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  1. glmdev@node1 ~/p/pysim> pipenv install numpy
  2. Installing numpy…
  3. Collecting numpy
  4. Using cached https://files.pythonhosted.org/packages/2d/80/1809de155bad674b494248bcfca0e49eb4c5d8bee58f26fe7a0dd45029e2/numpy-1.15.4.zip
  5. Building wheels for collected packages: numpy
  6. Running setup.py bdist_wheel for numpy: started
  7. Running setup.py bdist_wheel for numpy: finished with status 'error'
  8. Complete output from command /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/bin/python3.6 -u -c "import setuptools, tokenize;__file__='/tmp/pip-install-dvo05mjg/numpy/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" bdist_wheel -d /tmp/pip-wheel-u63q9g8p --python-tag cp36:
  9. Running from numpy source directory.
  10. blas_opt_info:
  11. blas_mkl_info:
  12. customize UnixCCompiler
  13. libraries mkl_rt not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  14. NOT AVAILABLE
  15.  
  16. blis_info:
  17. customize UnixCCompiler
  18. libraries blis not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  19. NOT AVAILABLE
  20.  
  21. openblas_info:
  22. customize UnixCCompiler
  23. customize UnixCCompiler
  24. libraries openblas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  25. NOT AVAILABLE
  26.  
  27. atlas_3_10_blas_threads_info:
  28. Setting PTATLAS=ATLAS
  29. customize UnixCCompiler
  30. libraries tatlas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  31. NOT AVAILABLE
  32.  
  33. atlas_3_10_blas_info:
  34. customize UnixCCompiler
  35. libraries satlas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  36. NOT AVAILABLE
  37.  
  38. atlas_blas_threads_info:
  39. Setting PTATLAS=ATLAS
  40. customize UnixCCompiler
  41. libraries ptf77blas,ptcblas,atlas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  42. NOT AVAILABLE
  43.  
  44. atlas_blas_info:
  45. customize UnixCCompiler
  46. libraries f77blas,cblas,atlas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  47. NOT AVAILABLE
  48.  
  49. accelerate_info:
  50. NOT AVAILABLE
  51.  
  52. /tmp/pip-install-dvo05mjg/numpy/numpy/distutils/system_info.py:625: UserWarning:
  53. Atlas (http://math-atlas.sourceforge.net/) libraries not found.
  54. Directories to search for the libraries can be specified in the
  55. numpy/distutils/site.cfg file (section [atlas]) or by setting
  56. the ATLAS environment variable.
  57. self.calc_info()
  58. blas_info:
  59. customize UnixCCompiler
  60. libraries blas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  61. NOT AVAILABLE
  62.  
  63. /tmp/pip-install-dvo05mjg/numpy/numpy/distutils/system_info.py:625: UserWarning:
  64. Blas (http://www.netlib.org/blas/) libraries not found.
  65. Directories to search for the libraries can be specified in the
  66. numpy/distutils/site.cfg file (section [blas]) or by setting
  67. the BLAS environment variable.
  68. self.calc_info()
  69. blas_src_info:
  70. NOT AVAILABLE
  71.  
  72. /tmp/pip-install-dvo05mjg/numpy/numpy/distutils/system_info.py:625: UserWarning:
  73. Blas (http://www.netlib.org/blas/) sources not found.
  74. Directories to search for the sources can be specified in the
  75. numpy/distutils/site.cfg file (section [blas_src]) or by setting
  76. the BLAS_SRC environment variable.
  77. self.calc_info()
  78. NOT AVAILABLE
  79.  
  80. /bin/sh: 1: svnversion: not found
  81. non-existing path in 'numpy/distutils': 'site.cfg'
  82. /bin/sh: 1: svnversion: not found
  83. F2PY Version 2
  84. lapack_opt_info:
  85. lapack_mkl_info:
  86. customize UnixCCompiler
  87. libraries mkl_rt not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  88. NOT AVAILABLE
  89.  
  90. openblas_lapack_info:
  91. customize UnixCCompiler
  92. customize UnixCCompiler
  93. libraries openblas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  94. NOT AVAILABLE
  95.  
  96. openblas_clapack_info:
  97. customize UnixCCompiler
  98. customize UnixCCompiler
  99. libraries openblas,lapack not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  100. NOT AVAILABLE
  101.  
