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pinellolab / STREAM

STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data
http://stream.pinellolab.org
GNU Affero General Public License v3.0
173 stars 48 forks source link

Issue with installation #87

Open hemadelon opened 4 years ago

hemadelon commented 4 years ago

Hi there,

I'm using Miniconda3 with Python 3.8.3 on win32, I'm relatively new to Python though as I've always worked in R.

When I try to install STREAM as suggested: conda install -c bioconda stream

I get the following error: `Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: / Found conflicts! Looking for incompatible packages. This can take several minutes. Press CTRL-C to abort. failed

UnsatisfiableError: The following specifications were found to be incompatible with each other:

Output in format: Requested package -> Available versions`

Can anyone help me out?

lucapinello commented 4 years ago

Unfortunately stream in not currently supported on windows though Anaconda. But you could consider using the docker version.

On Mon, 24 Aug 2020, 7:26 am hemadelon, notifications@github.com wrote:

Hi there,

I'm using Miniconda3 with Python 3.8.3 on win32, I'm relatively new to Python though as I've always worked in R.

When I try to install STREAM as suggested: conda install -c bioconda stream

I get the following error: `Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: / Found conflicts! Looking for incompatible packages. This can take several minutes. Press CTRL-C to abort. failed

UnsatisfiableError: The following specifications were found to be incompatible with each other:

Output in format: Requested package -> Available versions`

Can anyone help me out?

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/pinellolab/STREAM/issues/87, or unsubscribe https://github.com/notifications/unsubscribe-auth/AAIH72WPP65OATC6GLIDV2TSCJE55ANCNFSM4QJMSWPA .

cstill1992 commented 4 years ago

Hi, I'm actually running into the same issue using python 3.8.3 with anaconda3 on my mac (Catalina). Is there issues with newer MacOS and downloading stream? I've had no issue on my older mac (High Sierra).

cstill1992 commented 4 years ago

Was able to fix my issue, it was an issue with conda version. Created a conda environment with python 3.7 so I could downgrade to conda 4.6.14. Then I could install stream using your bioconda recommended manner.

huidongchen commented 4 years ago

Was able to fix my issue, it was an issue with conda version. Created a conda environment with python 3.7 so I could downgrade to conda 4.6.14. Then I could install stream using your bioconda recommended manner.

Thanks for the feedback! We will try to fix it in the next release.

wong-ziyi commented 3 years ago

I have the same problem. When running the command as: conda create -n stream python jupyter conda activate stream conda install -c bioconda stream I got the following error:

Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: | Found conflicts! Looking for incompatible packages. This can take several minutes. Press CTRL-C to abort. failed

UnsatisfiableError: The following specifications were found to be incompatible with each other:

Output in format: Requested package -> Available versionsThe following specifications were found to be incompatible with your system:

Your installed version is: 2.31

Can anyone help me to solve this conflict? conda info active environment : stream active env location : /home/wzy/miniconda3/envs/stream shell level : 2 user config file : /home/wzy/.condarc populated config files : /home/wzy/.condarc conda version : 4.10.3 conda-build version : not installed python version : 3.8.5.final.0 virtual packages : cuda=11.4=0 linux=5.11.0=0 glibc=2.31=0 unix=0=0 __archspec=1=x86_64 base environment : /home/wzy/miniconda3 (writable) conda av data dir : /home/wzy/miniconda3/etc/conda conda av metadata url : None channel URLs : https://conda.anaconda.org/bioconda/linux-64 https://conda.anaconda.org/bioconda/noarch https://conda.anaconda.org/conda-forge/linux-64 https://conda.anaconda.org/conda-forge/noarch https://repo.anaconda.com/pkgs/main/linux-64 https://repo.anaconda.com/pkgs/main/noarch https://repo.anaconda.com/pkgs/r/linux-64 https://repo.anaconda.com/pkgs/r/noarch package cache : /home/wzy/miniconda3/pkgs /home/wzy/.conda/pkgs envs directories : /home/wzy/miniconda3/envs /home/wzy/.conda/envs platform : linux-64 user-agent : conda/4.10.3 requests/2.26.0 CPython/3.8.5 Linux/5.11.0-27-generic ubuntu/20.04.3 glibc/2.31 UID:GID : 1000:1000 netrc file : None offline mode : False

