubutions from data samples
//
// Author: I. Volobouev
//
-// September 2010
+// July 2015
*/
#include <vector>
#include <utility>
#include "npstat/nm/BoxND.hh"
#include "npstat/stat/AbsDistribution1D.hh"
namespace npstat {
/**
- // Interface definition for classes which build univariate distrubutions
- // out of data samples (typically, by fitting or smoothing)
+ // Interface definition for classes which reconstruct univariate
+ // distrubutions out of data samples (typically, by fitting or smoothing)
*/
template <class Point>
class AbsDistro1DBuilder
{
public:
typedef AbsDistribution1D result_type;
// Second element of the pairs defined below is the weight
typedef std::pair<const Point*, double> WeightedPointPtr;
typedef std::vector<WeightedPointPtr> WeightedPtrVec;
typedef std::pair<typename Point::value_type, double> WeightedValue;
typedef std::vector<WeightedValue> WeightedValueVec;
inline virtual ~AbsDistro1DBuilder() {}
/**
// This method will build an AbsDistribution1D
// object on the heap using a sample of points. It is
- // a responsibility of the user to delete it when it
- // is no longer needed.
+ // a responsibility of the user to delete such an object
+ // when it is no longer needed.
*/
virtual AbsDistribution1D* build(
unsigned long uniqueId,
const double* predictorCoords, unsigned nPredictors,
const BoxND<double>& predictorBox,
std::vector<typename Point::value_type>& data) const;
/**
// This method will build an AbsDistribution1D
// object on the heap using a sample of weighted points.
- // It is a responsibility of the user to delete it when
- // it is no longer needed.
+ // It is a responsibility of the user to delete such
+ // an object when it is no longer needed.
*/
virtual AbsDistribution1D* buildWeighted(
unsigned long uniqueId,
const double* predictorCoords, unsigned nPredictors,
const BoxND<double>& predictorBox, const WeightedPtrVec& data,
unsigned responseDimToUse) const;
private:
// The following two methods return a flag which tells us
// whether the response variable should be filtered so that
- // the data points fit inside the interval
+ // the data points fit inside the provided interval
virtual bool makeResponseInterval(
unsigned long uniqueId,
const double* predictorCoords, unsigned nPredictors,
const BoxND<double>& predictorBox,
std::vector<typename Point::value_type>& data,
Interval<double>* interval) const = 0;
virtual bool makeResponseIntervalW(
unsigned long uniqueId,
const double* predictorCoords, unsigned nPredictors,
const BoxND<double>& predictorBox, const WeightedPtrVec& data,
unsigned responseDimToUse, Interval<double>* interval) const = 0;
// The following methods should construct the relevant
- // objects on the heap and must be implemented by the
- // derived classes
+ // objects on the heap
virtual AbsDistribution1D* buildDistro(
unsigned long uniqueId,
const Interval<double>& responseRange,
const std::vector<typename Point::value_type>& data) const = 0;
virtual AbsDistribution1D* buildDistroW(
unsigned long uniqueId, unsigned responseDimToUse,
const Interval<double>& responseRange,
const WeightedValueVec& data) const = 0;
};
}
#include "npstat/stat/AbsDistro1DBuilder.icc"
#endif // NPSTAT_ABSDISTRO1DBUILDER_HH_
Index: trunk/npstat/stat/AbsCompositeDistroBuilder.hh
===================================================================
--- trunk/npstat/stat/AbsCompositeDistroBuilder.hh (revision 436)
+++ trunk/npstat/stat/AbsCompositeDistroBuilder.hh (revision 437)
@@ -1,110 +1,109 @@
#ifndef NPSTAT_ABSCOMPOSITEDISTROBUILDER_HH_
#define NPSTAT_ABSCOMPOSITEDISTROBUILDER_HH_
/*!
// \file AbsCompositeDistroBuilder.hh
//
// \brief Interface definition for classes which build composite distrubutions
//
// Author: I. Volobouev
//
// September 2010
*/
#include <vector>
#include <utility>
#include "npstat/nm/BoxND.hh"
#include "npstat/stat/OrderedPointND.hh"
#include "npstat/stat/CompositeDistributionND.hh"
namespace npstat {
/**
// Interface definition for classes which build composite distrubutions
// out of data samples (typically, by fitting or smoothing) -- see header
// CompositeDistributionND.hh for more details on these distributions.
