def tearDown(self):
filelist = ['measurements.txt', 'specimens.txt', 'samples.txt',
'sites.txt', 'locations.txt', 'custom_samples.txt']
#directory = os.path.join(WD)
pmag.remove_files(filelist, WD)
pmag.remove_files(['custom_measurements.txt'], os.path.join(WD, 'data_files'))
os.chdir(WD)
def tearDown(self):
filelist = [
'96MT.05.01.magic', 'BC0-3A.magic', 'magic_measurements.txt',
'er_specimens.txt', 'er_samples.txt', 'er_sites.txt'
]
pmag.remove_files(filelist, self.input_dir)
os.chdir(WD)
def tearDown(self):
tables = [
'measurements', 'specimens', 'samples', 'sites', 'locations',
'ages', 'criteria', 'contribution'
]
tables.extend([tname + "_errors" for tname in tables])
possible_files = os.listdir(WD)
for table in tables:
fname = table + ".txt"
if fname in possible_files:
try:
print('trying to remove', os.path.join(WD, fname))
os.remove(os.path.join(WD, fname))
except OSError:
pass
# get rid of partial upload files
# like: Tel-Hazor_Tel-Megiddo_14.Jun.2017-1.txt
pattern = re.compile('.*\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
remove = []
for f in possible_files:
if pattern.match(f):
remove.append(f)
pmag.remove_files(remove, WD)
# and any in core_depthplot
core_depthplot_dir = os.path.join(WD, 'data_files', 'core_depthplot')
possible_files = os.listdir(core_depthplot_dir)
remove = []
for f in possible_files:
if pattern.match(f):
remove.append(f)
pmag.remove_files(remove, core_depthplot_dir)
# return to WD
os.chdir(WD)
def tearDown(self):
#input_dir = os.path.join(WD, 'pmagpy_data_files', 'Measurement_Import',
#'iodp_jr6_magic')
#files = ['test.magic', 'other_er_samples.txt']
files = ['mn001-1a.magic', 'er_samples.txt', 'er_sites.txt',
'magic_measurements.txt']
pmag.remove_files(files, WD)
def tearDown(self):
tables = ['measurements', 'specimens', 'samples',
'sites', 'locations', 'ages', 'criteria',
'contribution']
tables.extend([tname + "_errors" for tname in tables])
possible_files = os.listdir(WD)
for table in tables:
fname = table + ".txt"
if fname in possible_files:
try:
print('trying to remove', os.path.join(WD, fname))
os.remove(os.path.join(WD, fname))
except OSError:
pass
# get rid of partial upload files
# like: Tel-Hazor_Tel-Megiddo_14.Jun.2017-1.txt
pattern = re.compile('.*\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
remove = []
for f in possible_files:
if pattern.match(f):
remove.append(f)
pmag.remove_files(remove, WD)
# and any in core_depthplot
core_depthplot_dir = os.path.join(WD, 'data_files', 'core_depthplot')
possible_files = os.listdir(core_depthplot_dir)
remove = []
for f in possible_files:
if pattern.match(f):
remove.append(f)
pmag.remove_files(remove, core_depthplot_dir)
# return to WD
os.chdir(WD)
def tearDown(self):
filelist = ['magic_measurements.txt', 'my_magic_measurements.txt',
'er_specimens.txt', 'er_samples.txt', 'my_er_samples.txt',
'er_sites.txt', 'rmag_anisotropy.txt',
'my_rmag_anisotropy.txt', 'rmag_results.txt',
'my_rmag_results.txt']
pmag.remove_files(filelist, WD)
def tearDown(self):
filelist = [
'magic_measurements.txt', 'er_specimens.txt', 'er_samples.txt',
'er_sites.txt'
]
pmag.remove_files(filelist, WD)
os.chdir(WD)
def tearDown(self):
filelist = [
'magic_measurements.txt', 'my_magic_measurements.txt',
'custom_specimens.txt', 'er_samples.txt', 'my_er_samples.txt',