conda list# packages in environment at /home/wzy/miniconda3/envs/stream: # # Name Version Build Channel _libgcc_mutex 0.1 conda_forge conda-forge _openmp_mutex 4.5 1_gnu conda-forge alsa-lib 1.2.3 h516909a_0 conda-forge argon2-cffi 20.1.0 py39h3811e60_2 conda-forge async_generator 1.10 py_0 conda-forge attrs 21.2.0 pyhd8ed1ab_0 conda-forge backcall 0.2.0 pyh9f0ad1d_0 conda-forge backports 1.0 py_2 conda-forge backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge bleach 4.1.0 pyhd8ed1ab_0 conda-forge ca-certificates 2021.5.30 ha878542_0 conda-forge cffi 1.14.6 py39he32792d_0 conda-forge dbus 1.13.6 h48d8840_2 conda-forge debugpy 1.4.1 py39he80948d_0 conda-forge decorator 5.0.9 pyhd8ed1ab_0 conda-forge defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge entrypoints 0.3 pyhd8ed1ab_1003 conda-forge expat 2.4.1 h9c3ff4c_0 conda-forge fontconfig 2.13.1 hba837de_1005 conda-forge freetype 2.10.4 h0708190_1 conda-forge gettext 0.19.8.1 h0b5b191_1005 conda-forge glib 2.68.4 h9c3ff4c_0 conda-forge glib-tools 2.68.4 h9c3ff4c_0 conda-forge gst-plugins-base 1.18.4 hf529b03_2 conda-forge gstreamer 1.18.4 h76c114f_2 conda-forge icu 68.1 h58526e2_0 conda-forge importlib-metadata 4.8.1 py39hf3d152e_0 conda-forge ipykernel 6.3.1 py39hef51801_0 conda-forge ipython 7.27.0 py39hef51801_0 conda-forge ipython_genutils 0.2.0 py_1 conda-forge ipywidgets 7.6.3 pyhd3deb0d_0 conda-forge jedi 0.18.0 py39hf3d152e_2 conda-forge jinja2 3.0.1 pyhd8ed1ab_0 conda-forge jpeg 9d h36c2ea0_0 conda-forge jsonschema 3.2.0 pyhd8ed1ab_3 conda-forge jupyter 1.0.0 py39hf3d152e_6 conda-forge jupyter_client 7.0.2 pyhd8ed1ab_0 conda-forge jupyter_console 6.4.0 pyhd8ed1ab_0 conda-forge jupyter_core 4.7.1 py39hf3d152e_0 conda-forge jupyterlab_pygments 0.1.2 pyh9f0ad1d_0 conda-forge jupyterlab_widgets 1.0.0 pyhd8ed1ab_1 conda-forge krb5 1.19.2 hcc1bbae_0 conda-forge ld_impl_linux-64 2.36.1 hea4e1c9_2 conda-forge libclang 11.1.0 default_ha53f305_1 conda-forge libedit 3.1.20191231 he28a2e2_2 conda-forge libevent 2.1.10 hcdb4288_3 conda-forge libffi 3.3 h58526e2_2 conda-forge libgcc-ng 11.1.0 hc902ee8_8 conda-forge libglib 2.68.4 h3e27bee_0 conda-forge libgomp 11.1.0 hc902ee8_8 conda-forge libiconv 1.16 h516909a_0 conda-forge libllvm11 11.1.0 hf817b99_2 conda-forge libogg 1.3.4 h7f98852_1 conda-forge libopus 1.3.1 h7f98852_1 conda-forge libpng 1.6.37 h21135ba_2 conda-forge libpq 13.3 hd57d9b9_0 conda-forge libsodium 1.0.18 h36c2ea0_1 conda-forge libstdcxx-ng 11.1.0 h56837e0_8 conda-forge libuuid 2.32.1 h7f98852_1000 conda-forge libvorbis 1.3.7 h9c3ff4c_0 conda-forge libxcb 1.13 h7f98852_1003 conda-forge libxkbcommon 1.0.3 he3ba5ed_0 conda-forge libxml2 2.9.12 h72842e0_0 conda-forge lz4-c 1.9.3 h9c3ff4c_1 conda-forge markupsafe 2.0.1 py39h3811e60_0 conda-forge matplotlib-inline 0.1.2 pyhd8ed1ab_2 conda-forge mistune 0.8.4 py39h3811e60_1004 conda-forge mysql-common 8.0.25 ha770c72_2 conda-forge mysql-libs 8.0.25 hfa10184_2 conda-forge nbclient 0.5.4 pyhd8ed1ab_0 conda-forge nbconvert 6.1.0 py39hf3d152e_0 conda-forge nbformat 5.1.3 pyhd8ed1ab_0 conda-forge ncurses 6.2 h58526e2_4 conda-forge nest-asyncio 1.5.1 pyhd8ed1ab_0 conda-forge notebook 6.4.3 pyha770c72_0 conda-forge nspr 4.30 h9c3ff4c_0 conda-forge nss 3.69 hb5efdd6_0 conda-forge openssl 1.1.1k h7f98852_1 conda-forge packaging 21.0 pyhd8ed1ab_0 conda-forge pandoc 2.14.2 h7f98852_0 conda-forge pandocfilters 1.4.2 py_1 conda-forge parso 0.8.2 pyhd8ed1ab_0 conda-forge pcre 8.45 h9c3ff4c_0 conda-forge pexpect 4.8.0 pyh9f0ad1d_2 conda-forge pickleshare 0.7.5 py_1003 conda-forge pip 21.2.4 pyhd8ed1ab_0 conda-forge prometheus_client 0.11.0 pyhd8ed1ab_0 conda-forge prompt-toolkit 3.0.20 pyha770c72_0 conda-forge prompt_toolkit 3.0.20 hd8ed1ab_0 conda-forge pthread-stubs 0.4 h36c2ea0_1001 conda-forge ptyprocess 0.7.0 pyhd3deb0d_0 conda-forge pycparser 2.20 pyh9f0ad1d_2 conda-forge pygments 2.10.0 pyhd8ed1ab_0 conda-forge pyparsing 2.4.7 pyh9f0ad1d_0 conda-forge pyqt 5.12.3 py39hf3d152e_7 conda-forge pyqt-impl 5.12.3 py39h0fcd23e_7 conda-forge pyqt5-sip 4.19.18 py39he80948d_7 conda-forge pyqtchart 5.12 py39h0fcd23e_7 conda-forge pyqtwebengine 5.12.1 py39h0fcd23e_7 conda-forge pyrsistent 0.17.3 py39h3811e60_2 conda-forge python 3.9.6 h49503c6_1_cpython conda-forge python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge python_abi 3.9 2_cp39 conda-forge pyzmq 22.2.1 py39h37b5a0c_0 conda-forge qt 5.12.9 hda022c4_4 conda-forge qtconsole 5.1.1 pyhd8ed1ab_0 conda-forge qtpy 1.10.0 pyhd8ed1ab_0 conda-forge readline 8.1 h46c0cb4_0 conda-forge send2trash 1.8.0 pyhd8ed1ab_0 conda-forge setuptools 57.4.0 py39hf3d152e_0 conda-forge six 1.16.0 pyh6c4a22f_0 conda-forge sqlite 3.36.0 h9cd32fc_0 conda-forge terminado 0.11.1 py39hf3d152e_0 conda-forge testpath 0.5.0 pyhd8ed1ab_0 conda-forge tk 8.6.11 h21135ba_0 conda-forge tornado 6.1 py39h3811e60_1 conda-forge traitlets 5.1.0 pyhd8ed1ab_0 conda-forge tzdata 2021a he74cb21_1 conda-forge wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge webencodings 0.5.1 py_1 conda-forge wheel 0.37.0 pyhd8ed1ab_1 conda-forge widgetsnbextension 3.5.1 py39hf3d152e_4 conda-forge xorg-libxau 1.0.9 h7f98852_0 conda-forge xorg-libxdmcp 1.1.3 h7f98852_0 conda-forge xz 5.2.5 h516909a_1 conda-forge zeromq 4.3.4 h9c3ff4c_1 conda-forge zipp 3.5.0 pyhd8ed1ab_0 conda-forge zlib 1.2.11 h516909a_1010 conda-forge zstd 1.5.0 ha95c52a_0 conda-forge

Thanks so much.

qrzhang commented 3 years ago

Thanks for sharing the feedback @wong-ziyi

Currently, STREAM can only work with python version 3.7 instead of 3.8.5 shown in your version information. How about trying the following codes to create a new conda environment with STREAM?

conda create -n stream python=3.7 stream=1.0 jupyter ipykernel
conda activate stream

Thanks and hope it works

Q

tianchen2019 commented 2 years ago

I have the same problem. When running the command as: conda create -n stream python jupyter conda activate stream conda install -c bioconda stream I got the following error:

Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: | Found conflicts! Looking for incompatible packages. This can take several minutes. Press CTRL-C to abort. failed

UnsatisfiableError: The following specifications were found to be incompatible with each other:

Output in format: Requested package -> Available versionsThe following specifications were found to be incompatible with your system:

  • feature:/linux-64::__glibc==2.31=0
  • feature:|@/linux-64::__glibc==2.31=0
  • stream -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']

Your installed version is: 2.31

Can anyone help me to solve this conflict? conda info active environment : stream active env location : /home/wzy/miniconda3/envs/stream shell level : 2 user config file : /home/wzy/.condarc populated config files : /home/wzy/.condarc conda version : 4.10.3 conda-build version : not installed python version : 3.8.5.final.0 virtual packages : cuda=11.4=0 linux=5.11.0=0 glibc=2.31=0 unix=0=0 __archspec=1=x86_64 base environment : /home/wzy/miniconda3 (writable) conda av data dir : /home/wzy/miniconda3/etc/conda conda av metadata url : None channel URLs : https://conda.anaconda.org/bioconda/linux-64 https://conda.anaconda.org/bioconda/noarch https://conda.anaconda.org/conda-forge/linux-64 https://conda.anaconda.org/conda-forge/noarch https://repo.anaconda.com/pkgs/main/linux-64 https://repo.anaconda.com/pkgs/main/noarch https://repo.anaconda.com/pkgs/r/linux-64 https://repo.anaconda.com/pkgs/r/noarch package cache : /home/wzy/miniconda3/pkgs /home/wzy/.conda/pkgs envs directories : /home/wzy/miniconda3/envs /home/wzy/.conda/envs platform : linux-64 user-agent : conda/4.10.3 requests/2.26.0 CPython/3.8.5 Linux/5.11.0-27-generic ubuntu/20.04.3 glibc/2.31 UID:GID : 1000:1000 netrc file : None offline mode : False

