Travis: mash on path

bacpop · Jun 4, 2018 · b0a7189 · b0a7189
1 parent 4807a37
commit b0a7189
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Showing 2 changed files with 2 additions and 1 deletion.
diff --git a/.travis.yml b/.travis.yml
@@ -5,6 +5,7 @@ python:
 install:
   - pip install -r requirements.txt
   - wget https://github.com/marbl/Mash/releases/download/v2.0/mash-Linux64-v2.0.tar && tar xf mash-Linux64-v2.0.tar
+  - export PATH=$PATH:$PWD/mash-Linux64-v2.0
 before_script: # to get matplotlib to work
   - "export DISPLAY=:99.0"
   - "sh -e /etc/init.d/xvfb start"

diff --git a/test/run_test.py b/test/run_test.py
@@ -18,7 +18,7 @@
 
 #easy run
 sys.stderr.write("Running database creation + BGMM model fit (--easy-run)\n")
-subprocess.run("python ../poppunk-runner.py --easy-run --r-files references.txt --min-k 13 --k-step 3 --output example_db --full-db --K 4 --mash" + mash_exec, shell=True, check=True)
+subprocess.run("python ../poppunk-runner.py --easy-run --r-files references.txt --min-k 13 --k-step 3 --output example_db --full-db --K 4 --mash " + mash_exec, shell=True, check=True)
 
 #fit dbscan
 sys.stderr.write("Running HDBSCAN model fit (--fit-model)\n")