2023-09-08T17:28:36,435 Created temporary directory: /tmp/pip-build-tracker-indhj4cj 2023-09-08T17:28:36,436 Initialized build tracking at /tmp/pip-build-tracker-indhj4cj 2023-09-08T17:28:36,437 Created build tracker: /tmp/pip-build-tracker-indhj4cj 2023-09-08T17:28:36,437 Entered build tracker: /tmp/pip-build-tracker-indhj4cj 2023-09-08T17:28:36,438 Created temporary directory: /tmp/pip-wheel-9cucr3rf 2023-09-08T17:28:36,441 Created temporary directory: /tmp/pip-ephem-wheel-cache-nxr8qo9c 2023-09-08T17:28:36,462 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-08T17:28:36,466 2 location(s) to search for versions of iva: 2023-09-08T17:28:36,466 * https://pypi.org/simple/iva/ 2023-09-08T17:28:36,466 * https://www.piwheels.org/simple/iva/ 2023-09-08T17:28:36,467 Fetching project page and analyzing links: https://pypi.org/simple/iva/ 2023-09-08T17:28:36,467 Getting page https://pypi.org/simple/iva/ 2023-09-08T17:28:36,469 Found index url https://pypi.org/simple/ 2023-09-08T17:28:36,608 Fetched page https://pypi.org/simple/iva/ as application/vnd.pypi.simple.v1+json 2023-09-08T17:28:36,612 Found link https://files.pythonhosted.org/packages/c0/d5/cd9a1cd475fad181d9d4cfe04fb3e98f693249808e5c0156f5db25c4d6f8/iva-0.11.1.tar.gz (from https://pypi.org/simple/iva/), version: 0.11.1 2023-09-08T17:28:36,613 Found link https://files.pythonhosted.org/packages/c4/5b/46d9978ec04f4579cf0251a7867ed9770b03dd0c0a101f0ccfd08aec09e0/iva-0.11.2.tar.gz (from https://pypi.org/simple/iva/), version: 0.11.2 2023-09-08T17:28:36,613 Found link https://files.pythonhosted.org/packages/87/36/586387e486df150c3ee56e86138050af60d8564a426925cd0b125cf63d1d/iva-0.11.3.tar.gz (from https://pypi.org/simple/iva/), version: 0.11.3 2023-09-08T17:28:36,614 Found link https://files.pythonhosted.org/packages/bd/92/5780cbd75bf3e9997aeb80289e1398f97cc54292ab0fd2646d729ff81a10/iva-0.11.4.tar.gz (from https://pypi.org/simple/iva/), version: 0.11.4 2023-09-08T17:28:36,615 Found link https://files.pythonhosted.org/packages/8b/96/d062a8059431e21ab9a4d7eabd64127ee5ec3a4142901e0ebd5363fb0d40/iva-0.11.5.tar.gz (from https://pypi.org/simple/iva/), version: 0.11.5 2023-09-08T17:28:36,615 Found link https://files.pythonhosted.org/packages/73/30/0855ccf30407b0b199cf0cc313e1c8f0ed5f58f7a7e4e76b1c2560acea0c/iva-0.11.6.tar.gz (from https://pypi.org/simple/iva/), version: 0.11.6 2023-09-08T17:28:36,616 Found link https://files.pythonhosted.org/packages/70/d0/5171f8ddb17374f500528e501a44dfd4a89b03d35fbf55079a11dc4802a5/iva-0.11.7.tar.gz (from https://pypi.org/simple/iva/), version: 0.11.7 2023-09-08T17:28:36,617 Found link https://files.pythonhosted.org/packages/36/3b/7debbe4fcbaa98b569aea8e017f75456d1e6ff60990db6564d72d56cc3d6/iva-1.0.0.tar.gz (from https://pypi.org/simple/iva/), version: 1.0.0 2023-09-08T17:28:36,618 Found link https://files.pythonhosted.org/packages/51/7a/583cce3f6d7aa28f104a6d2c8271a19f8fccf512ecbeaf9086ab1e9709bb/iva-1.0.1.tar.gz (from https://pypi.org/simple/iva/), version: 1.0.1 2023-09-08T17:28:36,619 Found link https://files.pythonhosted.org/packages/85/cd/700fc82fd658a5f03b325cb0c18dcde20d58941fec6943d4306c8da85545/iva-1.0.2.tar.gz (from https://pypi.org/simple/iva/), version: 1.0.2 2023-09-08T17:28:36,619 Found link https://files.pythonhosted.org/packages/e5/16/1e5253a1f24cf1ab783811cd0b09e28630449347c0ccd9b2bdd3e68de644/iva-1.0.3.tar.gz (from https://pypi.org/simple/iva/), version: 1.0.3 2023-09-08T17:28:36,620 Found link