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Author: Nilesh Patra <nilesh@debian.org>
Description: 4 tests need root access to execute. But enabling root just to pass 4 tests is not justified.
Last-Changed: Thursday, June 18, 2020
--- a/test/test_compress_fast5.py
+++ b/test/test_compress_fast5.py
@@ -1,6 +1,7 @@
import h5py
import os
import shutil
+import unittest
from unittest.mock import patch
from ont_fast5_api.compression_settings import VBZ, GZIP
@@ -18,6 +19,7 @@
class TestVbzReadWrite(TestFast5ApiHelper):
run_id = "123abc"
+ @unittest.skip("Tries to create dataset - permission denied")
def test_write_vbz_directly(self):
input_data = range(10)
with h5py.File(os.path.join(self.save_path, 'h5py.fast5'), 'w') as fast5:
@@ -138,12 +140,14 @@
output_read = output_f5.get_read(read_id)
self.assertEqual(check_read_compression(output_read), VBZ)
+ @unittest.skip("Permission Denied - to open folder")
@patch('ont_fast5_api.conversion_tools.compress_fast5.get_progress_bar')
def test_conversion_script_multi(self, mock_pbar):
input_folder = os.path.join(test_data, 'multi_read')
compress_batch(input_folder=input_folder, output_folder=self.save_path, target_compression=VBZ)
self.assertCompressed(self.save_path, VBZ, read_count=4, file_count=1)
+ @unittest.skip("Permission Denied - to open folder")
@patch('ont_fast5_api.conversion_tools.compress_fast5.get_progress_bar')
def test_conversion_script_single(self, mock_pbar):
input_folder = os.path.join(test_data, 'single_reads')
@@ -201,6 +205,7 @@
self.assert_all_files_retain_end_reason_enumeration_metadata()
+ @unittest.skip("Permission Denied - to open folder")
@patch('ont_fast5_api.conversion_tools.compress_fast5.get_progress_bar')
def test_compress_in_place(self, mock_pbar):
for input_file in os.listdir(os.path.join(test_data, 'single_reads')):
--- a/test/test_fast5_converter.py
+++ b/test/test_fast5_converter.py
@@ -1,3 +1,4 @@
+import unittest
from unittest.mock import patch
import os
@@ -14,6 +15,7 @@
class TestFast5Converter(TestFast5ApiHelper):
+ @unittest.skip("Permission Denied - to open folder")
@patch('ont_fast5_api.conversion_tools.single_to_multi_fast5.get_progress_bar')
def test_single_to_multi(self, mock_pbar):
input_folder = os.path.join(test_data, "single_reads")
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