'er_sites.txt', 'rmag_anisotropy.txt'
]
pmag.remove_files(filelist, self.atrm_WD)
os.chdir(WD)
def tearDown(self):
filelist = [
'magic_measurements.txt', 'er_specimens.txt', 'er_samples.txt',
'er_sites.txt', 'er_locations.txt'
]
#directory = os.path.join(WD)
pmag.remove_files(filelist, WD)
os.chdir(WD)
def tearDown(self):
filelist = ['sio_af_example.magic']
directory = os.path.join(WD, 'data_files', 'Measurement_Import',
'sio_magic')
pmag.remove_files(filelist, directory)
filelist = ['measurements.txt', 'specimens.txt',
'samples.txt', 'sites.txt', 'locations.txt']
pmag.remove_files(filelist, WD)
os.chdir(WD)
def tearDown(self):
#dmag_dir = os.path.join(WD, 'data_files', 'dmag_magic')
#tables = ['specimens.txt', 'samples.txt',
# 'sites.txt', 'locations.txt', 'ages.txt', 'criteria.txt',
# 'contribution.txt', 'images.txt']
#pmag.remove_files(tables, dmag_dir)
orientation_dir = os.path.join(WD, 'data_files', 'orientation_magic')
pmag.remove_files(['samples.txt', 'sites.txt'], orientation_dir)
os.chdir(WD)
def tearDown(self):
#dmag_dir = os.path.join(WD, 'data_files', 'dmag_magic')
#tables = ['specimens.txt', 'samples.txt',
# 'sites.txt', 'locations.txt', 'ages.txt', 'criteria.txt',
# 'contribution.txt', 'images.txt']
#pmag.remove_files(tables, dmag_dir)
orientation_dir = os.path.join(WD, 'data_files', 'orientation_magic')
pmag.remove_files(['samples.txt', 'sites.txt'], orientation_dir)
os.chdir(WD)
def tearDown(self):
#input_dir = os.path.join(WD, 'data_files', 'convert_2_magic',
#'iodp_jr6_magic')
#files = ['test.magic', 'other_er_samples.txt']
files = ['mn001-1a.magic', 'er_samples.txt', 'er_sites.txt',
'magic_measurements.txt']
pmag.remove_files(files, WD)
pmag.remove_files(files, os.path.join(WD, 'data_files', 'convert_2_magic',
'2g_bin_magic', 'mn1'))
os.chdir(WD)
def test_all_files_are_created(self):
files = ['locations.txt', 'sites.txt', 'samples.txt', 'specimens.txt',
'measurements.txt', 'contribution.txt']
pmag.remove_files(files, self.download_dir)
ipmag.download_magic('magic_contribution_16533.txt',
dir_path=self.download_dir,
input_dir_path=self.download_dir)
output_files = os.listdir(self.download_dir)
for f in files:
self.assertIn(f, output_files)
def tearDown(self):
filelist = [
'magic_measurements.txt', 'my_magic_measurements.txt',
'er_specimens.txt', 'er_samples.txt', 'my_er_samples.txt',
'er_sites.txt', 'rmag_anisotropy.txt', 'my_rmag_anisotropy.txt',
'rmag_results.txt', 'my_rmag_results.txt',
'agm_magic_example.magic'
]
pmag.remove_files(filelist, WD)
os.chdir(WD)
def tearDown(self):
files = ['test.magic', 'other_er_samples.txt']
pmag.remove_files(files, WD)
# then, make sure that hidden_er_samples.txt has been successfully renamed to er_samples.txt
input_dir = os.path.join(WD, 'pmagpy_data_files', 'Measurement_Import',
'iodp_jr6_magic')
hidden_sampfile = os.path.join(input_dir, 'hidden_er_samples.txt')
sampfile = os.path.join(input_dir, 'er_samples.txt')
if os.path.exists(hidden_sampfile):
os.rename(hidden_sampfile, sampfile)
def tearDown(self):
#input_dir = os.path.join(WD, 'data_files', 'Measurement_Import',
#'IODP_jr6_magic')
#files = ['test.magic', 'other_er_samples.txt']
files = [
'mn001-1a.magic', 'er_samples.txt', 'er_sites.txt',
'magic_measurements.txt'
]
pmag.remove_files(files, WD)
os.chdir(WD)
def tearDown(self):
filelist = [