conda list# packages in environment at /home/wzy/miniconda3/envs/stream: # # Name Version Build Channel _libgcc_mutex 0.1 conda_forge conda-forge _openmp_mutex 4.5 1_gnu conda-forge alsa-lib 1.2.3 h516909a_0 conda-forge argon2-cffi 20.1.0 py39h3811e60_2 conda-forge async_generator 1.10 py_0 conda-forge attrs 21.2.0 pyhd8ed1ab_0 conda-forge backcall 0.2.0 pyh9f0ad1d_0 conda-forge backports 1.0 py_2 conda-forge backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge bleach 4.1.0 pyhd8ed1ab_0 conda-forge ca-certificates 2021.5.30 ha878542_0 conda-forge cffi 1.14.6 py39he32792d_0 conda-forge dbus 1.13.6 h48d8840_2 conda-forge debugpy 1.4.1 py39he80948d_0 conda-forge decorator 5.0.9 pyhd8ed1ab_0 conda-forge defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge entrypoints 0.3 pyhd8ed1ab_1003 conda-forge expat 2.4.1 h9c3ff4c_0 conda-forge fontconfig 2.13.1 hba837de_1005 conda-forge freetype 2.10.4 h0708190_1 conda-forge gettext 0.19.8.1 h0b5b191_1005 conda-forge glib 2.68.4 h9c3ff4c_0 conda-forge glib-tools 2.68.4 h9c3ff4c_0 conda-forge gst-plugins-base 1.18.4 hf529b03_2 conda-forge gstreamer 1.18.4 h76c114f_2 conda-forge icu 68.1 h58526e2_0 conda-forge importlib-metadata 4.8.1 py39hf3d152e_0 conda-forge ipykernel 6.3.1 py39hef51801_0 conda-forge ipython 7.27.0 py39hef51801_0 conda-forge ipython_genutils 0.2.0 py_1 conda-forge ipywidgets 7.6.3 pyhd3deb0d_0 conda-forge jedi 0.18.0 py39hf3d152e_2 conda-forge jinja2 3.0.1 pyhd8ed1ab_0 conda-forge jpeg 9d h36c2ea0_0 conda-forge jsonschema 3.2.0 pyhd8ed1ab_3 conda-forge jupyter 1.0.0 py39hf3d152e_6 conda-forge jupyter_client 7.0.2 pyhd8ed1ab_0 conda-forge jupyter_console 6.4.0 pyhd8ed1ab_0 conda-forge jupyter_core 4.7.1 py39hf3d152e_0 conda-forge jupyterlab_pygments 0.1.2 pyh9f0ad1d_0 conda-forge jupyterlab_widgets 1.0.0 pyhd8ed1ab_1 conda-forge krb5 1.19.2 hcc1bbae_0 conda-forge ld_impl_linux-64 2.36.1 hea4e1c9_2 conda-forge libclang 11.1.0 default_ha53f305_1 conda-forge libedit 3.1.20191231 he28a2e2_2 conda-forge libevent 2.1.10 hcdb4288_3 conda-forge libffi 3.3 h58526e2_2 conda-forge libgcc-ng 11.1.0 hc902ee8_8 conda-forge libglib 2.68.4 h3e27bee_0 conda-forge libgomp 11.1.0 hc902ee8_8 conda-forge libiconv 1.16 h516909a_0 conda-forge libllvm11 11.1.0 hf817b99_2 conda-forge libogg 1.3.4 h7f98852_1 conda-forge libopus 1.3.1 h7f98852_1 conda-forge libpng 1.6.37 h21135ba_2 conda-forge libpq 13.3 hd57d9b9_0 conda-forge libsodium 1.0.18 h36c2ea0_1 conda-forge libstdcxx-ng 11.1.0 h56837e0_8 conda-forge libuuid 2.32.1 h7f98852_1000 conda-forge libvorbis 1.3.7 h9c3ff4c_0 conda-forge libxcb 1.13 h7f98852_1003 conda-forge libxkbcommon 1.0.3 he3ba5ed_0 conda-forge libxml2 2.9.12 h72842e0_0 conda-forge lz4-c 1.9.3 h9c3ff4c_1 conda-forge markupsafe 2.0.1 py39h3811e60_0 conda-forge matplotlib-inline 0.1.2 pyhd8ed1ab_2 conda-forge mistune 0.8.4 py39h3811e60_1004 conda-forge mysql-common 8.0.25 ha770c72_2 conda-forge mysql-libs 8.0.25 hfa10184_2 conda-forge nbclient 0.5.4 pyhd8ed1ab_0 conda-forge nbconvert 6.1.0 py39hf3d152e_0 conda-forge nbformat 5.1.3 pyhd8ed1ab_0 conda-forge ncurses 6.2 h58526e2_4 conda-forge nest-asyncio 1.5.1 pyhd8ed1ab_0 conda-forge notebook 6.4.3 pyha770c72_0 conda-forge nspr 4.30 h9c3ff4c_0 conda-forge nss 3.69 hb5efdd6_0 conda-forge openssl 1.1.1k h7f98852_1 conda-forge packaging 21.0 pyhd8ed1ab_0 conda-forge pandoc 2.14.2 h7f98852_0 conda-forge pandocfilters 1.4.2 py_1 conda-forge parso 0.8.2 pyhd8ed1ab_0 conda-forge pcre 8.45 h9c3ff4c_0 conda-forge pexpect 4.8.0 pyh9f0ad1d_2 conda-forge pickleshare 0.7.5 py_1003 conda-forge pip 21.2.4 pyhd8ed1ab_0 conda-forge prometheus_client 0.11.0 pyhd8ed1ab_0 conda-forge prompt-toolkit 3.0.20 pyha770c72_0 conda-forge prompt_toolkit 3.0.20 hd8ed1ab_0 conda-forge pthread-stubs 0.4 h36c2ea0_1001 conda-forge ptyprocess 0.7.0 pyhd3deb0d_0 conda-forge pycparser 2.20 pyh9f0ad1d_2 conda-forge pygments 2.10.0 pyhd8ed1ab_0 conda-forge pyparsing 2.4.7 pyh9f0ad1d_0 conda-forge pyqt 5.12.3 py39hf3d152e_7 conda-forge pyqt-impl 5.12.3 py39h0fcd23e_7 conda-forge pyqt5-sip 4.19.18 py39he80948d_7 conda-forge pyqtchart 5.12 py39h0fcd23e_7 conda-forge pyqtwebengine 5.12.1 py39h0fcd23e_7 conda-forge pyrsistent 0.17.3 py39h3811e60_2 conda-forge python 3.9.6 h49503c6_1_cpython conda-forge python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge python_abi 3.9 2_cp39 conda-forge pyzmq 22.2.1 py39h37b5a0c_0 conda-forge qt 5.12.9 hda022c4_4 conda-forge qtconsole 5.1.1 pyhd8ed1ab_0 conda-forge qtpy 1.10.0 pyhd8ed1ab_0 conda-forge readline 8.1 h46c0cb4_0 conda-forge send2trash 1.8.0 pyhd8ed1ab_0 conda-forge setuptools 57.4.0 py39hf3d152e_0 conda-forge six 1.16.0 pyh6c4a22f_0 conda-forge sqlite 3.36.0 h9cd32fc_0 conda-forge terminado 0.11.1 py39hf3d152e_0 conda-forge testpath 0.5.0 pyhd8ed1ab_0 conda-forge tk 8.6.11 h21135ba_0 conda-forge tornado 6.1 py39h3811e60_1 conda-forge traitlets 5.1.0 pyhd8ed1ab_0 conda-forge tzdata 2021a he74cb21_1 conda-forge wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge webencodings 0.5.1 py_1 conda-forge wheel 0.37.0 pyhd8ed1ab_1 conda-forge widgetsnbextension 3.5.1 py39hf3d152e_4 conda-forge xorg-libxau 1.0.9 h7f98852_0 conda-forge xorg-libxdmcp 1.1.3 h7f98852_0 conda-forge xz 5.2.5 h516909a_1 conda-forge zeromq 4.3.4 h9c3ff4c_1 conda-forge zipp 3.5.0 pyhd8ed1ab_0 conda-forge zlib 1.2.11 h516909a_1010 conda-forge zstd 1.5.0 ha95c52a_0 conda-forge

Thanks so much.

