fix conflict

.clang_format.hook

@@ -0,0 +1,15 @@
+#!/bin/bash
+set -e
+
+readonly VERSION="3.8"
+
+version=$(clang-format -version)
+
+if ! [[ $version == *"$VERSION"* ]]; then
+    echo "clang-format version check failed."
+    echo "a version contains '$VERSION' is needed, but get '$version'"
+    echo "you can install the right version, and make an soft-link to '\$PATH' env"
+    exit -1
+fi
+
+clang-format $@

.gitignore

@@ -24,4 +24,5 @@ cmake-build-*
 python/paddle/v2/framework/core.so
 CMakeFiles
 cmake_install.cmake
-
+paddle/.timestamp
+python/paddlepaddle.egg-info/

.pre-commit-config.yaml

@@ -19,10 +19,10 @@
     -   id: end-of-file-fixer
 -   repo: local
     hooks:
-    -   id: clang-format
+    -   id: clang-format-with-version-check
         name: clang-format
         description: Format files with ClangFormat.
-        entry: clang-format -i
+        entry: bash ./.clang_format.hook -i
         language: system
         files: \.(c|cc|cxx|cpp|cu|h|hpp|hxx|proto)$
 -   repo: https://github.com/PaddlePaddle/pre-commit-golang

.travis.yml

@@ -37,8 +37,8 @@ before_install:
   - if [[ "$JOB" == "check_style" ]]; then sudo ln -s /usr/bin/clang-format-3.8 /usr/bin/clang-format; fi
   # Paddle is using protobuf 3.1 currently. Protobuf 3.2 breaks the compatibility. So we specify the python
   # protobuf version.
-  - pip install numpy wheel 'protobuf==3.1' sphinx==1.5.6 recommonmark sphinx-rtd-theme==0.1.9 virtualenv pre-commit requests==2.9.2 LinkChecker
-  - pip install rarfile nltk==3.2.2 scipy==0.19.0 recordio matplotlib Pillow
+  - pip install -r $TRAVIS_BUILD_DIR/python/requirements.txt
+  - pip install wheel sphinx==1.5.6 recommonmark sphinx-rtd-theme==0.1.9 virtualenv pre-commit LinkChecker
   - curl https://glide.sh/get | bash
   - eval "$(GIMME_GO_VERSION=1.8.3 gimme)"
   - go get -u github.com/alecthomas/gometalinter

CMakeLists.txt

@@ -14,8 +14,8 @@
 
 cmake_minimum_required(VERSION 3.0)
 set(CMAKE_MODULE_PATH ${CMAKE_MODULE_PATH} "${CMAKE_CURRENT_SOURCE_DIR}/cmake")
-set(PROJ_ROOT ${CMAKE_CURRENT_SOURCE_DIR})
-set(PROJ_BINARY_ROOT ${CMAKE_CURRENT_BINARY_DIR})
+set(PADDLE_SOURCE_DIR ${CMAKE_CURRENT_SOURCE_DIR})
+set(PADDLE_BINARY_DIR ${CMAKE_CURRENT_BINARY_DIR})
 
 include(system)
 
@@ -55,6 +55,7 @@ option(WITH_C_API       "Compile PaddlePaddle with C-API(Prediction)"   OFF)
 option(WITH_GOLANG      "Compile PaddlePaddle with GOLANG"              OFF)
 option(GLIDE_INSTALL    "Download and install go dependencies "         ON)
 option(USE_NNPACK       "Compile PaddlePaddle with NNPACK library"      OFF)
+option(USE_EIGEN_FOR_BLAS   "Use matrix multiplication in Eigen"        OFF)
 
 # CMAKE_BUILD_TYPE
 if(NOT CMAKE_BUILD_TYPE)
@@ -121,8 +122,8 @@ include(version)            # set PADDLE_VERSION
 include(coveralls)          # set code coverage
 