'measurements.txt', 'specimens.txt', 'samples.txt', 'sites.txt',
'locations.txt', 'custom_samples.txt'
]
#directory = os.path.join(WD)
pmag.remove_files(filelist, WD)
pmag.remove_files(['custom_measurements.txt'],
os.path.join(WD, 'data_files'))
os.chdir(WD)
def tearDown(self):
filelist = ['magic_measurements.txt', 'my_magic_measurements.txt',
'er_specimens.txt', 'er_samples.txt', 'my_er_samples.txt',
'er_sites.txt', 'rmag_anisotropy.txt',
'my_rmag_anisotropy.txt', 'rmag_results.txt',
'my_rmag_results.txt', 'my_samples.txt', 'Directions.txt',
'Directions.tex', 'Intensities.txt', 'Intensities.tex',
'SiteNfo.txt', 'SiteNfo.tex', 'Specimens.txt',
'Specimens.tex', 'Criteria.txt', 'Criteria.tex']
pmag.remove_files(filelist, self.result_WD)
def tearDown(self):
files = ['test.magic', 'other_er_samples.txt']
pmag.remove_files(files, WD)
# then, make sure that hidden_er_samples.txt has been successfully renamed to er_samples.txt
input_dir = os.path.join(WD, 'data_files', 'Measurement_Import',
'IODP_jr6_magic')
hidden_sampfile = os.path.join(input_dir, 'hidden_er_samples.txt')
sampfile = os.path.join(input_dir, 'er_samples.txt')
if os.path.exists(hidden_sampfile):
os.rename(hidden_sampfile, sampfile)
os.chdir(WD)
def tearDown(self):
filelist = ['sio_af_example.magic']
directory = os.path.join(WD, 'data_files', 'Measurement_Import',
'sio_magic')
pmag.remove_files(filelist, directory)
filelist = [
'measurements.txt', 'specimens.txt', 'samples.txt', 'sites.txt',
'locations.txt'
]
pmag.remove_files(filelist, WD)
os.chdir(WD)
def tearDown(self):
filelist = ['magic_measurements.txt', 'my_magic_measurements.txt',
'er_specimens.txt', 'er_samples.txt', 'my_er_samples.txt',
'er_sites.txt', 'rmag_anisotropy.txt',
'my_rmag_anisotropy.txt', 'rmag_results.txt',
'my_rmag_results.txt', 'my_samples.txt', 'Directions.txt',
'Directions.tex', 'Intensities.txt', 'Intensities.tex',
'SiteNfo.txt', 'SiteNfo.tex', 'Specimens.txt',
'Specimens.tex', 'Criteria.txt', 'Criteria.tex']
pmag.remove_files(filelist, self.result_WD)
os.chdir(WD)
def tearDown(self):
# delete any upload file that was partially created
directory = os.path.join(WD, 'pmagpy_data_files', 'testing', 'validation')
pattern = re.compile('\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
possible_files = os.listdir(directory)
files = []
for f in possible_files:
if f not in ['location1_30.Dec.2015.txt', 'location1_30.Dec.2015_1.txt']:
if pattern.match(f):
files.append(f)
pmag.remove_files(files, directory)
def tearDown(self):
# delete any upload file that was partially created
directory = os.path.join(WD, 'data_files', 'testing', 'validation')
pattern = re.compile('\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
possible_files = os.listdir(directory)
files = []
for f in possible_files:
if f not in ['location1_30.Dec.2015.txt', 'location1_30.Dec.2015_1.txt']:
if pattern.match(f):
files.append(f)
pmag.remove_files(files, directory)
os.chdir(WD)
def tearDown(self):
filelist = ['magic_measurements.txt', 'my_magic_measurements.txt',
'custom_specimens.txt', 'er_samples.txt', 'my_er_samples.txt',
'er_sites.txt', 'rmag_anisotropy.txt']
pmag.remove_files(filelist, self.thel_WD)
glob_strings = ['*.svg', '*.png', os.path.join(self.thel_WD, "*.svg"),
os.path.join(self.thel_WD, "*.png")]
for string in glob_strings:
