2026-01-13T14:06:11,396 Created temporary directory: /tmp/pip-ephem-wheel-cache-s5bcyxx6
2026-01-13T14:06:11,398 Created temporary directory: /tmp/pip-build-tracker-tc_9fb3q
2026-01-13T14:06:11,398 Initialized build tracking at /tmp/pip-build-tracker-tc_9fb3q
2026-01-13T14:06:11,399 Created build tracker: /tmp/pip-build-tracker-tc_9fb3q
2026-01-13T14:06:11,399 Entered build tracker: /tmp/pip-build-tracker-tc_9fb3q
2026-01-13T14:06:11,400 Created temporary directory: /tmp/pip-wheel-xuvbvzoc
2026-01-13T14:06:11,403 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
2026-01-13T14:06:11,405 Created temporary directory: /tmp/pip-ephem-wheel-cache-991o_mmm
2026-01-13T14:06:11,429 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-01-13T14:06:11,433 2 location(s) to search for versions of biobuntu:
2026-01-13T14:06:11,433 * https://pypi.org/simple/biobuntu/
2026-01-13T14:06:11,433 * https://www.piwheels.org/simple/biobuntu/
2026-01-13T14:06:11,434 Fetching project page and analyzing links: https://pypi.org/simple/biobuntu/
2026-01-13T14:06:11,434 Getting page https://pypi.org/simple/biobuntu/
2026-01-13T14:06:11,436 Found index url https://pypi.org/simple
2026-01-13T14:06:11,588 Fetched page https://pypi.org/simple/biobuntu/ as application/vnd.pypi.simple.v1+json
2026-01-13T14:06:11,591   Skipping link: No binaries permitted for biobuntu: https://files.pythonhosted.org/packages/64/cf/4f21daa56026906df18253ea875635d40200b04c5398c2976cbe04bcf511/biobuntu-0.1.0-py3-none-any.whl (from https://pypi.org/simple/biobuntu/) (requires-python:>=3.8)
2026-01-13T14:06:11,592   Found link https://files.pythonhosted.org/packages/d9/11/4a6d8e68308234734e669afa1cd6b834cab4492099e5b846f9793c7360e2/biobuntu-0.1.0.tar.gz (from https://pypi.org/simple/biobuntu/) (requires-python:>=3.8), version: 0.1.0
2026-01-13T14:06:11,593   Skipping link: No binaries permitted for biobuntu: https://files.pythonhosted.org/packages/12/b6/c2041168299e2d3d34820729f2ed11126b6e622d4ffd706f61aea2bcbabf/biobuntu-1.0.0-py3-none-any.whl (from https://pypi.org/simple/biobuntu/) (requires-python:>=3.8)
2026-01-13T14:06:11,593   Found link https://files.pythonhosted.org/packages/46/17/5399b95835bd8fe691bc24d3b3d8d1f8ae0c02fe51c7d30699d796524bf8/biobuntu-1.0.0.tar.gz (from https://pypi.org/simple/biobuntu/) (requires-python:>=3.8), version: 1.0.0
2026-01-13T14:06:11,594   Skipping link: No binaries permitted for biobuntu: https://files.pythonhosted.org/packages/2c/d0/b96c035b568ccd5176db706d831560b6639908f1318f353018dab091536a/biobuntu-1.0.1-py3-none-any.whl (from https://pypi.org/simple/biobuntu/) (requires-python:>=3.8)
2026-01-13T14:06:11,595   Skipping link: No binaries permitted for biobuntu: https://files.pythonhosted.org/packages/81/d1/99ebf31d066030f39558944d6ded7c165c3c46d3213cd8d8b208e1378f09/biobuntu-1.2.2-py3-none-any.whl (from https://pypi.org/simple/biobuntu/) (requires-python:>=3.8)
2026-01-13T14:06:11,596   Found link https://files.pythonhosted.org/packages/d6/71/062ad0b600ff87b5c31fd7e43db67463076b99905ff071fa59c6115ce574/biobuntu-1.2.2.tar.gz (from https://pypi.org/simple/biobuntu/) (requires-python:>=3.8), version: 1.2.2
