Comments (5)
Thanks, can you provide more details about your conda version, OS and command used?
from orfipy.
Conda version: conda 4.9.2
Install command line: conda install -c bioconda orfipy
OS version:
NAME="Red Hat Enterprise Linux Server"
VERSION="7.9 (Maipo)"
ID="rhel"
ID_LIKE="fedora"
from orfipy.
I am also seeing this on mac
conda create -n orfipy_conda -c bioconda orfipy
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.
This can take several minutes. Press CTRL-C to abort.
failed
UnsatisfiableError:
This is also failing
conda create -n orfipy_conda python=3.8
Collecting package metadata (current_repodata.json): done
Solving environment: done
## Package Plan ##
environment location: /Users/usingh/anaconda3/envs/orfipy_conda
added / updated specs:
- python=3.8
The following packages will be downloaded:
package | build
---------------------------|-----------------
ca-certificates-2021.1.19 | hecd8cb5_0 121 KB
readline-8.1 | h9ed2024_0 333 KB
setuptools-52.0.0 | py38hecd8cb5_0 714 KB
------------------------------------------------------------
Total: 1.1 MB
The following NEW packages will be INSTALLED:
ca-certificates pkgs/main/osx-64::ca-certificates-2021.1.19-hecd8cb5_0
certifi pkgs/main/osx-64::certifi-2020.12.5-py38hecd8cb5_0
libcxx pkgs/main/osx-64::libcxx-10.0.0-1
libedit pkgs/main/osx-64::libedit-3.1.20191231-h1de35cc_1
libffi pkgs/main/osx-64::libffi-3.3-hb1e8313_2
ncurses pkgs/main/osx-64::ncurses-6.2-h0a44026_1
openssl pkgs/main/osx-64::openssl-1.1.1i-h9ed2024_0
pip pkgs/main/osx-64::pip-20.3.3-py38hecd8cb5_0
python pkgs/main/osx-64::python-3.8.5-h26836e1_1
readline pkgs/main/osx-64::readline-8.1-h9ed2024_0
setuptools pkgs/main/osx-64::setuptools-52.0.0-py38hecd8cb5_0
sqlite pkgs/main/osx-64::sqlite-3.33.0-hffcf06c_0
tk pkgs/main/osx-64::tk-8.6.10-hb0a8c7a_0
wheel pkgs/main/noarch::wheel-0.36.2-pyhd3eb1b0_0
xz pkgs/main/osx-64::xz-5.2.5-h1de35cc_0
zlib pkgs/main/osx-64::zlib-1.2.11-h1de35cc_3
Proceed ([y]/n)? y
Downloading and Extracting Packages
ca-certificates-2021 | 121 KB | ###################################################################################################################################### | 100%
readline-8.1 | 333 KB | ###################################################################################################################################### | 100%
setuptools-52.0.0 | 714 KB | ###################################################################################################################################### | 100%
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
#
# To activate this environment, use
#
# $ conda activate orfipy_conda
#
# To deactivate an active environment, use
#
# $ conda deactivate
(base) usingh$ conda activate orfipy_conda
(orfipy_conda) usingh$ conda install -c bioconda orfipy
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 the existing python installation in your environment:
Specifications:
- orfipy -> python[version='2.7.*|3.5.*|3.6.*|>=2.7,<2.8.0a0|>=3.5,<3.6.0a0|>=3.9,<3.10.0a0|3.4.*']
Your python: python=3.8
If python is on the left-most side of the chain, that's the version you've asked for.
When python appears to the right, that indicates that the thing on the left is somehow
not available for the python version you are constrained to. Note that conda will not
change your python version to a different minor version unless you explicitly specify
that.
from orfipy.
It appears you either don't have conda-forge in your channel list or it's not the highest priority channel. Please run the following:
conda config --add channels defaults
conda config --add channels bioconda
conda config --add channels conda-forge
from orfipy.
Thanks @dpryan79 your solution works.
from orfipy.
Related Issues (16)
- Log commands HOT 1
- Is there a tool to update gtf/gff file according to orfipy results? HOT 1
- Overlap ORFs density threshold HOT 3
- Description dictionary
- ImportError: undefined symbol: PySlice_Adjustindices HOT 1
- Suggestion: deterministic ORF IDs
- Run Multiple Codon Table Numbers HOT 1
- OverflowError: cannot serialize a string larger than 4GiB HOT 3
- Output intermediate ORFs
- Python 3.9 support using conda HOT 3
- conda installation issue HOT 4
- Compatibility with lower-case fasta sequences (A weird bug) HOT 7
- Raises IndexError if no match along the specified strand is found HOT 1
- Not all ORFs found? HOT 3
- Full length ORF HOT 1
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from orfipy.