epic2 installed but not working

[ltosti]

Hi there,

I installed epic 2 using conda:

# packages in environment at /miniconda3/envs/epic2:
#
# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                 conda_forge    conda-forge
_openmp_mutex             4.5                       2_gnu    conda-forge
bzip2                     1.0.8                h7f98852_4    conda-forge
c-ares                    1.18.1               h7f8727e_0    anaconda
ca-certificates           2023.5.7             hbcca054_0    conda-forge
epic2                     0.0.52          py310hf47bd5e_6    bioconda
htslib                    1.17                 h81da01d_2    bioconda
keyutils                  1.6.1                h166bdaf_0    conda-forge
krb5                      1.20.1               h81ceb04_0    conda-forge
ld_impl_linux-64          2.40                 h41732ed_0    conda-forge
libblas                   3.9.0           17_linux64_openblas    conda-forge
libcblas                  3.9.0           17_linux64_openblas    conda-forge
libcurl                   8.1.2                h409715c_0    conda-forge
libdeflate                1.18                 h0b41bf4_0    conda-forge
libedit                   3.1.20221030         h5eee18b_0    anaconda
libev                     4.33                 h7f8727e_1    anaconda
libffi                    3.4.2                h7f98852_5    conda-forge
libgcc-ng                 13.1.0               he5830b7_0    conda-forge
libgfortran-ng            13.1.0               h69a702a_0    conda-forge
libgfortran5              13.1.0               h15d22d2_0    conda-forge
libgomp                   13.1.0               he5830b7_0    conda-forge
liblapack                 3.9.0           17_linux64_openblas    conda-forge
libnghttp2                1.52.0               h61bc06f_0    conda-forge
libnsl                    2.0.0                h7f98852_0    conda-forge
libopenblas               0.3.23          pthreads_h80387f5_0    conda-forge
libsqlite                 3.39.4               h753d276_0    conda-forge
libssh2                   1.11.0               h0841786_0    conda-forge
libstdcxx-ng              13.1.0               hfd8a6a1_0    conda-forge
libuuid                   2.38.1               h0b41bf4_0    conda-forge
libzlib                   1.2.13               h166bdaf_4    conda-forge
natsort                   8.3.1              pyhd8ed1ab_0    conda-forge
ncls                      0.0.68          py310h4b81fae_1    bioconda
ncurses                   6.4                  hcb278e6_0    conda-forge
numpy                     1.24.3          py310ha4c1d20_0    conda-forge
openssl                   3.1.1                hd590300_1    conda-forge
pandas                    2.0.2           py310h7cbd5c2_0    conda-forge
pip                       23.1.2             pyhd8ed1ab_0    conda-forge
pyranges                  0.0.127            pyh7cba7a3_0    bioconda
pyrle                     0.0.38          py310h4b81fae_3    bioconda
pysam                     0.21.0          py310h41dec4a_1    bioconda
python                    3.10.6          ha86cf86_0_cpython    conda-forge
python-dateutil           2.8.2              pyhd8ed1ab_0    conda-forge
python-tzdata             2023.3             pyhd8ed1ab_0    conda-forge
python_abi                3.10                    2_cp310    conda-forge
pytz                      2023.3             pyhd8ed1ab_0    conda-forge
readline                  8.2                  h8228510_1    conda-forge
scipy                     1.9.3           py310hdfbd76f_2    conda-forge
setuptools                67.7.2             pyhd8ed1ab_0    conda-forge
six                       1.16.0             pyh6c4a22f_0    conda-forge
sorted_nearest            0.0.37          py310h4b81fae_2    bioconda
sqlite                    3.39.3               h5082296_0    anaconda
tabulate                  0.9.0              pyhd8ed1ab_1    conda-forge
tk                        8.6.12               h27826a3_0    conda-forge
tzdata                    2023c                h71feb2d_0    conda-forge
wheel                     0.40.0             pyhd8ed1ab_0    conda-forge
xz                        5.2.6                h166bdaf_0    conda-forge
zlib                      1.2.13               h166bdaf_4    conda-forge
zstd                      1.5.2                h3eb15da_6    conda-forge

but when I try epic2 --example or epic2 -version I get the following:

Traceback (most recent call last):
  File "/home/ubuntu/.local/bin/epic2", line 10, in <module>
    from epic2.main import _main
  File "/home/ubuntu/.local/lib/python2.7/site-packages/epic2/main.py", line 5, in <module>
    from epic2.src.reads_to_bins import files_to_bin_counts
  File "epic2/src/reads_to_bins.pyx", line 19, in init epic2.src.reads_to_bins
  File "/home/ubuntu/.local/lib/python2.7/site-packages/epic2/src/remove_out_of_bounds_bins.py", line 7
    print("Chromosome {} found in file, but not in the chromsizes dict for the genome.".format(chromosome), file=sys.stderr)
                                                                                                                ^
SyntaxError: invalid syntax

Any ideas about how to fix this? Thanks!