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/cryosparc2_scratch/cryosparc_cache --initial_email hansenbry@niaid.nih.gov --initial_password Test --initial_name hansenbry
************ CRYOSPARC SYSTEM: MASTER INSTALLER **************
Installation Settings:
License ID : $License_ID
Root Directory : /home/hansenbry/EMsoftware/cryosparc2-package/cryosparc2_master
Master Hostname : D01868462.niaid.nih.gov
Database Directory : /home/hansenbry/EMsoftware/cryosparc2-package/cryosparc2_database
Base HTTP Port Number : 39000
Developer Install : false
Operating System : Linux
Insecure Install : false
Standalone Install : true
Worker Root Directory : /home/hansenbry/EMsoftware/cryosparc2-package/cryosparc2_worker
Initial User Email : hansenbry@niaid.nih.gov
Initial User Password : Test
Initial User Name : hansenbry
CUDA Path : /usr/local/cuda-8.0
SSD : true
SSD Path : /home/hansenbry/EMsoftware/cryosparc2-package/cryosparc2_scratch/cryosparc_cache
Version : v2.5.0
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 this installer, or later via the command line.
Are the above settings correct?
- Yes
- No
#? 1
Continuing.
Setting up hard-coded config.sh environment variables
Installing all dependencies.
Checking dependencies…
Dependencies for python have changed - reinstalling…
Installing anaconda python…
PREFIX=/home/hansenbry/EMsoftware/cryosparc2-package/cryosparc2_master/deps/anaconda
installing: python-2.7.14-h1571d57_29 …
Python 2.7.14 :: Anaconda, Inc.
installing: ca-certificates-2017.08.26-h1d4fec5_0 …
installing: conda-env-2.6.0-h36134e3_1 …
installing: libgcc-ng-7.2.0-h7cc24e2_2 …
installing: libstdcxx-ng-7.2.0-h7a57d05_2 …
installing: libffi-3.2.1-hd88cf55_4 …
installing: ncurses-6.0-h9df7e31_2 …
installing: openssl-1.0.2n-hb7f436b_0 …
installing: tk-8.6.7-hc745277_3 …
installing: yaml-0.1.7-had09818_2 …
installing: zlib-1.2.11-ha838bed_2 …
installing: libedit-3.1-heed3624_0 …
installing: readline-7.0-ha6073c6_4 …
installing: sqlite-3.20.1-hb898158_2 …
installing: asn1crypto-0.23.0-py27h7b0c810_0 …
installing: certifi-2017.11.5-py27h71e7faf_0 …
installing: chardet-3.0.4-py27hfa10054_1 …
installing: enum34-1.1.6-py27h99a27e9_1 …
installing: idna-2.6-py27h5722d68_1 …
installing: ipaddress-1.0.18-py27h337fd85_0 …
installing: pycosat-0.6.3-py27ha4109ae_0 …
installing: pycparser-2.18-py27hefa08c5_1 …
installing: pysocks-1.6.7-py27he2db6d2_1 …
installing: ruamel_yaml-0.11.14-py27h672d447_2 …
installing: six-1.11.0-py27h5f960f1_1 …
installing: cffi-1.11.2-py27ha7929c6_0 …
installing: setuptools-36.5.0-py27h68b189e_0 …
installing: cryptography-2.1.4-py27h6697b16_0 …
installing: wheel-0.30.0-py27h2bc6bb2_1 …
installing: pip-9.0.1-py27ha730c48_4 …
installing: pyopenssl-17.5.0-py27hcee3be0_0 …
installing: urllib3-1.22-py27ha55213b_0 …
installing: requests-2.18.4-py27hc5b0589_1 …
installing: conda-4.3.31-py27_0 …
installation finished.
Done.
anaconda python installation successful.
Preparing to install all conda packages…
Done.
conda packages installation successful.
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-cU3yvi-build/setup.py”, line 77, in
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-cU3yvi-build/
You are using pip version 9.0.1, however version 18.1 is available.
You should consider upgrading via the ‘pip install --upgrade pip’ command.
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.
************ CRYOSPARC MASTER INSTALLATION COMPLETE **************
CryoSPARC System master has now been installed.
Add bin directory to your ~/.bashrc ?
- Yes
- No
#? 1
The following lines were appended to your ~/.bashrc:
export PATH=/home/hansenbry/EMsoftware/cryosparc2-package/cryosparc2_master/bin:$PATH
************ CRYOSPARC SYSTEM: STANDALONE INSTALLER **************
The installer will now download, install and connect the worker
package on this machine. The worker package will allow cryoSPARC
to run compute jobs.
Starting cryoSPARC…
Starting cryoSPARC System master process…
/home/hansenbry/EMsoftware/cryosparc2-package/cryosparc2_master/bin/cryosparcm: line 380: supervisorctl: command not found