files = glob.glob(string)
for fname in files:
os.remove(fname)
os.chdir(WD)
def tearDown(self):
filelist = ['measurements.txt', 'specimens.txt', 'samples.txt',
'sites.txt', 'locations.txt',
'IODP_LIMS_SRMsection_366_U1494.csv.magic',
'IODP_LIMS_SRMsection_366_U1494_locations.txt',
'IODP_LIMS_SRMsection_366_U1494_samples.txt',
'IODP_LIMS_SRMsection_366_U1494_sites.txt',
'IODP_LIMS_SRMsection_366_U1494_specimens.txt']
dir_path = os.path.join(WD, 'data_files', 'UTESTA', 'SRM_data')
#directory = os.path.join(WD)
pmag.remove_files(filelist, dir_path)
os.chdir(WD)
def test_all_files_are_created(self):
files = [
'locations.txt', 'sites.txt', 'samples.txt', 'specimens.txt',
'measurements.txt', 'contribution.txt'
]
pmag.remove_files(files, self.download_dir)
ipmag.download_magic('magic_contribution_15143.txt',
dir_path=self.download_dir,
input_dir_path=self.download_dir)
output_files = os.listdir(self.download_dir)
for f in files:
self.assertIn(f, output_files)
def tearDown(self):
filelist = [
'measurements.txt', 'specimens.txt', 'samples.txt', 'sites.txt',
'locations.txt', 'IODP_LIMS_SRMsection_366_U1494.csv.magic',
'IODP_LIMS_SRMsection_366_U1494_locations.txt',
'IODP_LIMS_SRMsection_366_U1494_samples.txt',
'IODP_LIMS_SRMsection_366_U1494_sites.txt',
'IODP_LIMS_SRMsection_366_U1494_specimens.txt'
]
dir_path = os.path.join(WD, 'data_files', 'UTESTA', 'SRM_data')
#directory = os.path.join(WD)
pmag.remove_files(filelist, dir_path)
os.chdir(WD)
def tearDown(self):
files = ['test.magic', 'other_er_samples.txt',
'custom_locations.txt', 'samples.txt', 'sites.txt']
pmag.remove_files(files, WD)
# then, make sure that hidden_er_samples.txt has been successfully renamed to er_samples.txt
input_dir = os.path.join(WD, 'data_files', 'Measurement_Import',
'IODP_jr6_magic')
hidden_sampfile = os.path.join(input_dir, 'hidden_er_samples.txt')
sampfile = os.path.join(input_dir, 'er_samples.txt')
if os.path.exists(hidden_sampfile):
os.rename(hidden_sampfile, sampfile)
pmag.remove_files(['custom_specimens.txt'], 'data_files')
os.chdir(WD)
def test3_with_invalid_files(self):
dir_path = os.path.join(WD, 'data_files', '3_0', 'Megiddo')
outfile, error_message, errors, all_errors = ipmag.upload_magic3(dir_path=dir_path)
msg = "file validation has failed. You may run into problems if you try to upload this file."
self.assertEqual(error_message, msg)
# delete any upload file that was partially created
import re
pattern = re.compile('\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
possible_files = os.listdir(dir_path)
files = []
for f in possible_files:
if pattern.match(f):
files.append(f)
pmag.remove_files(files, dir_path)
def tearDown(self):
#input_dir = os.path.join(WD, 'data_files', 'convert_2_magic',
#'iodp_jr6_magic')
#files = ['test.magic', 'other_er_samples.txt']
files = [
'mn001-1a.magic', 'er_samples.txt', 'er_sites.txt',
'magic_measurements.txt'
]
pmag.remove_files(files, WD)
pmag.remove_files(
files,
os.path.join(WD, 'data_files', 'convert_2_magic', '2g_bin_magic',
'mn1'))
os.chdir(WD)
def test3_with_invalid_files(self):
dir_path = os.path.join(WD, 'data_files', '3_0', 'Megiddo')
outfile, error_message, errors, all_errors = ipmag.upload_magic3(
dir_path=dir_path)
msg = "file validation has failed. You may run into problems if you try to upload this file."
