Hi!
So, I install the package with no errors but then, when I try blobtools -h I get the error:
_~/miniconda3/envs/btk/lib/python3.9/site-packages/blobtools/blobtools.py:50: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81. ImportError: dlopen(/Users/xxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtk/blobtk.cpython-39-darwin.so, 0x0002): symbol not found in flat namespace '__isPlatformVersionAtLeast'
Is there something I am missing?
Thanks for your help and attention!
Here are my full installation commands:
(base) xxxxxxx@xxxxxxxx-MacBook-Air-2 ~ % conda create -y -n btk -c conda-forge python=3.9
2 channel Terms of Service accepted
Channels:
- conda-forge
- bioconda
- defaults
Platform: osx-arm64
Collecting package metadata (repodata.json): done
Solving environment: done
Package Plan
environment location: /Users/xxxxxxxx/miniconda3/envs/btk
added / updated specs:
- python=3.9
The following NEW packages will be INSTALLED:
bzip2 conda-forge/osx-arm64::bzip2-1.0.8-hd037594_8
ca-certificates conda-forge/noarch::ca-certificates-2026.1.4-hbd8a1cb_0
icu conda-forge/osx-arm64::icu-78.2-h38cb7af_0
libexpat conda-forge/osx-arm64::libexpat-2.7.3-haf25636_0
libffi conda-forge/osx-arm64::libffi-3.5.2-hcf2aa1b_0
liblzma conda-forge/osx-arm64::liblzma-5.8.2-h8088a28_0
libsqlite conda-forge/osx-arm64::libsqlite-3.51.2-h1ae2325_0
libzlib conda-forge/osx-arm64::libzlib-1.3.1-h8359307_2
ncurses conda-forge/osx-arm64::ncurses-6.5-h5e97a16_3
openssl conda-forge/osx-arm64::openssl-3.6.0-h5503f6c_0
pip conda-forge/noarch::pip-25.2-pyh8b19718_0
python conda-forge/osx-arm64::python-3.9.23-h7139b31_0_cpython
readline conda-forge/osx-arm64::readline-8.3-h46df422_0
setuptools conda-forge/noarch::setuptools-80.9.0-pyhff2d567_0
tk conda-forge/osx-arm64::tk-8.6.13-h010d191_3
tzdata conda-forge/noarch::tzdata-2025c-hc9c84f9_1
wheel conda-forge/noarch::wheel-0.45.1-pyhd8ed1ab_1
Downloading and Extracting Packages:
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
To activate this environment, use
$ conda activate btk
To deactivate an active environment, use
$ conda deactivate
(base) xxxxxxx@xxxxxxxx-MacBook-Air-2 ~ % conda activate btk
(btk) xxxxxxxxx@xxxxxxxxxx-MacBook-Air-2 ~ % pip install "blobtoolkit[full]"
Collecting blobtoolkit[full]
Using cached blobtoolkit-4.5.0-py39-none-macosx_11_0_arm64.whl.metadata (2.3 kB)
Collecting blobtk>=0.7.9 (from blobtoolkit[full])
Using cached blobtk-0.7.11-cp39-cp39-macosx_10_12_x86_64.macosx_11_0_arm64.macosx_10_12_universal2.whl.metadata (305 bytes)
Collecting chromedriver-autoinstaller>=0.6.2 (from blobtoolkit[full])
Using cached chromedriver_autoinstaller-0.6.4-py3-none-any.whl.metadata (2.1 kB)
Collecting docopt>=0.6.2 (from blobtoolkit[full])
Using cached docopt-0.6.2-py2.py3-none-any.whl
Collecting fastjsonschema>=2.21.1 (from blobtoolkit[full])
Using cached fastjsonschema-2.21.2-py3-none-any.whl.metadata (2.3 kB)
Collecting geckodriver-autoinstaller>=0.1.0 (from blobtoolkit[full])
Using cached geckodriver_autoinstaller-0.1.0-py3-none-any.whl.metadata (1.8 kB)
Collecting psutil==5.9.4 (from blobtoolkit[full])
Using cached psutil-5.9.4-cp38-abi3-macosx_11_0_arm64.whl.metadata (21 kB)
Collecting pyvirtualdisplay==3.0 (from blobtoolkit[full])
Using cached PyVirtualDisplay-3.0-py3-none-any.whl.metadata (943 bytes)
Collecting pyyaml (from blobtoolkit[full])
Using cached pyyaml-6.0.3-cp39-cp39-macosx_11_0_arm64.whl.metadata (2.4 kB)
Collecting selenium>=4.10.0 (from blobtoolkit[full])
Using cached selenium-4.36.0-py3-none-any.whl.metadata (7.5 kB)
Collecting tolkein>=0.5.0 (from blobtoolkit[full])
Using cached tolkein-0.5.0-py3-none-any.whl.metadata (2.4 kB)
Collecting tqdm==4.64.1 (from blobtoolkit[full])
Using cached tqdm-4.64.1-py2.py3-none-any.whl.metadata (57 kB)
Collecting ujson>=5.7.0 (from blobtoolkit[full])
Using cached ujson-5.11.0-cp39-cp39-macosx_11_0_arm64.whl.metadata (9.4 kB)
Collecting blobtoolkit-host==4.5.0 (from blobtoolkit[full])
Using cached blobtoolkit_host-4.5.0-py39-none-macosx_11_0_arm64.whl.metadata (1.7 kB)
INFO: pip is looking at multiple versions of blobtoolkit[full] to determine which version is compatible with other requirements. This could take a while.