  102. atlas_3_10_threads_info:
  103. Setting PTATLAS=ATLAS
  104. customize UnixCCompiler
  105. libraries tatlas,tatlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  106. customize UnixCCompiler
  107. libraries lapack_atlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  108. customize UnixCCompiler
  109. libraries tatlas,tatlas not found in /usr/local/lib
  110. customize UnixCCompiler
  111. libraries lapack_atlas not found in /usr/local/lib
  112. customize UnixCCompiler
  113. libraries tatlas,tatlas not found in /usr/lib
  114. customize UnixCCompiler
  115. libraries lapack_atlas not found in /usr/lib
  116. customize UnixCCompiler
  117. libraries tatlas,tatlas not found in /usr/lib/arm-linux-gnueabihf
  118. customize UnixCCompiler
  119. libraries lapack_atlas not found in /usr/lib/arm-linux-gnueabihf
  120. <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
  121. NOT AVAILABLE
  122.  
  123. atlas_3_10_info:
  124. customize UnixCCompiler
  125. libraries satlas,satlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  126. customize UnixCCompiler
  127. libraries lapack_atlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  128. customize UnixCCompiler
  129. libraries satlas,satlas not found in /usr/local/lib
  130. customize UnixCCompiler
  131. libraries lapack_atlas not found in /usr/local/lib
  132. customize UnixCCompiler
  133. libraries satlas,satlas not found in /usr/lib
  134. customize UnixCCompiler
  135. libraries lapack_atlas not found in /usr/lib
  136. customize UnixCCompiler
  137. libraries satlas,satlas not found in /usr/lib/arm-linux-gnueabihf
  138. customize UnixCCompiler
  139. libraries lapack_atlas not found in /usr/lib/arm-linux-gnueabihf
  140. <class 'numpy.distutils.system_info.atlas_3_10_info'>
  141. NOT AVAILABLE
  142.  
  143. atlas_threads_info:
  144. Setting PTATLAS=ATLAS
  145. customize UnixCCompiler
  146. libraries ptf77blas,ptcblas,atlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  147. customize UnixCCompiler
  148. libraries lapack_atlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  149. customize UnixCCompiler
  150. libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
  151. customize UnixCCompiler
  152. libraries lapack_atlas not found in /usr/local/lib
  153. customize UnixCCompiler
  154. libraries ptf77blas,ptcblas,atlas not found in /usr/lib
  155. customize UnixCCompiler
  156. libraries lapack_atlas not found in /usr/lib
  157. customize UnixCCompiler
  158. libraries ptf77blas,ptcblas,atlas not found in /usr/lib/arm-linux-gnueabihf
  159. customize UnixCCompiler
  160. libraries lapack_atlas not found in /usr/lib/arm-linux-gnueabihf
  161. <class 'numpy.distutils.system_info.atlas_threads_info'>
  162. NOT AVAILABLE
  163.  
  164. atlas_info:
  165. customize UnixCCompiler
  166. libraries f77blas,cblas,atlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  167. customize UnixCCompiler
  168. libraries lapack_atlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  169. customize UnixCCompiler
  170. libraries f77blas,cblas,atlas not found in /usr/local/lib
  171. customize UnixCCompiler
  172. libraries lapack_atlas not found in /usr/local/lib
  173. customize UnixCCompiler
  174. libraries f77blas,cblas,atlas not found in /usr/lib
  175. customize UnixCCompiler
  176. libraries lapack_atlas not found in /usr/lib
  177. customize UnixCCompiler
  178. libraries f77blas,cblas,atlas not found in /usr/lib/arm-linux-gnueabihf
  179. customize UnixCCompiler
  180. libraries lapack_atlas not found in /usr/lib/arm-linux-gnueabihf
  181. <class 'numpy.distutils.system_info.atlas_info'>
  182. NOT AVAILABLE
  183.  
  184. lapack_info:
  185. customize UnixCCompiler
  186. libraries lapack not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  187. NOT AVAILABLE
  188.  
  189. /tmp/pip-install-dvo05mjg/numpy/numpy/distutils/system_info.py:625: UserWarning:
  190. Lapack (http://www.netlib.org/lapack/) libraries not found.
  191. Directories to search for the libraries can be specified in the
  192. numpy/distutils/site.cfg file (section [lapack]) or by setting
  193. the LAPACK environment variable.
  194. self.calc_info()
  195. lapack_src_info:
  196. NOT AVAILABLE
  197.  
  198. /tmp/pip-install-dvo05mjg/numpy/numpy/distutils/system_info.py:625: UserWarning:
  199. Lapack (http://www.netlib.org/lapack/) sources not found.
  200. Directories to search for the sources can be specified in the
  201. numpy/distutils/site.cfg file (section [lapack_src]) or by setting
  202. the LAPACK_SRC environment variable.
  203. self.calc_info()
  204. NOT AVAILABLE
  205.  
