2025-09-10T14:28:42,654 Created temporary directory: /tmp/pip-build-tracker-cdqgutup
2025-09-10T14:28:42,655 Initialized build tracking at /tmp/pip-build-tracker-cdqgutup
2025-09-10T14:28:42,655 Created build tracker: /tmp/pip-build-tracker-cdqgutup
2025-09-10T14:28:42,655 Entered build tracker: /tmp/pip-build-tracker-cdqgutup
2025-09-10T14:28:42,655 Created temporary directory: /tmp/pip-wheel-jtrdo6q3
2025-09-10T14:28:42,658 Created temporary directory: /tmp/pip-ephem-wheel-cache-65xiukd2
2025-09-10T14:28:42,716 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2025-09-10T14:28:42,718 2 location(s) to search for versions of py-cortex-api:
2025-09-10T14:28:42,718 * https://pypi.org/simple/py-cortex-api/
2025-09-10T14:28:42,718 * https://www.piwheels.org/simple/py-cortex-api/
2025-09-10T14:28:42,719 Fetching project page and analyzing links: https://pypi.org/simple/py-cortex-api/
2025-09-10T14:28:42,719 Getting page https://pypi.org/simple/py-cortex-api/
2025-09-10T14:28:42,720 Found index url https://pypi.org/simple/
2025-09-10T14:28:42,869 Fetched page https://pypi.org/simple/py-cortex-api/ as application/vnd.pypi.simple.v1+json
2025-09-10T14:28:42,871   Found link https://files.pythonhosted.org/packages/10/9a/15dd2926e462ede2596498e7fdaff6177f47a0a3e0e7d55809a295c7c2e0/py-cortex-api-1.0.tar.gz (from https://pypi.org/simple/py-cortex-api/), version: 1.0
2025-09-10T14:28:42,872   Found link https://files.pythonhosted.org/packages/4f/9b/5df6d4526ebcc12ee6d6a932150243ea6d74e7749b813b898504c51e8fd4/py-cortex-api-2.0.0.tar.gz (from https://pypi.org/simple/py-cortex-api/), version: 2.0.0
2025-09-10T14:28:42,872   Found link https://files.pythonhosted.org/packages/0f/73/39f8d4af8a1819908811755effc9ef16e8a650360e4d9a97aa9f57a24010/py-cortex-api-2.1.0.tar.gz (from https://pypi.org/simple/py-cortex-api/), version: 2.1.0
2025-09-10T14:28:42,873   Found link https://files.pythonhosted.org/packages/8a/0b/c81cf0f0feeda39cc42e7551864635ac911a3312406d3d68e836b1058a5e/py-cortex-api-2.2.0.tar.gz (from https://pypi.org/simple/py-cortex-api/), version: 2.2.0
2025-09-10T14:28:42,873   Found link https://files.pythonhosted.org/packages/85/e6/39478462ebcc183ec04acf85dfda6ef3a6cc3b8dd783b50432014170844f/py-cortex-api-2.2.1.tar.gz (from https://pypi.org/simple/py-cortex-api/), version: 2.2.1
2025-09-10T14:28:42,874 Fetching project page and analyzing links: https://www.piwheels.org/simple/py-cortex-api/
2025-09-10T14:28:42,875 Getting page https://www.piwheels.org/simple/py-cortex-api/
2025-09-10T14:28:42,876 Found index url https://www.piwheels.org/simple/
2025-09-10T14:28:42,972 Fetched page https://www.piwheels.org/simple/py-cortex-api/ as text/html
2025-09-10T14:28:42,973 Skipping link: not a file: https://www.piwheels.org/simple/py-cortex-api/
2025-09-10T14:28:42,973 Skipping link: not a file: https://pypi.org/simple/py-cortex-api/
2025-09-10T14:28:42,995 Given no hashes to check 1 links for project 'py-cortex-api': discarding no candidates
2025-09-10T14:28:42,996 Collecting py-cortex-api==2.2.1
2025-09-10T14:28:42,997   Created temporary directory: /tmp/pip-unpack-4p0r4jxd
2025-09-10T14:28:43,151   Downloading py-cortex-api-2.2.1.tar.gz (17 kB)
2025-09-10T14:28:43,183   Added py-cortex-api==2.2.1 from https://files.pythonhosted.org/packages/85/e6/39478462ebcc183ec04acf85dfda6ef3a6cc3b8dd783b50432014170844f/py-cortex-api-2.2.1.tar.gz to build tracker '/tmp/pip-build-tracker-cdqgutup'
2025-09-10T14:28:43,184   Running setup.py (path:/tmp/pip-wheel-jtrdo6q3/py-cortex-api_f33961f0728444b7b1a6f0598d6276ee/setup.py) egg_info for package py-cortex-api
2025-09-10T14:28:43,184   Created temporary directory: /tmp/pip-pip-egg-info-cp95cnnn
2025-09-10T14:28:43,185   Preparing metadata (setup.py): started
