GraphClust - structural clustering of local RNA secondary structures
1.3K
Original work from http://www.bioinf.uni-freiburg.de/Software/GraphClust/
# build
docker build -t phizaz/graphclust:0.7.6 .
# build with jupyter
docker build -t phizaz/graphclust:0.7.6-jupyter -f Dockerfile.jupyter .
# run
docker run -it --user=1000:1000 -v <src>:/home/docker/workdir phizaz/graphclust:0.7.6 bash
# run with jupyter
docker run -it --rm --user=1000:1000 -v <src>:/home/docker/workdir -p 8888:8888 phizaz/graphclust:0.7.6-jupyter --port=8888
To test the usability of this Dockerfile after you have built the image, I have provided the copy-and-paste script here for your reproducibility.
Note that it will run against my example test/test.fa (which is originally yanked from https://github.com/sarahmid/nofold/blob/master/demo/demo1/demo1.db)
docker run -it --user=1000:1000 \
-v `pwd`/test:/home/docker/workdir \
phizaz/graphclust:0.7.6 \
MASTER_GraphClust.pl \
--root run_test \
--fasta test.fa \
--config config.default_global \
--threads=4 \
--verbose
Content type
Image
Digest
Size
1020.6 MB
Last updated
about 9 years ago
docker pull phizaz/graphclust