make test fails on master

[RobinAlgayres]

I followed the README procedure on RedHat Linux 7.

conda env create -n abx -f environment.yml source activate abx make install make test

And I get after make test "6 failed, 15 passed, 2 warnings in 17.17s"

More precisely the error is:

def dtw_cosine_distance(x, y, normalized): return dtw.dtw(x, y, cosine.cosine_distance, normalized) E AttributeError: module 'ABXpy.distances.metrics.dtw' has no attribute 'dtw'

If I run abx-distance I get this error:

Job 1: computing distances for block 0 on 199 Traceback (most recent call last): File "/gpfswork/rech/jvn/uul35qx/.conda/envs/ralg_env/bin/abx-distance", line 11, in sys.exit(main()) File "/gpfswork/rech/jvn/uul35qx/.conda/envs/ralg_env/lib/python3.6/site-packages/ABXpy/distance.py", line 93, in main distance=args.distance, njobs=args.njobs, group=args.group) File "/gpfswork/rech/jvn/uul35qx/.conda/envs/ralg_env/lib/python3.6/site-packages/ABXpy/distance.py", line 46, in run distancefun, normalized=normalized, n_cpu=njobs) File "/gpfswork/rech/jvn/uul35qx/.conda/envs/ralg_env/lib/python3.6/site-packages/ABXpy/distances/distances.py", line 316, in comput e_distances feature_files, feature_groups, splitted_features, 1, normalized) File "/gpfswork/rech/jvn/uul35qx/.conda/envs/ralg_env/lib/python3.6/site-packages/ABXpy/distances/distances.py", line 199, in run_di stance_job by_db = store['featdbs/' + by] TypeError: must be str, not numpy.bytes

[mmmaat]

Hi Robin!

I cannot replicate your issue. On a CentOS 6 machine (you know it as oberon ;) ) I did:

git clone git@github.com:bootphon/ABXpy.git
cd ABXpy
conda env create -n abx-test -f environment.yml
source activate abx-test
make develop  # instead of make install to avoid using sudo
make test

All the tests are passing as expected.

• Did you try using conda install -c coml abx?
• What is the version 0.1.1? Did you mean 0.4.1?
• Maybe you had an error during make install if you used it without sudo but didnt noticed it (the output is pretty verbose). You error is like if dtw.so cannot be found during execution.

[RobinAlgayres]

Indeed it was the make install. I cannot use sudo on my cluster but the "make develop" worked fine!

Thank you!