*/
template <class Point>
class AbsCompositeDistroBuilder
{
public:
typedef CompositeDistributionND result_type;
// Second element of the pairs defined below is the weight
typedef std::pair<const Point*, double> WeightedPointPtr;
typedef std::vector<WeightedPointPtr> WeightedPtrVec;
typedef std::pair<typename Point::value_type, double> WeightedValue;
typedef std::vector<WeightedValue> WeightedValueVec;
inline virtual ~AbsCompositeDistroBuilder() {}
/**
// This method will build a CompositeDistributionND
// object on the heap using a sample of points. It is
- // a responsibility of the user to delete it when it
- // is no longer needed.
+ // a responsibility of the user to delete such an object
+ // when it is no longer needed.
*/
virtual CompositeDistributionND* build(
unsigned long uniqueId,
const double* predictorCoords, unsigned nPredictors,
const BoxND<double>& predictorBox,
std::vector<OrderedPointND<Point> >& data) const;
/**
// This method will build a CompositeDistributionND
// object on the heap using a sample of weighted points.
- // It is a responsibility of the user to delete it when
- // it is no longer needed.
+ // It is a responsibility of the user to delete such
+ // an object when it is no longer needed.
*/
virtual CompositeDistributionND* buildWeighted(
unsigned long uniqueId,
const double* predictorCoords, unsigned nPredictors,
const BoxND<double>& predictorBox, const WeightedPtrVec& data,
const unsigned* dimsToUse, unsigned nDimsToUse) const;
private:
// The following two methods return a flag which tells us
// whether the data points should be filtered so that they
- // fit inside the box
+ // fit inside the provided box
virtual bool makeResponseBox(
unsigned long uniqueId,
const double* predictorCoords, unsigned nPredictors,
const BoxND<double>& predictorBox,
std::vector<OrderedPointND<Point> >& data,
BoxND<double>* box) const = 0;
virtual bool makeResponseBoxW(
unsigned long uniqueId,
const double* predictorCoords, unsigned nPredictors,
const BoxND<double>& predictorBox, const WeightedPtrVec& data,
const unsigned* dimsToUse, unsigned nDimsToUse,
BoxND<double>* box) const = 0;
// The following methods should construct the relevant
- // objects on the heap and must be implemented by the
- // derived classes
+ // objects on the heap
virtual AbsDistribution1D* buildMarginal(
unsigned long uniqueId, unsigned dimNumber,
const Interval<double>& responseRange,
const std::vector<typename Point::value_type>&) const = 0;
virtual AbsDistributionND* buildCopula(
unsigned long uniqueId,
std::vector<OrderedPointND<Point> >&) const = 0;
virtual AbsDistribution1D* buildMarginalW(
unsigned long uniqueId, unsigned dimUsed,
unsigned dimNumber, const Interval<double>& responseRange,
const WeightedValueVec& data) const = 0;
virtual AbsDistributionND* buildCopulaW(unsigned long uniqueId,
const WeightedPtrVec& data,
const unsigned* dimsToUse,
unsigned nDimsToUse) const = 0;
};
}
#include "npstat/stat/AbsCompositeDistroBuilder.icc"
#endif // NPSTAT_ABSCOMPOSITEDISTROBUILDER_HH_
Index: trunk/npstat/stat/Makefile.in
===================================================================
--- trunk/npstat/stat/Makefile.in (revision 436)
+++ trunk/npstat/stat/Makefile.in (revision 437)
@@ -1,1121 +1,1121 @@
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libstat_la_SOURCES = AbsDistribution1D.cc AbsUnfoldND.cc \
