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- (base) mona@mona:~/research$ conda env create --name dlc --file=DLC-GPU.yaml
- Collecting package metadata (repodata.json): done
- Solving environment: done
- Downloading and Extracting Packages
- gettext-0.19.8.1 | 2.9 MB | ################################################################################################################################################################ | 100%
- ipython-7.18.1 | 989 KB | ################################################################################################################################################################ | 100%
- jupyter_console-6.2. | 26 KB | ################################################################################################################################################################ | 100%
- qtconsole-4.7.7 | 96 KB | ################################################################################################################################################################ | 100%
- prompt_toolkit-3.0.7 | 12 KB | ################################################################################################################################################################ | 100%
- geos-3.8.0 | 961 KB | ################################################################################################################################################################ | 100%
- pango-1.45.3 | 361 KB | ################################################################################################################################################################ | 100%
- shapely-1.7.1 | 390 KB | ################################################################################################################################################################ | 100%
- pyzmq-19.0.2 | 438 KB | ################################################################################################################################################################ | 100%
- nb_conda_kernels-2.3 | 26 KB | ################################################################################################################################################################ | 100%
- notebook-6.1.1 | 4.0 MB | ################################################################################################################################################################ | 100%
- harfbuzz-2.4.0 | 850 KB | ################################################################################################################################################################ | 100%
- jedi-0.17.2 | 912 KB | ################################################################################################################################################################ | 100%
- gstreamer-1.14.0 | 3.1 MB | ################################################################################################################################################################ | 100%
- argon2-cffi-20.1.0 | 46 KB | ################################################################################################################################################################ | 100%
- pyrsistent-0.17.3 | 89 KB | ################################################################################################################################################################ | 100%
- ipykernel-5.3.4 | 179 KB | ################################################################################################################################################################ | 100%
- nb_conda-2.2.1 | 32 KB | ################################################################################################################################################################ | 100%
- cffi-1.14.3 | 223 KB | ################################################################################################################################################################ | 100%
- glib-2.65.0 | 2.9 MB | ################################################################################################################################################################ | 100%
- fribidi-1.0.10 | 103 KB | ################################################################################################################################################################ | 100%