https://files.pythonhosted.org/packages/2f/9a/4eeb0316e8efc47d0783936521e493e752028c778dc3853015e3c4e8c63f/iva-1.0.4.tar.gz (from https://pypi.org/simple/iva/), version: 1.0.4 2023-09-08T17:28:36,621 Found link https://files.pythonhosted.org/packages/d1/b1/21f598b41652b2c4bbcc3fb3ae4e869ada20d7b26b9294310bcef5d63f23/iva-1.0.5.tar.gz (from https://pypi.org/simple/iva/), version: 1.0.5 2023-09-08T17:28:36,621 Found link https://files.pythonhosted.org/packages/3d/df/f8a1d735abea19137c9a940e90c171dd14415ad1b8add912ab9886ce98a1/iva-1.0.6.tar.gz (from https://pypi.org/simple/iva/), version: 1.0.6 2023-09-08T17:28:36,622 Found link https://files.pythonhosted.org/packages/bf/02/7a0c43f68d755458ea1dd1f2e541144cc90bc767ab2e3369d8f0e8893262/iva-1.0.8.tar.gz (from https://pypi.org/simple/iva/), version: 1.0.8 2023-09-08T17:28:36,623 Found link https://files.pythonhosted.org/packages/5a/f8/a8ea62d810a1d9a42d93c05d8de5605b607065ed3a4cf227ec737ddbd150/iva-1.0.9.tar.gz (from https://pypi.org/simple/iva/), version: 1.0.9 2023-09-08T17:28:36,624 Fetching project page and analyzing links: https://www.piwheels.org/simple/iva/ 2023-09-08T17:28:36,624 Getting page https://www.piwheels.org/simple/iva/ 2023-09-08T17:28:36,625 Found index url https://www.piwheels.org/simple/ 2023-09-08T17:28:36,890 Fetched page https://www.piwheels.org/simple/iva/ as text/html 2023-09-08T17:28:36,891 Skipping link: not a file: https://www.piwheels.org/simple/iva/ 2023-09-08T17:28:36,892 Skipping link: not a file: https://pypi.org/simple/iva/ 2023-09-08T17:28:36,912 Given no hashes to check 1 links for project 'iva': discarding no candidates 2023-09-08T17:28:36,930 Collecting iva==0.11.2 2023-09-08T17:28:36,932 Created temporary directory: /tmp/pip-unpack-yd_43020 2023-09-08T17:28:37,145 Downloading iva-0.11.2.tar.gz (99 kB) 2023-09-08T17:28:37,302 Added iva==0.11.2 from https://files.pythonhosted.org/packages/c4/5b/46d9978ec04f4579cf0251a7867ed9770b03dd0c0a101f0ccfd08aec09e0/iva-0.11.2.tar.gz to build tracker '/tmp/pip-build-tracker-indhj4cj' 2023-09-08T17:28:37,303 Running setup.py (path:/tmp/pip-wheel-9cucr3rf/iva_f9c666d9145e4a5e87ea8f43f4bacb68/setup.py) egg_info for package iva 2023-09-08T17:28:37,304 Created temporary directory: /tmp/pip-pip-egg-info-8j88prh8 2023-09-08T17:28:37,305 Preparing metadata (setup.py): started 2023-09-08T17:28:37,306 Running command python setup.py egg_info 2023-09-08T17:28:37,716 Cannot install because some dependencies not found. 2023-09-08T17:28:37,717 Checking dependencies found in path: 2023-09-08T17:28:37,718 NOT FOUND kmc 2023-09-08T17:28:37,719 NOT FOUND kmc_dump 2023-09-08T17:28:37,720 NOT FOUND nucmer 2023-09-08T17:28:37,721 NOT FOUND delta-filter 2023-09-08T17:28:37,722 NOT FOUND show-coords 2023-09-08T17:28:37,723 NOT FOUND samtools 2023-09-08T17:28:37,724 NOT FOUND smalt 2023-09-08T17:28:37,788 ERROR: [present-rich] python setup.py egg_info exited with 1 2023-09-08T17:28:37,802 [bold magenta]full command[/]: [blue]/usr/bin/python3 -c ' 2023-09-08T17:28:37,802 exec(compile('"'"''"'"''"'"' 2023-09-08T17:28:37,802 # This is -- a caller that pip uses to run setup.py 2023-09-08T17:28:37,802 # 2023-09-08T17:28:37,802 # - It imports setuptools before invoking setup.py, to enable projects that directly 2023-09-08T17:28:37,802 # import from `distutils.core` to work with newer packaging standards. 2023-09-08T17:28:37,802 # - It provides a clear error message when setuptools is not installed. 