From a39198b6809a60b04e224877a31024586a95b868 Mon Sep 17 00:00:00 2001
From: Venkat Malladi <venkat.malladi@utsouthwestern.edu>
Date: Mon, 9 Oct 2017 06:54:14 -0500
Subject: [PATCH] Update path to files to pass tests.
---
workflow/tests/test_map_reads.py | 2 +-
workflow/tests/test_trim_reads.py | 6 +++---
2 files changed, 4 insertions(+), 4 deletions(-)
diff --git a/workflow/tests/test_map_reads.py b/workflow/tests/test_map_reads.py
index bddf854..ba9587e 100644
--- a/workflow/tests/test_map_reads.py
+++ b/workflow/tests/test_map_reads.py
@@ -6,7 +6,7 @@ import os
def test_map_reads_singleend():
aligned_reads_report = os.path.dirname(os.path.abspath(__file__)) + \
- '../output/alignReads/ENCFF646LXU.srt.bam.flagstat.qc'
+ '/../output/alignReads/ENCFF646LXU.srt.bam.flagstat.qc'
samtools_report = open(aligned_reads_report).readlines()
assert '80795025' in samtools_report[1]
assert '80050072' in samtools_report[5]
diff --git a/workflow/tests/test_trim_reads.py b/workflow/tests/test_trim_reads.py
index 0cf4a29..faf1062 100644
--- a/workflow/tests/test_trim_reads.py
+++ b/workflow/tests/test_trim_reads.py
@@ -6,11 +6,11 @@ import os
def test_trim_reads_singleend():
raw_fastq = os.path.dirname(os.path.abspath(__file__)) + \
- '../../test_data/ENCFF833BLU_fastq.gz'
+ '/../../test_data/ENCFF833BLU_fastq.gz'
trimmed_fastq = os.path.dirname(os.path.abspath(__file__)) + \
- '../output/trimReads/ENCFF833BLU_trimmed.fq.gz'
+ '/../output/trimReads/ENCFF833BLU_trimmed.fq.gz'
trimmed_fastq_report = os.path.dirname(os.path.abspath(__file__)) + \
- '../output/trimReads/ENCFF833BLU.fastq.gz_trimming_report.txt'
+ '/../output/trimReads/ENCFF833BLU.fastq.gz_trimming_report.txt'
assert os.path.getsize(raw_fastq) != os.path.getsize(trimmed_fastq)
assert os.path.getsize(trimmed_fastq) == 2512853101
assert 'Trimming mode: single-end' in open(trimmed_fastq_report).readlines()[4]
--
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