I am trying to install mirnylib in my Ubuntu machine. https://bitbucket.org/mirnylab/mirnylib
我正在尝试在我的Ubuntu机器上安装mirnylib。 https://bitbucket.org/mirnylab/mirnylib
I believe all of the required and optional dependencies are installed. However when I run the following command,
我相信所有必需和可选的依赖项都已安装。但是，当我运行以下命令时，
pip install https://bitbucket.org/mirnylab/mirnylib/get/tip.tar.gz
I get the following error (sorry for its length. I don't know how to format it better such that it breaks down into parragraphs)
我得到以下错误（抱歉它的长度。我不知道如何更好地格式化它，以便它分解为parragraphs）
> Collecting https://bitbucket.org/mirnylab/mirnylib/get/tip.tar.gz
Using cached https://bitbucket.org/mirnylab/mirnylib/get/tip.tar.gz
Requirement already satisfied (use --upgrade to upgrade): biopython in ./anaconda2/lib/python2.7/site-packages (from mirnylib==0.0.0)
Requirement already satisfied (use --upgrade to upgrade): joblib>=0.6.3 in ./anaconda2/lib/python2.7/site-packages (from mirnylib==0.0.0)
Requirement already satisfied (use --upgrade to upgrade): h5py in ./anaconda2/lib/python2.7/site-packages (from mirnylib==0.0.0)
Requirement already satisfied (use --upgrade to upgrade): numpy>=1.6.1 in ./anaconda2/lib/python2.7/site-packages (from h5py->mirnylib==0.0.0)
Requirement already satisfied (use --upgrade to upgrade): six in ./anaconda2/lib/python2.7/site-packages (from h5py->mirnylib==0.0.0)
Installing collected packages: mirnylib
Running setup.py install for mirnylib ... error
Complete output from command /home/pau/anaconda2/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-Pg5CY9-build/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-90GRYK-record/install-record.txt --single-version-externally-managed --compile:
running install
running build
running build_py
creating build
creating build/lib.linux-x86_64-2.7
creating build/lib.linux-x86_64-2.7/mirnylib
copying mirnylib/genome.py -> build/lib.linux-x86_64-2.7/mirnylib
copying mirnylib/h5dict.py -> build/lib.linux-x86_64-2.7/mirnylib
copying mirnylib/plotting.py -> build/lib.linux-x86_64-2.7/mirnylib
copying mirnylib/systemutils.py -> build/lib.linux-x86_64-2.7/mirnylib
copying mirnylib/__init__.py -> build/lib.linux-x86_64-2.7/mirnylib
copying mirnylib/numutils.py -> build/lib.linux-x86_64-2.7/mirnylib
creating build/lib.linux-x86_64-2.7/mirnylib/h5dictUtils
copying mirnylib/h5dictUtils/h5dictToTxt.py -> build/lib.linux-x86_64-2.7/mirnylib/h5dictUtils
copying mirnylib/h5dictUtils/__init__.py -> build/lib.linux-x86_64-2.7/mirnylib/h5dictUtils
copying mirnylib/h5dictUtils/h5dictToMat.py -> build/lib.linux-x86_64-2.7/mirnylib/h5dictUtils
running build_ext
cythoning mirnylib/numutils_new.pyx to mirnylib/numutils_new.cpp
building 'mirnylib.numutils_new' extension
creating build/temp.linux-x86_64-2.7
creating build/temp.linux-x86_64-2.7/mirnylib
gcc -pthread -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include -I/home/pau/anaconda2/include/python2.7 -c mirnylib/numutils_new.cpp -o build/temp.linux-x86_64-2.7/mirnylib/numutils_new.o
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++ [enabled by default]
In file included from /home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1781:0,
from /home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
from mirnylib/numutils_new.cpp:251:
/home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^
In file included from /home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:27:0,
from /home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
from mirnylib/numutils_new.cpp:251:
/home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1634:1: warning: ‘int _import_array()’ defined but not used [-Wunused-function]
_import_array(void)
^
mirnylib/numutils_new.cpp:35493:18: warning: ‘PyObject* __pyx_memview_get___pyx_t_double_complex(const char*)’ defined but not used [-Wunused-function]
static PyObject *__pyx_memview_get___pyx_t_double_complex(const char *itemp) {
^
mirnylib/numutils_new.cpp:35496:12: warning: ‘int __pyx_memview_set___pyx_t_double_complex(const char*, PyObject*)’ defined but not used [-Wunused-function]
static int __pyx_memview_set___pyx_t_double_complex(const char *itemp, PyObject *obj) {
^
g++ -pthread -shared -L/home/pau/anaconda2/lib -Wl,-rpath=/home/pau/anaconda2/lib,--no-as-needed build/temp.linux-x86_64-2.7/mirnylib/numutils_new.o -L/home/pau/anaconda2/lib -lpython2.7 -o build/lib.linux-x86_64-2.7/mirnylib/numutils_new.so
skipping 'mirnylib/fastExtensions/fastExtensionspy.cpp' Cython extension (up-to-date)
