Installation error for version 2.5

[phonchi]

Dear developer:

I have error when running the installation. I follow the “Quick Install: Single workstation” part from https://cryosparc.com/docs/reference/install/. The error is as follows:

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Done.
anaconda python installation successful.

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Preparing to install all conda packages…

An unexpected error has occurred.
Please consider posting the following information to the
conda GitHub issue tracker at:

https://github.com/conda/conda/issues

Current conda install:

           platform : linux-64
      conda version : 4.3.31
   conda is private : False
  conda-env version : 4.3.31
conda-build version : not installed
     python version : 2.7.14.final.0
   requests version : 2.18.4
   root environment : /home/users/phonchi/cryosparc-2/cryosparc2_master/deps/anaconda  (writable)
default environment : /home/users/phonchi/cryosparc-2/cryosparc2_master/deps/anaconda
   envs directories : /home/users/phonchi/cryosparc-2/cryosparc2_master/deps/anaconda/envs
                      /home/users/phonchi/.conda/envs
      package cache : /home/users/phonchi/cryosparc-2/cryosparc2_master/deps/anaconda/pkgs
                      /home/users/phonchi/.conda/pkgs
       channel URLs : https://repo.continuum.io/pkgs/main/linux-64  (offline)
                      https://repo.continuum.io/pkgs/main/noarch  (offline)
                      https://repo.continuum.io/pkgs/free/linux-64  (offline)
                      https://repo.continuum.io/pkgs/free/noarch  (offline)
                      https://repo.continuum.io/pkgs/r/linux-64  (offline)
                      https://repo.continuum.io/pkgs/r/noarch  (offline)
                      https://repo.continuum.io/pkgs/pro/linux-64  (offline)
                      https://repo.continuum.io/pkgs/pro/noarch  (offline)
        config file : None
         netrc file : None
       offline mode : True
         user-agent : conda/4.3.31 requests/2.18.4 CPython/2.7.14 Linux/4.4.0-135-generic debian/stretch/sid glibc/2.23    
            UID:GID : 1001:1001

…

Traceback (most recent call last):
File “/home/users/phonchi/cryosparc-2/cryosparc2_master/deps/anaconda/lib/python2.7/site-packages/conda/exceptions.py”, line 640, in conda_exception_handler
return_value = func(*args, **kwargs)
File “/home/users/phonchi/cryosparc-2/cryosparc2_master/deps/anaconda/lib/python2.7/site-packages/conda/cli/main.py”, line 140, in _main
exit_code = args.func(args, p)
File “/home/users/phonchi/cryosparc-2/cryosparc2_master/deps/anaconda/lib/python2.7/site-packages/conda/cli/main_install.py”, line 80, in execute
install(args, parser, ‘install’)
File “/home/users/phonchi/cryosparc-2/cryosparc2_master/deps/anaconda/lib/python2.7/site-packages/conda/cli/install.py”, line 210, in install
explicit(args_packages, prefix, verbose=not context.quiet)
File “/home/users/phonchi/cryosparc-2/cryosparc2_master/deps/anaconda/lib/python2.7/site-packages/conda/misc.py”, line 99, in explicit
link_names = {index[d][‘name’] for d in link_dists}
File “/home/users/phonchi/cryosparc-2/cryosparc2_master/deps/anaconda/lib/python2.7/site-packages/conda/misc.py”, line 99, in
link_names = {index[d][‘name’] for d in link_dists}
KeyError: Dist(_Dist__initd=True, channel=u’’, dist_name=u’readline-7.0-h7b6447c_5’, name=u’readline’, version=u’7.0’, build_string=u’h7b6447c_5’, build_number=5, with_features_depends=None, base_url=u’file:///home/users/phonchi/cryosparc-2/cryosparc2_master/deps_bundle/python/python_packages/anaconda_packages’, platform=None)

---

Done.
conda packages installation successful.

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Preparing to install all pip packages…

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 “”, line 1, in
File “/tmp/pip-Tl3xTB-build/setup.py”, line 77, in
from numpy.distutils.core import setup, Extension
ImportError: No module named numpy.distutils.core

Any suggestions? Thanks in advance !

[spunjani]

Hi @phonchi, can you please have a look at the below threads as others encountered similar issues that were solved.

Python break during install

I’m trying to install cryoSparc on a new box for us. However, I’m getting a new error during install that I don’t know how to fix. Any tips would be greatly appreciated. Thanks hansenbry@D01868462 cryosparc2-package]$ cd cryosparc2_master [hansenbry@D01868462 cryosparc2_master]$ ./install.sh --standalone --license $Licence_ID --worker_path /home/hansenbry/EMsoftware/cryosparc2-package/cryosparc2_worker --cudapath /usr/local/cuda-8.0 --ssdpath /home/hansenbry/EMsoftware/cryosparc2-package/cry…

Cryosparc can not install: No module named numpy.distutils.core

Hello, When attempting to perform the basic install I get the following: The cryoSPARC System master installation will host a database, web application, and command layer for cryoSPARC, but will not perform processing jobs. Please read and confirm the above settings. The cryoSPARC database will be stored at the database directory which is relative to the root directory, unless provided as an absolute path. You can change the database directory now by passing the --dbapth parameter to th…

Thanks!

[phonchi]

Thanks for the suggestions, I have look through the posts. However, the situation is slightly different that in my case I can not install conda packages correctly. I found that when I set my path to “/bin/python” instead of anaconda the error will become

KeyError: Dist(_Dist__initd=True, channel=u'<unknown>', dist_name=u'tk-8.6.8-hbc83047_0', name=u'tk', version=u'8.6.8', build_string=u'hbc83047_0', build_number=0, with_features_depends=None, base_url=u'file:///home/users/phonchi/cryosparc-2/cryosparc2_master/deps_bundle/python/python_packages/anaconda_packages', platform=None

instead of

KeyError: Dist(_Dist__initd=True, channel=u’’, dist_name=u’readline-7.0-h7b6447c_5’, name=u’readline’, version=u’7.0’, build_string=u’h7b6447c_5’, build_number=5, with_features_depends=None, base_url=u’file:///home/users/phonchi/cryosparc-2/cryosparc2_master/deps_bundle/python/python_packages/anaconda_packages’, platform=None)

Is there any constraint about the setting of environment variables? Thanks again for the help!