  206. /clusterfs/utility/software/install/python36/lib/python3.6/distutils/dist.py:261: UserWarning: Unknown distribution option: 'define_macros'
  207. warnings.warn(msg)
  208. running bdist_wheel
  209. running build
  210. running config_cc
  211. unifing config_cc, config, build_clib, build_ext, build commands --compiler options
  212. running config_fc
  213. unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options
  214. running build_src
  215. build_src
  216. building py_modules sources
  217. creating build
  218. creating build/src.linux-armv7l-3.6
  219. creating build/src.linux-armv7l-3.6/numpy
  220. creating build/src.linux-armv7l-3.6/numpy/distutils
  221. building library "npymath" sources
  222. get_default_fcompiler: matching types: '['gnu95', 'intel', 'lahey', 'pg', 'absoft', 'nag', 'vast', 'compaq', 'intele', 'intelem', 'gnu', 'g95', 'pathf95', 'nagfor']'
  223. customize Gnu95FCompiler
  224. Found executable /usr/bin/gfortran
  225. Traceback (most recent call last):
  226. File "<string>", line 1, in <module>
  227. File "/tmp/pip-install-dvo05mjg/numpy/setup.py", line 403, in <module>
  228. setup_package()
  229. File "/tmp/pip-install-dvo05mjg/numpy/setup.py", line 395, in setup_package
  230. setup(**metadata)
  231. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/core.py", line 169, in setup
  232. return old_setup(**new_attr)
  233. File "/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib/python3.6/site-packages/setuptools/__init__.py", line 140, in setup
  234. return distutils.core.setup(**attrs)
  235. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/core.py", line 148, in setup
  236. dist.run_commands()
  237. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/dist.py", line 955, in run_commands
  238. self.run_command(cmd)
  239. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/dist.py", line 974, in run_command
  240. cmd_obj.run()
  241. File "/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib/python3.6/site-packages/wheel/bdist_wheel.py", line 188, in run
  242. self.run_command('build')
  243. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/cmd.py", line 313, in run_command
  244. self.distribution.run_command(command)
  245. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/dist.py", line 974, in run_command
  246. cmd_obj.run()
  247. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/build.py", line 47, in run
  248. old_build.run(self)
  249. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/command/build.py", line 135, in run
  250. self.run_command(cmd_name)
  251. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/cmd.py", line 313, in run_command
  252. self.distribution.run_command(command)
  253. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/dist.py", line 974, in run_command
  254. cmd_obj.run()
  255. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/build_src.py", line 148, in run
  256. self.build_sources()
  257. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/build_src.py", line 159, in build_sources
  258. self.build_library_sources(*libname_info)
  259. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/build_src.py", line 294, in build_library_sources
  260. sources = self.generate_sources(sources, (lib_name, build_info))
  261. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/build_src.py", line 377, in generate_sources
  262. source = func(extension, build_dir)
  263. File "numpy/core/setup.py", line 664, in get_mathlib_info
  264. st = config_cmd.try_link('int main(void) { return 0;}')
  265. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/command/config.py", line 243, in try_link
  266. self._check_compiler()
  267. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/config.py", line 81, in _check_compiler
  268. c_compiler=self.compiler)
  269. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 873, in new_fcompiler
  270. c_compiler=c_compiler)
  271. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 847, in get_default_fcompiler
  272. c_compiler=c_compiler)
  273. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 794, in _find_existing_fcompiler
  274. c.customize(dist)
  275. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 499, in customize
  276. get_flags('opt', oflags)
  277. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 490, in get_flags
  278. flags.extend(getattr(self.flag_vars, tag))
  279. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/environment.py", line 39, in __getattr__
  280. return self._get_var(name, conf_desc)
  281. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/environment.py", line 53, in _get_var
  282. var = self._hook_handler(name, hook)
  283. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 697, in _environment_hook
  284. return hook()
  285. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/gnu.py", line 233, in get_flags_opt
  286. v = self.get_version()
  287. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 428, in get_version
  288. version = CCompiler.get_version(self, force=force, ok_status=ok_status)
  289. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/ccompiler.py", line 89, in <lambda>
  290. m = lambda self, *args, **kw: func(self, *args, **kw)
  291. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/ccompiler.py", line 627, in CCompiler_get_version
  292. version = matcher(output)
  293. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/gnu.py", line 270, in version_match
  294. v = self.gnu_version_match(version_string)
  295. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/gnu.py", line 83, in gnu_version_match
  296. raise ValueError(err + version_string)
  297. ValueError: A valid Fortran version was not found in this string:
  298.  