I have the same problem. When running the command as: conda create -n stream python jupyter conda activate stream conda install -c bioconda stream I got the following error:

Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: | Found conflicts! Looking for incompatible packages. This can take several minutes. Press CTRL-C to abort. failed

UnsatisfiableError: The following specifications were found to be incompatible with each other:

Output in format: Requested package -> Available versionsThe following specifications were found to be incompatible with your system:

  • feature:/linux-64::__glibc==2.31=0
  • feature:|@/linux-64::__glibc==2.31=0
  • stream -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']

Your installed version is: 2.31

Can anyone help me to solve this conflict? conda info active environment : stream active env location : /home/wzy/miniconda3/envs/stream shell level : 2 user config file : /home/wzy/.condarc populated config files : /home/wzy/.condarc conda version : 4.10.3 conda-build version : not installed python version : 3.8.5.final.0 virtual packages : cuda=11.4=0 linux=5.11.0=0 glibc=2.31=0 unix=0=0 __archspec=1=x86_64 base environment : /home/wzy/miniconda3 (writable) conda av data dir : /home/wzy/miniconda3/etc/conda conda av metadata url : None channel URLs : https://conda.anaconda.org/bioconda/linux-64 https://conda.anaconda.org/bioconda/noarch https://conda.anaconda.org/conda-forge/linux-64 https://conda.anaconda.org/conda-forge/noarch https://repo.anaconda.com/pkgs/main/linux-64 https://repo.anaconda.com/pkgs/main/noarch https://repo.anaconda.com/pkgs/r/linux-64 https://repo.anaconda.com/pkgs/r/noarch package cache : /home/wzy/miniconda3/pkgs /home/wzy/.conda/pkgs envs directories : /home/wzy/miniconda3/envs /home/wzy/.conda/envs platform : linux-64 user-agent : conda/4.10.3 requests/2.26.0 CPython/3.8.5 Linux/5.11.0-27-generic ubuntu/20.04.3 glibc/2.31 UID:GID : 1000:1000 netrc file : None offline mode : False

conda list# packages in environment at /home/wzy/miniconda3/envs/stream: # # Name Version Build Channel _libgcc_mutex 0.1 conda_forge conda-forge _openmp_mutex 4.5 1_gnu conda-forge alsa-lib 1.2.3 h516909a_0 conda-forge argon2-cffi 20.1.0 py39h3811e60_2 conda-forge async_generator 1.10 py_0 conda-forge attrs 21.2.0 pyhd8ed1ab_0 conda-forge backcall 0.2.0 pyh9f0ad1d_0 conda-forge backports 1.0 py_2 conda-forge backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge bleach 4.1.0 pyhd8ed1ab_0 conda-forge ca-certificates 2021.5.30 ha878542_0 conda-forge cffi 1.14.6 py39he32792d_0 conda-forge dbus 1.13.6 h48d8840_2 conda-forge debugpy 1.4.1 py39he80948d_0 conda-forge decorator 5.0.9 pyhd8ed1ab_0 conda-forge defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge entrypoints 0.3 pyhd8ed1ab_1003 conda-forge expat 2.4.1 h9c3ff4c_0 conda-forge fontconfig 2.13.1 hba837de_1005 conda-forge freetype 2.10.4 h0708190_1 conda-forge gettext 0.19.8.1 h0b5b191_1005 conda-forge glib 2.68.4 h9c3ff4c_0 conda-forge glib-tools 2.68.4 h9c3ff4c_0 conda-forge gst-plugins-base 1.18.4 hf529b03_2 conda-forge gstreamer 1.18.4 h76c114f_2 conda-forge icu 68.1 h58526e2_0 conda-forge importlib-metadata 4.8.1 py39hf3d152e_0 conda-forge ipykernel 6.3.1 py39hef51801_0 conda-forge ipython 7.27.0 py39hef51801_0 conda-forge ipython_genutils 0.2.0 py_1 conda-forge ipywidgets 7.6.3 pyhd3deb0d_0 conda-forge jedi 0.18.0 py39hf3d152e_2 conda-forge jinja2 3.0.1 pyhd8ed1ab_0 conda-forge jpeg 9d h36c2ea0_0 conda-forge jsonschema 3.2.0 pyhd8ed1ab_3 conda-forge jupyter 1.0.0 py39hf3d152e_6 conda-forge jupyter_client 7.0.2 pyhd8ed1ab_0 conda-forge jupyter_console 6.4.0 pyhd8ed1ab_0 conda-forge jupyter_core 4.7.1 py39hf3d152e_0 conda-forge jupyterlab_pygments 0.1.2 pyh9f0ad1d_0 conda-forge jupyterlab_widgets 1.0.0 pyhd8ed1ab_1 conda-forge krb5 1.19.2 hcc1bbae_0 conda-forge ld_impl_linux-64 2.36.1 hea4e1c9_2 conda-forge libclang 11.1.0 default_ha53f305_1 conda-forge libedit 3.1.20191231 he28a2e2_2 conda-forge libevent 2.1.10 hcdb4288_3 conda-forge libffi 3.3 h58526e2_2 conda-forge libgcc-ng 11.1.0 hc902ee8_8 conda-forge libglib 2.68.4 h3e27bee_0 conda-forge libgomp 11.1.0 hc902ee8_8 conda-forge libiconv 1.16 h516909a_0 conda-forge libllvm11 11.1.0 hf817b99_2 conda-forge libogg 1.3.4 h7f98852_1 conda-forge libopus 1.3.1 h7f98852_1 conda-forge libpng 1.6.37 h21135ba_2 conda-forge libpq 13.3 hd57d9b9_0 conda-forge libsodium 1.0.18 h36c2ea0_1 conda-forge libstdcxx-ng 11.1.0 h56837e0_8 conda-forge libuuid 2.32.1 h7f98852_1000 conda-forge libvorbis 1.3.7 h9c3ff4c_0 conda-forge libxcb 1.13 h7f98852_1003 conda-forge libxkbcommon 1.0.3 he3ba5ed_0 conda-forge libxml2 2.9.12 h72842e0_0 conda-forge lz4-c 1.9.3 h9c3ff4c_1 conda-forge markupsafe 2.0.1 py39h3811e60_0 conda-forge matplotlib-inline 0.1.2 pyhd8ed1ab_2 conda-forge mistune 0.8.4 py39h3811e60_1004 conda-forge mysql-common 8.0.25 ha770c72_2 conda-forge mysql-libs 8.0.25 hfa10184_2 conda-forge nbclient 0.5.4 pyhd8ed1ab_0 conda-forge nbconvert 6.1.0 py39hf3d152e_0 conda-forge nbformat 5.1.3 pyhd8ed1ab_0 conda-forge ncurses 6.2 h58526e2_4 conda-forge nest-asyncio 1.5.1 pyhd8ed1ab_0 conda-forge notebook 6.4.3 pyha770c72_0 conda-forge nspr 4.30 h9c3ff4c_0 conda-forge nss 3.69 hb5efdd6_0 conda-forge openssl 1.1.1k h7f98852_1 conda-forge packaging 21.0 pyhd8ed1ab_0 conda-forge pandoc 2.14.2 h7f98852_0 conda-forge pandocfilters 1.4.2 py_1 conda-forge parso 0.8.2 pyhd8ed1ab_0 conda-forge pcre 8.45 h9c3ff4c_0 conda-forge pexpect 4.8.0 pyh9f0ad1d_2 conda-forge pickleshare 0.7.5 py_1003 conda-forge pip 21.2.4 pyhd8ed1ab_0 conda-forge prometheus_client 0.11.0 pyhd8ed1ab_0 conda-forge prompt-toolkit 3.0.20 pyha770c72_0 conda-forge prompt_toolkit 3.0.20 hd8ed1ab_0 conda-forge pthread-stubs 0.4 h36c2ea0_1001 conda-forge ptyprocess 0.7.0 pyhd3deb0d_0 conda-forge pycparser 2.20 pyh9f0ad1d_2 conda-forge pygments 2.10.0 pyhd8ed1ab_0 conda-forge pyparsing 2.4.7 pyh9f0ad1d_0 conda-forge pyqt 5.12.3 py39hf3d152e_7 conda-forge pyqt-impl 5.12.3 py39h0fcd23e_7 conda-forge pyqt5-sip 4.19.18 py39he80948d_7 conda-forge pyqtchart 5.12 py39h0fcd23e_7 conda-forge pyqtwebengine 5.12.1 py39h0fcd23e_7 conda-forge pyrsistent 0.17.3 py39h3811e60_2 conda-forge python 3.9.6 h49503c6_1_cpython conda-forge python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge python_abi 3.9 2_cp39 conda-forge pyzmq 22.2.1 py39h37b5a0c_0 conda-forge qt 5.12.9 hda022c4_4 conda-forge qtconsole 5.1.1 pyhd8ed1ab_0 conda-forge qtpy 1.10.0 pyhd8ed1ab_0 conda-forge readline 8.1 h46c0cb4_0 conda-forge send2trash 1.8.0 pyhd8ed1ab_0 conda-forge setuptools 57.4.0 py39hf3d152e_0 conda-forge six 1.16.0 pyh6c4a22f_0 conda-forge sqlite 3.36.0 h9cd32fc_0 conda-forge terminado 0.11.1 py39hf3d152e_0 conda-forge testpath 0.5.0 pyhd8ed1ab_0 conda-forge tk 8.6.11 h21135ba_0 conda-forge tornado 6.1 py39h3811e60_1 conda-forge traitlets 5.1.0 pyhd8ed1ab_0 conda-forge tzdata 2021a he74cb21_1 conda-forge wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge webencodings 0.5.1 py_1 conda-forge wheel 0.37.0 pyhd8ed1ab_1 conda-forge widgetsnbextension 3.5.1 py39hf3d152e_4 conda-forge xorg-libxau 1.0.9 h7f98852_0 conda-forge xorg-libxdmcp 1.1.3 h7f98852_0 conda-forge xz 5.2.5 h516909a_1 conda-forge zeromq 4.3.4 h9c3ff4c_1 conda-forge zipp 3.5.0 pyhd8ed1ab_0 conda-forge zlib 1.2.11 h516909a_1010 conda-forge zstd 1.5.0 ha95c52a_0 conda-forge