2026-01-13T14:06:11,597   Skipping link: No binaries permitted for biobuntu: https://files.pythonhosted.org/packages/51/f7/10bb316db5de1353d75d28038e692a960c6ff95e87661df7a3728c5a1496/biobuntu-1.2.3-py3-none-any.whl (from https://pypi.org/simple/biobuntu/) (requires-python:>=3.8)
2026-01-13T14:06:11,598   Found link https://files.pythonhosted.org/packages/d2/43/90a4b5ec47813dc535f09c0586691982bcb2a2e96e4018fc09b3878ffbe5/biobuntu-1.2.3.tar.gz (from https://pypi.org/simple/biobuntu/) (requires-python:>=3.8), version: 1.2.3
2026-01-13T14:06:11,598   Skipping link: No binaries permitted for biobuntu: https://files.pythonhosted.org/packages/aa/89/2c74282e9d56f1289dfdc8a8fade26d713cdda3efdcb761529586bec9672/biobuntu-1.2.4-py3-none-any.whl (from https://pypi.org/simple/biobuntu/) (requires-python:>=3.8)
2026-01-13T14:06:11,600   Found link https://files.pythonhosted.org/packages/45/f3/a98bf49b3b90e2473a4e5d017fca7c8cbb5417ca3297544caa5d7bcf6177/biobuntu-1.2.4.tar.gz (from https://pypi.org/simple/biobuntu/) (requires-python:>=3.8), version: 1.2.4
2026-01-13T14:06:11,601 Fetching project page and analyzing links: https://www.piwheels.org/simple/biobuntu/
2026-01-13T14:06:11,601 Getting page https://www.piwheels.org/simple/biobuntu/
2026-01-13T14:06:11,603 Found index url https://www.piwheels.org/simple
2026-01-13T14:06:11,772 Fetched page https://www.piwheels.org/simple/biobuntu/ as text/html
2026-01-13T14:06:11,774   Skipping link: No binaries permitted for biobuntu: https://www.piwheels.org/simple/biobuntu/biobuntu-1.2.2-py3-none-any.whl#sha256=39f7c560c6eba4b3da330a633e7a2b4ad39d63b6dfc83e3f1e498c809443ea86 (from https://www.piwheels.org/simple/biobuntu/) (requires-python:>=3.8)
2026-01-13T14:06:11,775   Skipping link: No binaries permitted for biobuntu: https://www.piwheels.org/simple/biobuntu/biobuntu-1.0.0-py3-none-any.whl#sha256=0bae1f2ded17d096ad7b72099eab157e4606d8c6ecbc16b94bc8a81f30e238a0 (from https://www.piwheels.org/simple/biobuntu/) (requires-python:>=3.8)
2026-01-13T14:06:11,775   Skipping link: No binaries permitted for biobuntu: https://www.piwheels.org/simple/biobuntu/biobuntu-0.1.0-py3-none-any.whl#sha256=68acacdc74787c20d7391575f834eae66ab68870d9d36e16e9da855efa5f3fad (from https://www.piwheels.org/simple/biobuntu/) (requires-python:>=3.8)
2026-01-13T14:06:11,776 Skipping link: not a file: https://www.piwheels.org/simple/biobuntu/
2026-01-13T14:06:11,776 Skipping link: not a file: https://pypi.org/simple/biobuntu/
2026-01-13T14:06:11,795 Given no hashes to check 1 links for project 'biobuntu': discarding no candidates
2026-01-13T14:06:11,813 Collecting biobuntu==1.2.3
2026-01-13T14:06:11,816   Created temporary directory: /tmp/pip-unpack-n9z38ldj
2026-01-13T14:06:12,037   Downloading biobuntu-1.2.3.tar.gz (15 kB)
2026-01-13T14:06:12,120   Added biobuntu==1.2.3 from https://files.pythonhosted.org/packages/d2/43/90a4b5ec47813dc535f09c0586691982bcb2a2e96e4018fc09b3878ffbe5/biobuntu-1.2.3.tar.gz to build tracker '/tmp/pip-build-tracker-tc_9fb3q'