  299. Modules based on Lua: Version 7.8.8 2018-10-26 15:12 -05:00
  300. by Robert McLay mclay@tacc.utexas.edu
  301.  
  302. module [options] sub-command [args ...]
  303.  
  304. Help sub-commands:
  305. ------------------
  306. help prints this message
  307. help module [...] print help message from module(s)
  308.  
  309. Loading/Unloading sub-commands:
  310. -------------------------------
  311. load | add module [...] load module(s)
  312. try-load | try-add module [...] Add module(s), do not complain if not
  313. found
  314. del | unload module [...] Remove module(s), do not complain if not
  315. found
  316. swap | sw | switch m1 m2 unload m1 and load m2
  317. purge unload all modules
  318. refresh reload aliases from current list of
  319. modules.
  320. update reload all currently loaded modules.
  321.  
  322. Listing / Searching sub-commands:
  323. ---------------------------------
  324. list List loaded modules
  325. list s1 s2 ... List loaded modules that match the
  326. pattern
  327. avail | av List available modules
  328. avail | av string List available modules that contain
  329. "string".
  330. spider List all possible modules
  331. spider module List all possible version of that module
  332. file
  333. spider string List all module that contain the
  334. "string".
  335. spider name/version Detailed information about that version
  336. of the module.
  337. whatis module Print whatis information about module
  338. keyword | key string Search all name and whatis that contain
  339. "string".
  340.  
  341. Searching with Lmod:
  342. --------------------
  343. All searching (spider, list, avail, keyword) support regular expressions:
  344.  
  345.  
  346. -r spider '^p' Finds all the modules that start with
  347. `p' or `P'
  348. -r spider mpi Finds all modules that have "mpi" in
  349. their name.
  350. -r spider 'mpi$ Finds all modules that end with "mpi" in
  351. their name.
  352.  
  353. Handling a collection of modules:
  354. --------------------------------
  355. save | s Save the current list of modules to a
  356. user defined "default" collection.
  357. save | s name Save the current list of modules to
  358. "name" collection.
  359. reset The same as "restore system"
  360. restore | r Restore modules from the user's
  361. "default" or system default.
  362. restore | r name Restore modules from "name" collection.
  363. restore system Restore module state to system defaults.
  364. savelist List of saved collections.
  365. describe | mcc name Describe the contents of a module
  366. collection.
  367. disable name Disable a collection.
  368.  
  369. Deprecated commands:
  370. --------------------
  371. getdefault [name] load name collection of modules or
  372. user's "default" if no name given.
  373. ===> Use "restore" instead <====
  374. setdefault [name] Save current list of modules to name if
  375. given, otherwise save as the default
  376. list for you the user.
  377. ===> Use "save" instead. <====
  378.  
  379. Miscellaneous sub-commands:
  380. ---------------------------
  381. is-loaded modulefile return true if module is loaded
  382. is-avail modulefile return true if module can be loaded
  383. show modulefile show the commands in the module file.
  384. use [-a] path Prepend or Append path to MODULEPATH.
  385. unuse path remove path from MODULEPATH.
  386. tablelist output list of active modules as a lua
  387. table.
  388.  
  389. Important Environment Variables:
  390. --------------------------------
  391. LMOD_COLORIZE If defined to be "YES" then Lmod prints
  392. properties and warning in color.
  393.  
  394. --------------------------------------------------------------------------
  395.  
  396. Lmod Web Sites
  397.  
  398. Documentation: http://lmod.readthedocs.org
  399. Github: https://github.com/TACC/Lmod
  400. Sourceforge: https://lmod.sf.net
  401. TACC Homepage: https://www.tacc.utexas.edu/research-development/tacc-projects/lmod
  402.  
  403. To report a bug please read http://lmod.readthedocs.io/en/latest/075_bug_reporting.html
  404. --------------------------------------------------------------------------
  405.  
  406.  
  407. 6.3.0
  408.  
  409. ----------------------------------------
  410. Running setup.py clean for numpy
  411. Complete output from command /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/bin/python3.6 -u -c "import setuptools, tokenize;__file__='/tmp/pip-install-dvo05mjg/numpy/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" clean --all:
  412. Running from numpy source directory.
  413.  
  414. `setup.py clean` is not supported, use one of the following instead:
  415.  
  416. - `git clean -xdf` (cleans all files)
  417. - `git clean -Xdf` (cleans all versioned files, doesn't touch
  418. files that aren't checked into the git repo)
  419.  
  420. Add `--force` to your command to use it anyway if you must (unsupported).
  421.  
  422.  