Collecting blobtoolkit[full]
Using cached blobtoolkit-4.4.5-py39-none-macosx_11_0_arm64.whl.metadata (2.3 kB)
Collecting fastjsonschema==2.21.1 (from blobtoolkit[full])
Using cached fastjsonschema-2.21.1-py3-none-any.whl.metadata (2.2 kB)
Collecting blobtoolkit-host==4.4.1 (from blobtoolkit[full])
Using cached blobtoolkit_host-4.4.1-py39-none-macosx_11_0_arm64.whl.metadata (1.7 kB)
Collecting blobtoolkit-pipeline==4.4.3 (from blobtoolkit[full])
Using cached blobtoolkit_pipeline-4.4.3-py39-none-macosx_11_0_arm64.whl.metadata (1.9 kB)
Collecting defusedxml==0.7.1 (from blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached defusedxml-0.7.1-py2.py3-none-any.whl.metadata (32 kB)
Collecting requests>=2.28.1 (from blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached requests-2.32.5-py3-none-any.whl.metadata (4.9 kB)
Collecting snakemake==7.19.1 (from blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached snakemake-7.19.1-py3-none-any.whl.metadata (2.2 kB)
Collecting pulp==2.7.0 (from blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached PuLP-2.7.0-py3-none-any.whl.metadata (5.1 kB)
Collecting wrapt (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached wrapt-2.0.1-cp39-cp39-macosx_11_0_arm64.whl.metadata (9.0 kB)
Collecting throttler (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached throttler-1.2.3-py3-none-any.whl.metadata (10 kB)
Collecting configargparse (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached configargparse-1.7.1-py3-none-any.whl.metadata (24 kB)
Collecting appdirs (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
Collecting datrie (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached datrie-0.8.3-cp39-cp39-macosx_11_0_arm64.whl
Collecting jsonschema (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached jsonschema-4.25.1-py3-none-any.whl.metadata (7.6 kB)
Collecting docutils (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached docutils-0.22.4-py3-none-any.whl.metadata (15 kB)
Collecting gitpython (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached gitpython-3.1.46-py3-none-any.whl.metadata (13 kB)
Collecting nbformat (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached nbformat-5.10.4-py3-none-any.whl.metadata (3.6 kB)
Collecting toposort (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached toposort-1.10-py3-none-any.whl.metadata (4.1 kB)
Collecting connection-pool>=0.0.3 (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached connection_pool-0.0.3-py3-none-any.whl
Collecting smart-open>=3.0 (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached smart_open-7.5.0-py3-none-any.whl.metadata (24 kB)
Collecting stopit (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached stopit-1.1.2-py3-none-any.whl
Collecting tabulate (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached tabulate-0.9.0-py3-none-any.whl.metadata (34 kB)
Collecting yte<2.0,>=1.0 (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached yte-1.9.4-py3-none-any.whl.metadata (3.1 kB)
Collecting jinja2<4.0,>=3.0 (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
Collecting reretry (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached reretry-0.11.8-py2.py3-none-any.whl.metadata (5.5 kB)
Collecting MarkupSafe>=2.0 (from jinja2<4.0,>=3.0->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached markupsafe-3.0.3-cp39-cp39-macosx_11_0_arm64.whl.metadata (2.7 kB)
Collecting argparse-dataclass<3,>=2.0.0 (from yte<2.0,>=1.0->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached argparse_dataclass-2.0.0-py3-none-any.whl.metadata (7.2 kB)
Collecting dpath<3.0,>=2.1 (from yte<2.0,>=1.0->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached dpath-2.2.0-py3-none-any.whl.metadata (15 kB)
Collecting packaging>=23.1 (from chromedriver-autoinstaller>=0.6.2->blobtoolkit[full])
Using cached packaging-26.0-py3-none-any.whl.metadata (3.3 kB)
Collecting charset_normalizer<4,>=2 (from requests>=2.28.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached charset_normalizer-3.4.4-cp39-cp39-macosx_10_9_universal2.whl.metadata (37 kB)
Collecting idna<4,>=2.5 (from requests>=2.28.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached idna-3.11-py3-none-any.whl.metadata (8.4 kB)
Collecting urllib3<3,>=1.21.1 (from requests>=2.28.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached urllib3-2.6.3-py3-none-any.whl.metadata (6.9 kB)
Collecting certifi>=2017.4.17 (from requests>=2.28.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached certifi-2026.1.4-py3-none-any.whl.metadata (2.5 kB)
Collecting trio<1.0,>=0.30.0 (from selenium>=4.10.0->blobtoolkit[full])
Using cached trio-0.31.0-py3-none-any.whl.metadata (8.5 kB)
Collecting trio-websocket<1.0,>=0.12.2 (from selenium>=4.10.0->blobtoolkit[full])
Using cached trio_websocket-0.12.2-py3-none-any.whl.metadata (5.1 kB)
Collecting typing_extensions<5.0,>=4.14.0 (from selenium>=4.10.0->blobtoolkit[full])
Using cached typing_extensions-4.15.0-py3-none-any.whl.metadata (3.3 kB)
