Merge pull request #510 from broadinstitute/ct-update-snakemake

Update snakemake to 3.8.2
broadinstitute · Sep 25, 2016 · a090edd · a090edd
2 parents 8839a5c + 73fb9ca
commit a090edd
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diff --git a/pipes/Broad_UGER/run-pipe.sh b/pipes/Broad_UGER/run-pipe.sh
@@ -24,7 +24,8 @@ source activate "$CONDAENVDIR"
 # invoke Snakemake in cluster mode with custom wrapper scripts
 snakemake --timestamp --rerun-incomplete --keep-going --nolock \
     --jobs 90 --immediate-submit \
-        --latency-wait 60 \
+    --force-use-threads \
+    --latency-wait 60 \
     --config mode=UGER \
     --directory . \
     --jobscript "$BINDIR/pipes/Broad_UGER/jobscript.sh" \

diff --git a/requirements-pipes.txt b/requirements-pipes.txt
@@ -1,3 +1,3 @@
 boto==2.38.0
-snakemake==3.7.1
+snakemake==3.8.2
 PyYAML==3.11