  423. ----------------------------------------
  424. Failed to build numpy
  425. Installing collected packages: numpy
  426. Running setup.py install for numpy: started
  427. Running setup.py install for numpy: finished with status 'error'
  428. Complete output from command /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/bin/python3.6 -u -c "import setuptools, tokenize;__file__='/tmp/pip-install-dvo05mjg/numpy/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-record-w9pz6b0f/install-record.txt --single-version-externally-managed --compile --install-headers /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/include/site/python3.6/numpy:
  429. Running from numpy source directory.
  430.  
  431. Note: if you need reliable uninstall behavior, then install
  432. with pip instead of using `setup.py install`:
  433.  
  434. - `pip install .` (from a git repo or downloaded source
  435. release)
  436. - `pip install numpy` (last NumPy release on PyPi)
  437.  
  438.  
  439. blas_opt_info:
  440. blas_mkl_info:
  441. customize UnixCCompiler
  442. libraries mkl_rt not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  443. NOT AVAILABLE
  444.  
  445. blis_info:
  446. customize UnixCCompiler
  447. libraries blis not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  448. NOT AVAILABLE
  449.  
  450. openblas_info:
  451. customize UnixCCompiler
  452. customize UnixCCompiler
  453. libraries openblas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  454. NOT AVAILABLE
  455.  
  456. atlas_3_10_blas_threads_info:
  457. Setting PTATLAS=ATLAS
  458. customize UnixCCompiler
  459. libraries tatlas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  460. NOT AVAILABLE
  461.  
  462. atlas_3_10_blas_info:
  463. customize UnixCCompiler
  464. libraries satlas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  465. NOT AVAILABLE
  466.  
  467. atlas_blas_threads_info:
  468. Setting PTATLAS=ATLAS
  469. customize UnixCCompiler
  470. libraries ptf77blas,ptcblas,atlas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  471. NOT AVAILABLE
  472.  
  473. atlas_blas_info:
  474. customize UnixCCompiler
  475. libraries f77blas,cblas,atlas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  476. NOT AVAILABLE
  477.  
  478. accelerate_info:
  479. NOT AVAILABLE
  480.  
  481. /tmp/pip-install-dvo05mjg/numpy/numpy/distutils/system_info.py:625: UserWarning:
  482. Atlas (http://math-atlas.sourceforge.net/) libraries not found.
  483. Directories to search for the libraries can be specified in the
  484. numpy/distutils/site.cfg file (section [atlas]) or by setting
  485. the ATLAS environment variable.
  486. self.calc_info()
  487. blas_info:
  488. customize UnixCCompiler
  489. libraries blas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  490. NOT AVAILABLE
  491.  
  492. /tmp/pip-install-dvo05mjg/numpy/numpy/distutils/system_info.py:625: UserWarning:
  493. Blas (http://www.netlib.org/blas/) libraries not found.
  494. Directories to search for the libraries can be specified in the
  495. numpy/distutils/site.cfg file (section [blas]) or by setting
  496. the BLAS environment variable.
  497. self.calc_info()
  498. blas_src_info:
  499. NOT AVAILABLE
  500.  
  501. /tmp/pip-install-dvo05mjg/numpy/numpy/distutils/system_info.py:625: UserWarning:
  502. Blas (http://www.netlib.org/blas/) sources not found.
  503. Directories to search for the sources can be specified in the
  504. numpy/distutils/site.cfg file (section [blas_src]) or by setting
  505. the BLAS_SRC environment variable.
  506. self.calc_info()
  507. NOT AVAILABLE
  508.  
  509. /bin/sh: 1: svnversion: not found
  510. non-existing path in 'numpy/distutils': 'site.cfg'
  511. /bin/sh: 1: svnversion: not found
  512. F2PY Version 2
  513. lapack_opt_info:
  514. lapack_mkl_info:
  515. customize UnixCCompiler
  516. libraries mkl_rt not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  517. NOT AVAILABLE
  518.  
  519. openblas_lapack_info:
  520. customize UnixCCompiler
  521. customize UnixCCompiler
  522. libraries openblas not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  523. NOT AVAILABLE
  524.  
  525. openblas_clapack_info:
  526. customize UnixCCompiler
  527. customize UnixCCompiler
  528. libraries openblas,lapack not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  529. NOT AVAILABLE
  530.  