self.assertEqual(error_message, msg)
# delete any upload file that was partially created
import re
pattern = re.compile('\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
possible_files = os.listdir(dir_path)
files = []
for f in possible_files:
if pattern.match(f):
files.append(f)
pmag.remove_files(files, dir_path)
def test3_with_contribution(self):
dir_path = os.path.join(WD, 'data_files', '3_0', 'Megiddo')
con = nb.Contribution(directory=dir_path)
outfile, error_message, errors, all_errors = ipmag.upload_magic3(contribution=con)
msg = "file validation has failed. You may run into problems if you try to upload this file."
self.assertEqual(error_message, msg)
# delete any upload file that was partially created
import re
pattern = re.compile('\A[^.]*\.[a-zA-Z]*\.\d{4}\_?\d*\.txt')
possible_files = os.listdir(dir_path)
files = []
for f in possible_files:
if pattern.match(f):
files.append(f)
pmag.remove_files(files, dir_path)
def test3_with_contribution(self):
dir_path = os.path.join(WD, 'data_files', '3_0', 'Megiddo')
con = cb.Contribution(directory=dir_path)
outfile, error_message, errors, all_errors = ipmag.upload_magic(contribution=con)
msg = "Validation of your upload file has failed.\nYou can still upload"
self.assertTrue(error_message.startswith(msg))
# delete any upload file that was partially created
import re
pattern = re.compile('\A[^.]*\.[a-zA-Z]*\.\d{4}\_?\d*\.txt')
possible_files = os.listdir(dir_path)
files = []
for f in possible_files:
if pattern.match(f):
files.append(f)
pmag.remove_files(files, dir_path)
def test3_with_contribution(self):
dir_path = os.path.join(WD, 'data_files', '3_0', 'Megiddo')
con = cb.Contribution(directory=dir_path)
outfile, error_message, errors, all_errors = ipmag.upload_magic3(
contribution=con)
msg = "file validation has failed. You may run into problems if you try to upload this file."
self.assertEqual(error_message, msg)
# delete any upload file that was partially created
import re
pattern = re.compile('\A[^.]*\.[a-zA-Z]*\.\d{4}\_?\d*\.txt')
possible_files = os.listdir(dir_path)
files = []
for f in possible_files:
if pattern.match(f):
files.append(f)
pmag.remove_files(files, dir_path)
def test_with_invalid_files(self):
directory = os.path.join(self.dir_path, 'my_project_with_errors')
outfile, error_message, errors = ipmag.upload_magic(dir_path=directory)
self.assertTrue(errors)
self.assertFalse(outfile)
self.assertEqual(error_message, "file validation has failed. You may run into problems if you try to upload this file.")
directory = os.path.join(self.dir_path, 'my_project_with_errors')
# delete any upload file that was partially created
import re
pattern = re.compile('\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
possible_files = os.listdir(directory)
files = []
for f in possible_files:
if pattern.match(f):
files.append(f)
pmag.remove_files(files, directory)
def test_with_invalid_files(self):
directory = os.path.join(self.dir_path, 'my_project_with_errors')
outfile, error_message, errors = ipmag.upload_magic2(dir_path=directory)
self.assertTrue(errors)
self.assertFalse(outfile)
self.assertTrue(error_message.startswith("Validation of your upload file has failed.\nYou can still upload"))
directory = os.path.join(self.dir_path, 'my_project_with_errors')
# delete any upload file that was partially created
import re
pattern = re.compile('\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
possible_files = os.listdir(directory)
files = []
for f in possible_files:
if pattern.match(f):
files.append(f)
pmag.remove_files(files, directory)
def test_with_invalid_files(self):
directory = os.path.join(self.dir_path, 'my_project_with_errors')
outfile, error_message, errors = ipmag.upload_magic(dir_path=directory)
self.assertTrue(errors)
self.assertFalse(outfile)
self.assertEqual(error_message, "file validation has failed. You may run into problems if you try to upload this file.")