Collecting websocket-client<2.0,>=1.8.0 (from selenium>=4.10.0->blobtoolkit[full])
Using cached websocket_client-1.9.0-py3-none-any.whl.metadata (8.3 kB)
Collecting attrs>=23.2.0 (from trio<1.0,>=0.30.0->selenium>=4.10.0->blobtoolkit[full])
Using cached attrs-25.4.0-py3-none-any.whl.metadata (10 kB)
Collecting sortedcontainers (from trio<1.0,>=0.30.0->selenium>=4.10.0->blobtoolkit[full])
Using cached sortedcontainers-2.4.0-py2.py3-none-any.whl.metadata (10 kB)
Collecting outcome (from trio<1.0,>=0.30.0->selenium>=4.10.0->blobtoolkit[full])
Using cached outcome-1.3.0.post0-py2.py3-none-any.whl.metadata (2.6 kB)
Collecting sniffio>=1.3.0 (from trio<1.0,>=0.30.0->selenium>=4.10.0->blobtoolkit[full])
Using cached sniffio-1.3.1-py3-none-any.whl.metadata (3.9 kB)
Collecting exceptiongroup (from trio<1.0,>=0.30.0->selenium>=4.10.0->blobtoolkit[full])
Using cached exceptiongroup-1.3.1-py3-none-any.whl.metadata (6.7 kB)
Collecting wsproto>=0.14 (from trio-websocket<1.0,>=0.12.2->selenium>=4.10.0->blobtoolkit[full])
Using cached wsproto-1.2.0-py3-none-any.whl.metadata (5.6 kB)
Collecting pysocks!=1.5.7,<2.0,>=1.5.6 (from urllib3[socks]<3.0,>=2.5.0->selenium>=4.10.0->blobtoolkit[full])
Using cached PySocks-1.7.1-py3-none-any.whl.metadata (13 kB)
Collecting xmltodict>=0.12.0 (from tolkein>=0.5.0->blobtoolkit[full])
Using cached xmltodict-1.0.2-py3-none-any.whl.metadata (15 kB)
Collecting h11<1,>=0.9.0 (from wsproto>=0.14->trio-websocket<1.0,>=0.12.2->selenium>=4.10.0->blobtoolkit[full])
Using cached h11-0.16.0-py3-none-any.whl.metadata (8.3 kB)
Collecting gitdb<5,>=4.0.1 (from gitpython->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached gitdb-4.0.12-py3-none-any.whl.metadata (1.2 kB)
Collecting smmap<6,>=3.0.1 (from gitdb<5,>=4.0.1->gitpython->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached smmap-5.0.2-py3-none-any.whl.metadata (4.3 kB)
Collecting jsonschema-specifications>=2023.03.6 (from jsonschema->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached jsonschema_specifications-2025.9.1-py3-none-any.whl.metadata (2.9 kB)
Collecting referencing>=0.28.4 (from jsonschema->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached referencing-0.36.2-py3-none-any.whl.metadata (2.8 kB)
Collecting rpds-py>=0.7.1 (from jsonschema->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached rpds_py-0.27.1-cp39-cp39-macosx_11_0_arm64.whl.metadata (4.2 kB)
Collecting jupyter-core!=5.0.,>=4.12 (from nbformat->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached jupyter_core-5.8.1-py3-none-any.whl.metadata (1.6 kB)
Collecting traitlets>=5.1 (from nbformat->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached traitlets-5.14.3-py3-none-any.whl.metadata (10 kB)
Collecting platformdirs>=2.5 (from jupyter-core!=5.0.,>=4.12->nbformat->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached platformdirs-4.4.0-py3-none-any.whl.metadata (12 kB)
Using cached blobtoolkit-4.4.5-py39-none-macosx_11_0_arm64.whl (114 kB)
Using cached blobtoolkit_host-4.4.1-py39-none-macosx_11_0_arm64.whl (5.6 kB)
Using cached blobtoolkit_pipeline-4.4.3-py39-none-macosx_11_0_arm64.whl (64 kB)
Using cached defusedxml-0.7.1-py2.py3-none-any.whl (25 kB)
Using cached fastjsonschema-2.21.1-py3-none-any.whl (23 kB)
Using cached psutil-5.9.4-cp38-abi3-macosx_11_0_arm64.whl (244 kB)
Using cached PuLP-2.7.0-py3-none-any.whl (14.3 MB)
Using cached PyVirtualDisplay-3.0-py3-none-any.whl (15 kB)
Using cached snakemake-7.19.1-py3-none-any.whl (360 kB)
Using cached tqdm-4.64.1-py2.py3-none-any.whl (78 kB)
Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
Using cached yte-1.9.4-py3-none-any.whl (10 kB)
Using cached argparse_dataclass-2.0.0-py3-none-any.whl (8.8 kB)
Using cached dpath-2.2.0-py3-none-any.whl (17 kB)
Using cached pyyaml-6.0.3-cp39-cp39-macosx_11_0_arm64.whl (174 kB)
Using cached blobtk-0.7.11-cp39-cp39-macosx_10_12_x86_64.macosx_11_0_arm64.macosx_10_12_universal2.whl (11.3 MB)
Using cached chromedriver_autoinstaller-0.6.4-py3-none-any.whl (7.6 kB)
Using cached geckodriver_autoinstaller-0.1.0-py3-none-any.whl (5.6 kB)
Using cached markupsafe-3.0.3-cp39-cp39-macosx_11_0_arm64.whl (12 kB)
Using cached packaging-26.0-py3-none-any.whl (74 kB)
Using cached requests-2.32.5-py3-none-any.whl (64 kB)
Using cached charset_normalizer-3.4.4-cp39-cp39-macosx_10_9_universal2.whl (209 kB)
Using cached idna-3.11-py3-none-any.whl (71 kB)
Using cached urllib3-2.6.3-py3-none-any.whl (131 kB)
Using cached certifi-2026.1.4-py3-none-any.whl (152 kB)
Using cached selenium-4.36.0-py3-none-any.whl (9.6 MB)
Using cached trio-0.31.0-py3-none-any.whl (512 kB)
Using cached trio_websocket-0.12.2-py3-none-any.whl (21 kB)
Using cached typing_extensions-4.15.0-py3-none-any.whl (44 kB)
Using cached PySocks-1.7.1-py3-none-any.whl (16 kB)
Using cached websocket_client-1.9.0-py3-none-any.whl (82 kB)
Using cached attrs-25.4.0-py3-none-any.whl (67 kB)
Using cached outcome-1.3.0.post0-py2.py3-none-any.whl (10 kB)
Using cached smart_open-7.5.0-py3-none-any.whl (63 kB)
Using cached sniffio-1.3.1-py3-none-any.whl (10 kB)