 
-include_directories("${PROJ_ROOT}")
-include_directories("${PROJ_ROOT}/paddle/cuda/include")
+include_directories("${PADDLE_SOURCE_DIR}")
+include_directories("${PADDLE_SOURCE_DIR}/paddle/cuda/include")
 include_directories("${CMAKE_CURRENT_BINARY_DIR}/proto")
 include_directories("${CMAKE_CURRENT_BINARY_DIR}/go/pserver/client/c")
 include_directories(${Boost_INCLUDE_DIRS})
@@ -137,14 +138,14 @@ set(EXTERNAL_LIBS
 )
 
 if(WITH_GPU)
-    list(APPEND EXTERNAL_LIB ${CUDA_LIBRARIES} ${CUDA_rt_LIBRARY})
+    list(APPEND EXTERNAL_LIBS ${CUDA_LIBRARIES} ${CUDA_rt_LIBRARY})
     if(NOT WITH_DSO)
-        list(APPEND EXTERNAL_LIB ${CUDNN_LIBRARY} ${CUDA_CUBLAS_LIBRARIES} ${CUDA_curand_LIBRARY})
+        list(APPEND EXTERNAL_LIBS ${CUDNN_LIBRARY} ${CUDA_CUBLAS_LIBRARIES} ${CUDA_curand_LIBRARY})
     endif(NOT WITH_DSO)
 endif(WITH_GPU)
 
 if(WITH_MKLDNN)
-    list(APPEND EXTERNAL_LIBS ${MKLDNN_LIBRARY} ${MKLDNN_IOMP_LIB})
+    list(APPEND EXTERNAL_LIBS ${MKLDNN_LIB} ${MKLDNN_IOMP_LIB})
 endif()
 
 if(USE_NNPACK)
@@ -164,10 +165,12 @@ if(WITH_GOLANG)
     add_subdirectory(go)
 endif(WITH_GOLANG)
 
+set(PADDLE_PYTHON_BUILD_DIR "${CMAKE_CURRENT_BINARY_DIR}/python/build")
 add_subdirectory(paddle)
 if(WITH_PYTHON)
   add_subdirectory(python)
 endif()
+
 if(WITH_DOC)
     add_subdirectory(doc)
 endif()

Dockerfile

@@ -10,13 +10,11 @@ RUN /bin/bash -c 'if [[ -n ${UBUNTU_MIRROR} ]]; then sed -i 's#http://archive.ub
 ARG WITH_GPU
 ARG WITH_AVX
 ARG WITH_DOC
-ARG WITH_STYLE_CHECK
 
 ENV WOBOQ OFF
-ENV WITH_GPU=${WITH_GPU:-OFF}
+ENV WITH_GPU=${WITH_GPU:-ON}
 ENV WITH_AVX=${WITH_AVX:-ON}
 ENV WITH_DOC=${WITH_DOC:-OFF}
-ENV WITH_STYLE_CHECK=${WITH_STYLE_CHECK:-OFF}
 
 ENV HOME /root
 # Add bash enhancements
@@ -34,9 +32,6 @@ RUN apt-get update && \
     net-tools && \
     apt-get clean -y
 
-# paddle is using numpy.flip, which is introduced since 1.12.0
-RUN pip --no-cache-dir install 'numpy>=1.12.0'
-
 # Install Go and glide
 RUN wget -qO- https://storage.googleapis.com/golang/go1.8.1.linux-amd64.tar.gz | \
     tar -xz -C /usr/local && \
@@ -58,19 +53,23 @@ RUN localedef -i en_US -f UTF-8 en_US.UTF-8
 # FIXME: due to temporary ipykernel dependency issue, specify ipykernel jupyter
 # version util jupyter fixes this issue.
 RUN pip install --upgrade pip && \
-    pip install -U 'protobuf==3.1.0' && \
-    pip install -U wheel pillow BeautifulSoup && \
+    pip install -U wheel && \
     pip install -U docopt PyYAML sphinx && \
-    pip install -U sphinx-rtd-theme==0.1.9 recommonmark && \
-    pip install pre-commit 'requests==2.9.2' 'ipython==5.3.0' && \
+    pip install -U sphinx-rtd-theme==0.1.9 recommonmark
+
+RUN pip install pre-commit 'ipython==5.3.0' && \
     pip install 'ipykernel==4.6.0' 'jupyter==1.0.0' && \
-    pip install rarfile
+    pip install opencv-python
+
+COPY ./python/requirements.txt /root/
+RUN pip install -r /root/requirements.txt
 
