Installation problem

open

#1

Hi,
I searched all internet and I don’t have a solution. I have an error when using install.sh script. Everything is ok, until:

Preparing transaction: done
Verifying transaction: done
Executing transaction: done
  ------------------------------------------------------------------------
    Done.
    conda packages installation successful.
  ------------------------------------------------------------------------
  Preparing to install all pip packages...
  ------------------------------------------------------------------------
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. Please upgrade your Python as Python 2.7 won't be maintained after that date. A future version of pip will drop support for Python 2.7.
**Processing ./deps_bundle/python/python_packages/pip_packages/Flask-JSONRPC-0.3.1.tar.gz**
**Processing ./deps_bundle/python/python_packages/pip_packages/Flask-PyMongo-0.5.1.tar.gz**
**Processing ./deps_bundle/python/python_packages/pip_packages/libtiff-0.4.2.tar.gz**
**    Complete output from command python setup.py egg_info:**
**    Traceback (most recent call last):**
**      File "<string>", line 1, in <module>**
**      File "/tmp/pip-req-build-UEjLdg/setup.py", line 77, in <module>**
**        from numpy.distutils.core import setup, Extension**
**    ImportError: No module named numpy.distutils.core**
    
    ----------------------------------------
Command "python setup.py egg_info" failed with error code 1 in /tmp/pip-req-build-UEjLdg/
  ------------------------------------------------------------------------
    Done.
    pip packages installation successful.
  ------------------------------------------------------------------------
  Main dependency installation completed. Continuing...
  ------------------------------------------------------------------------
  Completed.
  Currently checking hash for mongodb
  Dependencies for mongodb have changed - reinstalling...
  ------------------------------------------------------------------------
  mongodb 3.4.10 installation successful.
  ------------------------------------------------------------------------
  Completed.
  Completed dependency check. 

After this it said that cryoSPARC is installed, but when I try cryosparcm start I have this:

Starting cryoSPARC...

Starting cryoSPARC System master process..
CryoSPARC is not already running.
database: started
Traceback (most recent call last):
  File "<string>", line 1, in <module>
ImportError: No module named pymongo

What I can do now?

This is my install script:

./install.sh --standalone --license $LICENSE_ID --worker_path /home/cryosparc_user/software/cryosparc2_worker --cudapath /usr/local/cuda-10.1 --ssdpath /scratch/cryosparc_cache/ --initial_email my@mail --initial_password mypassw--initial_name "myname"

Thank you in advance,
Lukasz


#2

Hi @lmilewski,

Can you please answer:
What OS is this?
Is there cryoSPARC already installed on this system?
Are your GPUs set up correctly? (i.e. does nvidia-smi work?)


#3

Hi, @sarulthasan,
Ubuntu 18,
cryosparc was not previously installed, its fresh OS.
GPUs are set up correctly