Using cached tolkein-0.5.0-py3-none-any.whl (13 kB)
Using cached ujson-5.11.0-cp39-cp39-macosx_11_0_arm64.whl (53 kB)
Using cached wsproto-1.2.0-py3-none-any.whl (24 kB)
Using cached h11-0.16.0-py3-none-any.whl (37 kB)
Using cached xmltodict-1.0.2-py3-none-any.whl (13 kB)
Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
Using cached configargparse-1.7.1-py3-none-any.whl (25 kB)
Using cached docutils-0.22.4-py3-none-any.whl (633 kB)
Using cached exceptiongroup-1.3.1-py3-none-any.whl (16 kB)
Using cached gitpython-3.1.46-py3-none-any.whl (208 kB)
Using cached gitdb-4.0.12-py3-none-any.whl (62 kB)
Using cached smmap-5.0.2-py3-none-any.whl (24 kB)
Using cached jsonschema-4.25.1-py3-none-any.whl (90 kB)
Using cached jsonschema_specifications-2025.9.1-py3-none-any.whl (18 kB)
Using cached referencing-0.36.2-py3-none-any.whl (26 kB)
Using cached rpds_py-0.27.1-cp39-cp39-macosx_11_0_arm64.whl (354 kB)
Using cached nbformat-5.10.4-py3-none-any.whl (78 kB)
Using cached jupyter_core-5.8.1-py3-none-any.whl (28 kB)
Using cached platformdirs-4.4.0-py3-none-any.whl (18 kB)
Using cached traitlets-5.14.3-py3-none-any.whl (85 kB)
Using cached reretry-0.11.8-py2.py3-none-any.whl (5.6 kB)
Using cached sortedcontainers-2.4.0-py2.py3-none-any.whl (29 kB)
Using cached tabulate-0.9.0-py3-none-any.whl (35 kB)
Using cached throttler-1.2.3-py3-none-any.whl (9.7 kB)
Using cached toposort-1.10-py3-none-any.whl (8.5 kB)
Using cached wrapt-2.0.1-cp39-cp39-macosx_11_0_arm64.whl (61 kB)
Installing collected packages: toposort, stopit, sortedcontainers, pyvirtualdisplay, pulp, fastjsonschema, docopt, connection-pool, appdirs, xmltodict, wrapt, websocket-client, urllib3, ujson, typing_extensions, traitlets, tqdm, throttler, tabulate, sniffio, smmap, rpds-py, reretry, pyyaml, pysocks, psutil, platformdirs, packaging, MarkupSafe, idna, h11, geckodriver-autoinstaller, dpath, docutils, defusedxml, datrie, configargparse, charset_normalizer, certifi, blobtk, attrs, argparse-dataclass, yte, wsproto, smart-open, requests, referencing, outcome, jupyter-core, jinja2, gitdb, exceptiongroup, chromedriver-autoinstaller, blobtoolkit-host, trio, tolkein, jsonschema-specifications, gitpython, trio-websocket, jsonschema, selenium, nbformat, snakemake, blobtoolkit, blobtoolkit-pipeline
Successfully installed MarkupSafe-3.0.3 appdirs-1.4.4 argparse-dataclass-2.0.0 attrs-25.4.0 blobtk-0.7.11 blobtoolkit-4.4.5 blobtoolkit-host-4.4.1 blobtoolkit-pipeline-4.4.3 certifi-2026.1.4 charset_normalizer-3.4.4 chromedriver-autoinstaller-0.6.4 configargparse-1.7.1 connection-pool-0.0.3 datrie-0.8.3 defusedxml-0.7.1 docopt-0.6.2 docutils-0.22.4 dpath-2.2.0 exceptiongroup-1.3.1 fastjsonschema-2.21.1 geckodriver-autoinstaller-0.1.0 gitdb-4.0.12 gitpython-3.1.46 h11-0.16.0 idna-3.11 jinja2-3.1.6 jsonschema-4.25.1 jsonschema-specifications-2025.9.1 jupyter-core-5.8.1 nbformat-5.10.4 outcome-1.3.0.post0 packaging-26.0 platformdirs-4.4.0 psutil-5.9.4 pulp-2.7.0 pysocks-1.7.1 pyvirtualdisplay-3.0 pyyaml-6.0.3 referencing-0.36.2 requests-2.32.5 reretry-0.11.8 rpds-py-0.27.1 selenium-4.36.0 smart-open-7.5.0 smmap-5.0.2 snakemake-7.19.1 sniffio-1.3.1 sortedcontainers-2.4.0 stopit-1.1.2 tabulate-0.9.0 throttler-1.2.3 tolkein-0.5.0 toposort-1.10 tqdm-4.64.1 traitlets-5.14.3 trio-0.31.0 trio-websocket-0.12.2 typing_extensions-4.15.0 ujson-5.11.0 urllib3-2.6.3 websocket-client-1.9.0 wrapt-2.0.1 wsproto-1.2.0 xmltodict-1.0.2 yte-1.9.4
(btk) xxxxxxxx@xxxxxxxx-MacBook-Air-2 ~ % blobtools -h
~/miniconda3/envs/btk/lib/python3.9/site-packages/blobtools/blobtools.py:50: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81.
from pkg_resources import working_set
Traceback (most recent call last):
File "/Users/xxxxxxxx/miniconda3/envs/btk/bin/blobtools", line 3, in
from blobtools import cli
File "/Users/xxxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtools/init.py", line 7, in
from .lib import add
File "/Users/xxxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtools/lib/add.py", line 72, in
from ..lib import blob_db
File "/Users/xxxxxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtools/lib/blob_db.py", line 10, in
from ..lib import cov
File "/Users/xxxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtools/lib/cov.py", line 14, in
from blobtk import depth
File "/Users/xxxxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtk/init.py", line 1, in
from .blobtk import *
ImportError: dlopen(/Users/xxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtk/blobtk.cpython-39-darwin.so, 0x0002): symbol not found in flat namespace '___isPlatformVersionAtLeast'
Hi!
So, I install the package with no errors but then, when I try blobtools -h I get the error:
_~/miniconda3/envs/btk/lib/python3.9/site-packages/blobtools/blobtools.py:50: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81. ImportError: dlopen(/Users/xxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtk/blobtk.cpython-39-darwin.so, 0x0002): symbol not found in flat namespace '__isPlatformVersionAtLeast'
Is there something I am missing?