- Preparing transaction: done
- Verifying transaction: done
- Executing transaction: \ Enabling nb_conda_kernels...
- Status: enabled
- / Config option `kernel_spec_manager_class` not recognized by `EnableNBExtensionApp`.
- Enabling notebook extension nb_conda/main...
- - Validating: OK
- Enabling tree extension nb_conda/tree...
- - Validating: OK
- Config option `kernel_spec_manager_class` not recognized by `EnableServerExtensionApp`.
- Enabling: nb_conda
- - Writing config: /home/mona/anaconda3/envs/dlc/etc/jupyter
- - Validating...
- nb_conda 2.2.1 OK
- done
- Installing pip dependencies: / Ran pip subprocess with arguments:
- ['/home/mona/anaconda3/envs/dlc/bin/python', '-m', 'pip', 'install', '-U', '-r', '/home/mona/research/condaenv.i4wb4gx_.requirements.txt']
- Pip subprocess output:
- Collecting deeplabcut
- Using cached deeplabcut-2.1.8.2-py3-none-any.whl (400 kB)
- Requirement already satisfied, skipping upgrade: certifi in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (2020.6.20)
- Collecting matplotlib==3.0.3
- Using cached matplotlib-3.0.3-cp37-cp37m-manylinux1_x86_64.whl (13.0 MB)
- Collecting numpy==1.16.4
- Using cached numpy-1.16.4-cp37-cp37m-manylinux1_x86_64.whl (17.3 MB)
- Collecting scikit-image
- Downloading scikit_image-0.17.2-cp37-cp37m-manylinux1_x86_64.whl (12.5 MB)
- Collecting scikit-learn
- Downloading scikit_learn-0.23.2-cp37-cp37m-manylinux1_x86_64.whl (6.8 MB)
- Requirement already satisfied, skipping upgrade: ipython-genutils in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (0.2.0)
- Collecting ruamel.yaml~=0.15
- Using cached ruamel.yaml-0.16.12-py2.py3-none-any.whl (111 kB)
- Collecting tqdm
- Using cached tqdm-4.49.0-py2.py3-none-any.whl (69 kB)
- Requirement already satisfied, skipping upgrade: six in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (1.15.0)
- Collecting tables
- Using cached tables-3.6.1-cp37-cp37m-manylinux1_x86_64.whl (4.3 MB)
- Collecting tensorpack>=0.9.7.1
- Using cached tensorpack-0.10.1-py2.py3-none-any.whl (291 kB)
- Collecting statsmodels
- Downloading statsmodels-0.12.0-cp37-cp37m-manylinux1_x86_64.whl (9.5 MB)
- Requirement already satisfied, skipping upgrade: ipython in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (7.18.1)
- Requirement already satisfied, skipping upgrade: setuptools in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (49.6.0.post20200814)
- Collecting pyyaml>=5.1
- Using cached PyYAML-5.3.1.tar.gz (269 kB)
- Collecting intel-openmp
- Using cached intel_openmp-2020.0.133-py2.py3-none-manylinux1_x86_64.whl (919 kB)
- Collecting opencv-python~=3.4
- Downloading opencv_python-3.4.11.43-cp37-cp37m-manylinux2014_x86_64.whl (49.1 MB)
- Requirement already satisfied, skipping upgrade: python-dateutil in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (2.8.1)
- Processing /home/mona/.cache/pip/wheels/db/37/b8/b3785332f8246f1306c2863553860ca65e1824fc4c8251c7f1/moviepy-1.0.1-py3-none-any.whl
- Collecting patsy
- Using cached patsy-0.5.1-py2.py3-none-any.whl (231 kB)
- Processing /home/mona/.cache/pip/wheels/88/96/68/c2be18e7406804be2e593e1c37845f2dd20ac2ce1381ce40b0/easydict-1.9-py3-none-any.whl
- Collecting pandas>=1.0.
- Using cached pandas-1.1.2-cp37-cp37m-manylinux1_x86_64.whl (10.5 MB)
- Requirement already satisfied, skipping upgrade: wheel in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (0.35.1)
- Collecting click
- Using cached click-7.1.2-py2.py3-none-any.whl (82 kB)
- Collecting imgaug
- Using cached imgaug-0.4.0-py2.py3-none-any.whl (948 kB)
- Collecting chardet
- Using cached chardet-3.0.4-py2.py3-none-any.whl (133 kB)
- Requirement already satisfied, skipping upgrade: scipy in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (1.5.2)
- Requirement already satisfied, skipping upgrade: h5py~=2.7 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (2.10.0)
- Collecting requests
- Using cached requests-2.24.0-py2.py3-none-any.whl (61 kB)
- Collecting kiwisolver>=1.0.1
- Downloading kiwisolver-1.2.0-cp37-cp37m-manylinux1_x86_64.whl (88 kB)
- Requirement already satisfied, skipping upgrade: pyparsing!=2.0.4,!=2.1.2,!=2.1.6,>=2.0.1 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from matplotlib==3.0.3->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (2.4.7)