2023-09-08T17:28:37,802 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2023-09-08T17:28:37,802 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2023-09-08T17:28:37,802 # manifest_maker: standard file '"'"'-c'"'"' not found". 2023-09-08T17:28:37,802 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2023-09-08T17:28:37,802 import os, sys, tokenize 2023-09-08T17:28:37,802 2023-09-08T17:28:37,802 try: 2023-09-08T17:28:37,802 import setuptools 2023-09-08T17:28:37,802 except ImportError as error: 2023-09-08T17:28:37,802 print( 2023-09-08T17:28:37,802 "ERROR: Can not execute `setup.py` since setuptools is not available in " 2023-09-08T17:28:37,802 "the build environment.", 2023-09-08T17:28:37,802 file=sys.stderr, 2023-09-08T17:28:37,802 ) 2023-09-08T17:28:37,802 sys.exit(1) 2023-09-08T17:28:37,802 2023-09-08T17:28:37,802 __file__ = %r 2023-09-08T17:28:37,802 sys.argv[0] = __file__ 2023-09-08T17:28:37,802 2023-09-08T17:28:37,802 if os.path.exists(__file__): 2023-09-08T17:28:37,802 filename = __file__ 2023-09-08T17:28:37,802 with tokenize.open(__file__) as f: 2023-09-08T17:28:37,802 setup_py_code = f.read() 2023-09-08T17:28:37,802 else: 2023-09-08T17:28:37,802 filename = "" 2023-09-08T17:28:37,802 setup_py_code = "from setuptools import setup; setup()" 2023-09-08T17:28:37,802 2023-09-08T17:28:37,802 exec(compile(setup_py_code, filename, "exec")) 2023-09-08T17:28:37,802 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-9cucr3rf/iva_f9c666d9145e4a5e87ea8f43f4bacb68/setup.py'"'"',), "", "exec"))' egg_info --egg-base /tmp/pip-pip-egg-info-8j88prh8[/] 2023-09-08T17:28:37,802 [bold magenta]cwd[/]: /tmp/pip-wheel-9cucr3rf/iva_f9c666d9145e4a5e87ea8f43f4bacb68/ 2023-09-08T17:28:37,803 Preparing metadata (setup.py): finished with status 'error' 2023-09-08T17:28:37,805 ERROR: [present-rich] metadata generation failed 2023-09-08T17:28:37,810 Exception information: 2023-09-08T17:28:37,810 Traceback (most recent call last): 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/operations/build/metadata_legacy.py", line 64, in generate_metadata 2023-09-08T17:28:37,810 call_subprocess( 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/utils/subprocess.py", line 224, in call_subprocess 2023-09-08T17:28:37,810 raise error 2023-09-08T17:28:37,810 pip._internal.exceptions.InstallationSubprocessError: python setup.py egg_info exited with 1 2023-09-08T17:28:37,810 2023-09-08T17:28:37,810 The above exception was the direct cause of the following exception: 2023-09-08T17:28:37,810 2023-09-08T17:28:37,810 Traceback (most recent call last): 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/base_command.py", line 180, in exc_logging_wrapper 2023-09-08T17:28:37,810 status = run_func(*args) 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/req_command.py", line 248, in wrapper 2023-09-08T17:28:37,810 return func(self, options, args) 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/commands/wheel.py", line 147, in run 2023-09-08T17:28:37,810 requirement_set = resolver.resolve(reqs, check_supported_wheels=True) 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/resolution/resolvelib/resolver.py", line 92, in resolve 2023-09-08T17:28:37,810 result = self._result = resolver.resolve( 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_vendor/resolvelib/resolvers.py", line 546, in resolve 2023-09-08T17:28:37,810 state = resolution.resolve(requirements, max_rounds=max_rounds) 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_vendor/resolvelib/resolvers.py", line 397, in resolve 2023-09-08T17:28:37,810 