  531. atlas_3_10_threads_info:
  532. Setting PTATLAS=ATLAS
  533. customize UnixCCompiler
  534. libraries tatlas,tatlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  535. customize UnixCCompiler
  536. libraries lapack_atlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  537. customize UnixCCompiler
  538. libraries tatlas,tatlas not found in /usr/local/lib
  539. customize UnixCCompiler
  540. libraries lapack_atlas not found in /usr/local/lib
  541. customize UnixCCompiler
  542. libraries tatlas,tatlas not found in /usr/lib
  543. customize UnixCCompiler
  544. libraries lapack_atlas not found in /usr/lib
  545. customize UnixCCompiler
  546. libraries tatlas,tatlas not found in /usr/lib/arm-linux-gnueabihf
  547. customize UnixCCompiler
  548. libraries lapack_atlas not found in /usr/lib/arm-linux-gnueabihf
  549. <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
  550. NOT AVAILABLE
  551.  
  552. atlas_3_10_info:
  553. customize UnixCCompiler
  554. libraries satlas,satlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  555. customize UnixCCompiler
  556. libraries lapack_atlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  557. customize UnixCCompiler
  558. libraries satlas,satlas not found in /usr/local/lib
  559. customize UnixCCompiler
  560. libraries lapack_atlas not found in /usr/local/lib
  561. customize UnixCCompiler
  562. libraries satlas,satlas not found in /usr/lib
  563. customize UnixCCompiler
  564. libraries lapack_atlas not found in /usr/lib
  565. customize UnixCCompiler
  566. libraries satlas,satlas not found in /usr/lib/arm-linux-gnueabihf
  567. customize UnixCCompiler
  568. libraries lapack_atlas not found in /usr/lib/arm-linux-gnueabihf
  569. <class 'numpy.distutils.system_info.atlas_3_10_info'>
  570. NOT AVAILABLE
  571.  
  572. atlas_threads_info:
  573. Setting PTATLAS=ATLAS
  574. customize UnixCCompiler
  575. libraries ptf77blas,ptcblas,atlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  576. customize UnixCCompiler
  577. libraries lapack_atlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  578. customize UnixCCompiler
  579. libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
  580. customize UnixCCompiler
  581. libraries lapack_atlas not found in /usr/local/lib
  582. customize UnixCCompiler
  583. libraries ptf77blas,ptcblas,atlas not found in /usr/lib
  584. customize UnixCCompiler
  585. libraries lapack_atlas not found in /usr/lib
  586. customize UnixCCompiler
  587. libraries ptf77blas,ptcblas,atlas not found in /usr/lib/arm-linux-gnueabihf
  588. customize UnixCCompiler
  589. libraries lapack_atlas not found in /usr/lib/arm-linux-gnueabihf
  590. <class 'numpy.distutils.system_info.atlas_threads_info'>
  591. NOT AVAILABLE
  592.  
  593. atlas_info:
  594. customize UnixCCompiler
  595. libraries f77blas,cblas,atlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  596. customize UnixCCompiler
  597. libraries lapack_atlas not found in /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib
  598. customize UnixCCompiler
  599. libraries f77blas,cblas,atlas not found in /usr/local/lib
  600. customize UnixCCompiler
  601. libraries lapack_atlas not found in /usr/local/lib
  602. customize UnixCCompiler
  603. libraries f77blas,cblas,atlas not found in /usr/lib
  604. customize UnixCCompiler
  605. libraries lapack_atlas not found in /usr/lib
  606. customize UnixCCompiler
  607. libraries f77blas,cblas,atlas not found in /usr/lib/arm-linux-gnueabihf
  608. customize UnixCCompiler
  609. libraries lapack_atlas not found in /usr/lib/arm-linux-gnueabihf
  610. <class 'numpy.distutils.system_info.atlas_info'>
  611. NOT AVAILABLE
  612.  
  613. lapack_info:
  614. customize UnixCCompiler
  615. libraries lapack not found in ['/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib', '/usr/local/lib', '/usr/lib', '/usr/lib/arm-linux-gnueabihf']
  616. NOT AVAILABLE
  617.  
  618. /tmp/pip-install-dvo05mjg/numpy/numpy/distutils/system_info.py:625: UserWarning:
  619. Lapack (http://www.netlib.org/lapack/) libraries not found.
  620. Directories to search for the libraries can be specified in the
  621. numpy/distutils/site.cfg file (section [lapack]) or by setting
  622. the LAPACK environment variable.
  623. self.calc_info()
  624. lapack_src_info:
  625. NOT AVAILABLE
  626.  
  627. /tmp/pip-install-dvo05mjg/numpy/numpy/distutils/system_info.py:625: UserWarning:
  628. Lapack (http://www.netlib.org/lapack/) sources not found.
  629. Directories to search for the sources can be specified in the
  630. numpy/distutils/site.cfg file (section [lapack_src]) or by setting
  631. the LAPACK_SRC environment variable.
  632. self.calc_info()
  633. NOT AVAILABLE
  634.  