2026-01-13T14:06:12,125   Created temporary directory: /tmp/pip-build-env-m6wm05er
2026-01-13T14:06:12,130   Installing build dependencies: started
2026-01-13T14:06:12,131   Running command pip subprocess to install build dependencies
2026-01-13T14:06:13,284   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2026-01-13T14:06:13,869   DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453
2026-01-13T14:06:13,892   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-01-13T14:06:15,607   Collecting setuptools
2026-01-13T14:06:15,722     Using cached https://www.piwheels.org/simple/setuptools/setuptools-80.9.0-py3-none-any.whl (1.2 MB)
2026-01-13T14:06:15,988   Collecting wheel
2026-01-13T14:06:16,016     Using cached https://www.piwheels.org/simple/wheel/wheel-0.45.1-py3-none-any.whl (72 kB)
2026-01-13T14:06:19,054   Installing collected packages: wheel, setuptools
2026-01-13T14:06:19,291     Creating /tmp/pip-build-env-m6wm05er/overlay/local/bin
2026-01-13T14:06:19,293     changing mode of /tmp/pip-build-env-m6wm05er/overlay/local/bin/wheel to 755
2026-01-13T14:06:22,913   Successfully installed setuptools-80.9.0 wheel-0.45.1
2026-01-13T14:06:23,186   Installing build dependencies: finished with status 'done'
2026-01-13T14:06:23,193   Getting requirements to build wheel: started
2026-01-13T14:06:23,194   Running command Getting requirements to build wheel
2026-01-13T14:06:23,901   running egg_info
2026-01-13T14:06:23,908   writing biobuntu.egg-info/PKG-INFO
2026-01-13T14:06:23,911   writing dependency_links to biobuntu.egg-info/dependency_links.txt
2026-01-13T14:06:23,914   writing entry points to biobuntu.egg-info/entry_points.txt
2026-01-13T14:06:23,915   writing requirements to biobuntu.egg-info/requires.txt
2026-01-13T14:06:23,917   writing top-level names to biobuntu.egg-info/top_level.txt
2026-01-13T14:06:23,949   reading manifest file 'biobuntu.egg-info/SOURCES.txt'
2026-01-13T14:06:23,953   adding license file 'LICENSE'
2026-01-13T14:06:23,957   writing manifest file 'biobuntu.egg-info/SOURCES.txt'
2026-01-13T14:06:24,055   Getting requirements to build wheel: finished with status 'done'
2026-01-13T14:06:24,058   Created temporary directory: /tmp/pip-modern-metadata-_92hp8q7
2026-01-13T14:06:24,061   Preparing metadata (pyproject.toml): started
2026-01-13T14:06:24,062   Running command Preparing metadata (pyproject.toml)
2026-01-13T14:06:24,705   running dist_info
2026-01-13T14:06:24,718   creating /tmp/pip-modern-metadata-_92hp8q7/biobuntu.egg-info
2026-01-13T14:06:24,719   writing /tmp/pip-modern-metadata-_92hp8q7/biobuntu.egg-info/PKG-INFO
2026-01-13T14:06:24,722   writing dependency_links to /tmp/pip-modern-metadata-_92hp8q7/biobuntu.egg-info/dependency_links.txt
2026-01-13T14:06:24,724   writing entry points to /tmp/pip-modern-metadata-_92hp8q7/biobuntu.egg-info/entry_points.txt
2026-01-13T14:06:24,726   writing requirements to /tmp/pip-modern-metadata-_92hp8q7/biobuntu.egg-info/requires.txt
2026-01-13T14:06:24,727   writing top-level names to /tmp/pip-modern-metadata-_92hp8q7/biobuntu.egg-info/top_level.txt
