diff --git a/.travis.yml b/.travis.yml index db7d5c238d6fc16097afae103fb377a2f9955a78..6164353aa6e92ab038441b4e943b744d48d43553 100644 --- a/.travis.yml +++ b/.travis.yml @@ -1,3 +1,4 @@ +dist: bionic language: python python: - "3.6" @@ -17,6 +18,7 @@ before_install: # Useful for debugging any issues with conda - conda info -a - free -m + - make -v addons: apt: packages: diff --git a/docs/commandline_tutorial.rst b/docs/commandline_tutorial.rst index 874f68606fb29f138e966345c3f07105cd1ca991..a2a6d22e505c09c0bc39e569bfb4904af22c9c1c 100644 --- a/docs/commandline_tutorial.rst +++ b/docs/commandline_tutorial.rst @@ -161,7 +161,7 @@ training data. The data we use for our released predictors can be downloaded wit It looks like this: .. command-output:: - bzcat "$(mhcflurry-downloads path data_curated)/curated_training_data.no_mass_spec.csv.bz2" | head -n 3 + bzcat "$(mhcflurry-downloads path data_curated)/curated_training_data.csv.bz2" | head -n 3 :shell: :nostderr: diff --git a/test/test_class1_presentation_predictor.py b/test/test_class1_presentation_predictor.py index 35a9c6dce11e277a7153d5b234fc2f716bed8799..e144c1fd0303e94c7b0544ec48c957d55aef3039 100644 --- a/test/test_class1_presentation_predictor.py +++ b/test/test_class1_presentation_predictor.py @@ -91,13 +91,13 @@ def test_basic(): alleles=experiment_to_alleles, n_flanks=test_df.n_flank.values, c_flanks=test_df.c_flank.values, - verbose=2) + verbose=2).presentation_score.values test_df["prediction2"] = predictor.predict( peptides=test_df.peptide.values, sample_names=test_df.sample_id.values, alleles=experiment_to_alleles, - verbose=2) + verbose=2).presentation_score.values add_prediction_cols(test_df, predictor)