zlib.h:34:19: fatal error: zconf.h: No such file or directory #include "zconf.h"
zlib.h:34:19: fatal error: zconf.h: No such file or directory #include "zconf.h"
关于这个错误的帖子很多，但我没能解决，希望你能想出解决办法。我在 Ubuntu 机器上。
~/graphmap2$
在这个文件夹里，我下载了zlib。可以看图
谷歌搜索后，我也注意到没有 -lz 参数，所以我也手动添加了它，如下所示
但是，我仍然遇到与完成上述 none 时相同的错误。
可能是编译器不清楚zlib的路径？但是，我将它安装在同一个文件夹中。
make 文件如下所示：
BIN = ./bin/graphmap2
BIN_DEBUG = ./bin/graphmap-debug
BIN_LINUX = ./bin/Linux-x64/graphmap2
BIN_MAC = ./bin/Mac/graphmap
OBJ_TESTING = ./obj_test
OBJ_TESTING_EXT = ./obj_testext
OBJ_DEBUG = ./obj_debug
OBJ_LINUX = ./obj_linux
OBJ_EXTCIGAR = ./obj_extcigar
OBJ_MAC = ./obj_mac
SOURCE = src
CODEBASE = codebase
# This finds all 'src' folders at maximum depth 2 (level one inside each submodule's folder).
CODEBASE_SRC_FOLDERS = $(shell find $(CODEBASE) -maxdepth 2 -type d -name "src" -exec echo "-I"{} \;)
# $(shell find $(CODEBASE) -maxdepth 3 -type d -name "libs" -exec echo "-I"{} \;)
# $(shell find $(CODEBASE) -maxdepth 2 -type d -name "src" -exec echo "-I"{}"/*/" \;)
# ? allows override by user using env var
GCC ?= g++
# define variables for GCC version check here
GCC_MAJOR_VERSION_GE_4 := $(shell expr `$(GCC) -dumpversion | cut -f1 -d.` \>= 4)
GCC_MINOR_VERSION_GE_7 := $(shell expr `$(GCC) -dumpversion | cut -f2 -d.` \>= 7)
GCC_MAC ?= g++
# CPP_FILES := $(wildcard $(SOURCE)/*/*.cpp) $(wildcard $(SOURCE)/*.cpp) $(wildcard $(SOURCE)/libs/*/*.cpp)
# CC_FILES := $(wildcard $(SOURCE)/*/*.cc) $(wildcard $(SOURCE)/*.cc) $(wildcard $(SOURCE)/libs/*/*.cc)
# H_FILES := $(wildcard $(SOURCE)/*/*.h) $(wildcard $(SOURCE)/*.h) $(wildcard $(SOURCE)/libs/*/*.h)
CPP_FILES := $(wildcard $(CODEBASE)/*/src/*.cpp) $(wildcard $(CODEBASE)/*/src/libs/*/*.cpp) $(wildcard $(CODEBASE)/*/src/*/*.cpp) $(wildcard $(SOURCE)/*/*.cpp) $(wildcard $(SOURCE)/*.cpp) $(wildcard $(SOURCE)/libs/*/*.cpp)
CC_FILES := $(wildcard $(CODEBASE)/*/src/*.cc) $(wildcard $(CODEBASE)/*/src/libs/*/*.cc) $(wildcard $(CODEBASE)/*/src/*/*.cc) $(wildcard $(SOURCE)/*/*.cc) $(wildcard $(SOURCE)/*.cc) $(wildcard $(SOURCE)/libs/*/*.cc)
H_FILES := $(wildcard $(CODEBASE)/*/src/*.h) $(wildcard $(CODEBASE)/*/src/libs/*/*.h) $(wildcard $(CODEBASE)/*/src/*/*.h) $(wildcard $(SOURCE)/*/*.h) $(wildcard $(SOURCE)/*.h) $(wildcard $(CODEBASE)/*/src/*.hpp) $(wildcard $(CODEBASE)/*$
OBJ_FILES := $(CPP_FILES:.cpp=.o) $(CC_FILES:.cc=.o)
OBJ_FILES_FOLDER_TESTING := $(addprefix $(OBJ_TESTING)/,$(OBJ_FILES))
OBJ_FILES_FOLDER_TESTING_EXT := $(addprefix $(OBJ_TESTING_EXT)/,$(OBJ_FILES))
OBJ_FILES_FOLDER_DEBUG := $(addprefix $(OBJ_DEBUG)/,$(OBJ_FILES))
OBJ_FILES_FOLDER_LINUX := $(addprefix $(OBJ_LINUX)/,$(OBJ_FILES))
OBJ_FILES_FOLDER_EXTCIGAR := $(addprefix $(OBJ_EXTCIGAR)/,$(OBJ_FILES))
OBJ_FILES_FOLDER_MAC := $(addprefix $(OBJ_MAC)/,$(OBJ_FILES))
LIB_DIRS = -L"/usr/local/lib"
CC_LIBS = -static-libgcc -static-libstdc++ -D__cplusplus=201103L