2025-09-10T14:28:43,186   Running command python setup.py egg_info
2025-09-10T14:28:43,945   /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite'
2025-09-10T14:28:43,945     warnings.warn(msg)
2025-09-10T14:28:44,423   running egg_info
2025-09-10T14:28:44,498   creating /tmp/pip-pip-egg-info-cp95cnnn/py_cortex_api.egg-info
2025-09-10T14:28:44,499   writing /tmp/pip-pip-egg-info-cp95cnnn/py_cortex_api.egg-info/PKG-INFO
2025-09-10T14:28:44,500   writing dependency_links to /tmp/pip-pip-egg-info-cp95cnnn/py_cortex_api.egg-info/dependency_links.txt
2025-09-10T14:28:44,500   writing requirements to /tmp/pip-pip-egg-info-cp95cnnn/py_cortex_api.egg-info/requires.txt
2025-09-10T14:28:44,501   writing top-level names to /tmp/pip-pip-egg-info-cp95cnnn/py_cortex_api.egg-info/top_level.txt
2025-09-10T14:28:44,501   writing manifest file '/tmp/pip-pip-egg-info-cp95cnnn/py_cortex_api.egg-info/SOURCES.txt'
2025-09-10T14:28:44,650   reading manifest file '/tmp/pip-pip-egg-info-cp95cnnn/py_cortex_api.egg-info/SOURCES.txt'
2025-09-10T14:28:44,651   reading manifest template 'MANIFEST.in'
2025-09-10T14:28:44,651   warning: no files found matching 'cortex/ext/cortex/bin/cortex_var_31_c1'
2025-09-10T14:28:44,652   warning: no files found matching 'cortex/ext/cortex/bin/cortex_var_31_c2'
2025-09-10T14:28:44,652   warning: no previously-included files matching '*~' found anywhere in distribution
2025-09-10T14:28:44,653   warning: no previously-included files matching '*.swp' found anywhere in distribution
2025-09-10T14:28:44,653   adding license file 'LICENSE'
2025-09-10T14:28:44,655   writing manifest file '/tmp/pip-pip-egg-info-cp95cnnn/py_cortex_api.egg-info/SOURCES.txt'
2025-09-10T14:28:44,769   Preparing metadata (setup.py): finished with status 'done'
2025-09-10T14:28:44,774   Source in /tmp/pip-wheel-jtrdo6q3/py-cortex-api_f33961f0728444b7b1a6f0598d6276ee has version 2.2.1, which satisfies requirement py-cortex-api==2.2.1 from https://files.pythonhosted.org/packages/85/e6/39478462ebcc183ec04acf85dfda6ef3a6cc3b8dd783b50432014170844f/py-cortex-api-2.2.1.tar.gz
2025-09-10T14:28:44,774   Removed py-cortex-api==2.2.1 from https://files.pythonhosted.org/packages/85/e6/39478462ebcc183ec04acf85dfda6ef3a6cc3b8dd783b50432014170844f/py-cortex-api-2.2.1.tar.gz from build tracker '/tmp/pip-build-tracker-cdqgutup'
2025-09-10T14:28:44,777 Created temporary directory: /tmp/pip-unpack-0y7gd_d7
2025-09-10T14:28:44,778 Created temporary directory: /tmp/pip-unpack-i8t6t_98
2025-09-10T14:28:44,778 Building wheels for collected packages: py-cortex-api
2025-09-10T14:28:44,779   Created temporary directory: /tmp/pip-wheel-_ylzm7iu
2025-09-10T14:28:44,780   DEPRECATION: Building 'py-cortex-api' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'py-cortex-api'. Discussion can be found at https://github.com/pypa/pip/issues/6334
2025-09-10T14:28:44,781   Building wheel for py-cortex-api (setup.py): started
2025-09-10T14:28:44,782   Destination directory: /tmp/pip-wheel-_ylzm7iu
2025-09-10T14:28:44,782   Running command python setup.py bdist_wheel
2025-09-10T14:28:45,472   /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite'
2025-09-10T14:28:45,473     warnings.warn(msg)
2025-09-10T14:28:45,865   running bdist_wheel
2025-09-10T14:28:46,240   running build
2025-09-10T14:28:46,240   running build_py
2025-09-10T14:28:46,240   START: Building backend dependencies
2025-09-10T14:28:46,309   Cloning into 'minimap2'...
2025-09-10T14:28:46,309   fatal: transport 'https' not allowed
2025-09-10T14:28:46,309   ./cortex/ext/install_dependencies.sh: line 16: cd: minimap2_dir: No such file or directory
2025-09-10T14:28:46,309   make: *** No targets specified and no makefile found.  Stop.