Thanks so much.

Did you solve this problem? i have same error.

lucapinello commented 2 years ago

It seems you don't have the python version flag in your command i.e. python==3.7

Please try with this exact command:

conda create -n stream python==3.7 stream jupyter ipykernel

Thanks,

Luca

On Mon, Feb 28, 2022 at 3:59 AM tianchen2019 @.***> wrote:

I have the same problem. When running the command as: conda create -n stream python jupyter conda activate stream conda install -c bioconda stream I got the following error:

Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: | Found conflicts! Looking for incompatible packages. This can take several minutes. Press CTRL-C to abort. failed

UnsatisfiableError: The following specifications were found to be incompatible with each other:

Output in format: Requested package -> Available versionsThe following specifications were found to be incompatible with your system:

  • feature:/linux-64::__glibc==2.31=0
  • feature:|@/linux-64::__glibc==2.31=0
  • stream -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']

Your installed version is: 2.31

Can anyone help me to solve this conflict? conda info active environment : stream active env location : /home/wzy/miniconda3/envs/stream shell level : 2 user config file : /home/wzy/.condarc populated config files : /home/wzy/.condarc conda version : 4.10.3 conda-build version : not installed python version : 3.8.5.final.0 virtual packages : cuda=11.4=0 linux=5.11.0=0 glibc=2.31=0 unix=0=0 __archspec=1=x86_64 base environment : /home/wzy/miniconda3 (writable) conda av data dir : /home/wzy/miniconda3/etc/conda conda av metadata url : None channel URLs : https://conda.anaconda.org/bioconda/linux-64 https://conda.anaconda.org/bioconda/noarch https://conda.anaconda.org/conda-forge/linux-64 https://conda.anaconda.org/conda-forge/noarch https://repo.anaconda.com/pkgs/main/linux-64 https://repo.anaconda.com/pkgs/main/noarch https://repo.anaconda.com/pkgs/r/linux-64 https://repo.anaconda.com/pkgs/r/noarch package cache : /home/wzy/miniconda3/pkgs /home/wzy/.conda/pkgs envs directories : /home/wzy/miniconda3/envs /home/wzy/.conda/envs platform : linux-64 user-agent : conda/4.10.3 requests/2.26.0 CPython/3.8.5 Linux/5.11.0-27-generic ubuntu/20.04.3 glibc/2.31 UID:GID : 1000:1000 netrc file : None offline mode : False

