added setup for DeepARG in set-up.sh (issue #19)

78baf4ff · Valentina Galata · 8807fe5b · 78baf4ff
Commit 78baf4ff authored Apr 21, 2020 by Valentina Galata
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set-up.sh set-up.sh +11 -0

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--- a/set-up.sh
+++ b/set-up.sh
@@ -14,3 +14,14 @@ git clone https://github.com/simroux/VirSorter.git
 cd VirSorter/Scripts
 make clean
 make
+
+###########
+# DeepARG #
+###########
+# From installation instructions: https://bitbucket.org/gusphdproj/deeparg-ss/src/master/
+
+# replace path in options.py
+sed -i 's@^path\s*=.*$@path = "'$(realpath submodules/deeparg-ss)'"@' submodules/deeparg-ss/options.py
+
+# make DIAMOND binary executable
+chmod +x submodules/deeparg-ss/bin/diamond