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pachterlab / sircel

Identify cell barcodes from single-cell genomics sequencing experiments
MIT License
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Improve Installation Documentation #16

Open marcc-hpc opened 6 years ago

marcc-hpc commented 6 years ago

Hi,

Working with a user here using your software.

I think if would benefit if you provide users with an end-to-end installation example running with Anaconda:

I've worked on a solution that does that here and would be happy to incorporate this into your documentation

https://gist.github.com/marcc-hpc/b15236cf569336d29947854d88e81ae2

Kevin from MARCC (www.marcc.jhu.edu)

cgirardot commented 5 years ago

same here, after install execution fails due to redis missing.

/sircel/sircel Traceback (most recent call last): File "./sircel/sircel", line 11, in load_entry_point('sircel==0.1.2', 'console_scripts', 'sircel')() File "/g/funcgen/gbcs/public/software/conda/envs/sircel_25042019/lib/python3.7/site-packages/pkg_resources/init.py", line 489, in load_entry_point return get_distribution(dist).load_entry_point(group, name) File "/g/funcgen/gbcs/public/software/conda/envs/sircel_25042019/lib/python3.7/site-packages/pkg_resources/init.py", line 2843, in load_entry_point return ep.load() File "/g/funcgen/gbcs/public/software/conda/envs/sircel_25042019/lib/python3.7/site-packages/pkg_resources/init.py", line 2434, in load return self.resolve() File "/g/funcgen/gbcs/public/software/conda/envs/sircel_25042019/lib/python3.7/site-packages/pkg_resources/init.py", line 2440, in resolve module = import(self.module_name, fromlist=['name'], level=0) File "/g/funcgen/gbcs/public/software/conda/envs/sircel_25042019/lib/python3.7/site-packages/sircel-0.1.2-py3.7.egg/sircel/init.py", line 1, in from sircel.Sircel_master import get_args, run_all File "/g/funcgen/gbcs/public/software/conda/envs/sircel_25042019/lib/python3.7/site-packages/sircel-0.1.2-py3.7.egg/sircel/Sircel_master.py", line 7, in from sircel.utils import IO_utils, Plot_utils File "/g/funcgen/gbcs/public/software/conda/envs/sircel_25042019/lib/python3.7/site-packages/sircel-0.1.2-py3.7.egg/sircel/utils/init.py", line 2, in from sircel.utils.IO_utils import * File "/g/funcgen/gbcs/public/software/conda/envs/sircel_25042019/lib/python3.7/site-packages/sircel-0.1.2-py3.7.egg/sircel/utils/IO_utils.py", line 13, in import redis ModuleNotFoundError: No module named 'redis'