# INCLUDE = -I"./src/" -I"/usr/include/" -I"libs/libdivsufsort-2.0.1/build/include" -I"libs/seqan-library-1.4.2/include"
# INCLUDE = -I"./src/" -I"/usr/include/" -I"src/libs/seqan-library-1.4.2/include"
INCLUDE = -I"./src/" -I"/usr/include/" -I"$(CODEBASE)/seqlib/src/libs/seqan-library-2.0.1/include" -I"$(CODEBASE)/seqlib/src/libs/libdivsufsort-2.0.1-64bit/" $(CODEBASE_SRC_FOLDERS)
CC_FLAGS_DEBUG = -O3 -g -rdynamic -c -fmessage-length=0 -ffreestanding -fopenmp -m64 -std=c++11 -Werror=return-type -pthread -march=native -lz
CC_FLAGS_RELEASE = -DRELEASE_VERSION -g -O3 -fdata-sections -ffunction-sections -c -fmessage-length=0 -ffreestanding -fopenmp -m64 -std=c++11 -Werror=return-type -pthread -lz # -march=native
CC_FLAGS_EXTCIGAR = -DRELEASE_VERSION -DUSE_EXTENDED_CIGAR_FORMAT -g -O3 -fdata-sections -ffunction-sections -c -fmessage-length=0 -ffreestanding -fopenmp -m64 -std=c++11 -Werror=return-type -pthread -march=native -lz
CC_FLAGS_NOT_RELEASE = -g -O3 -fdata-sections -ffunction-sections -c -fmessage-length=0 -ffreestanding -fopenmp -m64 -std=c++11 -Werror=return-type -Wuninitialized -pthread -march=native -lz
CC_FLAGS_NOT_RELEASE_EXT = -g -O3 -DUSE_EXTENDED_CIGAR_FORMAT -fdata-sections -ffunction-sections -c -fmessage-length=0 -ffreestanding -fopenmp -m64 -std=c++11 -Werror=return-type -Wuninitialized -pthread -march=native -lz LD_FLAGS = -static-libgcc -static-libstdc++ -m64 -ffreestanding -lz
# LD_LIBS = -lpthread -lgomp -lm -lz -ldivsufsort64
LD_LIBS = -lpthread -lgomp -lm -lz
all: gcc_version_check linux
install: /usr/bin/graphmap
/usr/bin/graphmap: bin/Linux-x64/graphmap
cp bin/Linux-x64/graphmap /usr/bin/graphmap
modules:
git submodule update --init --recursive
# git submodule foreach git pull origin master
testing: $(OBJ_FILES_FOLDER_TESTING)
mkdir -p $(dir $(BIN))
$(GCC) $(LD_FLAGS) $(LIB_DIRS) -o $(BIN) $(OBJ_FILES_FOLDER_TESTING) $(LD_LIBS)
obj_test/%.o: %.cc $(H_FILES)
mkdir -p $(dir $@)
$(GCC) $(CC_LIBS) $(INCLUDE) $(CC_FLAGS_NOT_RELEASE) -o $@ $<
obj_test/%.o: %.cpp $(H_FILES)
mkdir -p $(dir $@)
$(GCC) $(CC_LIBS) $(INCLUDE) $(CC_FLAGS_NOT_RELEASE) -o $@ $<
testingext: $(OBJ_FILES_FOLDER_TESTING_EXT)
mkdir -p $(dir $(BIN)) $(GCC) $(LD_FLAGS) $(LIB_DIRS) -o $(BIN) $(OBJ_FILES_FOLDER_TESTING_EXT) $(LD_LIBS)
obj_testext/%.o: %.cc $(H_FILES)
mkdir -p $(dir $@)
$(GCC) $(CC_LIBS) $(INCLUDE) $(CC_FLAGS_NOT_RELEASE_EXT) -o $@ $<
obj_testext/%.o: %.cpp $(H_FILES)
mkdir -p $(dir $@)
$(GCC) $(CC_LIBS) $(INCLUDE) $(CC_FLAGS_NOT_RELEASE_EXT) -o $@ $<
gcc_version_check:
ifneq ($(GCC_MAJOR_VERSION_GE_4), 1)
$(warning "*** WARNING $(GCC) major version <4 ***")
endif
ifneq ($(GCC_MINOR_VERSION_GE_7), 1)
$(warning "*** WARNING $(GCC) minor version <7 ***")
endif
有什么想法吗？
似乎编译器无法在您提到的包含路径中找到该文件。
首先检查 zconf.h 文件是否在您的机器上可用并获取该位置。如果文件可用，则只需使用 -I 选项将文件路径提供给编译器。
INCLUDE = -I"<YourPath>" -I"./src/" -I"/usr/include/" -I"$(CODEBASE)/seqlib/src/libs/seqan-library-2.0.1/include" -I"$(CODEBASE)/seqlib/src/libs/libdivsufsort-2.0.1-64bit/" $(CODEBASE_SRC_FOLDERS)