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CompositeDistributionND.cc CopulaInterpolationND.cc SymbetaParams1D.cc \
Distribution1DFactory.cc Distribution1DReader.cc DistributionNDReader.cc \
Distributions1D.cc DistributionsND.cc CrossCovarianceAccumulator.cc \
fitSbParameters.cc StatAccumulatorArr.cc HistoAxis.cc ResponseMatrix.cc \
InterpolatedDistribution1D.cc JohnsonCurves.cc JohnsonKDESmoother.cc \
LocalPolyFilter1D.cc logLikelihoodPeak.cc PolyFilterCollection1D.cc \
SbMomentsBigGamma.cc SbMomentsCalculator.cc gaussianResponseMatrix.cc \
SequentialCopulaSmoother.cc SequentialPolyFilterND.cc StatAccumulator.cc \
UnitMapInterpolationND.cc WeightedStatAccumulator.cc AbsNtuple.cc \
QuadraticOrthoPolyND.cc NMCombinationSequencer.cc Filter1DBuilders.cc \
StatAccumulatorPair.cc GridRandomizer.cc ConstantBandwidthSmoother1D.cc \
GaussianMixture1D.cc HistoNDCdf.cc scanDensityAsWeight.cc NUHistoAxis.cc \
distributionReadError.cc WeightedStatAccumulatorPair.cc AbsUnfold1D.cc \
ProductSymmetricBetaNDCdf.cc DualHistoAxis.cc multinomialCovariance1D.cc \
StorableMultivariateFunctor.cc StorableMultivariateFunctorReader.cc \
TruncatedDistribution1D.cc neymanPearsonWindow1D.cc AsinhTransform1D.cc \
LOrPEMarginalSmoother.cc LeftCensoredDistribution.cc QuantileTable1D.cc \
RightCensoredDistribution.cc AbsDiscreteDistribution1D.cc convertAxis.cc \
DiscreteDistribution1DReader.cc DiscreteDistributions1D.cc lorpeMise1D.cc \
BernsteinFilter1DBuilder.cc BetaFilter1DBuilder.cc AbsFilter1DBuilder.cc \
continuousDegreeTaper.cc RatioOfNormals.cc AbsCVCopulaSmoother.cc \
DensityScan1D.cc BoundaryHandling.cc SmoothedEMUnfold1D.cc Copulas.cc \
PearsonsChiSquared.cc BinnedKSTest1D.cc MultiscaleEMUnfold1D.cc \
AbsBinnedComparison1D.cc BinnedADTest1D.cc LocalPolyFilter1DReader.cc \
MemoizingSymbetaFilterProvider.cc UGaussConvolution1D.cc BinSummary.cc \
SmoothedEMUnfoldND.cc UnfoldingFilterNDReader.cc AbsUnfoldingFilterND.cc \
UnfoldingBandwidthScannerND.cc DistributionMix1D.cc ScalableGaussND.cc \
InterpolatedDistro1D1P.cc AbsDistributionTransform1D.cc LogTransform1D.cc \
DistributionTransform1DReader.cc TransformedDistribution1D.cc \
WeightTableFilter1DBuilder.cc VerticallyInterpolatedDistribution1D.cc \
LocalMultiFilter1D.cc LogRatioTransform1D.cc IdentityTransform1D.cc \
VariableBandwidthSmoother1D.cc AbsMarginalSmootherBase.cc \
buildInterpolatedHelpers.cc GridInterpolatedDistribution.cc \
AbsCopulaSmootherBase.cc BernsteinCopulaSmoother.cc distro1DStats.cc \
SequentialGroupedCopulaSmoother.cc UnfoldingBandwidthScanner1D.cc \
InterpolatedDistro1DNP.cc
include_HEADERS = AbsBandwidthCV.hh \
AbsBandwidthGCV.hh \
AbsBinnedComparison1D.hh \
AbsBinnedComparison1D.icc \
AbsCompositeDistroBuilder.hh \
AbsCompositeDistroBuilder.icc \
AbsCopulaSmootherBase.hh \
AbsCopulaSmootherBase.icc \
AbsCVCopulaSmoother.hh \
AbsDiscreteDistribution1D.hh \
AbsDistribution1D.hh \
AbsDistributionND.hh \
AbsDistributionND.icc \
AbsDistributionTransform1D.hh \
AbsDistro1DBuilder.hh \
AbsDistro1DBuilder.icc \
AbsFilter1DBuilder.hh \
AbsGridInterpolatedDistribution.hh \
AbsInterpolatedDistribution1D.hh \
AbsInterpolationAlgoND.hh \
AbsLossCalculator.hh \
AbsMarginalSmootherBase.hh \
AbsMarginalSmootherBase.icc \
AbsNtuple.hh \
AbsNtuple.icc \
AbsPolyFilter1D.hh \
AbsPolyFilterND.hh \
AbsResponseBoxBuilder.hh \
AbsResponseIntervalBuilder.hh \
AbsSymbetaFilterProvider.hh \
AbsUnfold1D.hh \
AbsUnfoldingFilterND.hh \
