From 8c4055a0a6a31ccbd3b0a64670961c3598cfabc0 Mon Sep 17 00:00:00 2001
From: Tim O'Donnell <timodonnell@gmail.com>
Date: Sat, 21 Mar 2020 15:26:27 -0400
Subject: [PATCH] fix
---
.travis.yml | 2 ++
docs/commandline_tutorial.rst | 2 +-
test/test_class1_presentation_predictor.py | 4 ++--
3 files changed, 5 insertions(+), 3 deletions(-)
diff --git a/.travis.yml b/.travis.yml
index db7d5c23..6164353a 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 874f6860..a2a6d22e 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 35a9c6dc..e144c1fd 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)
--
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