如果文件本身丢失，则需要安装它
sudo apt-get install libz-dev
根据@Knud Larsen 分享的信息：
Ubuntu 包名称是 zlib1g-dev，您可以从中获取丢失的文件。 /usr/include/zconf.h
https://packages.ubuntu.com/focal-updates/amd64/zlib1g-dev/filelist
仅供参考，Altaf 提到的是正确的。不仅如此，您还可以像这样继续添加不在适当位置的内容。找到它们，然后手动添加它们。
如果 makefile 不是很大，这最终没问题。然而，它不会在一般情况下扩展，也许应该以更激进的方式更改 makefile。
关于这个错误的帖子很多，但我没能解决，希望你能想出解决办法。我在 Ubuntu 机器上。
~/graphmap2$
在这个文件夹里，我下载了zlib。可以看图
谷歌搜索后，我也注意到没有 -lz 参数，所以我也手动添加了它，如下所示
但是，我仍然遇到与完成上述 none 时相同的错误。
可能是编译器不清楚zlib的路径？但是，我将它安装在同一个文件夹中。
make 文件如下所示：
BIN = ./bin/graphmap2
BIN_DEBUG = ./bin/graphmap-debug
BIN_LINUX = ./bin/Linux-x64/graphmap2
BIN_MAC = ./bin/Mac/graphmap
OBJ_TESTING = ./obj_test
OBJ_TESTING_EXT = ./obj_testext
OBJ_DEBUG = ./obj_debug
OBJ_LINUX = ./obj_linux
OBJ_EXTCIGAR = ./obj_extcigar
OBJ_MAC = ./obj_mac
SOURCE = src
CODEBASE = codebase
# This finds all 'src' folders at maximum depth 2 (level one inside each submodule's folder).
CODEBASE_SRC_FOLDERS = $(shell find $(CODEBASE) -maxdepth 2 -type d -name "src" -exec echo "-I"{} \;)
# $(shell find $(CODEBASE) -maxdepth 3 -type d -name "libs" -exec echo "-I"{} \;)
# $(shell find $(CODEBASE) -maxdepth 2 -type d -name "src" -exec echo "-I"{}"/*/" \;)
# ? allows override by user using env var
GCC ?= g++
# define variables for GCC version check here
GCC_MAJOR_VERSION_GE_4 := $(shell expr `$(GCC) -dumpversion | cut -f1 -d.` \>= 4)
GCC_MINOR_VERSION_GE_7 := $(shell expr `$(GCC) -dumpversion | cut -f2 -d.` \>= 7)
GCC_MAC ?= g++
# CPP_FILES := $(wildcard $(SOURCE)/*/*.cpp) $(wildcard $(SOURCE)/*.cpp) $(wildcard $(SOURCE)/libs/*/*.cpp)
# CC_FILES := $(wildcard $(SOURCE)/*/*.cc) $(wildcard $(SOURCE)/*.cc) $(wildcard $(SOURCE)/libs/*/*.cc)
# H_FILES := $(wildcard $(SOURCE)/*/*.h) $(wildcard $(SOURCE)/*.h) $(wildcard $(SOURCE)/libs/*/*.h)
CPP_FILES := $(wildcard $(CODEBASE)/*/src/*.cpp) $(wildcard $(CODEBASE)/*/src/libs/*/*.cpp) $(wildcard $(CODEBASE)/*/src/*/*.cpp) $(wildcard $(SOURCE)/*/*.cpp) $(wildcard $(SOURCE)/*.cpp) $(wildcard $(SOURCE)/libs/*/*.cpp)
CC_FILES := $(wildcard $(CODEBASE)/*/src/*.cc) $(wildcard $(CODEBASE)/*/src/libs/*/*.cc) $(wildcard $(CODEBASE)/*/src/*/*.cc) $(wildcard $(SOURCE)/*/*.cc) $(wildcard $(SOURCE)/*.cc) $(wildcard $(SOURCE)/libs/*/*.cc)