AbsUnfoldND.hh \
amiseOptimalBandwidth.hh \
amiseOptimalBandwidth.icc \
ArchivedNtuple.hh \
ArchivedNtuple.icc \
ArrayProjectors.hh \
ArrayProjectors.icc \
arrayStats.hh \
arrayStats.icc \
AsinhTransform1D.hh \
BandwidthCVLeastSquares1D.hh \
BandwidthCVLeastSquares1D.icc \
BandwidthCVLeastSquaresND.hh \
BandwidthCVLeastSquaresND.icc \
BandwidthCVPseudoLogli1D.hh \
BandwidthCVPseudoLogli1D.icc \
BandwidthCVPseudoLogliND.hh \
BandwidthCVPseudoLogliND.icc \
BandwidthGCVLeastSquares1D.hh \
BandwidthGCVLeastSquares1D.icc \
BandwidthGCVLeastSquaresND.hh \
BandwidthGCVLeastSquaresND.icc \
BandwidthGCVPseudoLogli1D.hh \
BandwidthGCVPseudoLogli1D.icc \
BandwidthGCVPseudoLogliND.hh \
BandwidthGCVPseudoLogliND.icc \
BernsteinCopulaSmoother.hh \
BernsteinFilter1DBuilder.hh \
betaKernelsBandwidth.hh \
betaKernelsBandwidth.icc \
BetaFilter1DBuilder.hh \
BinnedADTest1D.hh \
BinnedKSTest1D.hh \
BinSummary.hh \
BinSummary.icc \
BoundaryHandling.hh \
BoundaryMethod.hh \
buildInterpolatedCompositeDistroND.hh \
buildInterpolatedCompositeDistroND.icc \
buildInterpolatedDistro1DNP.hh \
buildInterpolatedDistro1DNP.icc \
buildInterpolatedHelpers.hh \
CensoredQuantileRegression.hh \
CensoredQuantileRegression.icc \
CircularBuffer.hh \
CircularBuffer.icc \
Column.hh \
Column.icc \
CompositeDistribution1D.hh \
CompositeDistributionND.hh \
CompositeDistributionND.icc \
CompositeDistros1D.hh \
ConstantBandwidthSmoother1D.hh \
ConstantBandwidthSmootherND.hh \
ConstantBandwidthSmootherND.icc \
continuousDegreeTaper.hh \
convertAxis.hh \
CopulaInterpolationND.hh \
Copulas.hh \
CrossCovarianceAccumulator.hh \
CrossCovarianceAccumulator.icc \
CVCopulaSmoother.hh \
CVCopulaSmoother.icc \
DensityAveScanND.hh \
DensityScan1D.hh \
DensityScanND.hh \
DiscreteDistribution1DReader.hh \
DiscreteDistributions1D.hh \
discretizationErrorND.hh \
Distribution1DFactory.hh \
Distribution1DReader.hh \
DistributionTransform1DReader.hh \
DistributionMix1D.hh \
DistributionNDReader.hh \
Distributions1D.hh \
Distributions1D.icc \
DistributionsND.hh \
DistributionsND.icc \
distributionReadError.hh \
distro1DStats.hh \
DualHistoAxis.hh \
DummyCompositeDistroBuilder.hh \
DummyDistro1DBuilder.hh \
DummyResponseBoxBuilder.hh \
DummyResponseIntervalBuilder.hh \
empiricalCopula.hh \
empiricalCopulaHisto.hh \
empiricalCopulaHisto.icc \
empiricalCopula.icc \
fillHistoFromText.hh \
fillHistoFromText.icc \
Filter1DBuilders.hh \
FitUtils.hh \
FitUtils.icc \
GaussianMixture1D.hh \
gaussianResponseMatrix.hh \
GCVCopulaSmoother.hh \
GCVCopulaSmoother.icc \
griddedRobustRegression.hh \
griddedRobustRegression.icc \
GriddedRobustRegressionStop.hh \
GridInterpolatedDistribution.hh \
GridRandomizer.hh \
HistoAxis.hh \
HistoND.hh \
HistoND.icc \
HistoNDCdf.hh \
HistoNDFunctorInstances.hh \
histoStats.hh \
histoStats.icc \
histoUtils.hh \
histoUtils.icc \
IdentityTransform1D.hh \
InMemoryNtuple.hh \
InMemoryNtuple.icc \
InterpolatedDistribution1D.hh \
InterpolatedDistro1D1P.hh \
InterpolatedDistro1DNP.hh \
interpolateHistoND.hh \
interpolateHistoND.icc \
InterpolationFunctorInstances.hh \
JohnsonCurves.hh \
JohnsonKDESmoother.hh \
KDECopulaSmoother.hh \
KDECopulaSmoother.icc \
KDEGroupedCopulaSmoother.hh \
KDEGroupedCopulaSmoother.icc \
KDEFilterND.hh \
KDEFilterND.icc \
kendallsTau.hh \
kendallsTau.icc \
LeftCensoredDistribution.hh \
LocalLogisticRegression.hh \
LocalLogisticRegression.icc \
LocalMultiFilter1D.hh \
