From 24f2ba4a7f38162aa38ea488e6a7e107f9b2bda9 Mon Sep 17 00:00:00 2001 From: Laurent Modolo <laurent@modolo.fr> Date: Mon, 7 Sep 2020 09:48:40 +0200 Subject: [PATCH] add option in container script --- docker_analysis.sh | 2 +- singularity_analysis.sh | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/docker_analysis.sh b/docker_analysis.sh index d701a02..b3ffa65 100755 --- a/docker_analysis.sh +++ b/docker_analysis.sh @@ -1,5 +1,5 @@ #!/bin/bash -R_CMD="-e criblejurkat::analysis(\"/root/\")" +R_CMD="-e criblejurkat::analysis(\"/root/${1}\")" docker run -it --volume $(pwd):/root/ lbmc/criblejurkat:1.0.0 R $R_CMD BASH_CMD="-e system(\"chown -R $(id -u ${USER}) /root/\")" docker run -it --volume $(pwd):/root/ lbmc/criblejurkat:1.0.0 R $BASH_CMD diff --git a/singularity_analysis.sh b/singularity_analysis.sh index 997b560..786b1ee 100755 --- a/singularity_analysis.sh +++ b/singularity_analysis.sh @@ -1,3 +1,3 @@ #!/bin/bash -R_CMD="-e criblejurkat::analysis(\"$(pwd)\")" +R_CMD="-e criblejurkat::analysis(\"${1}\")" singularity exec docker://lbmc/criblejurkat:1.0.0 R $R_CMD -- GitLab