- Collecting cycler>=0.10
- Using cached cycler-0.10.0-py2.py3-none-any.whl (6.5 kB)
- Collecting pillow!=7.1.0,!=7.1.1,>=4.3.0
- Using cached Pillow-7.2.0-cp37-cp37m-manylinux1_x86_64.whl (2.2 MB)
- Collecting imageio>=2.3.0
- Using cached imageio-2.9.0-py3-none-any.whl (3.3 MB)
- Collecting tifffile>=2019.7.26
- Using cached tifffile-2020.9.22-py3-none-any.whl (153 kB)
- Collecting networkx>=2.0
- Using cached networkx-2.5-py3-none-any.whl (1.6 MB)
- Collecting PyWavelets>=1.1.1
- Downloading PyWavelets-1.1.1-cp37-cp37m-manylinux1_x86_64.whl (4.4 MB)
- Collecting threadpoolctl>=2.0.0
- Using cached threadpoolctl-2.1.0-py3-none-any.whl (12 kB)
- Collecting joblib>=0.11
- Using cached joblib-0.16.0-py3-none-any.whl (300 kB)
- Collecting ruamel.yaml.clib>=0.1.2; platform_python_implementation == "CPython" and python_version < "3.9"
- Using cached ruamel.yaml.clib-0.2.2-cp37-cp37m-manylinux1_x86_64.whl (547 kB)
- Collecting numexpr>=2.6.2
- Using cached numexpr-2.7.1-cp37-cp37m-manylinux1_x86_64.whl (162 kB)
- Collecting psutil>=5
- Using cached psutil-5.7.2.tar.gz (460 kB)
- Collecting msgpack>=0.5.2
- Downloading msgpack-1.0.0-cp37-cp37m-manylinux1_x86_64.whl (275 kB)
- Collecting msgpack-numpy>=0.4.4.2
- Using cached msgpack_numpy-0.4.7-py2.py3-none-any.whl (6.4 kB)
- Collecting tabulate>=0.7.7
- Using cached tabulate-0.8.7-py3-none-any.whl (24 kB)
- Requirement already satisfied, skipping upgrade: termcolor>=1.1 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from tensorpack>=0.9.7.1->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (1.1.0)
- Requirement already satisfied, skipping upgrade: pyzmq>=16 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from tensorpack>=0.9.7.1->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (19.0.2)
- Requirement already satisfied, skipping upgrade: traitlets>=4.2 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (4.3.3)
- Requirement already satisfied, skipping upgrade: pygments in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (2.7.1)
- Requirement already satisfied, skipping upgrade: prompt-toolkit!=3.0.0,!=3.0.1,<3.1.0,>=2.0.0 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (3.0.7)
- Requirement already satisfied, skipping upgrade: pexpect>4.3; sys_platform != "win32" in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (4.8.0)
- Requirement already satisfied, skipping upgrade: decorator in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (4.4.2)
- Requirement already satisfied, skipping upgrade: jedi>=0.10 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (0.17.2)
- Requirement already satisfied, skipping upgrade: pickleshare in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (0.7.5)
- Requirement already satisfied, skipping upgrade: backcall in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (0.2.0)
- Processing /home/mona/.cache/pip/wheels/12/36/1f/dc61e6ac10781d63cf6fa045eb09fa613a667384e12cb6e6e0/proglog-0.1.9-py3-none-any.whl
- Collecting imageio-ffmpeg>=0.2.0; python_version >= "3.4"
- Using cached imageio_ffmpeg-0.4.2-py3-none-manylinux2010_x86_64.whl (26.9 MB)
- Collecting pytz>=2017.2
- Using cached pytz-2020.1-py2.py3-none-any.whl (510 kB)
- Requirement already satisfied, skipping upgrade: Shapely in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from imgaug->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (1.7.1)
- Collecting urllib3!=1.25.0,!=1.25.1,<1.26,>=1.21.1
- Using cached urllib3-1.25.10-py2.py3-none-any.whl (127 kB)
- Collecting idna<3,>=2.5
- Using cached idna-2.10-py2.py3-none-any.whl (58 kB)
- Requirement already satisfied, skipping upgrade: wcwidth in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from prompt-toolkit!=3.0.0,!=3.0.1,<3.1.0,>=2.0.0->ipython->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (0.2.5)
- Requirement already satisfied, skipping upgrade: ptyprocess>=0.5 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from pexpect>4.3; sys_platform != "win32"->ipython->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (0.6.0)
- Requirement already satisfied, skipping upgrade: parso<0.8.0,>=0.7.0 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from jedi>=0.10->ipython->deeplabcut->-r /home/mona/research/condaenv.i4wb4gx_.requirements.txt (line 1)) (0.7.0)
