How to install hisat2 on Mac OS Big Sur
I’d like to install HISAT2 on Mac OS Big Sur ver.11.5.2.
I have tried to install HISAT2 by using bioconda (Hisate2 :: Anaconda), and the installation seemed to be successful, but when I tried to start hisat2, I’m getting the following output (below). Please advise.
installation by conda:
$ conda install -c bioconda hisat2
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: done
## Package Plan ##
environment location: opt/anaconda3
added / updated specs:
- hisat2
The following packages will be downloaded:
package | build
---------------------------|-----------------
certifi-2019.11.28 | py37_0 148 KB conda-forge
conda-4.10.3 | py37hf985489_0 3.0 MB conda-forge
------------------------------------------------------------
Total: 3.2 MB
The following NEW packages will be INSTALLED:
hisat2 bioconda/osx-64::hisat2-2.2.0-py37h6de7cb9_1
python_abi conda-forge/osx-64::python_abi-3.7-2_cp37m
The following packages will be SUPERSEDED by a higher-priority channel:
certifi pkgs/main --> conda-forge
conda pkgs/main::conda-4.10.3-py37hecd8cb5_0 --> conda-forge::conda-4.10.3-py37hf985489_0
Proceed ([y]/n)? y
Downloading and Extracting Packages
conda-4.10.3 | 3.0 MB | ########################################################################################################### | 100%
certifi-2019.11.28 | 148 KB | ########################################################################################################### | 100%
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
Help command:
$ hisat2 --help
(ERR): Description of arguments failed!
Exiting now ...
Start hisat2:
$ hisat2
(ERR): Description of arguments failed!
Exiting now ...
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