2026-01-13T14:06:24,730   writing manifest file '/tmp/pip-modern-metadata-_92hp8q7/biobuntu.egg-info/SOURCES.txt'
2026-01-13T14:06:24,757   reading manifest file '/tmp/pip-modern-metadata-_92hp8q7/biobuntu.egg-info/SOURCES.txt'
2026-01-13T14:06:24,759   adding license file 'LICENSE'
2026-01-13T14:06:24,763   writing manifest file '/tmp/pip-modern-metadata-_92hp8q7/biobuntu.egg-info/SOURCES.txt'
2026-01-13T14:06:24,764   creating '/tmp/pip-modern-metadata-_92hp8q7/biobuntu-1.2.3.dist-info'
2026-01-13T14:06:24,891   Preparing metadata (pyproject.toml): finished with status 'done'
2026-01-13T14:06:24,896   Source in /tmp/pip-wheel-xuvbvzoc/biobuntu_3d1619578cf448978c8c13d23b1af041 has version 1.2.3, which satisfies requirement biobuntu==1.2.3 from https://files.pythonhosted.org/packages/d2/43/90a4b5ec47813dc535f09c0586691982bcb2a2e96e4018fc09b3878ffbe5/biobuntu-1.2.3.tar.gz
2026-01-13T14:06:24,897   Removed biobuntu==1.2.3 from https://files.pythonhosted.org/packages/d2/43/90a4b5ec47813dc535f09c0586691982bcb2a2e96e4018fc09b3878ffbe5/biobuntu-1.2.3.tar.gz from build tracker '/tmp/pip-build-tracker-tc_9fb3q'
2026-01-13T14:06:24,904 Created temporary directory: /tmp/pip-unpack-9b9xxw3a
2026-01-13T14:06:24,904 Building wheels for collected packages: biobuntu
2026-01-13T14:06:24,909   Created temporary directory: /tmp/pip-wheel-5tf2h0ky
2026-01-13T14:06:24,910   Destination directory: /tmp/pip-wheel-5tf2h0ky
2026-01-13T14:06:24,912   Building wheel for biobuntu (pyproject.toml): started
2026-01-13T14:06:24,913   Running command Building wheel for biobuntu (pyproject.toml)
2026-01-13T14:06:25,534   running bdist_wheel
2026-01-13T14:06:25,555   running build
2026-01-13T14:06:25,556   running build_py
2026-01-13T14:06:25,562   creating build/lib/gui
2026-01-13T14:06:25,564   copying gui/__init__.py -> build/lib/gui
2026-01-13T14:06:25,566   copying gui/main.py -> build/lib/gui
2026-01-13T14:06:25,569   creating build/lib/tools
2026-01-13T14:06:25,570   copying tools/samtools.py -> build/lib/tools
2026-01-13T14:06:25,572   copying tools/fastqc.py -> build/lib/tools
2026-01-13T14:06:25,574   copying tools/hisat2.py -> build/lib/tools
2026-01-13T14:06:25,576   copying tools/bwa.py -> build/lib/tools
2026-01-13T14:06:25,578   copying tools/gatk.py -> build/lib/tools
2026-01-13T14:06:25,580   creating build/lib/web
2026-01-13T14:06:25,582   copying web/__init__.py -> build/lib/web
2026-01-13T14:06:25,583   copying web/api.py -> build/lib/web
2026-01-13T14:06:25,586   creating build/lib/core
2026-01-13T14:06:25,587   copying core/project_manager.py -> build/lib/core
2026-01-13T14:06:25,589   copying core/__init__.py -> build/lib/core
2026-01-13T14:06:25,590   copying core/file_manager.py -> build/lib/core
2026-01-13T14:06:25,592   copying core/utils.py -> build/lib/core
2026-01-13T14:06:25,594   copying core/runner.py -> build/lib/core
2026-01-13T14:06:25,595   copying core/logger.py -> build/lib/core
2026-01-13T14:06:25,597   copying core/config.py -> build/lib/core
2026-01-13T14:06:25,599   copying core/engine.py -> build/lib/core
2026-01-13T14:06:25,602   creating build/lib/cli
2026-01-13T14:06:25,603   copying cli/cli.py -> build/lib/cli