- Building wheels for collected packages: pyyaml, psutil
- Building wheel for pyyaml (setup.py): started
- Building wheel for pyyaml (setup.py): finished with status 'done'
- Created wheel for pyyaml: filename=PyYAML-5.3.1-cp37-cp37m-linux_x86_64.whl size=44619 sha256=bb81132d4bd4786a05057991336e112ed3ff6dde5653560f264e447e3b2f0e9c
- Stored in directory: /home/mona/.cache/pip/wheels/5e/03/1e/e1e954795d6f35dfc7b637fe2277bff021303bd9570ecea653
- Building wheel for psutil (setup.py): started
- Building wheel for psutil (setup.py): finished with status 'done'
- Created wheel for psutil: filename=psutil-5.7.2-cp37-cp37m-linux_x86_64.whl size=292666 sha256=2b7326dd5f5f648c6f167599c04470dc27949e7d56211052d7231aa9318db886
- Stored in directory: /home/mona/.cache/pip/wheels/2d/43/97/00701864a7bee6d9e1a52dd682537dcbf1d013d0e2e6f0c1f1
- Successfully built pyyaml psutil
- Installing collected packages: kiwisolver, cycler, numpy, matplotlib, pillow, imageio, tifffile, networkx, PyWavelets, scikit-image, threadpoolctl, joblib, scikit-learn, ruamel.yaml.clib, ruamel.yaml, tqdm, numexpr, tables, psutil, msgpack, msgpack-numpy, tabulate, tensorpack, pytz, pandas, patsy, statsmodels, pyyaml, intel-openmp, opencv-python, proglog, chardet, urllib3, idna, requests, imageio-ffmpeg, moviepy, easydict, click, imgaug, deeplabcut
- Attempting uninstall: numpy
- Found existing installation: numpy 1.19.1
- Uninstalling numpy-1.19.1:
- Successfully uninstalled numpy-1.19.1
- Successfully installed PyWavelets-1.1.1 chardet-3.0.4 click-7.1.2 cycler-0.10.0 deeplabcut-2.1.8.2 easydict-1.9 idna-2.10 imageio-2.9.0 imageio-ffmpeg-0.4.2 imgaug-0.4.0 intel-openmp-2020.0.133 joblib-0.16.0 kiwisolver-1.2.0 matplotlib-3.0.3 moviepy-1.0.1 msgpack-1.0.0 msgpack-numpy-0.4.7 networkx-2.5 numexpr-2.7.1 numpy-1.16.4 opencv-python-3.4.11.43 pandas-1.1.2 patsy-0.5.1 pillow-7.2.0 proglog-0.1.9 psutil-5.7.2 pytz-2020.1 pyyaml-5.3.1 requests-2.24.0 ruamel.yaml-0.16.12 ruamel.yaml.clib-0.2.2 scikit-image-0.17.2 scikit-learn-0.23.2 statsmodels-0.12.0 tables-3.6.1 tabulate-0.8.7 tensorpack-0.10.1 threadpoolctl-2.1.0 tifffile-2020.9.22 tqdm-4.49.0 urllib3-1.25.10
- done
- #
- # To activate this environment, use
- #
- # $ conda activate dlc
- #
- # To deactivate an active environment, use
- #
- # $ conda deactivate
- (base) mona@mona:~/research$ conda activate dlc
- (dlc) mona@mona:~/research$ pip install deeplabcut==2.2b8
- Collecting deeplabcut==2.2b8
- Using cached deeplabcut-2.2b8-py3-none-any.whl (663 kB)
- Requirement already satisfied: tables in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (3.6.1)
- Collecting opencv-python-headless
- Using cached opencv_python_headless-4.4.0.44-cp37-cp37m-manylinux2014_x86_64.whl (36.7 MB)
- Requirement already satisfied: python-dateutil in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (2.8.1)
- Requirement already satisfied: numpy==1.16.4 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (1.16.4)
- Requirement already satisfied: moviepy<=1.0.1 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (1.0.1)
- Requirement already satisfied: scikit-image in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (0.17.2)
- Requirement already satisfied: pyyaml in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (5.3.1)
- Requirement already satisfied: statsmodels>=0.11 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (0.12.0)
- Requirement already satisfied: scipy>=1.4 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (1.5.2)
- Collecting matplotlib==3.1.3
- Using cached matplotlib-3.1.3-cp37-cp37m-manylinux1_x86_64.whl (13.1 MB)
- Processing /home/mona/.cache/pip/wheels/ce/e0/ee/a2b3c5caab3418c1ccd8c4de573d4cbe13315d7e8b0a55fbc2/filterpy-1.4.5-py3-none-any.whl
- Collecting tensorpack==0.9.8
- Using cached tensorpack-0.9.8-py2.py3-none-any.whl (288 kB)
- Requirement already satisfied: scikit-learn in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (0.23.2)
- Requirement already satisfied: ruamel.yaml>=0.15.0 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (0.16.12)
- Requirement already satisfied: certifi in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (2020.6.20)
- Requirement already satisfied: pandas>=1.0.1 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (1.1.2)