building 'mirnylib.fastExtensions' extension
creating build/temp.linux-x86_64-2.7/mirnylib/fastExtensions
gcc -pthread -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include -I/home/pau/anaconda2/include/python2.7 -c mirnylib/fastExtensions/fastExtensionspy.cpp -o build/temp.linux-x86_64-2.7/mirnylib/fastExtensions/fastExtensionspy.o -march=native -Ofast -fopenmp
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++ [enabled by default]
In file included from /home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1781:0,
from /home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
from mirnylib/fastExtensions/fastExtensionspy.cpp:251:
/home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by " \
^
mirnylib/fastExtensions/fastExtensionspy.cpp: In function ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_openmmArraySum(PyObject*, PyObject*, PyObject*, PyObject*, PyObject*)’:
mirnylib/fastExtensions/fastExtensionspy.cpp:2302:7: error: redeclaration of ‘int __pyx_v_unsigned_int_is_signed’
int __pyx_v_unsigned_int_is_signed;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2298:7: error: ‘int __pyx_v_unsigned_int_is_signed’ previously declared here
int __pyx_v_unsigned_int_is_signed;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2303:7: error: redeclaration of ‘int __pyx_v_long_is_signed’
int __pyx_v_long_is_signed;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2296:7: error: ‘int __pyx_v_long_is_signed’ previously declared here
int __pyx_v_long_is_signed;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2305:7: error: redeclaration of ‘int __pyx_v_unsigned_char_is_signed’
int __pyx_v_unsigned_char_is_signed;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2295:7: error: ‘int __pyx_v_unsigned_char_is_signed’ previously declared here
int __pyx_v_unsigned_char_is_signed;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2306:7: error: redeclaration of ‘int __pyx_v_int_is_signed’
int __pyx_v_int_is_signed;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2297:7: error: ‘int __pyx_v_int_is_signed’ previously declared here
int __pyx_v_int_is_signed;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2370:23: error: cannot convert ‘PyObject* {aka _object*}’ to ‘PyTypeObject* {aka _typeobject*}’ in assignment
__pyx_v_ndarray = ((PyObject*)__pyx_t_1);
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2443:85: error: ‘__Pyx_PyDict_Contains’ was not declared in this scope
__pyx_t_3 = (__Pyx_PyDict_Contains(__pyx_n_s_a, ((PyObject*)__pyx_v_kwargs), Py_EQ)); if (unlikely(__pyx_t_3 < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 35; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2486:58: error: comparison between distinct pointer types ‘PyTypeObject* {aka _typeobject*}’ and ‘PyObject* {aka _object*}’ lacks a cast
__pyx_t_2 = (__pyx_v_ndarray != ((PyObject*)Py_None));
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2541:43: error: ‘__pyx_builtin_ord’ was not declared in this scope
__pyx_t_8 = __Pyx_PyObject_Call(__pyx_builtin_ord, __pyx_t_9, NULL); if (unlikely(!__pyx_t_8)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 35; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2865:11: error: case label ‘'f'’ not within a switch statement
case 'f':
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2901:11: error: case label ‘'c'’ not within a switch statement
case 'c':
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2903:11: error: case label ‘'O'’ not within a switch statement
case 'O':
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2905:11: error: case label not within a switch statement
default: break;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:3048:14: error: label ‘__pyx_L84’ used but not defined
goto __pyx_L84;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:3077:14: error: label ‘__pyx_L88’ used but not defined
goto __pyx_L88;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:3106:14: error: label ‘__pyx_L92’ used but not defined
goto __pyx_L92;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:3135:14: error: label ‘__pyx_L96’ used but not defined
goto __pyx_L96;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:3164:14: error: label ‘__pyx_L100’ used but not defined
goto __pyx_L100;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:3193:14: error: label ‘__pyx_L104’ used but not defined
goto __pyx_L104;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:3222:14: error: label ‘__pyx_L108’ used but not defined