2026-01-13T14:06:25,605   copying cli/__init__.py -> build/lib/cli
2026-01-13T14:06:25,607   creating build/lib/configs
2026-01-13T14:06:25,608   copying configs/__init__.py -> build/lib/configs
2026-01-13T14:06:25,610   creating build/lib/gui/widgets
2026-01-13T14:06:25,611   copying gui/widgets/file_drop.py -> build/lib/gui/widgets
2026-01-13T14:06:25,613   copying gui/widgets/progress_bar.py -> build/lib/gui/widgets
2026-01-13T14:06:25,615   creating build/lib/gui/windows
2026-01-13T14:06:25,616   copying gui/windows/settings_window.py -> build/lib/gui/windows
2026-01-13T14:06:25,618   copying gui/windows/main_window.py -> build/lib/gui/windows
2026-01-13T14:06:25,621   creating build/lib/web/routes
2026-01-13T14:06:25,622   copying web/routes/status.py -> build/lib/web/routes
2026-01-13T14:06:25,629   copying web/routes/projects.py -> build/lib/web/routes
2026-01-13T14:06:25,631   copying web/routes/__init__.py -> build/lib/web/routes
2026-01-13T14:06:25,633   copying web/routes/pipelines.py -> build/lib/web/routes
2026-01-13T14:06:25,634   running egg_info
2026-01-13T14:06:25,646   writing biobuntu.egg-info/PKG-INFO
2026-01-13T14:06:25,649   writing dependency_links to biobuntu.egg-info/dependency_links.txt
2026-01-13T14:06:25,651   writing entry points to biobuntu.egg-info/entry_points.txt
2026-01-13T14:06:25,652   writing requirements to biobuntu.egg-info/requires.txt
2026-01-13T14:06:25,653   writing top-level names to biobuntu.egg-info/top_level.txt
2026-01-13T14:06:25,670   reading manifest file 'biobuntu.egg-info/SOURCES.txt'
2026-01-13T14:06:25,674   adding license file 'LICENSE'
2026-01-13T14:06:25,678   writing manifest file 'biobuntu.egg-info/SOURCES.txt'
2026-01-13T14:06:25,684   copying configs/default.yaml -> build/lib/configs
2026-01-13T14:06:25,686   copying configs/threads.yaml -> build/lib/configs
2026-01-13T14:06:25,688   copying configs/tools.yaml -> build/lib/configs
2026-01-13T14:06:25,704   installing to build/bdist.linux-armv7l/wheel
2026-01-13T14:06:25,705   running install
2026-01-13T14:06:25,728   running install_lib
2026-01-13T14:06:25,735   creating build/bdist.linux-armv7l/wheel
2026-01-13T14:06:25,737   creating build/bdist.linux-armv7l/wheel/gui
2026-01-13T14:06:25,738   copying build/lib/gui/__init__.py -> build/bdist.linux-armv7l/wheel/./gui
2026-01-13T14:06:25,740   copying build/lib/gui/main.py -> build/bdist.linux-armv7l/wheel/./gui
2026-01-13T14:06:25,743   creating build/bdist.linux-armv7l/wheel/gui/widgets
2026-01-13T14:06:25,744   copying build/lib/gui/widgets/file_drop.py -> build/bdist.linux-armv7l/wheel/./gui/widgets
2026-01-13T14:06:25,746   copying build/lib/gui/widgets/progress_bar.py -> build/bdist.linux-armv7l/wheel/./gui/widgets
2026-01-13T14:06:25,748   creating build/bdist.linux-armv7l/wheel/gui/windows
2026-01-13T14:06:25,749   copying build/lib/gui/windows/settings_window.py -> build/bdist.linux-armv7l/wheel/./gui/windows
2026-01-13T14:06:25,752   copying build/lib/gui/windows/main_window.py -> build/bdist.linux-armv7l/wheel/./gui/windows
