AlphaMissense

[root@rockylinux9 ~]# cat /etc/redhat-release
Rocky Linux release 9.4 (Blue Onyx)
[root@rockylinux9 ~]#
[root@rockylinux9 ~]# dnf install epel-release -y
[root@rockylinux9 ~]# dnf install aria2

git clone https://github.com/yyuu/pyenv.git /apps/pyenv
export PYENV_ROOT=/apps/pyenv
export PATH=$PYENV_ROOT/bin:$PATH
pyenv install anaconda3-2024.06-1
pyenv global anaconda3-2024.06-1
source /apps/pyenv/versions/anaconda3-2024.06-1/etc/profile.d/conda.sh
conda update conda

[root@rockylinux9 ~]# cd /apps/
[root@rockylinux9 apps]#
[root@rockylinux9 apps]# git clone https://github.com/deepmind/alphamissense.git
[root@rockylinux9 apps]# cd alphamissense/
[root@rockylinux9 alphamissense]# ls -CF
alphamissense/  LICENSE  README.md  requirements.txt  setup.py  test/
 
[root@rockylinux9 alphamissense]# source /apps/pyenv/versions/anaconda3-2024.06-1/etc/profile.d/conda.sh
 
[root@rockylinux9 alphamissense]# conda create -n alphamissense pip python=3.11
 
[root@rockylinux9 alphamissense]# conda activate alphamissense
 
(alphamissense) [root@rockylinux9 alphamissense]# conda install hmmer -c bioconda
 
(alphamissense) [root@rockylinux9 alphamissense]# pip install -r requirements.txt
 
(alphamissense) [root@rockylinux9 alphamissense]# conda list
# packages in environment at /apps/pyenv/versions/anaconda3-2024.06-1/envs/alphamissense:
#
# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                        main
_openmp_mutex             5.1                       1_gnu
absl-py                   1.0.0                    pypi_0    pypi
biopython                 1.79                     pypi_0    pypi
bzip2                     1.0.8                h5eee18b_6
ca-certificates           2024.9.24            h06a4308_0
contextlib2               21.6.0                   pypi_0    pypi
dm-haiku                  0.0.10                   pypi_0    pypi
dm-tree                   0.1.8                    pypi_0    pypi
hmmer                     3.3.2                h87f3376_2    bioconda
immutabledict             2.0.0                    pypi_0    pypi
jax                       0.4.14                   pypi_0    pypi
jaxlib                    0.4.14                   pypi_0    pypi
jmp                       0.0.4                    pypi_0    pypi
ld_impl_linux-64          2.40                 h12ee557_0
libffi                    3.4.4                h6a678d5_1
libgcc-ng                 11.2.0               h1234567_1
libgomp                   11.2.0               h1234567_1
libstdcxx-ng              11.2.0               h1234567_1
libuuid                   1.41.5               h5eee18b_0
ml-collections            0.1.0                    pypi_0    pypi
ml-dtypes                 0.5.0                    pypi_0    pypi
ncurses                   6.4                  h6a678d5_0
numpy                     1.24.3                   pypi_0    pypi
openssl                   3.0.15               h5eee18b_0
opt-einsum                3.4.0                    pypi_0    pypi
pip                       24.2            py311h06a4308_0
python                    3.11.9               h955ad1f_0
pyyaml                    6.0.2                    pypi_0    pypi
readline                  8.2                  h5eee18b_0
scipy                     1.11.1                   pypi_0    pypi
setuptools                75.1.0          py311h06a4308_0
six                       1.16.0                   pypi_0    pypi
sqlite                    3.45.3               h5eee18b_0
tabulate                  0.9.0                    pypi_0    pypi
tk                        8.6.14               h39e8969_0
typing-extensions         4.7.1                    pypi_0    pypi
tzdata                    2024a                h04d1e81_0
wheel                     0.44.0          py311h06a4308_0
xz                        5.4.6                h5eee18b_1
zlib                      1.2.13               h5eee18b_1
(alphamissense) [root@rockylinux9 alphamissense]#
 
(alphamissense) [root@rockylinux9 alphamissense]# conda deactivate
[root@rockylinux9 alphamissense]#