  635. /clusterfs/utility/software/install/python36/lib/python3.6/distutils/dist.py:261: UserWarning: Unknown distribution option: 'define_macros'
  636. warnings.warn(msg)
  637. running install
  638. running build
  639. running config_cc
  640. unifing config_cc, config, build_clib, build_ext, build commands --compiler options
  641. running config_fc
  642. unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options
  643. running build_src
  644. build_src
  645. building py_modules sources
  646. building library "npymath" sources
  647. get_default_fcompiler: matching types: '['gnu95', 'intel', 'lahey', 'pg', 'absoft', 'nag', 'vast', 'compaq', 'intele', 'intelem', 'gnu', 'g95', 'pathf95', 'nagfor']'
  648. customize Gnu95FCompiler
  649. Found executable /usr/bin/gfortran
  650. Traceback (most recent call last):
  651. File "<string>", line 1, in <module>
  652. File "/tmp/pip-install-dvo05mjg/numpy/setup.py", line 403, in <module>
  653. setup_package()
  654. File "/tmp/pip-install-dvo05mjg/numpy/setup.py", line 395, in setup_package
  655. setup(**metadata)
  656. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/core.py", line 169, in setup
  657. return old_setup(**new_attr)
  658. File "/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/lib/python3.6/site-packages/setuptools/__init__.py", line 140, in setup
  659. return distutils.core.setup(**attrs)
  660. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/core.py", line 148, in setup
  661. dist.run_commands()
  662. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/dist.py", line 955, in run_commands
  663. self.run_command(cmd)
  664. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/dist.py", line 974, in run_command
  665. cmd_obj.run()
  666. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/install.py", line 62, in run
  667. r = self.setuptools_run()
  668. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/install.py", line 36, in setuptools_run
  669. return distutils_install.run(self)
  670. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/command/install.py", line 545, in run
  671. self.run_command('build')
  672. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/cmd.py", line 313, in run_command
  673. self.distribution.run_command(command)
  674. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/dist.py", line 974, in run_command
  675. cmd_obj.run()
  676. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/build.py", line 47, in run
  677. old_build.run(self)
  678. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/command/build.py", line 135, in run
  679. self.run_command(cmd_name)
  680. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/cmd.py", line 313, in run_command
  681. self.distribution.run_command(command)
  682. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/dist.py", line 974, in run_command
  683. cmd_obj.run()
  684. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/build_src.py", line 148, in run
  685. self.build_sources()
  686. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/build_src.py", line 159, in build_sources
  687. self.build_library_sources(*libname_info)
  688. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/build_src.py", line 294, in build_library_sources
  689. sources = self.generate_sources(sources, (lib_name, build_info))
  690. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/build_src.py", line 377, in generate_sources
  691. source = func(extension, build_dir)
  692. File "numpy/core/setup.py", line 664, in get_mathlib_info
  693. st = config_cmd.try_link('int main(void) { return 0;}')
  694. File "/clusterfs/utility/software/install/python36/lib/python3.6/distutils/command/config.py", line 243, in try_link
  695. self._check_compiler()
  696. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/command/config.py", line 81, in _check_compiler
  697. c_compiler=self.compiler)
  698. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 873, in new_fcompiler
  699. c_compiler=c_compiler)
  700. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 847, in get_default_fcompiler
  701. c_compiler=c_compiler)
  702. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 794, in _find_existing_fcompiler
  703. c.customize(dist)
  704. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 499, in customize
  705. get_flags('opt', oflags)
  706. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 490, in get_flags
  707. flags.extend(getattr(self.flag_vars, tag))
  708. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/environment.py", line 39, in __getattr__
  709. return self._get_var(name, conf_desc)
  710. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/environment.py", line 53, in _get_var
  711. var = self._hook_handler(name, hook)
  712. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 697, in _environment_hook
  713. return hook()
  714. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/gnu.py", line 233, in get_flags_opt
  715. v = self.get_version()
  716. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/__init__.py", line 428, in get_version
  717. version = CCompiler.get_version(self, force=force, ok_status=ok_status)
  718. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/ccompiler.py", line 89, in <lambda>
  719. m = lambda self, *args, **kw: func(self, *args, **kw)
  720. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/ccompiler.py", line 627, in CCompiler_get_version
  721. version = matcher(output)
  722. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/gnu.py", line 270, in version_match
  723. v = self.gnu_version_match(version_string)
  724. File "/tmp/pip-install-dvo05mjg/numpy/numpy/distutils/fcompiler/gnu.py", line 83, in gnu_version_match
  725. raise ValueError(err + version_string)
  726. ValueError: A valid Fortran version was not found in this string:
  727.  
