From 6d636149cfad5e7a5f03215d877d1a64bfd6ae2c Mon Sep 17 00:00:00 2001
From: Jeremy Mathews <Jeremy.Mathews@utsouthwestern.edu>
Date: Wed, 17 Jul 2019 13:50:54 -0500
Subject: [PATCH] fix design fixture
---
workflow/tests/test_pool_and_psuedoreplicate.py | 9 ++++-----
1 file changed, 4 insertions(+), 5 deletions(-)
diff --git a/workflow/tests/test_pool_and_psuedoreplicate.py b/workflow/tests/test_pool_and_psuedoreplicate.py
index f0b08fd..17ff919 100644
--- a/workflow/tests/test_pool_and_psuedoreplicate.py
+++ b/workflow/tests/test_pool_and_psuedoreplicate.py
@@ -10,12 +10,11 @@ import shutil
test_output_path = os.path.dirname(os.path.abspath(__file__)) + \
'/../output/design/'
-DESIGN_STRING = """sample_id\ttag_align\txcor\tbiosample\tfactor\ttreatment\treplicate\tcontrol_tag_align
-A_1\tA_1.bedse.gz\tA_1.cc.qc\tLiver\tH3K27ac\tNone\t1\tB_1.bedse.gz
-A_2\tA_2.bedse.gz\tA_2.cc.qc\tLiver\tH3K27ac\tNone\t2\tB_2.bedse.gz
+DESIGN_STRING = """sample_id\tse_tag_align\ttag_align\txcor\texperiment_id\tbiosample\tfactor\ttreatment\treplicate\tcontrol_id\tcontrol_tag_align
+A_1\tA_1.tagAlign.gz\tA_1.bedse.gz\tA_1.cc.qc\tA\tLiver\tH3K27ac\tNone\t1\tB_1\tB_1.bedse.gz
+A_2\tA_2.tagAlign.gz\tA_2.bedse.gz\tA_2.cc.qc\tA\tLiver\tH3K27ac\tNone\t2\tB_2\tB_2.bedse.gz
"""
-
@pytest.fixture
def design_experiment():
design_file = StringIO(DESIGN_STRING)
@@ -64,7 +63,7 @@ def test_check_controls_single(design_experiment_3):
@pytest.mark.unit
def test_single_rep(design_experiment_2):
cwd = os.getcwd()
- shutil.copy('/project/shared/bicf_workflow_ref/workflow_testdata/chipseq/B_1.bedse.gz', cwd)
+ shutil.copy('/../../test_data/B_1.bedse.gz', cwd)
single_rep = pool_and_psuedoreplicate.generate_design('false', 1.2, design_experiment_2, cwd, 1, 1)
--
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