remove entrypoint

IMP

@@ -91,9 +91,9 @@ if __name__ == '__main__':
 
     # CL
     cmd = ['docker', 'run'] + mount_points + envs
-    # reconfigure entrypoint if --enter flag is specified
+    # if --enter flag is specified, change the command
     if args['--enter']:
-        cmd += ['--entrypoint /bin/bash -it']
+        cmd += ['-it /bin/bash']
     # add container name and commands to pass to snakemake
     cmd += [container_name] + args['COMMANDS']
     # parse CL correctly

docker/Dockerfile

@@ -216,5 +216,4 @@ ENV PATH /home/imp/lib/trinityrnaseq_r20140717:/home/imp/lib/Platypus_0.8.1:/hom
 
 VOLUME ["/data", "/output"]
 WORKDIR /home/imp/integrated-metaomic-pipeline
-ENTRYPOINT ["snakemake"]
-CMD ["ALL"]
+CMD ["snakemake", "ALL"]