self._add_to_criteria(self.state.criteria, r, parent=None) 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_vendor/resolvelib/resolvers.py", line 173, in _add_to_criteria 2023-09-08T17:28:37,810 if not criterion.candidates: 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_vendor/resolvelib/structs.py", line 156, in __bool__ 2023-09-08T17:28:37,810 return bool(self._sequence) 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/resolution/resolvelib/found_candidates.py", line 155, in __bool__ 2023-09-08T17:28:37,810 return any(self) 2023-09-08T17:28:37,810 ^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/resolution/resolvelib/found_candidates.py", line 143, in 2023-09-08T17:28:37,810 return (c for c in iterator if id(c) not in self._incompatible_ids) 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/resolution/resolvelib/found_candidates.py", line 47, in _iter_built 2023-09-08T17:28:37,810 candidate = func() 2023-09-08T17:28:37,810 ^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/resolution/resolvelib/factory.py", line 206, in _make_candidate_from_link 2023-09-08T17:28:37,810 self._link_candidate_cache[link] = LinkCandidate( 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/resolution/resolvelib/candidates.py", line 293, in __init__ 2023-09-08T17:28:37,810 super().__init__( 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/resolution/resolvelib/candidates.py", line 156, in __init__ 2023-09-08T17:28:37,810 self.dist = self._prepare() 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/resolution/resolvelib/candidates.py", line 225, in _prepare 2023-09-08T17:28:37,810 dist = self._prepare_distribution() 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/resolution/resolvelib/candidates.py", line 304, in _prepare_distribution 2023-09-08T17:28:37,810 return preparer.prepare_linked_requirement(self._ireq, parallel_builds=True) 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/operations/prepare.py", line 538, in prepare_linked_requirement 2023-09-08T17:28:37,810 return self._prepare_linked_requirement(req, parallel_builds) 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/operations/prepare.py", line 653, in _prepare_linked_requirement 2023-09-08T17:28:37,810 dist = _get_prepared_distribution( 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/operations/prepare.py", line 69, in _get_prepared_distribution 2023-09-08T17:28:37,810 abstract_dist.prepare_distribution_metadata( 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/distributions/sdist.py", line 61, in prepare_distribution_metadata 2023-09-08T17:28:37,810 self.req.prepare_metadata() 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/req/req_install.py", line 568, in prepare_metadata 2023-09-08T17:28:37,810 self.metadata_directory = generate_metadata_legacy( 2023-09-08T17:28:37,810 ^^^^^^^^^^^^^^^^^^^^^^^^^ 2023-09-08T17:28:37,810 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/operations/build/metadata_legacy.py", line 71, in generate_metadata 2023-09-08T17:28:37,810 raise MetadataGenerationFailed(package_details=details) from error 2023-09-08T17:28:37,810 pip._internal.exceptions.MetadataGenerationFailed: metadata generation failed 2023-09-08T17:28:37,823 Removed iva==0.11.2 from https://files.pythonhosted.org/packages/c4/5b/46d9978ec04f4579cf0251a7867ed9770b03dd0c0a101f0ccfd08aec09e0/iva-0.11.2.tar.gz from build tracker '/tmp/pip-build-tracker-indhj4cj' 2023-09-08T17:28:37,824 Removed build tracker: '/tmp/pip-build-tracker-indhj4cj'