LocalMultiFilter1D.icc \
LocalPolyFilter1D.hh \
LocalPolyFilter1D.icc \
LocalPolyFilter1DReader.hh \
LocalPolyFilterND.hh \
LocalPolyFilterND.icc \
LocalQuadraticLeastSquaresND.hh \
LocalQuadraticLeastSquaresND.icc \
LocalQuantileRegression.hh \
LocalQuantileRegression.icc \
LocationScaleTransform1.hh \
LocationScaleTransform1.icc \
logLikelihoodPeak.hh \
LogRatioTransform1D.hh \
LogTransform1D.hh \
LOrPECopulaSmoother.hh \
LOrPECopulaSmoother.icc \
LOrPEGroupedCopulaSmoother.hh \
LOrPEGroupedCopulaSmoother.icc \
LOrPEMarginalSmoother.hh \
lorpeBackgroundCVDensity1D.hh \
lorpeBackgroundCVDensity1D.icc \
lorpeBackground1D.hh \
lorpeBackground1D.icc \
lorpeMise1D.hh \
lorpeSmooth1D.hh \
lorpeSmooth1D.icc \
MemoizingSymbetaFilterProvider.hh \
MemoizingSymbetaFilterProvider.icc \
mergeTwoHistos.hh \
mergeTwoHistos.icc \
mirrorWeight.hh \
MultiscaleEMUnfold1D.hh \
multinomialCovariance1D.hh \
MultivariateSumAccumulator.hh \
MultivariateSumsqAccumulator.hh \
MultivariateSumsqAccumulator.icc \
MultivariateWeightedSumAccumulator.hh \
MultivariateWeightedSumsqAccumulator.hh \
MultivariateWeightedSumsqAccumulator.icc \
neymanPearsonWindow1D.hh \
NMCombinationSequencer.hh \
NonparametricCompositeBuilder.hh \
NonparametricCompositeBuilder.icc \
NonparametricDistro1DBuilder.hh \
NonparametricDistro1DBuilder.icc \
NtHistoFill.hh \
NtNtupleFill.hh \
NtRectangularCut.hh \
NtRectangularCut.icc \
NtupleBuffer.hh \
NtupleBuffer.icc \
NtupleRecordTypes.hh \
NtupleRecordTypesFwd.hh \
NtupleReference.hh \
NUHistoAxis.hh \
OrderedPointND.hh \
OrderedPointND.icc \
PearsonsChiSquared.hh \
PolyFilterCollection1D.hh \
productResponseMatrix.hh \
productResponseMatrix.icc \
ProductSymmetricBetaNDCdf.hh \
QuadraticOrthoPolyND.hh \
QuadraticOrthoPolyND.icc \
QuantileRegression1D.hh \
QuantileRegression1D.icc \
QuantileTable1D.hh \
RatioOfNormals.hh \
ResponseMatrix.hh \
RightCensoredDistribution.hh \
SampleAccumulator.hh \
SampleAccumulator.icc \
SbMomentsCalculator.hh \
ScalableGaussND.hh \
scanDensityAsWeight.hh \
SequentialCopulaSmoother.hh \
SequentialGroupedCopulaSmoother.hh \
SequentialPolyFilterND.hh \
SequentialPolyFilterND.icc \
SmoothedEMUnfold1D.hh \
SmoothedEMUnfoldND.hh \
spearmansRho.hh \
spearmansRho.icc \
StatAccumulator.hh \
StatAccumulatorArr.hh \
StatAccumulatorPair.hh \
StatUtils.hh \
StatUtils.icc \
StorableHistoNDFunctor.hh \
StorableHistoNDFunctor.icc \
StorableInterpolationFunctor.hh \
StorableInterpolationFunctor.icc \
StorableMultivariateFunctor.hh \
StorableMultivariateFunctorReader.hh \
SymbetaParams1D.hh \
TransformedDistribution1D.hh \
TruncatedDistribution1D.hh \
TwoPointsLTSLoss.hh \
TwoPointsLTSLoss.icc \
UGaussConvolution1D.hh \
UnfoldingBandwidthScanner1D.hh \
UnfoldingBandwidthScannerND.hh \
UnfoldingFilterNDReader.hh \
UnitMapInterpolationND.hh \
variableBandwidthSmooth1D.hh \
variableBandwidthSmooth1D.icc \
VariableBandwidthSmoother1D.hh \
VerticallyInterpolatedDistribution1D.hh \
weightedCopulaHisto.hh \
weightedCopulaHisto.icc \
- WeightedDistro1D.hh \
+ WeightedDistro1DPtr.hh \
WeightedLTSLoss.hh \
WeightedLTSLoss.icc \
WeightedSampleAccumulator.hh \
WeightedSampleAccumulator.icc \
WeightedStatAccumulator.hh \
WeightedStatAccumulatorPair.hh \
WeightTableFilter1DBuilder.hh
EXTRA_DIST = 00README.txt npstat_doxy.hh
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# Tell versions [3.59,3.63) of GNU make to not export all variables.