 # To fix https://github.com/PaddlePaddle/Paddle/issues/1954, we use
 # the solution in https://urllib3.readthedocs.io/en/latest/user-guide.html#ssl-py2
 RUN apt-get install -y libssl-dev libffi-dev
 RUN pip install certifi urllib3[secure]
 
+
 # Install woboq_codebrowser to /woboq
 RUN git clone https://github.com/woboq/woboq_codebrowser /woboq && \
     (cd /woboq \

cmake/configure.cmake

@@ -28,6 +28,10 @@ if(NOT WITH_TIMER)
     add_definitions(-DPADDLE_DISABLE_TIMER)
 endif(NOT WITH_TIMER)
 
+if(USE_EIGEN_FOR_BLAS)
+    add_definitions(-DPADDLE_USE_EIGEN_FOR_BLAS)
+endif(USE_EIGEN_FOR_BLAS)
+
 if(NOT WITH_PROFILER)
     add_definitions(-DPADDLE_DISABLE_PROFILER)
 endif(NOT WITH_PROFILER)
@@ -129,7 +133,7 @@ if(WITH_GOLANG)
     add_custom_command(OUTPUT ${CMAKE_BINARY_DIR}/glide
       COMMAND env GOPATH=${GOPATH} ${GLIDE} install
       COMMAND touch ${CMAKE_BINARY_DIR}/glide
-      DEPENDS ${PROJ_ROOT}/go/glide.lock
+      DEPENDS ${PADDLE_SOURCE_DIR}/go/glide.lock
       WORKING_DIRECTORY "${PADDLE_IN_GOPATH}/go"
       )
 

cmake/cpplint.cmake

@@ -52,7 +52,7 @@ macro(add_style_check_target TARGET_NAME)
 
         if(SOURCES_LIST)
             add_custom_command(TARGET ${TARGET_NAME} POST_BUILD
-                COMMAND "${PYTHON_EXECUTABLE}" "${PROJ_ROOT}/paddle/scripts/cpplint.py"
+                COMMAND "${PYTHON_EXECUTABLE}" "${PADDLE_SOURCE_DIR}/paddle/scripts/cpplint.py"
                         "--filter=${STYLE_FILTER}"
                         ${SOURCES_LIST}
                 COMMENT "cpplint: Checking source code style"

cmake/cudnn.cmake

@@ -2,7 +2,7 @@ if(NOT WITH_GPU)
     return()
 endif()
 
-set(CUDNN_ROOT "" CACHE PATH "CUDNN ROOT")
+set(CUDNN_ROOT "/usr" CACHE PATH "CUDNN ROOT")
 find_path(CUDNN_INCLUDE_DIR cudnn.h
     PATHS ${CUDNN_ROOT} ${CUDNN_ROOT}/include
     $ENV{CUDNN_ROOT} $ENV{CUDNN_ROOT}/include ${CUDA_TOOLKIT_INCLUDE}

cmake/external/mkldnn.cmake

@@ -51,7 +51,7 @@ ExternalProject_Add(
     ${EXTERNAL_PROJECT_LOG_ARGS}
     DEPENDS             ${MKLDNN_DEPENDS}
     GIT_REPOSITORY      "https://github.com/01org/mkl-dnn.git"
-    GIT_TAG             "v0.9"
+    GIT_TAG             "v0.10"
     PREFIX              ${MKLDNN_SOURCES_DIR}
     UPDATE_COMMAND      ""
     CMAKE_ARGS          -DCMAKE_INSTALL_PREFIX=${MKLDNN_INSTALL_DIR}

cmake/external/mklml.cmake

@@ -28,7 +28,7 @@ INCLUDE(ExternalProject)
 