goto __pyx_L108;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:3385:14: error: label ‘__pyx_L120_unpacking_done’ used but not defined
goto __pyx_L120_unpacking_done;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:3391:9: warning: label ‘__pyx_L121_unpacking_done’ defined but not used [-Wunused-label]
__pyx_L121_unpacking_done:;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:3419:12: error: label ‘__pyx_L124’ used but not defined
goto __pyx_L124;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2572:20: error: label ‘__pyx_L17_break’ used but not defined
goto __pyx_L17_break;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2839:18: error: label ‘__pyx_L16_break’ used but not defined
goto __pyx_L16_break;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2932:14: error: label ‘__pyx_L68’ used but not defined
goto __pyx_L68;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2961:14: error: label ‘__pyx_L72’ used but not defined
goto __pyx_L72;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2990:14: error: label ‘__pyx_L76’ used but not defined
goto __pyx_L76;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:3019:14: error: label ‘__pyx_L80’ used but not defined
goto __pyx_L80;
^
mirnylib/fastExtensions/fastExtensionspy.cpp: At global scope:
mirnylib/fastExtensions/fastExtensionspy.cpp:19243:49: error: ‘__pyx_k_net_levsha_home_libraries_mirny’ was not declared in this scope
{&__pyx_kp_s_net_levsha_home_libraries_mirny, __pyx_k_net_levsha_home_libraries_mirny, sizeof(__pyx_k_net_levsha_home_libraries_mirny), 0, 0, 1, 0},
^
mirnylib/fastExtensions/fastExtensionspy.cpp:19243:97: error: ‘__pyx_k_net_levsha_home_libraries_mirny’ was not declared in this scope
{&__pyx_kp_s_net_levsha_home_libraries_mirny, __pyx_k_net_levsha_home_libraries_mirny, sizeof(__pyx_k_net_levsha_home_libraries_mirny), 0, 0, 1, 0},
^
mirnylib/fastExtensions/fastExtensionspy.cpp: In function ‘int __Pyx_InitCachedBuiltins()’:
mirnylib/fastExtensions/fastExtensionspy.cpp:19287:3: error: ‘__pyx_builtin_ord’ was not declared in this scope
__pyx_builtin_ord = __Pyx_GetBuiltinName(__pyx_n_s_ord); if (!__pyx_builtin_ord) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 35; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
^
mirnylib/fastExtensions/fastExtensionspy.cpp:19287:44: error: ‘__pyx_n_s_ord’ was not declared in this scope
__pyx_builtin_ord = __Pyx_GetBuiltinName(__pyx_n_s_ord); if (!__pyx_builtin_ord) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 35; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
^
mirnylib/fastExtensions/fastExtensionspy.cpp: In function ‘int __Pyx_InitCachedConstants()’:
mirnylib/fastExtensions/fastExtensionspy.cpp:19548:3: error: ‘__pyx_codeobj__26’ was not declared in this scope
__pyx_codeobj__26 = (PyObject*)__Pyx_PyCode_New(1, 0, 2, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__25, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_home_magus_HiC2011_libraries_mi, __pyx_n_s_openmmArraySum, 35, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__26)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 35; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
^
mirnylib/fastExtensions/fastExtensionspy.cpp:19557:3: error: ‘__pyx_tuple__27’ was not declared in this scope
__pyx_tuple__27 = PyTuple_Pack(11, __pyx_n_s_filename, __pyx_n_s_data, __pyx_n_s_chromCount, __pyx_n_s_useX, __pyx_n_s_useY, __pyx_n_s_useM, __pyx_n_s_Xnum, __pyx_n_s_Ynum, __pyx_n_s_Mnum, __pyx_n_s_Mkb, __pyx_n_s_resolution); if (unlikely(!__pyx_tuple__27)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 40; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
^
mirnylib/fastExtensions/fastExtensionspy.cpp:19560:3: error: ‘__pyx_codeobj__28’ was not declared in this scope
__pyx_codeobj__28 = (PyObject*)__Pyx_PyCode_New(11, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__27, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_home_magus_HiC2011_libraries_mi, __pyx_n_s_readWigFile, 40, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__28)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 40; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
^
mirnylib/fastExtensions/fastExtensionspy.cpp: In function ‘void initfastExtensionspy()’:
mirnylib/fastExtensions/fastExtensionspy.cpp:19796:229: error: ‘__pyx_codeobj__26’ was not declared in this scope