- Requirement already satisfied: chardet in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (3.0.4)
- Requirement already satisfied: intel-openmp in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (2020.0.133)
- Requirement already satisfied: patsy in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (0.5.1)
- Requirement already satisfied: requests in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (2.24.0)
- Requirement already satisfied: setuptools in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (49.6.0.post20200814)
- Processing /home/mona/.cache/pip/wheels/fd/9b/71/f127d694e02eb40bcf18c7ae9613b88a6be4470f57a8528c5b/bayesian_optimization-1.2.0-py3-none-any.whl
- Requirement already satisfied: ipython in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (7.18.1)
- Requirement already satisfied: h5py in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (2.10.0)
- Requirement already satisfied: six in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (1.15.0)
- Requirement already satisfied: easydict in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (1.9)
- Requirement already satisfied: ipython-genutils in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (0.2.0)
- Requirement already satisfied: imgaug in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (0.4.0)
- Requirement already satisfied: tqdm in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (4.49.0)
- Requirement already satisfied: wheel in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (0.35.1)
- Collecting cython
- Downloading Cython-0.29.21-cp37-cp37m-manylinux1_x86_64.whl (2.0 MB)
- |████████████████████████████████| 2.0 MB 20 kB/s
- Collecting numba==0.51.1
- Using cached numba-0.51.1-cp37-cp37m-manylinux2014_x86_64.whl (3.1 MB)
- Requirement already satisfied: click in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from deeplabcut==2.2b8) (7.1.2)
- Requirement already satisfied: numexpr>=2.6.2 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from tables->deeplabcut==2.2b8) (2.7.1)
- Requirement already satisfied: imageio-ffmpeg>=0.2.0; python_version >= "3.4" in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from moviepy<=1.0.1->deeplabcut==2.2b8) (0.4.2)
- Requirement already satisfied: proglog<=1.0.0 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from moviepy<=1.0.1->deeplabcut==2.2b8) (0.1.9)
- Requirement already satisfied: decorator<5.0,>=4.0.2 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from moviepy<=1.0.1->deeplabcut==2.2b8) (4.4.2)
- Requirement already satisfied: imageio<3.0,>=2.5; python_version >= "3.4" in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from moviepy<=1.0.1->deeplabcut==2.2b8) (2.9.0)
- Requirement already satisfied: networkx>=2.0 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from scikit-image->deeplabcut==2.2b8) (2.5)
- Requirement already satisfied: pillow!=7.1.0,!=7.1.1,>=4.3.0 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from scikit-image->deeplabcut==2.2b8) (7.2.0)
- Requirement already satisfied: tifffile>=2019.7.26 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from scikit-image->deeplabcut==2.2b8) (2020.9.22)
- Requirement already satisfied: PyWavelets>=1.1.1 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from scikit-image->deeplabcut==2.2b8) (1.1.1)
- Requirement already satisfied: pyparsing!=2.0.4,!=2.1.2,!=2.1.6,>=2.0.1 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from matplotlib==3.1.3->deeplabcut==2.2b8) (2.4.7)
- Requirement already satisfied: kiwisolver>=1.0.1 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from matplotlib==3.1.3->deeplabcut==2.2b8) (1.2.0)
- Requirement already satisfied: cycler>=0.10 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from matplotlib==3.1.3->deeplabcut==2.2b8) (0.10.0)
- Requirement already satisfied: termcolor>=1.1 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from tensorpack==0.9.8->deeplabcut==2.2b8) (1.1.0)
- Requirement already satisfied: msgpack-numpy>=0.4.4.2 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from tensorpack==0.9.8->deeplabcut==2.2b8) (0.4.7)
- Requirement already satisfied: pyzmq>=16 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from tensorpack==0.9.8->deeplabcut==2.2b8) (19.0.2)
