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BergmannLab / MONET

MONET : MOdularising NEtwork Toolbox - https://doi.org/10.1093/bioinformatics/btaa236
GNU General Public License v3.0
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manual install #36

Closed gianfilippo closed 4 years ago

gianfilippo commented 4 years ago

Hi, I tried the manual install. The cluster I am using can run singularity, so after the installation I tested it as follow monet --input=.monet/test/system_test/input/zachary_karate_club.txt --method=K1 --container=singularity

The output is MONET: MOdularising NEtwork Toolbox for mining of molecular and genetic networks (DREAM challenge Disease Module Identification)

Method: K1 Input: zachary_karate_club.txt Container: singularity Preparing container, please wait... ERROR: singularity build returned an error

singularity is running on the cluster, so I am not sure about this issue. Do you have any suggestions ? Thanks

mattiat commented 4 years ago

To reproduce:

image
Zolikazer commented 4 years ago

I have the same issue but with docker. The problem is that the K1 container is built from the latest ubuntu, and 20.04 was just recently released, which became the latest. In the latest image the "RUN apt-get -y install python-igraph" and the "RUN apt install -y python-pip && pip install --upgrade pip" commands break the container building. I think the easiest fix is to fix the image version to "ubuntu:19.10". It worked for me, and with fixing the version similar problems in the future can be avoided.

mattiat commented 4 years ago

Fixed 67ac04d @Zolikazer and @gianfilippo gianfilippo: thank you for your feedback and sorry about the delay!