__pyx_t_2 = __pyx_FusedFunction_NewEx(&__pyx_fuse_0__pyx_mdef_8mirnylib_14fastExtensions_16fastExtensionspy_5openmmArraySum, 0, __pyx_n_s_openmmArraySum, NULL, __pyx_n_s_mirnylib_fastExtensions_fastExte, __pyx_d, ((PyObject *)__pyx_codeobj__26)); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 35; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
^
mirnylib/fastExtensions/fastExtensionspy.cpp:1354:102: note: in definition of macro ‘__pyx_FusedFunction_NewEx’
__pyx_FusedFunction_New(__pyx_FusedFunctionType, ml, flags, qualname, self, module, globals, code)
^
In file included from /home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:27:0,
from /home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
from mirnylib/fastExtensions/fastExtensionspy.cpp:251:
/home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h: At global scope:
/home/pau/anaconda2/lib/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1634:1: warning: ‘int _import_array()’ defined but not used [-Wunused-function]
_import_array(void)
^
mirnylib/fastExtensions/fastExtensionspy.cpp:20679:13: warning: ‘long int __Pyx__PyObject_Ord(PyObject*)’ defined but not used [-Wunused-function]
static long __Pyx__PyObject_Ord(PyObject* c) {
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2102:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_28openmmArraySum(PyObject*, __Pyx_memviewslice)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_28openmmArraySum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2103:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_2coverageSum(PyObject*, PyObject*, PyObject*, PyObject*, PyObject*)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_2coverageSum(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_signatures, PyObject *__pyx_v_args, PyObject *__pyx_v_kwargs, CYTHON_UNUSED PyObject *__pyx_v_defaults); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2104:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_32coverageSum(PyObject*, __Pyx_memviewslice, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_32coverageSum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a, int __pyx_v_N); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2105:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_34coverageSum(PyObject*, __Pyx_memviewslice, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_34coverageSum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a, int __pyx_v_N); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2106:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_36coverageSum(PyObject*, __Pyx_memviewslice, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_36coverageSum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a, int __pyx_v_N); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2107:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_38coverageSum(PyObject*, __Pyx_memviewslice, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_38coverageSum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a, int __pyx_v_N); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2108:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_40coverageSum(PyObject*, __Pyx_memviewslice, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_40coverageSum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a, int __pyx_v_N); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2109:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_42coverageSum(PyObject*, __Pyx_memviewslice, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_42coverageSum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a, int __pyx_v_N); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2110:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_44coverageSum(PyObject*, __Pyx_memviewslice, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_44coverageSum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a, int __pyx_v_N); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2111:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_46coverageSum(PyObject*, __Pyx_memviewslice, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_46coverageSum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a, int __pyx_v_N); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2112:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_48coverageSum(PyObject*, __Pyx_memviewslice, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_48coverageSum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a, int __pyx_v_N); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2113:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_50coverageSum(PyObject*, __Pyx_memviewslice, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_50coverageSum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a, int __pyx_v_N); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2114:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_52coverageSum(PyObject*, __Pyx_memviewslice, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_52coverageSum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a, int __pyx_v_N); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2115:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_54coverageSum(PyObject*, __Pyx_memviewslice, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_54coverageSum(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_a, int __pyx_v_N); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2116:18: warning: ‘PyObject* __pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_4readWigFile(PyObject*, char*, __Pyx_memviewslice, int, PyBoolObject*, PyBoolObject*, PyBoolObject*, int, int, int, int, int)’ declared ‘static’ but never defined [-Wunused-function]
static PyObject *__pyx_pf_8mirnylib_14fastExtensions_16fastExtensionspy_4readWigFile(CYTHON_UNUSED PyObject *__pyx_self, char *__pyx_v_filename, __Pyx_memviewslice __pyx_v_data, int __pyx_v_chromCount, PyBoolObject *__pyx_v_useX, PyBoolObject *__pyx_v_useY, PyBoolObject *__pyx_v_useM, int __pyx_v_Xnum, int __pyx_v_Ynum, int __pyx_v_Mnum, int __pyx_v_Mkb, int __pyx_v_resolution); /* proto */
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2162:18: warning: ‘__pyx_tuple__7’ defined but not used [-Wunused-variable]
static PyObject *__pyx_tuple__7;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2163:18: warning: ‘__pyx_tuple__8’ defined but not used [-Wunused-variable]
static PyObject *__pyx_tuple__8;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2164:18: warning: ‘__pyx_tuple__9’ defined but not used [-Wunused-variable]
static PyObject *__pyx_tuple__9;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2168:18: warning: ‘__pyx_tuple__10’ defined but not used [-Wunused-variable]
static PyObject *__pyx_tuple__10;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2185:18: warning: ‘__pyx_tuple__30’ defined but not used [-Wunused-variable]
static PyObject *__pyx_tuple__30;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2186:18: warning: ‘__pyx_tuple__32’ defined but not used [-Wunused-variable]
static PyObject *__pyx_tuple__32;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2187:18: warning: ‘__pyx_tuple__34’ defined but not used [-Wunused-variable]
static PyObject *__pyx_tuple__34;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2193:18: warning: ‘__pyx_codeobj__31’ defined but not used [-Wunused-variable]
static PyObject *__pyx_codeobj__31;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2194:18: warning: ‘__pyx_codeobj__33’ defined but not used [-Wunused-variable]
static PyObject *__pyx_codeobj__33;
^
mirnylib/fastExtensions/fastExtensionspy.cpp:2195:18: warning: ‘__pyx_codeobj__35’ defined but not used [-Wunused-variable]
static PyObject *__pyx_codeobj__35;
^
> error: command 'gcc' failed with exit status 1
> ----------------------------------------
>Command "/home/pau/anaconda2/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-Pg5CY9-build/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-90GRYK-record/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /tmp/pip-Pg5CY9-build
Thank you
谢谢
1 个解决方案
#1
0
From a quick glance at the bitbucket repository you linked, I think you need to install the libhdf5-dev package.
从快速浏览一下您链接的bitbucket存储库，我认为您需要安装libhdf5-dev软件包。
For the h5py package to install properly, you need to have the shared library and development headers for HDF5 1.8.4 or newer installed (libhdf5-dev or similar). See the h5py docs for more information.
要正确安装h5py软件包，您需要安装HDF5 1.8.4或更高版本的共享库和开发标头（libhdf5-dev或类似软件）。有关更多信息，请参阅h5py文档。
#1
0
From a quick glance at the bitbucket repository you linked, I think you need to install the libhdf5-dev package.
从快速浏览一下您链接的bitbucket存储库，我认为您需要安装libhdf5-dev软件包。
For the h5py package to install properly, you need to have the shared library and development headers for HDF5 1.8.4 or newer installed (libhdf5-dev or similar). See the h5py docs for more information.
要正确安装h5py软件包，您需要安装HDF5 1.8.4或更高版本的共享库和开发标头（libhdf5-dev或类似软件）。有关更多信息，请参阅h5py文档。