Installing dependencies (bash install_dependencies.sh

kundajelab / atac_dnase_pipelines

ATAC-seq and DNase-seq processing pipeline

BSD 3-Clause "New" or "Revised" License

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Installing dependencies (bash install_dependencies.sh #138

Open grrompala opened 5 years ago

grrompala commented 5 years ago

Hi, Notably, I've previously installed the pipeline and it has worked fine.

This time the install_dependencies.sh step is failing to complete (see attached). When I try to go ahead and run the pipeline it fails at the atacqc step with an import numpy array error. I'm assuming the problem indeed stems from the dependencies installation.

I've tried uninstalling and re-installing and clearing my bashrc to no avail.

Let me know if I can provide anymore info. Thanks!

output.txt

leepc12 commented 5 years ago

This has already been fixed in this commit https://github.com/kundajelab/atac_dnase_pipelines/commit/d110085fcb3d0fdfdf486c94afbdf8aec93ad0e6#diff-46df23ddb8dc0e0db77265566b265050.

Please git pull the latest pipeline and try again. Also, this repo has been deprecated. Please try our new pipeline https://github.com/ENCODE-DCC/atac-seq-pipeline/.