2025-09-10T14:28:46,310   ERROR: backend compilation failed 2
2025-09-10T14:28:46,428   ERROR: python setup.py bdist_wheel exited with 255
2025-09-10T14:28:46,439   [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c '
2025-09-10T14:28:46,439   exec(compile('"'"''"'"''"'"'
2025-09-10T14:28:46,439   # This is <pip-setuptools-caller> -- a caller that pip uses to run setup.py
2025-09-10T14:28:46,439   #
2025-09-10T14:28:46,439   # - It imports setuptools before invoking setup.py, to enable projects that directly
2025-09-10T14:28:46,439   #   import from `distutils.core` to work with newer packaging standards.
2025-09-10T14:28:46,439   # - It provides a clear error message when setuptools is not installed.
2025-09-10T14:28:46,439   # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so
2025-09-10T14:28:46,439   #   setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning:
2025-09-10T14:28:46,439   #     manifest_maker: standard file '"'"'-c'"'"' not found".
2025-09-10T14:28:46,439   # - It generates a shim setup.py, for handling setup.cfg-only projects.
2025-09-10T14:28:46,439   import os, sys, tokenize, traceback
2025-09-10T14:28:46,439   
2025-09-10T14:28:46,439   try:
2025-09-10T14:28:46,439       import setuptools
2025-09-10T14:28:46,439   except ImportError:
2025-09-10T14:28:46,439       print(
2025-09-10T14:28:46,439           "ERROR: Can not execute `setup.py` since setuptools failed to import in "
2025-09-10T14:28:46,439           "the build environment with exception:",
2025-09-10T14:28:46,439           file=sys.stderr,
2025-09-10T14:28:46,439       )
2025-09-10T14:28:46,439       traceback.print_exc()
2025-09-10T14:28:46,439       sys.exit(1)
2025-09-10T14:28:46,439   
2025-09-10T14:28:46,439   __file__ = %r
2025-09-10T14:28:46,439   sys.argv[0] = __file__
2025-09-10T14:28:46,439   
2025-09-10T14:28:46,439   if os.path.exists(__file__):
2025-09-10T14:28:46,439       filename = __file__
2025-09-10T14:28:46,439       with tokenize.open(__file__) as f:
2025-09-10T14:28:46,439           setup_py_code = f.read()
2025-09-10T14:28:46,439   else:
2025-09-10T14:28:46,439       filename = "<auto-generated setuptools caller>"
2025-09-10T14:28:46,439       setup_py_code = "from setuptools import setup; setup()"
2025-09-10T14:28:46,439   
2025-09-10T14:28:46,439   exec(compile(setup_py_code, filename, "exec"))
2025-09-10T14:28:46,439   '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-jtrdo6q3/py-cortex-api_f33961f0728444b7b1a6f0598d6276ee/setup.py'"'"',), "<pip-setuptools-caller>", "exec"))' bdist_wheel -d /tmp/pip-wheel-_ylzm7iu[/]
2025-09-10T14:28:46,439   [bold magenta]cwd[/]: /tmp/pip-wheel-jtrdo6q3/py-cortex-api_f33961f0728444b7b1a6f0598d6276ee/
2025-09-10T14:28:46,440   Building wheel for py-cortex-api (setup.py): finished with status 'error'
2025-09-10T14:28:46,440   ERROR: Failed building wheel for py-cortex-api
2025-09-10T14:28:46,441   Running setup.py clean for py-cortex-api
2025-09-10T14:28:46,442   Running command python setup.py clean
2025-09-10T14:28:47,145   /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite'
2025-09-10T14:28:47,145     warnings.warn(msg)
2025-09-10T14:28:47,613   running clean
2025-09-10T14:28:47,761   'build/lib' does not exist -- can't clean it
2025-09-10T14:28:47,761   'build/bdist.linux-armv7l' does not exist -- can't clean it
2025-09-10T14:28:47,761   'build/scripts-3.13' does not exist -- can't clean it
2025-09-10T14:28:47,875 Failed to build py-cortex-api
2025-09-10T14:28:47,875 ERROR: Failed to build one or more wheels
2025-09-10T14:28:47,876 Exception information:
2025-09-10T14:28:47,876 Traceback (most recent call last):
2025-09-10T14:28:47,876   File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper
2025-09-10T14:28:47,876     status = _inner_run()
2025-09-10T14:28:47,876   File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run
2025-09-10T14:28:47,876     return self.run(options, args)
2025-09-10T14:28:47,876            ~~~~~~~~^^^^^^^^^^^^^^^
2025-09-10T14:28:47,876   File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper
2025-09-10T14:28:47,876     return func(self, options, args)
2025-09-10T14:28:47,876   File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run
2025-09-10T14:28:47,876     raise CommandError("Failed to build one or more wheels")
2025-09-10T14:28:47,876 pip._internal.exceptions.CommandError: Failed to build one or more wheels
2025-09-10T14:28:47,881 Removed build tracker: '/tmp/pip-build-tracker-cdqgutup'