H_FILES := $(wildcard $(CODEBASE)/*/src/*.h) $(wildcard $(CODEBASE)/*/src/libs/*/*.h) $(wildcard $(CODEBASE)/*/src/*/*.h) $(wildcard $(SOURCE)/*/*.h) $(wildcard $(SOURCE)/*.h) $(wildcard $(CODEBASE)/*/src/*.hpp) $(wildcard $(CODEBASE)/*$
OBJ_FILES := $(CPP_FILES:.cpp=.o) $(CC_FILES:.cc=.o)
OBJ_FILES_FOLDER_TESTING := $(addprefix $(OBJ_TESTING)/,$(OBJ_FILES))
OBJ_FILES_FOLDER_TESTING_EXT := $(addprefix $(OBJ_TESTING_EXT)/,$(OBJ_FILES))
OBJ_FILES_FOLDER_DEBUG := $(addprefix $(OBJ_DEBUG)/,$(OBJ_FILES))
OBJ_FILES_FOLDER_LINUX := $(addprefix $(OBJ_LINUX)/,$(OBJ_FILES))
OBJ_FILES_FOLDER_EXTCIGAR := $(addprefix $(OBJ_EXTCIGAR)/,$(OBJ_FILES))
OBJ_FILES_FOLDER_MAC := $(addprefix $(OBJ_MAC)/,$(OBJ_FILES))
LIB_DIRS = -L"/usr/local/lib"
CC_LIBS = -static-libgcc -static-libstdc++ -D__cplusplus=201103L
# INCLUDE = -I"./src/" -I"/usr/include/" -I"libs/libdivsufsort-2.0.1/build/include" -I"libs/seqan-library-1.4.2/include"
# INCLUDE = -I"./src/" -I"/usr/include/" -I"src/libs/seqan-library-1.4.2/include"
INCLUDE = -I"./src/" -I"/usr/include/" -I"$(CODEBASE)/seqlib/src/libs/seqan-library-2.0.1/include" -I"$(CODEBASE)/seqlib/src/libs/libdivsufsort-2.0.1-64bit/" $(CODEBASE_SRC_FOLDERS)
CC_FLAGS_DEBUG = -O3 -g -rdynamic -c -fmessage-length=0 -ffreestanding -fopenmp -m64 -std=c++11 -Werror=return-type -pthread -march=native -lz
CC_FLAGS_RELEASE = -DRELEASE_VERSION -g -O3 -fdata-sections -ffunction-sections -c -fmessage-length=0 -ffreestanding -fopenmp -m64 -std=c++11 -Werror=return-type -pthread -lz # -march=native
CC_FLAGS_EXTCIGAR = -DRELEASE_VERSION -DUSE_EXTENDED_CIGAR_FORMAT -g -O3 -fdata-sections -ffunction-sections -c -fmessage-length=0 -ffreestanding -fopenmp -m64 -std=c++11 -Werror=return-type -pthread -march=native -lz
CC_FLAGS_NOT_RELEASE = -g -O3 -fdata-sections -ffunction-sections -c -fmessage-length=0 -ffreestanding -fopenmp -m64 -std=c++11 -Werror=return-type -Wuninitialized -pthread -march=native -lz
