I would like your help with the following issue:
Traceback (most recent call last):
File “./tools/make_contacts.py”, line 86, in
_calculate_contacts(executable, struct, cutoff)
File “./tools/make_contacts.py”, line 32, in _calculate_contacts
p = Popen([executable, pdbfile, d_cutoff], stdout=PIPE)
File “/usr/lib/python2.7/subprocess.py”, line 394, in init
File “/usr/lib/python2.7/subprocess.py”, line 1047, in _execute_child
OSError: [Errno 8] Exec format error
foreach: No match.
Last time it continued until “Queue command failed, retrying in 960 seconds.” where I stopped the process.
My OS name: Ubuntu 20.04.4 LTS
My OS type: 64-bit
I have Python 2.7.18 (and Python 3.9.7) installed and added to the path.
I have followed the “HADDOCK2.4 local installation tutorial”. I have installed CNS, FreeSASA, HADDOCK-tools, PDB-tools, ProFit, PyMol and downloaded the “reduce” executable, all in the directory paths described in the tutorial. I am going to list some differences in my installation from the tutorial, in case I have done something wrong, missed any step or done something unnecessary:
I did not find a “requirements.yml” file in the “haddock2.4” directory, therefore no conda enviroment was created based on it.
The path for the CNS executable set for “CNSTMP” was set to “/home_path/cns_solve_1.3/intel-x86_64bit-linux/bin/cns” not “/home/software/cns/cns_solve-1.31-UU-Linux64bits.exe” (the same had to be done for the version of haddock3 where “/PATH/TO/cns_solve_1.3/intel-x86_64bit-linux/source/cns_solve-2002171359.exe” did not work for me), otherwise I could not make Haddock work. The same path I had to set for the “cns_exe_1” variable in the “run.cns” file.
I did not find the following lines in the “Haddock/Main/QueueSubmit_concat.py” file:
I have tried “make clean” and “make all” in the haddock2.4 directory but it did not resolve the issue.
The initial process of creating the “run1” folder seems to work fine.