 SET(MKLML_PROJECT       "extern_mklml")
 SET(MKLML_VER           "mklml_lnx_2018.0.20170720")
-SET(MKLML_URL           "https://github.com/01org/mkl-dnn/releases/download/v0.9/${MKLML_VER}.tgz")
+SET(MKLML_URL           "https://github.com/01org/mkl-dnn/releases/download/v0.10/${MKLML_VER}.tgz")
 SET(MKLML_SOURCE_DIR    "${THIRD_PARTY_PATH}/mklml")
 SET(MKLML_DOWNLOAD_DIR  "${MKLML_SOURCE_DIR}/src/${MKLML_PROJECT}")
 SET(MKLML_DST_DIR       "mklml")

cmake/external/openblas.cmake

@@ -73,10 +73,18 @@ INCLUDE_DIRECTORIES(${CBLAS_INC_DIR})
 # linear algebra libraries for cc_library(xxx SRCS xxx.c DEPS cblas)
 SET(dummyfile ${CMAKE_CURRENT_BINARY_DIR}/cblas_dummy.c)
 FILE(WRITE ${dummyfile} "const char * dummy = \"${dummyfile}\";")
-ADD_LIBRARY(cblas STATIC ${dummyfile})
+IF(${CBLAS_PROVIDER} MATCHES MKL)
+    ADD_LIBRARY(cblas SHARED ${dummyfile})
+ELSE()
+    ADD_LIBRARY(cblas STATIC ${dummyfile})
+ENDIF()
 TARGET_LINK_LIBRARIES(cblas ${CBLAS_LIBRARIES})
 
 IF(NOT ${CBLAS_FOUND})
     ADD_DEPENDENCIES(cblas extern_openblas)
     LIST(APPEND external_project_dependencies cblas)
+ELSE()
+    IF("${CBLAS_PROVIDER}" STREQUAL "MKLML")
+        ADD_DEPENDENCIES(cblas mklml)
+    ENDIF()
 ENDIF(NOT ${CBLAS_FOUND})

cmake/flags.cmake

@@ -9,11 +9,6 @@ function(CheckCompilerCXX11Flag)
         if(${CMAKE_CXX_COMPILER_VERSION} VERSION_LESS 4.8)
             message(FATAL_ERROR "Unsupported GCC version. GCC >= 4.8 required.")
         endif()
-        # TODO(qijun) gcc 4.9 or later versions raise SEGV due to the optimization problem.
-        # Use Debug mode instead for now.
-        if(CMAKE_CXX_COMPILER_VERSION VERSION_GREATER 4.9 OR CMAKE_CXX_COMPILER_VERSION VERSION_EQUAL 4.9) 
-            set(CMAKE_BUILD_TYPE "Debug" CACHE STRING "" FORCE)
-        endif()
     elseif(CMAKE_CXX_COMPILER_ID STREQUAL "AppleClang" OR CMAKE_CXX_COMPILER_ID STREQUAL "Clang")
         # cmake >= 3.0 compiler id "AppleClang" on Mac OS X, otherwise "Clang"
         # Apple Clang is a different compiler than upstream Clang which havs different version numbers.
@@ -158,7 +153,7 @@ set(CUDA_PROPAGATE_HOST_FLAGS OFF)
 
 # Release/Debug flags set by cmake. Such as -O3 -g -DNDEBUG etc.
 # So, don't set these flags here.
-LIST(APPEND CUDA_NVCC_FLAGS -std=c++11 --default-stream per-thread)
+LIST(APPEND CUDA_NVCC_FLAGS -std=c++11)
 LIST(APPEND CUDA_NVCC_FLAGS --use_fast_math)
 
 if(CMAKE_BUILD_TYPE  STREQUAL "Debug")

