From b7020d7551171c5ebc332f9d90c1dfd576ba78a9 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Wed, 29 Mar 2023 13:21:47 +0200
Subject: [PATCH] add fastkmer.sh

---
 src/fastkmers.sh | 14 ++++++++++++++
 src/kmdiff.sh    |  2 +-
 2 files changed, 15 insertions(+), 1 deletion(-)
 create mode 100644 src/fastkmers.sh

diff --git a/src/fastkmers.sh b/src/fastkmers.sh
new file mode 100644
index 0000000..7229867
--- /dev/null
+++ b/src/fastkmers.sh
@@ -0,0 +1,14 @@
+# build docker image
+docker build src/fastkmer -t 'lbmc/fastkmers:025efdf'
+docker push lbmc/fastkmers:025efdf
+
+# build charliecloud image
+ch-image pull -s /Xnfs/abc/charliecloud/ lbmc/fastkmers:025efdf
+update_ch_image.sh
+
+alias fastkmers="ch-run -b /scratch -c $PWD /Xnfs/abc/charliecloud/img/lbmc%fastkmers+025efdf -- fastkmers"
+
+WORK=$(pwd)
+mkdir results/
+
+
diff --git a/src/kmdiff.sh b/src/kmdiff.sh
index c05c132..17c5ba4 100644
--- a/src/kmdiff.sh
+++ b/src/kmdiff.sh
@@ -1,5 +1,5 @@
 # build docker image
-docker build src/ -t 'lbmc/kmdiff:1.0.1'
+docker build src/kmdiff/ -t 'lbmc/kmdiff:1.0.1'
 docker push lbmc/kmdiff:1.0.1
 
 # build charliecloud image
-- 
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