Thanks for your help and attention!
Here are my full installation commands:
(base) xxxxxxx@xxxxxxxx-MacBook-Air-2 ~ % conda create -y -n btk -c conda-forge python=3.9
2 channel Terms of Service accepted
Channels:
Platform: osx-arm64
Collecting package metadata (repodata.json): done
Solving environment: done
Package Plan
environment location: /Users/xxxxxxxx/miniconda3/envs/btk
added / updated specs:
- python=3.9
The following NEW packages will be INSTALLED:
bzip2 conda-forge/osx-arm64::bzip2-1.0.8-hd037594_8
ca-certificates conda-forge/noarch::ca-certificates-2026.1.4-hbd8a1cb_0
icu conda-forge/osx-arm64::icu-78.2-h38cb7af_0
libexpat conda-forge/osx-arm64::libexpat-2.7.3-haf25636_0
libffi conda-forge/osx-arm64::libffi-3.5.2-hcf2aa1b_0
liblzma conda-forge/osx-arm64::liblzma-5.8.2-h8088a28_0
libsqlite conda-forge/osx-arm64::libsqlite-3.51.2-h1ae2325_0
libzlib conda-forge/osx-arm64::libzlib-1.3.1-h8359307_2
ncurses conda-forge/osx-arm64::ncurses-6.5-h5e97a16_3
openssl conda-forge/osx-arm64::openssl-3.6.0-h5503f6c_0
pip conda-forge/noarch::pip-25.2-pyh8b19718_0
python conda-forge/osx-arm64::python-3.9.23-h7139b31_0_cpython
readline conda-forge/osx-arm64::readline-8.3-h46df422_0
setuptools conda-forge/noarch::setuptools-80.9.0-pyhff2d567_0
tk conda-forge/osx-arm64::tk-8.6.13-h010d191_3
tzdata conda-forge/noarch::tzdata-2025c-hc9c84f9_1
wheel conda-forge/noarch::wheel-0.45.1-pyhd8ed1ab_1
Downloading and Extracting Packages:
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
To activate this environment, use
$ conda activate btk
To deactivate an active environment, use
$ conda deactivate
(base) xxxxxxx@xxxxxxxx-MacBook-Air-2 ~ % conda activate btk
(btk) xxxxxxxxx@xxxxxxxxxx-MacBook-Air-2 ~ % pip install "blobtoolkit[full]"
Collecting blobtoolkit[full]
Using cached blobtoolkit-4.5.0-py39-none-macosx_11_0_arm64.whl.metadata (2.3 kB)
Collecting blobtk>=0.7.9 (from blobtoolkit[full])
Using cached blobtk-0.7.11-cp39-cp39-macosx_10_12_x86_64.macosx_11_0_arm64.macosx_10_12_universal2.whl.metadata (305 bytes)
Collecting chromedriver-autoinstaller>=0.6.2 (from blobtoolkit[full])
Using cached chromedriver_autoinstaller-0.6.4-py3-none-any.whl.metadata (2.1 kB)
Collecting docopt>=0.6.2 (from blobtoolkit[full])
Using cached docopt-0.6.2-py2.py3-none-any.whl
Collecting fastjsonschema>=2.21.1 (from blobtoolkit[full])
Using cached fastjsonschema-2.21.2-py3-none-any.whl.metadata (2.3 kB)
Collecting geckodriver-autoinstaller>=0.1.0 (from blobtoolkit[full])
Using cached geckodriver_autoinstaller-0.1.0-py3-none-any.whl.metadata (1.8 kB)
Collecting psutil==5.9.4 (from blobtoolkit[full])
Using cached psutil-5.9.4-cp38-abi3-macosx_11_0_arm64.whl.metadata (21 kB)
Collecting pyvirtualdisplay==3.0 (from blobtoolkit[full])
Using cached PyVirtualDisplay-3.0-py3-none-any.whl.metadata (943 bytes)
Collecting pyyaml (from blobtoolkit[full])
Using cached pyyaml-6.0.3-cp39-cp39-macosx_11_0_arm64.whl.metadata (2.4 kB)
Collecting selenium>=4.10.0 (from blobtoolkit[full])
Using cached selenium-4.36.0-py3-none-any.whl.metadata (7.5 kB)
Collecting tolkein>=0.5.0 (from blobtoolkit[full])
Using cached tolkein-0.5.0-py3-none-any.whl.metadata (2.4 kB)
Collecting tqdm==4.64.1 (from blobtoolkit[full])
Using cached tqdm-4.64.1-py2.py3-none-any.whl.metadata (57 kB)
Collecting ujson>=5.7.0 (from blobtoolkit[full])
Using cached ujson-5.11.0-cp39-cp39-macosx_11_0_arm64.whl.metadata (9.4 kB)
Collecting blobtoolkit-host==4.5.0 (from blobtoolkit[full])
Using cached blobtoolkit_host-4.5.0-py39-none-macosx_11_0_arm64.whl.metadata (1.7 kB)
INFO: pip is looking at multiple versions of blobtoolkit[full] to determine which version is compatible with other requirements. This could take a while.
