InitCarveme error

[juz4karen]

Hi there, while I tried to run run initialization script: $ carveme_init . It showed error as below:

Successfully installed carveme-1.2.2 cycler-0.10.0 framed-0.5.1 kiwisolver-1.2.0 matplotlib-3.2.1 mpmath-1.1.0 numpy-1.18.3 pandas-1.0.3 pyparsing-2.4.7 python-dateutil-2.8.1 python-libsbml-5.18.0 pytz-2020.1 scipy-1.4.1 sympy-1.5.1

$ carveme_init Traceback (most recent call last): File "/Users/miniconda3/bin/carveme_init", line 4, in from future import standard_library ModuleNotFoundError: No module named 'future'

Please help me with this issue.

[cdanielmachado]

Have you already tried pip install future ?

[juz4karen]

Hi, after I pip install future, it worked. However, I tried carveme_initi again, it showed cplex not found. I have already installed IBM ILOG Cplex Optimization Studio V12.9.0.

carveme_init Traceback (most recent call last): File "/Users/karenchung/miniconda3/bin/carveme_init", line 11, in from carveme import project_dir File "/Users/karenchung/miniconda3/lib/python3.7/site-packages/carveme/init.py", line 14, in set_default_solver(config.get('solver', 'default_solver')) File "/Users/karenchung/miniconda3/lib/python3.7/site-packages/framed/solvers/init.py", line 61, in set_default_solver raise EnvironmentError("Solver '{}' not available.".format(solvername)) OSError: Solver 'cplex' not available

[cdanielmachado]

Did you install the cplex python bindings ?

On Thu, Apr 30, 2020, 11:43 juz4karen notifications@github.com wrote:

Hi, after I pip install future, it worked. However, I tried carveme_initi again, it showed cplex not found. I have already installed IBM ILOG Cplex Optimization Studio V12.9.0.

carveme_init Traceback (most recent call last): File "/Users/karenchung/miniconda3/bin/carveme_init", line 11, in from carveme import project_dir File "/Users/karenchung/miniconda3/lib/python3.7/site-packages/carveme/ init.py", line 14, in set_default_solver(config.get('solver', 'default_solver')) File "/Users/karenchung/miniconda3/lib/python3.7/site-packages/framed/solvers/ init.py", line 61, in set_default_solver raise EnvironmentError("Solver '{}' not available.".format(solvername)) OSError: Solver 'cplex' not available

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[juz4karen]

I'm not sure if I had installed that. I do find cplex, python, opl ...etc folders in my macbook (refer to attached). Could you guide please?

[cdanielmachado]

You can find instructions here:

https://www.ibm.com/support/knowledgecenter/SSSA5P_12.7.1/ilog.odms.cplex.help/CPLEX/GettingStarted/topics/set_up/Python_setup.html

[juz4karen]

When I inserted command 'python setup.py install' , it showed no such file

python setup.py install python: can't open file 'setup.py': [Errno 2] No such file or directory

I guess I have to tell the system the path to the setup.py? Not sure on that....

[cdanielmachado]

The file is there, we can see it in the screenshot. Just test with pwd to make sure you are in the right directory when you execute the script.

[juz4karen]

I'm sorry, but what is pwd? how do I do that?

[juz4karen]

Hi Daniel, is there any possible that you could help me with the problem if I grant you remote access to my laptop? As I really stuck with this issue here hence my project is affected. Please let me know if this will work.

[cdanielmachado]

I'm sorry, but I cannot personally fix problems for every user. Maybe you can ask a friend with experience in command-line usage? You just need to cd into the directory and run the script.

[juz4karen]

Noted, thank you for that. I'll try figure it out myself