Right installation order here!

[StrohD]

As many users seem to face similar problems with installing EDD with correct dependencies, I want to share the order and versions that I used to make it run on a Ubuntu machine.

conda create -n edd
conda activate edd
conda install python=2.7
conda install pip
pip install Cython==0.29.32 numpy==1.16.6
pip install scipy==1.2.3
pip install statsmodels==0.10.2
pip install pybedtools==0.8.2
pip install pysam==0.11.2.2
pip install edd
conda install bioconda::bedtools==2.31.1

edd -v
> edd 1.1.19

Props to https://github.com/rabdill !

(edd) user@machine:~$ conda list
# packages in environment at /home/user/miniconda3/envs/edd:
#
# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                 conda_forge    conda-forge
_openmp_mutex             4.5                       2_gnu    conda-forge
bzip2                     1.0.8                hd590300_5    conda-forge
ca-certificates           2024.2.2             hbcca054_0    conda-forge
certifi                   2019.11.28       py27h8c360ce_1    conda-forge
cython                    0.29.32                  pypi_0    pypi
edd                       1.1.19                   pypi_0    pypi
ld_impl_linux-64          2.40                 h41732ed_0    conda-forge
libexpat                  2.5.0                hcb278e6_1    conda-forge
libffi                    3.4.2                h7f98852_5    conda-forge
libgcc-ng                 13.2.0               h807b86a_5    conda-forge
libgomp                   13.2.0               h807b86a_5    conda-forge
libnsl                    2.0.1                hd590300_0    conda-forge
libsqlite                 3.45.1               h2797004_0    conda-forge
libuuid                   2.38.1               h0b41bf4_0    conda-forge
libxcrypt                 4.4.36               hd590300_1    conda-forge
libzlib                   1.2.13               hd590300_5    conda-forge
logbook                   1.5.3                    pypi_0    pypi
ncurses                   6.4                  h59595ed_2    conda-forge
numpy                     1.16.6                   pypi_0    pypi
openssl                   3.2.1                hd590300_0    conda-forge
pandas                    0.24.2                   pypi_0    pypi
patsy                     0.5.6                    pypi_0    pypi
pip                       20.1.1             pyh9f0ad1d_0    conda-forge
pybedtools                0.8.2                    pypi_0    pypi
pysam                     0.11.2.2                 pypi_0    pypi
python                    2.7.18               h42bf7aa_3  
python-dateutil           2.8.2                    pypi_0    pypi
python_abi                2.7                    1_cp27mu    conda-forge
pytz                      2024.1                   pypi_0    pypi
readline                  8.2                  h8228510_1    conda-forge
scipy                     1.2.3                    pypi_0    pypi
setuptools                44.0.0                   py27_0    conda-forge
six                       1.16.0                   pypi_0    pypi
sqlite                    3.45.1               h2c6b66d_0    conda-forge
statsmodels               0.10.2                   pypi_0    pypi
tk                        8.6.13          noxft_h4845f30_101    conda-forge
tzdata                    2024a                h0c530f3_0    conda-forge
wheel                     0.37.1             pyhd8ed1ab_0    conda-forge
xz                        5.2.6                h166bdaf_0    conda-forge
zlib                      1.2.13               hd590300_5    conda-forge

[barkoneus]

I needed to install libbz2-dev before pybedtools but otherwise worked without a hitch - thanks!

apt install libbz2-dev