Collecting blobtoolkit[full]
Using cached blobtoolkit-4.4.5-py39-none-macosx_11_0_arm64.whl.metadata (2.3 kB)
Collecting fastjsonschema==2.21.1 (from blobtoolkit[full])
Using cached fastjsonschema-2.21.1-py3-none-any.whl.metadata (2.2 kB)
Collecting blobtoolkit-host==4.4.1 (from blobtoolkit[full])
Using cached blobtoolkit_host-4.4.1-py39-none-macosx_11_0_arm64.whl.metadata (1.7 kB)
Collecting blobtoolkit-pipeline==4.4.3 (from blobtoolkit[full])
Using cached blobtoolkit_pipeline-4.4.3-py39-none-macosx_11_0_arm64.whl.metadata (1.9 kB)
Collecting defusedxml==0.7.1 (from blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached defusedxml-0.7.1-py2.py3-none-any.whl.metadata (32 kB)
Collecting requests>=2.28.1 (from blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached requests-2.32.5-py3-none-any.whl.metadata (4.9 kB)
Collecting snakemake==7.19.1 (from blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached snakemake-7.19.1-py3-none-any.whl.metadata (2.2 kB)
Collecting pulp==2.7.0 (from blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached PuLP-2.7.0-py3-none-any.whl.metadata (5.1 kB)
Collecting wrapt (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached wrapt-2.0.1-cp39-cp39-macosx_11_0_arm64.whl.metadata (9.0 kB)
Collecting throttler (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached throttler-1.2.3-py3-none-any.whl.metadata (10 kB)
Collecting configargparse (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached configargparse-1.7.1-py3-none-any.whl.metadata (24 kB)
Collecting appdirs (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached appdirs-1.4.4-py2.py3-none-any.whl.metadata (9.0 kB)
Collecting datrie (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached datrie-0.8.3-cp39-cp39-macosx_11_0_arm64.whl
Collecting jsonschema (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached jsonschema-4.25.1-py3-none-any.whl.metadata (7.6 kB)
Collecting docutils (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached docutils-0.22.4-py3-none-any.whl.metadata (15 kB)
Collecting gitpython (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached gitpython-3.1.46-py3-none-any.whl.metadata (13 kB)
Collecting nbformat (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached nbformat-5.10.4-py3-none-any.whl.metadata (3.6 kB)
Collecting toposort (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached toposort-1.10-py3-none-any.whl.metadata (4.1 kB)
Collecting connection-pool>=0.0.3 (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached connection_pool-0.0.3-py3-none-any.whl
Collecting smart-open>=3.0 (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached smart_open-7.5.0-py3-none-any.whl.metadata (24 kB)
Collecting stopit (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached stopit-1.1.2-py3-none-any.whl
Collecting tabulate (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached tabulate-0.9.0-py3-none-any.whl.metadata (34 kB)
Collecting yte<2.0,>=1.0 (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached yte-1.9.4-py3-none-any.whl.metadata (3.1 kB)
Collecting jinja2<4.0,>=3.0 (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached jinja2-3.1.6-py3-none-any.whl.metadata (2.9 kB)
Collecting reretry (from snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached reretry-0.11.8-py2.py3-none-any.whl.metadata (5.5 kB)
Collecting MarkupSafe>=2.0 (from jinja2<4.0,>=3.0->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached markupsafe-3.0.3-cp39-cp39-macosx_11_0_arm64.whl.metadata (2.7 kB)
Collecting argparse-dataclass<3,>=2.0.0 (from yte<2.0,>=1.0->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached argparse_dataclass-2.0.0-py3-none-any.whl.metadata (7.2 kB)
Collecting dpath<3.0,>=2.1 (from yte<2.0,>=1.0->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached dpath-2.2.0-py3-none-any.whl.metadata (15 kB)
Collecting packaging>=23.1 (from chromedriver-autoinstaller>=0.6.2->blobtoolkit[full])
Using cached packaging-26.0-py3-none-any.whl.metadata (3.3 kB)
Collecting charset_normalizer<4,>=2 (from requests>=2.28.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached charset_normalizer-3.4.4-cp39-cp39-macosx_10_9_universal2.whl.metadata (37 kB)
Collecting idna<4,>=2.5 (from requests>=2.28.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached idna-3.11-py3-none-any.whl.metadata (8.4 kB)
Collecting urllib3<3,>=1.21.1 (from requests>=2.28.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached urllib3-2.6.3-py3-none-any.whl.metadata (6.9 kB)
Collecting certifi>=2017.4.17 (from requests>=2.28.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached certifi-2026.1.4-py3-none-any.whl.metadata (2.5 kB)
Collecting trio<1.0,>=0.30.0 (from selenium>=4.10.0->blobtoolkit[full])
Using cached trio-0.31.0-py3-none-any.whl.metadata (8.5 kB)
Collecting trio-websocket<1.0,>=0.12.2 (from selenium>=4.10.0->blobtoolkit[full])
Using cached trio_websocket-0.12.2-py3-none-any.whl.metadata (5.1 kB)