conda list# packages in environment at /home/wzy/miniconda3/envs/stream: #

Name Version Build Channel _libgcc_mutex 0.1 conda_forge conda-forge

_openmp_mutex 4.5 1_gnu conda-forge alsa-lib 1.2.3 h516909a_0 conda-forge argon2-cffi 20.1.0 py39h3811e60_2 conda-forge async_generator 1.10 py_0 conda-forge attrs 21.2.0 pyhd8ed1ab_0 conda-forge backcall 0.2.0 pyh9f0ad1d_0 conda-forge backports 1.0 py_2 conda-forge backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge bleach 4.1.0 pyhd8ed1ab_0 conda-forge ca-certificates 2021.5.30 ha878542_0 conda-forge cffi 1.14.6 py39he32792d_0 conda-forge dbus 1.13.6 h48d8840_2 conda-forge debugpy 1.4.1 py39he80948d_0 conda-forge decorator 5.0.9 pyhd8ed1ab_0 conda-forge defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge entrypoints 0.3 pyhd8ed1ab_1003 conda-forge expat 2.4.1 h9c3ff4c_0 conda-forge fontconfig 2.13.1 hba837de_1005 conda-forge freetype 2.10.4 h0708190_1 conda-forge gettext 0.19.8.1 h0b5b191_1005 conda-forge glib 2.68.4 h9c3ff4c_0 conda-forge glib-tools 2.68.4 h9c3ff4c_0 conda-forge gst-plugins-base 1.18.4 hf529b03_2 conda-forge gstreamer 1.18.4 h76c114f_2 conda-forge icu 68.1 h58526e2_0 conda-forge importlib-metadata 4.8.1 py39hf3d152e_0 conda-forge ipykernel 6.3.1 py39hef51801_0 conda-forge ipython 7.27.0 py39hef51801_0 conda-forge ipython_genutils 0.2.0 py_1 conda-forge ipywidgets 7.6.3 pyhd3deb0d_0 conda-forge jedi 0.18.0 py39hf3d152e_2 conda-forge jinja2 3.0.1 pyhd8ed1ab_0 conda-forge jpeg 9d h36c2ea0_0 conda-forge jsonschema 3.2.0 pyhd8ed1ab_3 conda-forge jupyter 1.0.0 py39hf3d152e_6 conda-forge jupyter_client 7.0.2 pyhd8ed1ab_0 conda-forge jupyter_console 6.4.0 pyhd8ed1ab_0 conda-forge jupyter_core 4.7.1 py39hf3d152e_0 conda-forge jupyterlab_pygments 0.1.2 pyh9f0ad1d_0 conda-forge jupyterlab_widgets 1.0.0 pyhd8ed1ab_1 conda-forge krb5 1.19.2 hcc1bbae_0 conda-forge ld_impl_linux-64 2.36.1 hea4e1c9_2 conda-forge libclang 11.1.0 default_ha53f305_1 conda-forge libedit 3.1.20191231 he28a2e2_2 conda-forge libevent 2.1.10 hcdb4288_3 conda-forge libffi 3.3 h58526e2_2 conda-forge libgcc-ng 11.1.0 hc902ee8_8 conda-forge libglib 2.68.4 h3e27bee_0 conda-forge libgomp 11.1.0 hc902ee8_8 conda-forge libiconv 1.16 h516909a_0 conda-forge libllvm11 11.1.0 hf817b99_2 conda-forge libogg 1.3.4 h7f98852_1 conda-forge libopus 1.3.1 h7f98852_1 conda-forge libpng 1.6.37 h21135ba_2 conda-forge libpq 13.3 hd57d9b9_0 conda-forge libsodium 1.0.18 h36c2ea0_1 conda-forge libstdcxx-ng 11.1.0 h56837e0_8 conda-forge libuuid 2.32.1 h7f98852_1000 conda-forge libvorbis 1.3.7 h9c3ff4c_0 conda-forge libxcb 1.13 h7f98852_1003 conda-forge libxkbcommon 1.0.3 he3ba5ed_0 conda-forge libxml2 2.9.12 h72842e0_0 conda-forge lz4-c 1.9.3 h9c3ff4c_1 conda-forge markupsafe 2.0.1 py39h3811e60_0 conda-forge matplotlib-inline 0.1.2 pyhd8ed1ab_2 conda-forge mistune 0.8.4 py39h3811e60_1004 conda-forge mysql-common 8.0.25 ha770c72_2 conda-forge mysql-libs 8.0.25 hfa10184_2 conda-forge nbclient 0.5.4 pyhd8ed1ab_0 conda-forge nbconvert 6.1.0 py39hf3d152e_0 conda-forge nbformat 5.1.3 pyhd8ed1ab_0 conda-forge ncurses 6.2 h58526e2_4 conda-forge nest-asyncio 1.5.1 pyhd8ed1ab_0 conda-forge notebook 6.4.3 pyha770c72_0 conda-forge nspr 4.30 h9c3ff4c_0 conda-forge nss 3.69 hb5efdd6_0 conda-forge openssl 1.1.1k h7f98852_1 conda-forge packaging 21.0 pyhd8ed1ab_0 conda-forge pandoc 2.14.2 h7f98852_0 conda-forge pandocfilters 1.4.2 py_1 conda-forge parso 0.8.2 pyhd8ed1ab_0 conda-forge pcre 8.45 h9c3ff4c_0 conda-forge pexpect 4.8.0 pyh9f0ad1d_2 conda-forge pickleshare 0.7.5 py_1003 conda-forge pip 21.2.4 pyhd8ed1ab_0 conda-forge prometheus_client 0.11.0 pyhd8ed1ab_0 conda-forge prompt-toolkit 3.0.20 pyha770c72_0 conda-forge prompt_toolkit 3.0.20 hd8ed1ab_0 conda-forge pthread-stubs 0.4 h36c2ea0_1001 conda-forge ptyprocess 0.7.0 pyhd3deb0d_0 conda-forge pycparser 2.20 pyh9f0ad1d_2 conda-forge pygments 2.10.0 pyhd8ed1ab_0 conda-forge pyparsing 2.4.7 pyh9f0ad1d_0 conda-forge pyqt 5.12.3 py39hf3d152e_7 conda-forge pyqt-impl 5.12.3 py39h0fcd23e_7 conda-forge pyqt5-sip 4.19.18 py39he80948d_7 conda-forge pyqtchart 5.12 py39h0fcd23e_7 conda-forge pyqtwebengine 5.12.1 py39h0fcd23e_7 conda-forge pyrsistent 0.17.3 py39h3811e60_2 conda-forge python 3.9.6 h49503c6_1_cpython conda-forge python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge python_abi 3.9 2_cp39 conda-forge pyzmq 22.2.1 py39h37b5a0c_0 conda-forge qt 5.12.9 hda022c4_4 conda-forge qtconsole 5.1.1 pyhd8ed1ab_0 conda-forge qtpy 1.10.0 pyhd8ed1ab_0 conda-forge readline 8.1 h46c0cb4_0 conda-forge send2trash 1.8.0 pyhd8ed1ab_0 conda-forge setuptools 57.4.0 py39hf3d152e_0 conda-forge six 1.16.0 pyh6c4a22f_0 conda-forge sqlite 3.36.0 h9cd32fc_0 conda-forge terminado 0.11.1 py39hf3d152e_0 conda-forge testpath 0.5.0 pyhd8ed1ab_0 conda-forge tk 8.6.11 h21135ba_0 conda-forge tornado 6.1 py39h3811e60_1 conda-forge traitlets 5.1.0 pyhd8ed1ab_0 conda-forge tzdata 2021a he74cb21_1 conda-forge wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge webencodings 0.5.1 py_1 conda-forge wheel 0.37.0 pyhd8ed1ab_1 conda-forge widgetsnbextension 3.5.1 py39hf3d152e_4 conda-forge xorg-libxau 1.0.9 h7f98852_0 conda-forge xorg-libxdmcp 1.1.3 h7f98852_0 conda-forge xz 5.2.5 h516909a_1 conda-forge zeromq 4.3.4 h9c3ff4c_1 conda-forge zipp 3.5.0 pyhd8ed1ab_0 conda-forge zlib 1.2.11 h516909a_1010 conda-forge zstd 1.5.0 ha95c52a_0 conda-forge

Thanks so much.

