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https://github.com/mskcc/cmo
Command-line tools for data analysts at the CMO
https://github.com/mskcc/cmo
Last synced: about 1 month ago
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Command-line tools for data analysts at the CMO
- Host: GitHub
- URL: https://github.com/mskcc/cmo
- Owner: mskcc
- License: gpl-2.0
- Created: 2015-07-28T13:43:17.000Z (over 9 years ago)
- Default Branch: master
- Last Pushed: 2023-06-22T09:39:36.000Z (over 1 year ago)
- Last Synced: 2023-08-06T05:35:11.060Z (over 1 year ago)
- Language: Python
- Homepage:
- Size: 2.12 MB
- Stars: 7
- Watchers: 75
- Forks: 12
- Open Issues: 1
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Awesome Lists containing this project
README
## For users of the luna cluster at MSKCC CMO
Add this to your `~/.profile` to get access to the `cmo_*` and `cmoflow_*` tools:
```bash
# Set PATH to include MSKCC's bin of tools, if found
if [ -d "/opt/common/CentOS_6-dev/bin/current" ]; then
PATH="/opt/common/CentOS_6-dev/bin/current:$PATH"
fi
# Set PATH to include MSKCC's bin of python tools, if found
if [ -d "/opt/common/CentOS_6-dev/python/python-2.7.10/bin" ]; then
PATH="/opt/common/CentOS_6-dev/python/python-2.7.10/bin:$PATH"
fi
```
Documentation [lives here](http://plvcbiocmo2.mskcc.org), and running workflows can be [tracked here](https://haystack.mskcc.org/workflows).
## For external users
Here is how to install these tools without sudo rights:
```bash
curl -LO https://github.com/mskcc/cmo/archive/master.zip
unzip master.zip
cd cmo-master
python setup.py install --user
```
Add this to your `~/.profile` to get access to the `cmo_*` and `cmoflow_*` tools:
```bash
# Set PATH to include local python bin if found
if [ -d "$HOME/.local/bin" ]; then
PATH="$HOME/.local/bin:$PATH"
fi
```
## For all other users