cmake/generic.cmake

@@ -411,7 +411,7 @@ function(py_test TARGET_NAME)
     set(multiValueArgs SRCS DEPS)
     cmake_parse_arguments(py_test "${options}" "${oneValueArgs}" "${multiValueArgs}" ${ARGN})  
     add_test(NAME ${TARGET_NAME}
-             COMMAND env PYTHONPATH=${PADDLE_PYTHON_PACKAGE_DIR}
+             COMMAND env PYTHONPATH=${PADDLE_PYTHON_BUILD_DIR}/lib-python
              python2 ${py_test_SRCS}
              WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR})
   endif()

cmake/package.cmake

@@ -12,7 +12,7 @@ set(CPACK_PACKAGE_DESCRIPTION "")
 set(CPACK_DEBIAN_PACKAGE_DEPENDS "libpython2.7-dev, libstdc++6, python-pip, curl, libgfortran3, python-pip-whl")
 set(CPACK_DEBIAN_PACKAGE_SECTION Devel)
 set(CPACK_DEBIAN_PACKAGE_VERSION ${PADDLE_VERSION})
-set(CPACK_DEBIAN_PACKAGE_CONTROL_EXTRA "${PROJ_ROOT}/paddle/scripts/deb/postinst")
+set(CPACK_DEBIAN_PACKAGE_CONTROL_EXTRA "${PADDLE_SOURCE_DIR}/paddle/scripts/deb/postinst")
 #set(CPACK_GENERATOR "DEB")
 # Start cpack
 include (CMakePackageConfigHelpers)

cmake/util.cmake

@@ -141,8 +141,8 @@ endmacro()
 function(create_resources res_file output_file)
   add_custom_command(
     OUTPUT ${output_file}
-    COMMAND python ARGS ${PROJ_ROOT}/cmake/make_resource.py ${res_file} ${output_file}
-    DEPENDS ${res_file} ${PROJ_ROOT}/cmake/make_resource.py)
+    COMMAND python ARGS ${PADDLE_SOURCE_DIR}/cmake/make_resource.py ${res_file} ${output_file}
+    DEPENDS ${res_file} ${PADDLE_SOURCE_DIR}/cmake/make_resource.py)
 endfunction()
 
 

cmake/version.cmake

@@ -4,7 +4,7 @@ set(tmp_version "HEAD")
 while ("${PADDLE_VERSION}" STREQUAL "")
   execute_process(
     COMMAND ${GIT_EXECUTABLE} describe --tags --abbrev=0 ${tmp_version}
-    WORKING_DIRECTORY ${PROJ_ROOT}
+    WORKING_DIRECTORY ${PADDLE_SOURCE_DIR}
     OUTPUT_VARIABLE GIT_TAG_NAME
     RESULT_VARIABLE GIT_RESULT
     ERROR_QUIET OUTPUT_STRIP_TRAILING_WHITESPACE)

doc/api/v2/config/layer.rst

@@ -257,6 +257,11 @@ seq_concat
 ..  autoclass:: paddle.v2.layer.seq_concat
     :noindex:
 
+seq_slice
+---------
+..  autoclass:: paddle.v2.layer.seq_slice
+    :noindex:
+
 kmax_sequence_score
 -------------------
 ..  autoclass:: paddle.v2.layer.kmax_sequence_score
@@ -362,6 +367,11 @@ trans
 ..  autoclass:: paddle.v2.layer.trans
     :noindex:
 
+scale_shift
+-----------
+..  autoclass:: paddle.v2.layer.scale_shift
+    :noindex:
+
 Sampling Layers
 ===============
 
@@ -409,9 +419,14 @@ multi_binary_label_cross_entropy_cost
 ..  autoclass:: paddle.v2.layer.multi_binary_label_cross_entropy_cost
     :noindex:
 
-huber_cost
-----------
-..  autoclass:: paddle.v2.layer.huber_cost
+huber_regression_cost
+-------------------------
+..  autoclass:: paddle.v2.layer.huber_regression_cost
+    :noindex:
+
+huber_classification_cost
+-------------------------
+..  autoclass:: paddle.v2.layer.huber_classification_cost
     :noindex:
 
 lambda_cost