directory = os.path.join(self.dir_path, 'my_project_with_errors')
# delete any upload file that was partially created
import re
pattern = re.compile('\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
possible_files = os.listdir(directory)
files = []
for f in possible_files:
if pattern.match(f):
files.append(f)
pmag.remove_files(files, directory)
def tearDown(self):
tables = ['measurements', 'specimens', 'samples',
'sites', 'locations', 'ages', 'criteria',
'contribution']
tables.extend([tname + "_errors" for tname in tables])
possible_files = os.listdir(WD)
for table in tables:
fname = table + ".txt"
if fname in possible_files:
try:
print('trying to remove', os.path.join(WD, fname))
os.remove(os.path.join(WD, fname))
except OSError:
pass
# get rid of partial upload files
pattern = re.compile('.*\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
#pattern = re.compile('\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
remove = []
for f in possible_files:
if pattern.match(f):
remove.append(f)
pmag.remove_files(remove, WD)
os.chdir(WD)
def tearDown(self):
tables = [
'measurements', 'specimens', 'samples', 'sites', 'locations',
'ages', 'criteria', 'contribution'
]
tables.extend([tname + "_errors" for tname in tables])
possible_files = os.listdir(WD)
for table in tables:
fname = table + ".txt"
if fname in possible_files:
try:
print('trying to remove', os.path.join(WD, fname))
os.remove(os.path.join(WD, fname))
except OSError:
pass
# get rid of partial upload files
pattern = re.compile('.*\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
#pattern = re.compile('\w*[.]\w*[.]\w*[20]\d{2}\w*.txt$')
remove = []
for f in possible_files:
if pattern.match(f):
remove.append(f)
pmag.remove_files(remove, WD)
os.chdir(WD)
def tearDown(self):
filelist = ['96MT.05.01.magic', 'BC0-3A.magic',
'measurements.txt', 'specimens.txt',
'samples.txt', 'sites.txt']
pmag.remove_files(filelist, self.input_dir)
filelist = ['specimens.txt', 'samples.txt', 'sites.txt',
'locations.txt', 'custom_specimens.txt', 'measurements.txt']
pmag.remove_files(filelist, WD)
pmag.remove_files(filelist, os.path.join(WD, 'data_files'))
os.chdir(WD)
def tearDown(self):
#input_dir = os.path.join(WD, 'data_files', 'Measurement_Import',
#'IODP_jr6_magic')
#files = ['test.magic', 'other_er_samples.txt']
files = ['mn001-1a.magic', 'samples.txt', 'sites.txt',
'measurements.txt', 'locations.txt', 'specimens.txt']
pmag.remove_files(files, WD)
pmag.remove_files(['custom_specimens.txt', 'samples.txt',
'sites.txt', 'locations.txt'], 'data_files')
pmag.remove_files(files, os.path.join(WD, 'data_files', 'Measurement_Import',
'2G_bin_magic', 'mn1'))
os.chdir(WD)
def tearDown(self):
filelist = [
'96MT.05.01.magic', 'BC0-3A.magic', 'measurements.txt',
'specimens.txt', 'samples.txt', 'sites.txt'
]
pmag.remove_files(filelist, self.input_dir)
filelist = [
'specimens.txt', 'samples.txt', 'sites.txt', 'locations.txt',
'custom_specimens.txt', 'measurements.txt'
]
pmag.remove_files(filelist, WD)
pmag.remove_files(filelist, os.path.join(WD, 'data_files'))
os.chdir(WD)
def tearDown(self):
filelist = ['measurements.txt', 'specimens.txt',
'samples.txt', 'sites.txt', 'locations.txt']
