add kraken share db

lskatz · May 29, 2024 · 86c3892 · 86c3892
1 parent 6ee0d94
commit 86c3892
Showing 1 changed file with 8 additions and 3 deletions.
diff --git a/.github/workflows/unittests.yml b/.github/workflows/unittests.yml
@@ -178,12 +178,17 @@ jobs:
         name: prove-lv-t
         shell: bash -el {0}
         run:  |
-          #eval $(perl -I $HOME/perl5/lib/perl5/ -Mlocal::lib)
           mkdir -v $GITHUB_WORKSPACE/tmp
           export TMPDIR=$GITHUB_WORKSPACE/tmp
           cd $GITHUB_WORKSPACE/SneakerNet
-          sed -i 's+/opt/kraken/full-20140723+/kraken-database+g' config/settings.conf
-          #prove -lv t
+          #sed -i 's+/opt/kraken/full-20140723+/kraken-database+g' config/settings.conf
+          sed -i '/KRAKEN_DEFAULT_DB/d' config/settings.conf
+          condabin=$(dirname $(which downloadKalamari.sh))
+          kalamari_ver=$(downloadKalamari.pl --version)
+          kraken_dir="$condabin/../share/kalamari-$kalamari_ver/kraken"
+          echo $kraken_dir
+          ls -lh $kraken_dir
+          echo "KRAKEN_DEFAULT_DB=$kraken_dir" >> config/settings.conf
           make
           make test