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PRESCOTT
Commit 837ed33e by Mustafa Tekpinar
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Small changes in Dockerfile and Singularityfile.sh.

parent 6dbd9c68
Showing with 10 additions and 8 deletions
Dockerfile
...@@ -114,5 +114,5 @@ RUN pip3 install https://github.com/debbiemarkslab/EVcouplings/archive/develop.z ...@@ -114,5 +114,5 @@ RUN pip3 install https://github.com/debbiemarkslab/EVcouplings/archive/develop.z
#If you want to use the docker image like an executable file: #If you want to use the docker image like an executable file:
# Please note that you must have aliBLAT.fasta and blat-af2.pdb inside your current folder and run this command! # Please note that you must have aliBLAT.fasta and blat-af2.pdb inside your current folder and run this command!
# sudo docker run --rm -v $PWD:/home/tekpinar/research/lcqb tekpinar/prescott-docker:v1.5.0 escott aliBLAT.fasta -f aliBLAT.fasta --pdbfile blat-af2.pdb # sudo docker run --rm -v $PWD:/home/tekpinar/research/lcqb tekpinar/prescott-docker:v1.5.0 escott aliBLAT.fasta --pdbfile blat-af2.pdb
Singularityfile.sh
...@@ -12,16 +12,18 @@ ...@@ -12,16 +12,18 @@
# In addition, there are different releases(deb, rpm or source) in the following page: # In addition, there are different releases(deb, rpm or source) in the following page:
# https://github.com/sylabs/singularity/releases # https://github.com/sylabs/singularity/releases
#STEP 1: Building singularity sandbox from the docker image online: #STEP 1: Building singularity from the docker image online:
# Please note that you will need to change (v1.5.0) to the version you want # Please note that you will need to change (v1.5.0) to the version you want
# if there is an update in the version. # if there is an update in the version.
singularity build --sandbox prescott-docker-v1.5.0 docker://tekpinar/prescott-docker:v1.5.0 singularity build prescott-docker-v1.5.0.sif docker://tekpinar/prescott-docker:v1.5.0
#STEP 2: Converting the folder to a single sif file: #STEP 2: Running escott with the sif file:
singularity build prescott-docker-v1.5.0.sif prescott-docker-v1.5.0
#STEP 3: Running escott with the sif file:
singularity exec prescott-docker-v1.5.0.sif escott -h singularity exec prescott-docker-v1.5.0.sif escott -h
#STEP 4: Running prescott with the sif file: #STEP 3: Running prescott with the sif file:
singularity exec prescott-docker-v1.5.0.sif prescott -h singularity exec prescott-docker-v1.5.0.sif prescott -h
#STEP 4: Go to the folder where both aliBLAT.fasta and blat-af2.pdb are located.
# These two files are provided in the data folder of this repository.
# YOUR_SINGULARITY_DIR is where prescott-docker-v1.5.0.sif file located.
singularity exec --home `pwd` $YOUR_SINGULARITY_DIR/prescott-docker-v1.5.0.sif escott aliBLAT.fasta --pdbfile blat-af2.pdb
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