Collecting typing_extensions<5.0,>=4.14.0 (from selenium>=4.10.0->blobtoolkit[full])
Using cached typing_extensions-4.15.0-py3-none-any.whl.metadata (3.3 kB)
Collecting websocket-client<2.0,>=1.8.0 (from selenium>=4.10.0->blobtoolkit[full])
Using cached websocket_client-1.9.0-py3-none-any.whl.metadata (8.3 kB)
Collecting attrs>=23.2.0 (from trio<1.0,>=0.30.0->selenium>=4.10.0->blobtoolkit[full])
Using cached attrs-25.4.0-py3-none-any.whl.metadata (10 kB)
Collecting sortedcontainers (from trio<1.0,>=0.30.0->selenium>=4.10.0->blobtoolkit[full])
Using cached sortedcontainers-2.4.0-py2.py3-none-any.whl.metadata (10 kB)
Collecting outcome (from trio<1.0,>=0.30.0->selenium>=4.10.0->blobtoolkit[full])
Using cached outcome-1.3.0.post0-py2.py3-none-any.whl.metadata (2.6 kB)
Collecting sniffio>=1.3.0 (from trio<1.0,>=0.30.0->selenium>=4.10.0->blobtoolkit[full])
Using cached sniffio-1.3.1-py3-none-any.whl.metadata (3.9 kB)
Collecting exceptiongroup (from trio<1.0,>=0.30.0->selenium>=4.10.0->blobtoolkit[full])
Using cached exceptiongroup-1.3.1-py3-none-any.whl.metadata (6.7 kB)
Collecting wsproto>=0.14 (from trio-websocket<1.0,>=0.12.2->selenium>=4.10.0->blobtoolkit[full])
Using cached wsproto-1.2.0-py3-none-any.whl.metadata (5.6 kB)
Collecting pysocks!=1.5.7,<2.0,>=1.5.6 (from urllib3[socks]<3.0,>=2.5.0->selenium>=4.10.0->blobtoolkit[full])
Using cached PySocks-1.7.1-py3-none-any.whl.metadata (13 kB)
Collecting xmltodict>=0.12.0 (from tolkein>=0.5.0->blobtoolkit[full])
Using cached xmltodict-1.0.2-py3-none-any.whl.metadata (15 kB)
Collecting h11<1,>=0.9.0 (from wsproto>=0.14->trio-websocket<1.0,>=0.12.2->selenium>=4.10.0->blobtoolkit[full])
Using cached h11-0.16.0-py3-none-any.whl.metadata (8.3 kB)
Collecting gitdb<5,>=4.0.1 (from gitpython->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached gitdb-4.0.12-py3-none-any.whl.metadata (1.2 kB)
Collecting smmap<6,>=3.0.1 (from gitdb<5,>=4.0.1->gitpython->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached smmap-5.0.2-py3-none-any.whl.metadata (4.3 kB)
Collecting jsonschema-specifications>=2023.03.6 (from jsonschema->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached jsonschema_specifications-2025.9.1-py3-none-any.whl.metadata (2.9 kB)
Collecting referencing>=0.28.4 (from jsonschema->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached referencing-0.36.2-py3-none-any.whl.metadata (2.8 kB)
Collecting rpds-py>=0.7.1 (from jsonschema->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached rpds_py-0.27.1-cp39-cp39-macosx_11_0_arm64.whl.metadata (4.2 kB)
Collecting jupyter-core!=5.0.,>=4.12 (from nbformat->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached jupyter_core-5.8.1-py3-none-any.whl.metadata (1.6 kB)
Collecting traitlets>=5.1 (from nbformat->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached traitlets-5.14.3-py3-none-any.whl.metadata (10 kB)
Collecting platformdirs>=2.5 (from jupyter-core!=5.0.,>=4.12->nbformat->snakemake==7.19.1->blobtoolkit-pipeline==4.4.3->blobtoolkit[full])
Using cached platformdirs-4.4.0-py3-none-any.whl.metadata (12 kB)
Using cached blobtoolkit-4.4.5-py39-none-macosx_11_0_arm64.whl (114 kB)
Using cached blobtoolkit_host-4.4.1-py39-none-macosx_11_0_arm64.whl (5.6 kB)
Using cached blobtoolkit_pipeline-4.4.3-py39-none-macosx_11_0_arm64.whl (64 kB)
Using cached defusedxml-0.7.1-py2.py3-none-any.whl (25 kB)
Using cached fastjsonschema-2.21.1-py3-none-any.whl (23 kB)
Using cached psutil-5.9.4-cp38-abi3-macosx_11_0_arm64.whl (244 kB)
Using cached PuLP-2.7.0-py3-none-any.whl (14.3 MB)
Using cached PyVirtualDisplay-3.0-py3-none-any.whl (15 kB)
Using cached snakemake-7.19.1-py3-none-any.whl (360 kB)
Using cached tqdm-4.64.1-py2.py3-none-any.whl (78 kB)
Using cached jinja2-3.1.6-py3-none-any.whl (134 kB)
Using cached yte-1.9.4-py3-none-any.whl (10 kB)
Using cached argparse_dataclass-2.0.0-py3-none-any.whl (8.8 kB)
Using cached dpath-2.2.0-py3-none-any.whl (17 kB)
Using cached pyyaml-6.0.3-cp39-cp39-macosx_11_0_arm64.whl (174 kB)
Using cached blobtk-0.7.11-cp39-cp39-macosx_10_12_x86_64.macosx_11_0_arm64.macosx_10_12_universal2.whl (11.3 MB)
Using cached chromedriver_autoinstaller-0.6.4-py3-none-any.whl (7.6 kB)
Using cached geckodriver_autoinstaller-0.1.0-py3-none-any.whl (5.6 kB)
Using cached markupsafe-3.0.3-cp39-cp39-macosx_11_0_arm64.whl (12 kB)
Using cached packaging-26.0-py3-none-any.whl (74 kB)
Using cached requests-2.32.5-py3-none-any.whl (64 kB)
Using cached charset_normalizer-3.4.4-cp39-cp39-macosx_10_9_universal2.whl (209 kB)
Using cached idna-3.11-py3-none-any.whl (71 kB)
Using cached urllib3-2.6.3-py3-none-any.whl (131 kB)
Using cached certifi-2026.1.4-py3-none-any.whl (152 kB)
Using cached selenium-4.36.0-py3-none-any.whl (9.6 MB)
Using cached trio-0.31.0-py3-none-any.whl (512 kB)
Using cached trio_websocket-0.12.2-py3-none-any.whl (21 kB)
Using cached typing_extensions-4.15.0-py3-none-any.whl (44 kB)
Using cached PySocks-1.7.1-py3-none-any.whl (16 kB)
Using cached websocket_client-1.9.0-py3-none-any.whl (82 kB)