# Otherwise a system limit (for SysV at least) may be exceeded.
.NOEXPORT:
Index: trunk/npstat/stat/InterpolatedDistribution1D.hh
===================================================================
--- trunk/npstat/stat/InterpolatedDistribution1D.hh (revision 436)
+++ trunk/npstat/stat/InterpolatedDistribution1D.hh (revision 437)
@@ -1,113 +1,113 @@
#ifndef NPSTAT_INTERPOLATEDDISTRIBUTION1D_HH_
#define NPSTAT_INTERPOLATEDDISTRIBUTION1D_HH_
/*!
// \file InterpolatedDistribution1D.hh
//
// \brief Interpolation of 1-d distributions via linear interpolation
// of quantile functions
//
// Author: I. Volobouev
//
// March 2010
*/
#include <vector>
#include "npstat/stat/AbsInterpolatedDistribution1D.hh"
-#include "npstat/stat/WeightedDistro1D.hh"
+#include "npstat/stat/WeightedDistro1DPtr.hh"
namespace npstat {
/**
// 1-d continuous statistical distribution which interpolates between
// other distributions by performing linear interpolation of the
// quantile function.
//
// Note that the interpolated distributions must still exist while this
// object is in use (this class neither owns nor copies them).
*/
class InterpolatedDistribution1D : public AbsInterpolatedDistribution1D
{
public:
/**
// It is expected that the object will be constructed
// incrementally: first, the constructor will be called
// using the expected number of distributions to use
// and then function "add" will be used to put the
// distributions and weights in. Use the default constructor
// if the number of distributions is not known in advance
// (the class will still operate as expected but the
// performance will take a hit).
*/
explicit InterpolatedDistribution1D(unsigned expectedNDistros);
InterpolatedDistribution1D();
inline virtual ~InterpolatedDistribution1D() {}
inline virtual InterpolatedDistribution1D* clone() const
{return new InterpolatedDistribution1D(*this);}
/** Add a new distribution */
void add(const AbsDistribution1D& d, double weight);
/** Replace an existing distribution */
void replace(unsigned i, const AbsDistribution1D& d, double weight);
/** Modify the weight for an existing dostribution */
void setWeight(unsigned i, double weight);
/** Clear all distributions */
void clear();
/**
// The following function should be called to disable
// (and later enable) automatic weight normalization
// if you want to use the "setWeight" or "replace" methods
// many times and, especially, if at some point in this process
// the sum of the weights becomes zero. The "density" method
// can not be called if normalization is not enabled.
*/
void normalizeAutomatically(bool allow);
/** The number of distributions participating in the interpolation */
inline unsigned size() const {return count_;}
inline unsigned expectedSize() const {return nExpected_;}
// Methods inherited from AbsDistribution1D
double density(double x) const;
double cdf(double x) const;
double exceedance(double x) const;
double quantile(double x) const;
/**
// Return both density and cumulative distribution function.
// More efficient than obtaining these two results separately.
*/
void densityAndCdf(double x, double* pdensity, double* pcdf) const;
// Methods needed for I/O
virtual gs::ClassId classId() const {return gs::ClassId(*this);}
static inline const char* classname()
{return "npstat::InterpolatedDistribution1D";}
static inline unsigned version() {return 1;}
protected:
virtual bool isEqual(const AbsDistribution1D&) const;
private:
void normalize();
- std::vector<Private::WeightedDistro1D> wdmem_;
+ std::vector<Private::WeightedDistro1DPtr> wdmem_;
unsigned nExpected_;
unsigned count_;
double wsum_;
double xmin_;
double xmax_;
bool autoNormalize_;
};
}
#endif // NPSTAT_INTERPOLATEDDISTRIBUTION1D_HH_
Index: trunk/npstat/stat/buildInterpolatedHelpers.hh
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