2026-01-13T14:06:25,755   creating build/bdist.linux-armv7l/wheel/tools
2026-01-13T14:06:25,756   copying build/lib/tools/samtools.py -> build/bdist.linux-armv7l/wheel/./tools
2026-01-13T14:06:25,758   copying build/lib/tools/fastqc.py -> build/bdist.linux-armv7l/wheel/./tools
2026-01-13T14:06:25,760   copying build/lib/tools/hisat2.py -> build/bdist.linux-armv7l/wheel/./tools
2026-01-13T14:06:25,762   copying build/lib/tools/bwa.py -> build/bdist.linux-armv7l/wheel/./tools
2026-01-13T14:06:25,764   copying build/lib/tools/gatk.py -> build/bdist.linux-armv7l/wheel/./tools
2026-01-13T14:06:25,766   creating build/bdist.linux-armv7l/wheel/web
2026-01-13T14:06:25,767   copying build/lib/web/__init__.py -> build/bdist.linux-armv7l/wheel/./web
2026-01-13T14:06:25,769   creating build/bdist.linux-armv7l/wheel/web/routes
2026-01-13T14:06:25,770   copying build/lib/web/routes/status.py -> build/bdist.linux-armv7l/wheel/./web/routes
2026-01-13T14:06:25,772   copying build/lib/web/routes/projects.py -> build/bdist.linux-armv7l/wheel/./web/routes
2026-01-13T14:06:25,774   copying build/lib/web/routes/__init__.py -> build/bdist.linux-armv7l/wheel/./web/routes
2026-01-13T14:06:25,776   copying build/lib/web/routes/pipelines.py -> build/bdist.linux-armv7l/wheel/./web/routes
2026-01-13T14:06:25,778   copying build/lib/web/api.py -> build/bdist.linux-armv7l/wheel/./web
2026-01-13T14:06:25,780   creating build/bdist.linux-armv7l/wheel/core
2026-01-13T14:06:25,781   copying build/lib/core/project_manager.py -> build/bdist.linux-armv7l/wheel/./core
2026-01-13T14:06:25,784   copying build/lib/core/__init__.py -> build/bdist.linux-armv7l/wheel/./core
2026-01-13T14:06:25,785   copying build/lib/core/file_manager.py -> build/bdist.linux-armv7l/wheel/./core
2026-01-13T14:06:25,787   copying build/lib/core/utils.py -> build/bdist.linux-armv7l/wheel/./core
2026-01-13T14:06:25,789   copying build/lib/core/runner.py -> build/bdist.linux-armv7l/wheel/./core
2026-01-13T14:06:25,791   copying build/lib/core/logger.py -> build/bdist.linux-armv7l/wheel/./core
2026-01-13T14:06:25,793   copying build/lib/core/config.py -> build/bdist.linux-armv7l/wheel/./core
2026-01-13T14:06:25,795   copying build/lib/core/engine.py -> build/bdist.linux-armv7l/wheel/./core
2026-01-13T14:06:25,798   creating build/bdist.linux-armv7l/wheel/cli
2026-01-13T14:06:25,799   copying build/lib/cli/cli.py -> build/bdist.linux-armv7l/wheel/./cli
2026-01-13T14:06:25,801   copying build/lib/cli/__init__.py -> build/bdist.linux-armv7l/wheel/./cli
2026-01-13T14:06:25,803   creating build/bdist.linux-armv7l/wheel/configs
2026-01-13T14:06:25,804   copying build/lib/configs/tools.yaml -> build/bdist.linux-armv7l/wheel/./configs
2026-01-13T14:06:25,806   copying build/lib/configs/__init__.py -> build/bdist.linux-armv7l/wheel/./configs
2026-01-13T14:06:25,808   copying build/lib/configs/default.yaml -> build/bdist.linux-armv7l/wheel/./configs
2026-01-13T14:06:25,810   copying build/lib/configs/threads.yaml -> build/bdist.linux-armv7l/wheel/./configs
2026-01-13T14:06:25,812   running install_egg_info