- Requirement already satisfied: psutil>=5 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from tensorpack==0.9.8->deeplabcut==2.2b8) (5.7.2)
- Requirement already satisfied: tabulate>=0.7.7 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from tensorpack==0.9.8->deeplabcut==2.2b8) (0.8.7)
- Requirement already satisfied: msgpack>=0.5.2 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from tensorpack==0.9.8->deeplabcut==2.2b8) (1.0.0)
- Requirement already satisfied: joblib>=0.11 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from scikit-learn->deeplabcut==2.2b8) (0.16.0)
- Requirement already satisfied: threadpoolctl>=2.0.0 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from scikit-learn->deeplabcut==2.2b8) (2.1.0)
- Requirement already satisfied: ruamel.yaml.clib>=0.1.2; platform_python_implementation == "CPython" and python_version < "3.9" in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ruamel.yaml>=0.15.0->deeplabcut==2.2b8) (0.2.2)
- Requirement already satisfied: pytz>=2017.2 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from pandas>=1.0.1->deeplabcut==2.2b8) (2020.1)
- Requirement already satisfied: idna<3,>=2.5 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from requests->deeplabcut==2.2b8) (2.10)
- Requirement already satisfied: urllib3!=1.25.0,!=1.25.1,<1.26,>=1.21.1 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from requests->deeplabcut==2.2b8) (1.25.10)
- Requirement already satisfied: backcall in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut==2.2b8) (0.2.0)
- Requirement already satisfied: traitlets>=4.2 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut==2.2b8) (4.3.3)
- Requirement already satisfied: pickleshare in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut==2.2b8) (0.7.5)
- Requirement already satisfied: prompt-toolkit!=3.0.0,!=3.0.1,<3.1.0,>=2.0.0 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut==2.2b8) (3.0.7)
- Requirement already satisfied: pexpect>4.3; sys_platform != "win32" in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut==2.2b8) (4.8.0)
- Requirement already satisfied: jedi>=0.10 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut==2.2b8) (0.17.2)
- Requirement already satisfied: pygments in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from ipython->deeplabcut==2.2b8) (2.7.1)
- Requirement already satisfied: Shapely in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from imgaug->deeplabcut==2.2b8) (1.7.1)
- Requirement already satisfied: opencv-python in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from imgaug->deeplabcut==2.2b8) (3.4.11.43)
- Collecting llvmlite<0.35,>=0.34.0.dev0
- Using cached llvmlite-0.34.0-cp37-cp37m-manylinux2010_x86_64.whl (24.6 MB)
- Requirement already satisfied: wcwidth in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from prompt-toolkit!=3.0.0,!=3.0.1,<3.1.0,>=2.0.0->ipython->deeplabcut==2.2b8) (0.2.5)
- Requirement already satisfied: ptyprocess>=0.5 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from pexpect>4.3; sys_platform != "win32"->ipython->deeplabcut==2.2b8) (0.6.0)
- Requirement already satisfied: parso<0.8.0,>=0.7.0 in /home/mona/anaconda3/envs/dlc/lib/python3.7/site-packages (from jedi>=0.10->ipython->deeplabcut==2.2b8) (0.7.0)
- Installing collected packages: opencv-python-headless, matplotlib, filterpy, tensorpack, bayesian-optimization, cython, llvmlite, numba, deeplabcut
- Attempting uninstall: matplotlib
- Found existing installation: matplotlib 3.0.3
- Uninstalling matplotlib-3.0.3:
- Successfully uninstalled matplotlib-3.0.3
- Attempting uninstall: tensorpack
- Found existing installation: tensorpack 0.10.1
- Uninstalling tensorpack-0.10.1:
- Successfully uninstalled tensorpack-0.10.1
- Attempting uninstall: deeplabcut
- Found existing installation: deeplabcut 2.1.8.2
- Uninstalling deeplabcut-2.1.8.2:
- Successfully uninstalled deeplabcut-2.1.8.2
- Successfully installed bayesian-optimization-1.2.0 cython-0.29.21 deeplabcut-2.2b8 filterpy-1.4.5 llvmlite-0.34.0 matplotlib-3.1.3 numba-0.51.1 opencv-python-headless-4.4.0.44 tensorpack-0.9.8
- (dlc) mona@mona:~/research$ ipython
- Python 3.7.9 (default, Aug 31 2020, 12:42:55)
- Type 'copyright', 'credits' or 'license' for more information
- IPython 7.18.1 -- An enhanced Interactive Python. Type '?' for help.