I have the same problem. When running the command as: conda create -n stream python jupyter conda activate stream conda install -c bioconda stream I got the following error:

Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: | Found conflicts! Looking for incompatible packages. This can take several minutes. Press CTRL-C to abort. failed

UnsatisfiableError: The following specifications were found to be incompatible with each other:

Output in format: Requested package -> Available versionsThe following specifications were found to be incompatible with your system:

  • feature:/linux-64::__glibc==2.31=0
  • feature:|@/linux-64::__glibc==2.31=0
  • stream -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']

Your installed version is: 2.31

Can anyone help me to solve this conflict? conda info active environment : stream active env location : /home/wzy/miniconda3/envs/stream shell level : 2 user config file : /home/wzy/.condarc populated config files : /home/wzy/.condarc conda version : 4.10.3 conda-build version : not installed python version : 3.8.5.final.0 virtual packages : cuda=11.4=0 linux=5.11.0=0 glibc=2.31=0 unix=0=0 __archspec=1=x86_64 base environment : /home/wzy/miniconda3 (writable) conda av data dir : /home/wzy/miniconda3/etc/conda conda av metadata url : None channel URLs : https://conda.anaconda.org/bioconda/linux-64 https://conda.anaconda.org/bioconda/noarch https://conda.anaconda.org/conda-forge/linux-64 https://conda.anaconda.org/conda-forge/noarch https://repo.anaconda.com/pkgs/main/linux-64 https://repo.anaconda.com/pkgs/main/noarch https://repo.anaconda.com/pkgs/r/linux-64 https://repo.anaconda.com/pkgs/r/noarch package cache : /home/wzy/miniconda3/pkgs /home/wzy/.conda/pkgs envs directories : /home/wzy/miniconda3/envs /home/wzy/.conda/envs platform : linux-64 user-agent : conda/4.10.3 requests/2.26.0 CPython/3.8.5 Linux/5.11.0-27-generic ubuntu/20.04.3 glibc/2.31 UID:GID : 1000:1000 netrc file : None offline mode : False

conda list# packages in environment at /home/wzy/miniconda3/envs/stream: #

Name Version Build Channel _libgcc_mutex 0.1 conda_forge conda-forge

_openmp_mutex 4.5 1_gnu conda-forge alsa-lib 1.2.3 h516909a_0 conda-forge argon2-cffi 20.1.0 py39h3811e60_2 conda-forge async_generator 1.10 py_0 conda-forge attrs 21.2.0 pyhd8ed1ab_0 conda-forge backcall 0.2.0 pyh9f0ad1d_0 conda-forge backports 1.0 py_2 conda-forge backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge bleach 4.1.0 pyhd8ed1ab_0 conda-forge ca-certificates 2021.5.30 ha878542_0 conda-forge cffi 1.14.6 py39he32792d_0 conda-forge dbus 1.13.6 h48d8840_2 conda-forge debugpy 1.4.1 py39he80948d_0 conda-forge decorator 5.0.9 pyhd8ed1ab_0 conda-forge defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge entrypoints 0.3 pyhd8ed1ab_1003 conda-forge expat 2.4.1 h9c3ff4c_0 conda-forge fontconfig 2.13.1 hba837de_1005 conda-forge freetype 2.10.4 h0708190_1 conda-forge gettext 0.19.8.1 h0b5b191_1005 conda-forge glib 2.68.4 h9c3ff4c_0 conda-forge glib-tools 2.68.4 h9c3ff4c_0 conda-forge gst-plugins-base 1.18.4 hf529b03_2 conda-forge gstreamer 1.18.4 h76c114f_2 conda-forge icu 68.1 h58526e2_0 conda-forge importlib-metadata 4.8.1 py39hf3d152e_0 conda-forge ipykernel 6.3.1 py39hef51801_0 conda-forge ipython 7.27.0 py39hef51801_0 conda-forge ipython_genutils 0.2.0 py_1 conda-forge ipywidgets 7.6.3 pyhd3deb0d_0 conda-forge jedi 0.18.0 py39hf3d152e_2 conda-forge jinja2 3.0.1 pyhd8ed1ab_0 conda-forge jpeg 9d h36c2ea0_0 conda-forge jsonschema 3.2.0 pyhd8ed1ab_3 conda-forge jupyter 1.0.0 py39hf3d152e_6 conda-forge jupyter_client 7.0.2 pyhd8ed1ab_0 conda-forge jupyter_console 6.4.0 pyhd8ed1ab_0 conda-forge jupyter_core 4.7.1 py39hf3d152e_0 conda-forge jupyterlab_pygments 0.1.2 pyh9f0ad1d_0 conda-forge jupyterlab_widgets 1.0.0 pyhd8ed1ab_1 conda-forge krb5 1.19.2 hcc1bbae_0 conda-forge ld_impl_linux-64 2.36.1 hea4e1c9_2 conda-forge libclang 11.1.0 default_ha53f305_1 conda-forge libedit 3.1.20191231 he28a2e2_2 conda-forge libevent 2.1.10 hcdb4288_3 conda-forge libffi 3.3 h58526e2_2 conda-forge libgcc-ng 11.1.0 hc902ee8_8 conda-forge libglib 2.68.4 h3e27bee_0 conda-forge libgomp 11.1.0 hc902ee8_8 conda-forge libiconv 1.16 h516909a_0 conda-forge libllvm11 11.1.0 hf817b99_2 conda-forge libogg 1.3.4 h7f98852_1 conda-forge libopus 1.3.1 h7f98852_1 conda-forge libpng 1.6.37 h21135ba_2 conda-forge libpq 13.3 hd57d9b9_0 conda-forge libsodium 1.0.18 h36c2ea0_1 conda-forge libstdcxx-ng 11.1.0 h56837e0_8 conda-forge libuuid 2.32.1 h7f98852_1000 conda-forge libvorbis 1.3.7 h9c3ff4c_0 conda-forge libxcb 1.13 h7f98852_1003 conda-forge libxkbcommon 1.0.3 he3ba5ed_0 conda-forge libxml2 2.9.12 h72842e0_0 conda-forge lz4-c 1.9.3 h9c3ff4c_1 conda-forge markupsafe 2.0.1 py39h3811e60_0 conda-forge matplotlib-inline 0.1.2 pyhd8ed1ab_2 conda-forge mistune 0.8.4 py39h3811e60_1004 conda-forge mysql-common 8.0.25 ha770c72_2 conda-forge mysql-libs 8.0.25 hfa10184_2 conda-forge nbclient 0.5.4 pyhd8ed1ab_0 conda-forge nbconvert 6.1.0 py39hf3d152e_0 conda-forge nbformat 5.1.3 pyhd8ed1ab_0 conda-forge ncurses 6.2 h58526e2_4 conda-forge nest-asyncio 1.5.1 pyhd8ed1ab_0 conda-forge notebook 6.4.3 pyha770c72_0 conda-forge nspr 4.30 h9c3ff4c_0 conda-forge nss 3.69 hb5efdd6_0 conda-forge openssl 1.1.1k h7f98852_1 conda-forge packaging 21.0 pyhd8ed1ab_0 conda-forge pandoc 2.14.2 h7f98852_0 conda-forge pandocfilters 1.4.2 py_1 conda-forge parso 0.8.2 pyhd8ed1ab_0 conda-forge pcre 8.45 h9c3ff4c_0 conda-forge pexpect 4.8.0 pyh9f0ad1d_2 conda-forge pickleshare 0.7.5 py_1003 conda-forge pip 21.2.4 pyhd8ed1ab_0 conda-forge prometheus_client 0.11.0 pyhd8ed1ab_0 conda-forge prompt-toolkit 3.0.20 pyha770c72_0 conda-forge prompt_toolkit 3.0.20 hd8ed1ab_0 conda-forge pthread-stubs 0.4 h36c2ea0_1001 conda-forge ptyprocess 0.7.0 pyhd3deb0d_0 conda-forge pycparser 2.20 pyh9f0ad1d_2 conda-forge pygments 2.10.0 pyhd8ed1ab_0 conda-forge pyparsing 2.4.7 pyh9f0ad1d_0 conda-forge pyqt 5.12.3 py39hf3d152e_7 conda-forge pyqt-impl 5.12.3 py39h0fcd23e_7 conda-forge pyqt5-sip 4.19.18 py39he80948d_7 conda-forge pyqtchart 5.12 py39h0fcd23e_7 conda-forge pyqtwebengine 5.12.1 py39h0fcd23e_7 conda-forge pyrsistent 0.17.3 py39h3811e60_2 conda-forge python 3.9.6 h49503c6_1_cpython conda-forge python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge python_abi 3.9 2_cp39 conda-forge pyzmq 22.2.1 py39h37b5a0c_0 conda-forge qt 5.12.9 hda022c4_4 conda-forge qtconsole 5.1.1 pyhd8ed1ab_0 conda-forge qtpy 1.10.0 pyhd8ed1ab_0 conda-forge readline 8.1 h46c0cb4_0 conda-forge send2trash 1.8.0 pyhd8ed1ab_0 conda-forge setuptools 57.4.0 py39hf3d152e_0 conda-forge six 1.16.0 pyh6c4a22f_0 conda-forge sqlite 3.36.0 h9cd32fc_0 conda-forge terminado 0.11.1 py39hf3d152e_0 conda-forge testpath 0.5.0 pyhd8ed1ab_0 conda-forge tk 8.6.11 h21135ba_0 conda-forge tornado 6.1 py39h3811e60_1 conda-forge traitlets 5.1.0 pyhd8ed1ab_0 conda-forge tzdata 2021a he74cb21_1 conda-forge wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge webencodings 0.5.1 py_1 conda-forge wheel 0.37.0 pyhd8ed1ab_1 conda-forge widgetsnbextension 3.5.1 py39hf3d152e_4 conda-forge xorg-libxau 1.0.9 h7f98852_0 conda-forge xorg-libxdmcp 1.1.3 h7f98852_0 conda-forge xz 5.2.5 h516909a_1 conda-forge zeromq 4.3.4 h9c3ff4c_1 conda-forge zipp 3.5.0 pyhd8ed1ab_0 conda-forge zlib 1.2.11 h516909a_1010 conda-forge zstd 1.5.0 ha95c52a_0 conda-forge