CC_FLAGS_NOT_RELEASE_EXT = -g -O3 -DUSE_EXTENDED_CIGAR_FORMAT -fdata-sections -ffunction-sections -c -fmessage-length=0 -ffreestanding -fopenmp -m64 -std=c++11 -Werror=return-type -Wuninitialized -pthread -march=native -lz LD_FLAGS = -static-libgcc -static-libstdc++ -m64 -ffreestanding -lz
# LD_LIBS = -lpthread -lgomp -lm -lz -ldivsufsort64
LD_LIBS = -lpthread -lgomp -lm -lz
all: gcc_version_check linux
install: /usr/bin/graphmap
/usr/bin/graphmap: bin/Linux-x64/graphmap
cp bin/Linux-x64/graphmap /usr/bin/graphmap
modules:
git submodule update --init --recursive
# git submodule foreach git pull origin master
testing: $(OBJ_FILES_FOLDER_TESTING)
mkdir -p $(dir $(BIN))
$(GCC) $(LD_FLAGS) $(LIB_DIRS) -o $(BIN) $(OBJ_FILES_FOLDER_TESTING) $(LD_LIBS)
obj_test/%.o: %.cc $(H_FILES)
mkdir -p $(dir $@)
$(GCC) $(CC_LIBS) $(INCLUDE) $(CC_FLAGS_NOT_RELEASE) -o $@ $<
obj_test/%.o: %.cpp $(H_FILES)
mkdir -p $(dir $@)
$(GCC) $(CC_LIBS) $(INCLUDE) $(CC_FLAGS_NOT_RELEASE) -o $@ $<
testingext: $(OBJ_FILES_FOLDER_TESTING_EXT)
mkdir -p $(dir $(BIN)) $(GCC) $(LD_FLAGS) $(LIB_DIRS) -o $(BIN) $(OBJ_FILES_FOLDER_TESTING_EXT) $(LD_LIBS)
obj_testext/%.o: %.cc $(H_FILES)
mkdir -p $(dir $@)
$(GCC) $(CC_LIBS) $(INCLUDE) $(CC_FLAGS_NOT_RELEASE_EXT) -o $@ $<
obj_testext/%.o: %.cpp $(H_FILES)
mkdir -p $(dir $@)
$(GCC) $(CC_LIBS) $(INCLUDE) $(CC_FLAGS_NOT_RELEASE_EXT) -o $@ $<
gcc_version_check:
ifneq ($(GCC_MAJOR_VERSION_GE_4), 1)
$(warning "*** WARNING $(GCC) major version <4 ***")
endif
ifneq ($(GCC_MINOR_VERSION_GE_7), 1)
$(warning "*** WARNING $(GCC) minor version <7 ***")
endif
有什么想法吗？
似乎编译器无法在您提到的包含路径中找到该文件。
首先检查 zconf.h 文件是否在您的机器上可用并获取该位置。如果文件可用，则只需使用 -I 选项将文件路径提供给编译器。
INCLUDE = -I"<YourPath>" -I"./src/" -I"/usr/include/" -I"$(CODEBASE)/seqlib/src/libs/seqan-library-2.0.1/include" -I"$(CODEBASE)/seqlib/src/libs/libdivsufsort-2.0.1-64bit/" $(CODEBASE_SRC_FOLDERS)
如果文件本身丢失，则需要安装它
sudo apt-get install libz-dev
根据@Knud Larsen 分享的信息：
Ubuntu 包名称是 zlib1g-dev，您可以从中获取丢失的文件。 /usr/include/zconf.h
https://packages.ubuntu.com/focal-updates/amd64/zlib1g-dev/filelist
仅供参考，Altaf 提到的是正确的。不仅如此，您还可以像这样继续添加不在适当位置的内容。找到它们，然后手动添加它们。
如果 makefile 不是很大，这最终没问题。然而，它不会在一般情况下扩展，也许应该以更激进的方式更改 makefile。