- In [1]: import deeplabcut as dlc
- ---------------------------------------------------------------------------
- CalledProcessError Traceback (most recent call last)
- <ipython-input-1-7dc21562c90f> in <module>
- ----> 1 import deeplabcut as dlc
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/deeplabcut/__init__.py in <module>
- 36 else: # standard use [wxpython supported]
- 37 mpl.use("WxAgg")
- ---> 38 from deeplabcut import generate_training_dataset
- 39 from deeplabcut import refine_training_dataset
- 40 from deeplabcut.generate_training_dataset import (
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/deeplabcut/generate_training_dataset/__init__.py in <module>
- 16 else:
- 17 from deeplabcut.generate_training_dataset.auxfun_drag_label import *
- ---> 18 from deeplabcut.generate_training_dataset.labeling_toolbox import *
- 19 from deeplabcut.generate_training_dataset.multiple_individuals_labeling_toolbox import *
- 20 from deeplabcut.generate_training_dataset.frame_extraction_toolbox import *
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/deeplabcut/generate_training_dataset/labeling_toolbox.py in <module>
- 31
- 32 from deeplabcut.generate_training_dataset import auxfun_drag_label
- ---> 33 from deeplabcut.utils import auxiliaryfunctions
- 34
- 35 # ###########################################################################
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/deeplabcut/utils/__init__.py in <module>
- 4 from deeplabcut.utils.conversioncode import *
- 5 from deeplabcut.utils.frameselectiontools import *
- ----> 6 from deeplabcut.utils.make_labeled_video import *
- 7 from deeplabcut.utils.plotting import *
- 8 from deeplabcut.utils.video_processor import *
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/deeplabcut/utils/make_labeled_video.py in <module>
- 26 import matplotlib.pyplot as plt
- 27 import numpy as np
- ---> 28 from matplotlib.animation import FFMpegWriter
- 29 from matplotlib.collections import LineCollection
- 30 from skimage.draw import circle, line_aa
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/matplotlib/animation.py in <module>
- 735 # Combine ImageMagick options with pipe-based writing
- 736 @writers.register('imagemagick')
- --> 737 class ImageMagickWriter(ImageMagickBase, MovieWriter):
- 738 '''Pipe-based animated gif.
- 739
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/matplotlib/animation.py in wrapper(writerClass)
- 118 def wrapper(writerClass):
- 119 self._registered[name] = writerClass
- --> 120 if writerClass.isAvailable():
- 121 self.avail[name] = writerClass
- 122 return writerClass
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/matplotlib/animation.py in isAvailable(cls)
- 728 def isAvailable(cls):
- 729 try:
- --> 730 return super().isAvailable()
- 731 except FileNotFoundError: # May be raised by get_executable_info.
- 732 return False
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/matplotlib/animation.py in isAvailable(cls)
- 425 Check to see if a MovieWriter subclass is actually available.
- 426 '''
- --> 427 return shutil.which(cls.bin_path()) is not None
- 428
- 429
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/matplotlib/animation.py in bin_path(cls)
- 722 binpath = super().bin_path()
- 723 if binpath == 'convert':
- --> 724 binpath = mpl._get_executable_info('magick').executable
- 725 return binpath
- 726
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/matplotlib/__init__.py in _get_executable_info(name)
- 383 raise FileNotFoundError(
- 384 "Failed to find an ImageMagick installation")
- --> 385 return impl([path, "--version"], r"^Version: ImageMagick (\S*)")
- 386 elif name == "pdftops":
- 387 info = impl(["pdftops", "-v"], "^pdftops version (.*)",
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/matplotlib/__init__.py in impl(args, regex, min_ver, ignore_exit_code)
- 328 output = _cpe.output
- 329 else:
- --> 330 raise _cpe
- 331 match = re.search(regex, output)
- 332 if match:
- ~/anaconda3/envs/dlc/lib/python3.7/site-packages/matplotlib/__init__.py in impl(args, regex, min_ver, ignore_exit_code)
- 323 output = subprocess.check_output(
- 324 args, stderr=subprocess.STDOUT,
- --> 325 universal_newlines=True, errors="replace")
- 326 except subprocess.CalledProcessError as _cpe:
- 327 if ignore_exit_code:
- ~/anaconda3/envs/dlc/lib/python3.7/subprocess.py in check_output(timeout, *popenargs, **kwargs)
- 409
- 410 return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
- --> 411 **kwargs).stdout
- 412
- 413
- ~/anaconda3/envs/dlc/lib/python3.7/subprocess.py in run(input, capture_output, timeout, check, *popenargs, **kwargs)
- 510 if check and retcode:
- 511 raise CalledProcessError(retcode, process.args,
- --> 512 output=stdout, stderr=stderr)
- 513 return CompletedProcess(process.args, retcode, stdout, stderr)
- 514
- CalledProcessError: Command '['convert', '--version']' returned non-zero exit status 1.
- In [2]:
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