2026-01-13T14:06:25,818   Copying biobuntu.egg-info to build/bdist.linux-armv7l/wheel/./biobuntu-1.2.3-py3.11.egg-info
2026-01-13T14:06:25,830   running install_scripts
2026-01-13T14:06:25,844   creating build/bdist.linux-armv7l/wheel/biobuntu-1.2.3.dist-info/WHEEL
2026-01-13T14:06:25,847   creating '/tmp/pip-wheel-5tf2h0ky/.tmp-ggj09r36/biobuntu-1.2.3-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2026-01-13T14:06:25,850   adding 'biobuntu-1.2.3.dist-info/licenses/LICENSE'
2026-01-13T14:06:25,852   adding 'cli/__init__.py'
2026-01-13T14:06:25,854   adding 'cli/cli.py'
2026-01-13T14:06:25,856   adding 'configs/__init__.py'
2026-01-13T14:06:25,857   adding 'configs/default.yaml'
2026-01-13T14:06:25,858   adding 'configs/threads.yaml'
2026-01-13T14:06:25,859   adding 'configs/tools.yaml'
2026-01-13T14:06:25,861   adding 'core/__init__.py'
2026-01-13T14:06:25,863   adding 'core/config.py'
2026-01-13T14:06:25,864   adding 'core/engine.py'
2026-01-13T14:06:25,865   adding 'core/file_manager.py'
2026-01-13T14:06:25,867   adding 'core/logger.py'
2026-01-13T14:06:25,868   adding 'core/project_manager.py'
2026-01-13T14:06:25,870   adding 'core/runner.py'
2026-01-13T14:06:25,871   adding 'core/utils.py'
2026-01-13T14:06:25,872   adding 'gui/__init__.py'
2026-01-13T14:06:25,874   adding 'gui/main.py'
2026-01-13T14:06:25,875   adding 'gui/widgets/file_drop.py'
2026-01-13T14:06:25,877   adding 'gui/widgets/progress_bar.py'
2026-01-13T14:06:25,879   adding 'gui/windows/main_window.py'
2026-01-13T14:06:25,880   adding 'gui/windows/settings_window.py'
2026-01-13T14:06:25,882   adding 'tools/bwa.py'
2026-01-13T14:06:25,883   adding 'tools/fastqc.py'
2026-01-13T14:06:25,885   adding 'tools/gatk.py'
2026-01-13T14:06:25,886   adding 'tools/hisat2.py'
2026-01-13T14:06:25,887   adding 'tools/samtools.py'
2026-01-13T14:06:25,889   adding 'web/__init__.py'
2026-01-13T14:06:25,890   adding 'web/api.py'
2026-01-13T14:06:25,892   adding 'web/routes/__init__.py'
2026-01-13T14:06:25,893   adding 'web/routes/pipelines.py'
2026-01-13T14:06:25,894   adding 'web/routes/projects.py'
2026-01-13T14:06:25,896   adding 'web/routes/status.py'
2026-01-13T14:06:25,897   adding 'biobuntu-1.2.3.dist-info/METADATA'
2026-01-13T14:06:25,898   adding 'biobuntu-1.2.3.dist-info/WHEEL'
2026-01-13T14:06:25,899   adding 'biobuntu-1.2.3.dist-info/entry_points.txt'
2026-01-13T14:06:25,900   adding 'biobuntu-1.2.3.dist-info/top_level.txt'
2026-01-13T14:06:25,901   adding 'biobuntu-1.2.3.dist-info/RECORD'
2026-01-13T14:06:25,903   removing build/bdist.linux-armv7l/wheel
2026-01-13T14:06:26,015   Building wheel for biobuntu (pyproject.toml): finished with status 'done'
2026-01-13T14:06:26,020   Created wheel for biobuntu: filename=biobuntu-1.2.3-py3-none-any.whl size=21175 sha256=a613000893558cbc51ee5c4d5967f2480c9694fed2ef209338db2fc3d06a81f0
2026-01-13T14:06:26,021   Stored in directory: /tmp/pip-ephem-wheel-cache-991o_mmm/wheels/0c/d2/45/90c36f9a6488e5d92251c1f3a103785de4337ac1e69ae95e23
2026-01-13T14:06:26,033 Successfully built biobuntu
2026-01-13T14:06:26,038 Removed build tracker: '/tmp/pip-build-tracker-tc_9fb3q'