From 302a2915be6ff395e60f6d5e6841cc4523e99185 Mon Sep 17 00:00:00 2001
From: Venkat Malladi <venkat.malladi@utsouthwestern.edu>
Date: Fri, 19 Apr 2019 12:33:02 -0500
Subject: [PATCH] Update tests and import of yaml.
---
workflow/tests/test_annotate_peaks.py | 2 +-
workflow/tests/test_generate_software_references.py | 1 +
workflow/tests/test_generate_software_versions.py | 1 +
workflow/tests/test_overlap_peaks.py | 2 +-
4 files changed, 4 insertions(+), 2 deletions(-)
diff --git a/workflow/tests/test_annotate_peaks.py b/workflow/tests/test_annotate_peaks.py
index 1342a12..3df797b 100644
--- a/workflow/tests/test_annotate_peaks.py
+++ b/workflow/tests/test_annotate_peaks.py
@@ -24,7 +24,7 @@ def test_upsetplot_singleend():
def test_annotation_singleend():
annotation_file = test_output_path + 'ENCSR238SGC.chipseeker_annotation.tsv'
assert os.path.exists(annotation_file)
- assert utils.count_lines(annotation_file) == 152255
+ assert utils.count_lines(annotation_file) == 149284
@pytest.mark.pairedend
diff --git a/workflow/tests/test_generate_software_references.py b/workflow/tests/test_generate_software_references.py
index 3b6fe20..a627887 100644
--- a/workflow/tests/test_generate_software_references.py
+++ b/workflow/tests/test_generate_software_references.py
@@ -3,6 +3,7 @@
import pytest
import os
import utils
+import yaml
test_output_path = os.path.dirname(os.path.abspath(__file__)) + \
'/../output/softwareReport/'
diff --git a/workflow/tests/test_generate_software_versions.py b/workflow/tests/test_generate_software_versions.py
index 77489a8..276fc96 100644
--- a/workflow/tests/test_generate_software_versions.py
+++ b/workflow/tests/test_generate_software_versions.py
@@ -3,6 +3,7 @@
import pytest
import os
import utils
+import yaml
test_output_path = os.path.dirname(os.path.abspath(__file__)) + \
'/../output/softwareReport/'
diff --git a/workflow/tests/test_overlap_peaks.py b/workflow/tests/test_overlap_peaks.py
index ff61c93..411bfd0 100644
--- a/workflow/tests/test_overlap_peaks.py
+++ b/workflow/tests/test_overlap_peaks.py
@@ -37,7 +37,7 @@ def test_check_update_design(design_diff):
def test_overlap_peaks_singleend():
assert os.path.exists(os.path.join(test_output_path, 'ENCSR238SGC.rejected.narrowPeak'))
peak_file = test_output_path + 'ENCSR238SGC.replicated.narrowPeak'
- assert utils.count_lines(peak_file) == 152262
+ assert utils.count_lines(peak_file) == 149291
@pytest.mark.pairedend
--
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