Closed WJT0925 closed 3 years ago
make[3]: 进入目录“/home/jingtian/software/NextPolish/lib/htslib” fatal: Not a git repository: ../../.git/modules/lib/htslib fatal: Not a git repository: ../../.git/modules/lib/htslib gcc -g -Wall -O2 -I. -c -o cram/cram_io.o cram/cram_io.c cram/cram_io.c:61:10: fatal error: lzma.h: 没有那个文件或目录
^~~~~~~~
compilation terminated. make[3]: [Makefile:121：cram/cram_io.o] 错误 1 make[3]: 离开目录“/home/jingtian/software/NextPolish/lib/htslib” make[2]: [../../lib/htslib//htslib.mk:153：../../lib/htslib//libhts.a] 错误 2 make[2]: 离开目录“/home/jingtian/software/NextPolish/util/samtools” make[1]: [Makefile:22：samtools_] 错误 2 make[1]: 离开目录“/home/jingtian/software/NextPolish/util” make: [Makefile:18：all] 错误 2
Error message /home/jingtian/software/NextPolish/test_data/01_rundir/00.lgs_polish/01.db_split.sh.work/db_split0/nextPolish.sh: 行 5: /home/jingtian/software/NextPolish/bin/seq_split: 没有那个文件或目录
Operating system No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 19.04 Release: 19.04 Codename: disco
GCC Using built-in specs. COLLECT_GCC=gcc COLLECT_LTO_WRAPPER=/usr/lib/gcc/x86_64-linux-gnu/8/lto-wrapper OFFLOAD_TARGET_NAMES=nvptx-none OFFLOAD_TARGET_DEFAULT=1 Target: x86_64-linux-gnu Configured with: ../src/configure -v --with-pkgversion='Ubuntu 8.4.0-1ubuntu1~18.04' --with-bugurl=file:///usr/share/doc/gcc-8/README.Bugs --enable-languages=c,ada,c++,go,brig,d,fortran,objc,obj-c++ --prefix=/usr --with-gcc-major-version-only --program-suffix=-8 --program-prefix=x86_64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/lib --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-gnu-unique-object --disable-vtable-verify --enable-libmpx --enable-plugin --enable-default-pie --with-system-zlib --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --disable-werror --with-arch-32=i686 --with-abi=m64 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-offload-targets=nvptx-none --without-cuda-driver --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu Thread model: posix gcc version 8.4.0 (Ubuntu 8.4.0-1ubuntu1~18.04)
Python Python 3.8.3 NextPolish nextPolish v1.3.1
To Reproduce (Optional) ./nextPolish test_data/run.cfg just use the test data you give
see #39
moold
commented
3 years ago moold
commented
3 years ago
make[3]: 进入目录“/home/jingtian/software/NextPolish/lib/htslib” fatal: Not a git repository: ../../.git/modules/lib/htslib fatal: Not a git repository: ../../.git/modules/lib/htslib gcc -g -Wall -O2 -I. -c -o cram/cram_io.o cram/cram_io.c cram/cram_io.c:61:10: fatal error: lzma.h: 没有那个文件或目录
include
compilation terminated. make[3]: [Makefile:121：cram/cram_io.o] 错误 1 make[3]: 离开目录“/home/jingtian/software/NextPolish/lib/htslib” make[2]: [../../lib/htslib//htslib.mk:153：../../lib/htslib//libhts.a] 错误 2 make[2]: 离开目录“/home/jingtian/software/NextPolish/util/samtools” make[1]: [Makefile:22：samtools_] 错误 2 make[1]: 离开目录“/home/jingtian/software/NextPolish/util” make: [Makefile:18：all] 错误 2
Error message /home/jingtian/software/NextPolish/test_data/01_rundir/00.lgs_polish/01.db_split.sh.work/db_split0/nextPolish.sh: 行 5: /home/jingtian/software/NextPolish/bin/seq_split: 没有那个文件或目录
Operating system No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 19.04 Release: 19.04 Codename: disco
GCC Using built-in specs. COLLECT_GCC=gcc COLLECT_LTO_WRAPPER=/usr/lib/gcc/x86_64-linux-gnu/8/lto-wrapper OFFLOAD_TARGET_NAMES=nvptx-none OFFLOAD_TARGET_DEFAULT=1 Target: x86_64-linux-gnu Configured with: ../src/configure -v --with-pkgversion='Ubuntu 8.4.0-1ubuntu1~18.04' --with-bugurl=file:///usr/share/doc/gcc-8/README.Bugs --enable-languages=c,ada,c++,go,brig,d,fortran,objc,obj-c++ --prefix=/usr --with-gcc-major-version-only --program-suffix=-8 --program-prefix=x86_64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/lib --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-gnu-unique-object --disable-vtable-verify --enable-libmpx --enable-plugin --enable-default-pie --with-system-zlib --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --disable-werror --with-arch-32=i686 --with-abi=m64 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-offload-targets=nvptx-none --without-cuda-driver --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu Thread model: posix gcc version 8.4.0 (Ubuntu 8.4.0-1ubuntu1~18.04)
Python Python 3.8.3 NextPolish nextPolish v1.3.1
To Reproduce (Optional) ./nextPolish test_data/run.cfg just use the test data you give