Thanks so much.

Did you solve this problem? i have same error.

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tianchen2019 commented 2 years ago

i used this command: conda create -n env_stream3 python=3.7 stream=1.0 stream_atac jupyter the error is : Collecting package metadata (current_repodata.json): done Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): done Solving environment: \ Found conflicts! Looking for incompatible packages. failed

UnsatisfiableError: The following specifications were found to be incompatible with each other:

Output in format: Requested package -> Available versions

Package python conflicts for: stream=1.0 -> anndata -> python[version='>=2.7,<2.8.0a0|>=3.10,<3.11.0a0|>=3.5|>=3.8,<3.9.0a0|>=3.7,<3.8.0a0|>=3.9,<3.10.0a0|>=3.6,<3.7.0a0|>=3.5,<3.6.0a0|>=3.6'] jupyter -> ipywidgets -> python[version='>=3.5|>=3.6'] python=3.7 stream=1.0 -> python[version='>=3'] jupyter -> python[version='>=2.7,<2.8.0a0|>=3.10,<3.11.0a0|>=3.9,<3.10.0a0|>=3.8,<3.9.0a0|>=3.5,<3.6.0a0|>=3.6,<3.7.0a0|>=3.7,<3.8.0a0']

Package ca-certificates conflicts for: stream_atac -> openssl[version='>=1.1.1a,<1.1.2a'] -> ca-certificates jupyter -> python[version='>=2.7,<2.8.0a0'] -> ca-certificates python=3.7 -> openssl[version='>=1.1.1k,<1.1.2a'] -> ca-certificates

Package setuptools conflicts for: python=3.7 -> pip -> setuptools stream_atac -> setuptools stream_atac -> conda -> setuptools[version='>=31.0.1'] stream=1.0 -> gunicorn -> setuptools

Package libgfortran-ng conflicts for: stream_atac -> libgfortran-ng[version='>=7,<8.0a0'] stream_atac -> r-base -> libgfortran-ng=7.2.0

Package bzip2 conflicts for: stream=1.0 -> python[version='>=3'] -> bzip2[version='>=1.0.6,<2.0a0|>=1.0.8,<2.0a0'] stream_atac -> python[version='>=3'] -> bzip2[version='>=1.0.6,<2.0a0|>=1.0.8,<2.0a0'] jupyter -> python[version='>=3.10,<3.11.0a0'] -> bzip2[version='>=1.0.8,<2.0a0']

Package tornado conflicts for: jupyter -> ipykernel -> tornado[version='>=4,<6|>=4.0|>=4.2|>=4.2,<7.0|>=6.1|>=5.0|>=5.0,<7|>=4.1,<7'] stream=1.0 -> matplotlib-base[version='>=3.2'] -> tornado

Package r-base conflicts for: stream_atac -> bioconductor-bsgenome.hsapiens.ucsc.hg19 -> r-base[version='3.2.1.|3.2.2.|3.2.2|3.3.1.|3.3.2.|3.4.1.*|>=3.4.1,<3.4.2.0a0|>=3.5.1,<3.5.2.0a0|>=3.6,<3.7.0a0|>=4.0,<4.1.0a0|>=4.1,<4.2.0a0|>=3.2.2|>=3.5.0,<3.5.1.0a0|>=3.4.3,<3.4.4.0a0|>=3.4.2|>=3.3.2|>=3.3.1|>=3.4.2,<3.4.3a0'] stream_atac -> r-base

Package _libgcc_mutex conflicts for: stream_atac -> libgcc-ng[version='>=7.3.0'] -> _libgcc_mutex[version='|0.1',build=main] python=3.7 -> libgcc-ng[version='>=7.5.0'] -> _libgcc_mutex[version='|0.1',build=main]

Package r-ggplot2 conflicts for: stream=1.0 -> r-essentials -> r-ggplot2[version='1.0.1|>=2.1.0|>=2.2.0|>=2.2.1|>=3.0.0'] stream_atac -> bioconductor-chromvar -> r-ggplot2[version='1.0.1|>=2.1.0|>=2.2.0|>=2.2.1|>=3.0.0']The following specifications were found to be incompatible with your system:

Your installed version is: 2.17

tianchen2019 commented 2 years ago

Was able to fix my issue, it was an issue with conda version. Created a conda environment with python 3.7 so I could downgrade to conda 4.6.14. Then I could install stream using your bioconda recommended manner.

How did you downgrade conda?

handesome commented 11 months ago

same error... how to handle it? Thanks!!!

handesome commented 11 months ago

Was able to fix my issue, it was an issue with conda version. Created a conda environment with python 3.7 so I could downgrade to conda 4.6.14. Then I could install stream using your bioconda recommended manner.

How did you downgrade conda?

did you solve the error?Thanks!!!!!!