Using cached attrs-25.4.0-py3-none-any.whl (67 kB)
Using cached outcome-1.3.0.post0-py2.py3-none-any.whl (10 kB)
Using cached smart_open-7.5.0-py3-none-any.whl (63 kB)
Using cached sniffio-1.3.1-py3-none-any.whl (10 kB)
Using cached tolkein-0.5.0-py3-none-any.whl (13 kB)
Using cached ujson-5.11.0-cp39-cp39-macosx_11_0_arm64.whl (53 kB)
Using cached wsproto-1.2.0-py3-none-any.whl (24 kB)
Using cached h11-0.16.0-py3-none-any.whl (37 kB)
Using cached xmltodict-1.0.2-py3-none-any.whl (13 kB)
Using cached appdirs-1.4.4-py2.py3-none-any.whl (9.6 kB)
Using cached configargparse-1.7.1-py3-none-any.whl (25 kB)
Using cached docutils-0.22.4-py3-none-any.whl (633 kB)
Using cached exceptiongroup-1.3.1-py3-none-any.whl (16 kB)
Using cached gitpython-3.1.46-py3-none-any.whl (208 kB)
Using cached gitdb-4.0.12-py3-none-any.whl (62 kB)
Using cached smmap-5.0.2-py3-none-any.whl (24 kB)
Using cached jsonschema-4.25.1-py3-none-any.whl (90 kB)
Using cached jsonschema_specifications-2025.9.1-py3-none-any.whl (18 kB)
Using cached referencing-0.36.2-py3-none-any.whl (26 kB)
Using cached rpds_py-0.27.1-cp39-cp39-macosx_11_0_arm64.whl (354 kB)
Using cached nbformat-5.10.4-py3-none-any.whl (78 kB)
Using cached jupyter_core-5.8.1-py3-none-any.whl (28 kB)
Using cached platformdirs-4.4.0-py3-none-any.whl (18 kB)
Using cached traitlets-5.14.3-py3-none-any.whl (85 kB)
Using cached reretry-0.11.8-py2.py3-none-any.whl (5.6 kB)
Using cached sortedcontainers-2.4.0-py2.py3-none-any.whl (29 kB)
Using cached tabulate-0.9.0-py3-none-any.whl (35 kB)
Using cached throttler-1.2.3-py3-none-any.whl (9.7 kB)
Using cached toposort-1.10-py3-none-any.whl (8.5 kB)
Using cached wrapt-2.0.1-cp39-cp39-macosx_11_0_arm64.whl (61 kB)
Installing collected packages: toposort, stopit, sortedcontainers, pyvirtualdisplay, pulp, fastjsonschema, docopt, connection-pool, appdirs, xmltodict, wrapt, websocket-client, urllib3, ujson, typing_extensions, traitlets, tqdm, throttler, tabulate, sniffio, smmap, rpds-py, reretry, pyyaml, pysocks, psutil, platformdirs, packaging, MarkupSafe, idna, h11, geckodriver-autoinstaller, dpath, docutils, defusedxml, datrie, configargparse, charset_normalizer, certifi, blobtk, attrs, argparse-dataclass, yte, wsproto, smart-open, requests, referencing, outcome, jupyter-core, jinja2, gitdb, exceptiongroup, chromedriver-autoinstaller, blobtoolkit-host, trio, tolkein, jsonschema-specifications, gitpython, trio-websocket, jsonschema, selenium, nbformat, snakemake, blobtoolkit, blobtoolkit-pipeline
Successfully installed MarkupSafe-3.0.3 appdirs-1.4.4 argparse-dataclass-2.0.0 attrs-25.4.0 blobtk-0.7.11 blobtoolkit-4.4.5 blobtoolkit-host-4.4.1 blobtoolkit-pipeline-4.4.3 certifi-2026.1.4 charset_normalizer-3.4.4 chromedriver-autoinstaller-0.6.4 configargparse-1.7.1 connection-pool-0.0.3 datrie-0.8.3 defusedxml-0.7.1 docopt-0.6.2 docutils-0.22.4 dpath-2.2.0 exceptiongroup-1.3.1 fastjsonschema-2.21.1 geckodriver-autoinstaller-0.1.0 gitdb-4.0.12 gitpython-3.1.46 h11-0.16.0 idna-3.11 jinja2-3.1.6 jsonschema-4.25.1 jsonschema-specifications-2025.9.1 jupyter-core-5.8.1 nbformat-5.10.4 outcome-1.3.0.post0 packaging-26.0 platformdirs-4.4.0 psutil-5.9.4 pulp-2.7.0 pysocks-1.7.1 pyvirtualdisplay-3.0 pyyaml-6.0.3 referencing-0.36.2 requests-2.32.5 reretry-0.11.8 rpds-py-0.27.1 selenium-4.36.0 smart-open-7.5.0 smmap-5.0.2 snakemake-7.19.1 sniffio-1.3.1 sortedcontainers-2.4.0 stopit-1.1.2 tabulate-0.9.0 throttler-1.2.3 tolkein-0.5.0 toposort-1.10 tqdm-4.64.1 traitlets-5.14.3 trio-0.31.0 trio-websocket-0.12.2 typing_extensions-4.15.0 ujson-5.11.0 urllib3-2.6.3 websocket-client-1.9.0 wrapt-2.0.1 wsproto-1.2.0 xmltodict-1.0.2 yte-1.9.4
(btk) xxxxxxxx@xxxxxxxx-MacBook-Air-2 ~ % blobtools -h
~/miniconda3/envs/btk/lib/python3.9/site-packages/blobtools/blobtools.py:50: UserWarning: pkg_resources is deprecated as an API. See https://setuptools.pypa.io/en/latest/pkg_resources.html. The pkg_resources package is slated for removal as early as 2025-11-30. Refrain from using this package or pin to Setuptools<81.
from pkg_resources import working_set
Traceback (most recent call last):
File "/Users/xxxxxxxx/miniconda3/envs/btk/bin/blobtools", line 3, in
from blobtools import cli
File "/Users/xxxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtools/init.py", line 7, in
from .lib import add
File "/Users/xxxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtools/lib/add.py", line 72, in
from ..lib import blob_db
File "/Users/xxxxxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtools/lib/blob_db.py", line 10, in
from ..lib import cov
File "/Users/xxxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtools/lib/cov.py", line 14, in
from blobtk import depth
File "/Users/xxxxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtk/init.py", line 1, in
from .blobtk import *
ImportError: dlopen(/Users/xxxxxxxx/miniconda3/envs/btk/lib/python3.9/site-packages/blobtk/blobtk.cpython-39-darwin.so, 0x0002): symbol not found in flat namespace '___isPlatformVersionAtLeast'