  728. Modules based on Lua: Version 7.8.8 2018-10-26 15:12 -05:00
  729. by Robert McLay mclay@tacc.utexas.edu
  730.  
  731. module [options] sub-command [args ...]
  732.  
  733. Help sub-commands:
  734. ------------------
  735. help prints this message
  736. help module [...] print help message from module(s)
  737.  
  738. Loading/Unloading sub-commands:
  739. -------------------------------
  740. load | add module [...] load module(s)
  741. try-load | try-add module [...] Add module(s), do not complain if not
  742. found
  743. del | unload module [...] Remove module(s), do not complain if not
  744. found
  745. swap | sw | switch m1 m2 unload m1 and load m2
  746. purge unload all modules
  747. refresh reload aliases from current list of
  748. modules.
  749. update reload all currently loaded modules.
  750.  
  751. Listing / Searching sub-commands:
  752. ---------------------------------
  753. list List loaded modules
  754. list s1 s2 ... List loaded modules that match the
  755. pattern
  756. avail | av List available modules
  757. avail | av string List available modules that contain
  758. "string".
  759. spider List all possible modules
  760. spider module List all possible version of that module
  761. file
  762. spider string List all module that contain the
  763. "string".
  764. spider name/version Detailed information about that version
  765. of the module.
  766. whatis module Print whatis information about module
  767. keyword | key string Search all name and whatis that contain
  768. "string".
  769.  
  770. Searching with Lmod:
  771. --------------------
  772. All searching (spider, list, avail, keyword) support regular expressions:
  773.  
  774.  
  775. -r spider '^p' Finds all the modules that start with
  776. `p' or `P'
  777. -r spider mpi Finds all modules that have "mpi" in
  778. their name.
  779. -r spider 'mpi$ Finds all modules that end with "mpi" in
  780. their name.
  781.  
  782. Handling a collection of modules:
  783. --------------------------------
  784. save | s Save the current list of modules to a
  785. user defined "default" collection.
  786. save | s name Save the current list of modules to
  787. "name" collection.
  788. reset The same as "restore system"
  789. restore | r Restore modules from the user's
  790. "default" or system default.
  791. restore | r name Restore modules from "name" collection.
  792. restore system Restore module state to system defaults.
  793. savelist List of saved collections.
  794. describe | mcc name Describe the contents of a module
  795. collection.
  796. disable name Disable a collection.
  797.  
  798. Deprecated commands:
  799. --------------------
  800. getdefault [name] load name collection of modules or
  801. user's "default" if no name given.
  802. ===> Use "restore" instead <====
  803. setdefault [name] Save current list of modules to name if
  804. given, otherwise save as the default
  805. list for you the user.
  806. ===> Use "save" instead. <====
  807.  
  808. Miscellaneous sub-commands:
  809. ---------------------------
  810. is-loaded modulefile return true if module is loaded
  811. is-avail modulefile return true if module can be loaded
  812. show modulefile show the commands in the module file.
  813. use [-a] path Prepend or Append path to MODULEPATH.
  814. unuse path remove path from MODULEPATH.
  815. tablelist output list of active modules as a lua
  816. table.
  817.  
  818. Important Environment Variables:
  819. --------------------------------
  820. LMOD_COLORIZE If defined to be "YES" then Lmod prints
  821. properties and warning in color.
  822.  
  823. --------------------------------------------------------------------------
  824.  
  825. Lmod Web Sites
  826.  
  827. Documentation: http://lmod.readthedocs.org
  828. Github: https://github.com/TACC/Lmod
  829. Sourceforge: https://lmod.sf.net
  830. TACC Homepage: https://www.tacc.utexas.edu/research-development/tacc-projects/lmod
  831.  
  832. To report a bug please read http://lmod.readthedocs.io/en/latest/075_bug_reporting.html
  833. --------------------------------------------------------------------------
  834.  
  835.  
  836. 6.3.0
  837.  
  838. ----------------------------------------
  839.  
  840. Error: An error occurred while installing numpy!
  841. Failed building wheel for numpy
  842. Failed cleaning build dir for numpy
  843. Command "/clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/bin/python3.6 -u -c "import setuptools, tokenize;__file__='/tmp/pip-install-dvo05mjg/numpy/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-record-w9pz6b0f/install-record.txt --single-version-externally-managed --compile --install-headers /clusterfs/home/glmdev/.local/share/virtualenvs/pysim-xNi64rP2/include/site/python3.6/numpy" failed with error code 1 in /tmp/pip-install-dvo05mjg/numpy/
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