pmag.remove_files(filelist, WD)
#loc_file = 'custom_locations.txt'
filelist = ['measurements.txt', 'specimens.txt',
'samples.txt', 'sites.txt', 'custom_locations.txt']
dir_path = os.path.join(WD, 'data_files')
pmag.remove_files(filelist, dir_path)
samp_file = 'custom_samples.txt'
dir_path = os.path.join(WD, 'data_files',
'Measurement_Import',
'CIT_magic', 'PI47')
pmag.remove_files([samp_file], dir_path)
os.chdir(WD)
def tearDown(self):
#input_dir = os.path.join(WD, 'data_files', 'Measurement_Import',
#'IODP_jr6_magic')
#files = ['test.magic', 'other_er_samples.txt']
files = [
'mn001-1a.magic', 'samples.txt', 'sites.txt', 'measurements.txt',
'locations.txt', 'specimens.txt'
]
pmag.remove_files(files, WD)
pmag.remove_files([
'custom_specimens.txt', 'samples.txt', 'sites.txt', 'locations.txt'
], 'data_files')
pmag.remove_files(
files,
os.path.join(WD, 'data_files', 'Measurement_Import',
'2G_bin_magic', 'mn1'))
os.chdir(WD)
def tearDown(self):
filelist = [
'measurements.txt', 'specimens.txt', 'samples.txt', 'sites.txt',
'locations.txt'
]
pmag.remove_files(filelist, WD)
#loc_file = 'custom_locations.txt'
filelist = [
'measurements.txt', 'specimens.txt', 'samples.txt', 'sites.txt',
'custom_locations.txt'
]
dir_path = os.path.join(WD, 'data_files')
pmag.remove_files(filelist, dir_path)
samp_file = 'custom_samples.txt'
dir_path = os.path.join(WD, 'data_files', 'Measurement_Import',
'CIT_magic', 'PI47')
pmag.remove_files([samp_file], dir_path)
os.chdir(WD)
def tearDown(self):
files = [
'test.magic', 'other_er_samples.txt', 'custom_locations.txt',
'samples.txt', 'sites.txt'
]
pmag.remove_files(files, WD)
def tearDown(self):
filelist = ['sio_af_example.magic']
directory = os.path.join(WD, 'data_files', 'Measurement_Import',
'sio_magic')
pmag.remove_files(filelist, directory)
os.chdir(WD)
def tearDown(self):
tables = [
'measurements.txt', 'specimens.txt', 'samples.txt',
'locations.txt', 'ages.txt', 'criteria.txt', 'contribution.txt'
]
pmag.remove_files(tables, self.download_dir)
def tearDown(self):
filelist = ['96MT.05.01.magic', 'BC0-3A.magic',
'magic_measurements.txt', 'er_specimens.txt',
'er_samples.txt', 'er_sites.txt']
pmag.remove_files(filelist, self.input_dir)
os.chdir(WD)
def on_okButton(self, event):
meas_files = []
spec_files = []
samp_files = []
site_files = []
loc_files = []
for i in range(self.max_files):
# read directory path
dirpath = self.dir_paths[i].GetValue()
if dirpath != "":
dir_name = os.path.realpath(dirpath)
#dir_name = str(dirpath.split("/")[-1])
else:
continue
# get location
location_name = self.file_locations[i].GetValue()
# get sample-specimen naming convention
samp_con = str(self.naming_con_boxes[i].GetValue())
samp_chars = str(self.naming_con_char[i].GetValue())
samp_chars = samp_chars.strip('"').strip("'")
if samp_con == "character delimited" and not samp_chars:
pw.simple_warning(
"To delimit samples by character, you must provide the delimiter, (eg. \"-\" or \"_\")!"
)
return
# get site-sample naming convention
site_con = str(self.site_name_conventions[i].GetValue())
site_chars = str(self.site_name_chars[i].GetValue())
site_chars = site_chars.strip('"').strip("'")
if site_con == "character delimited" and not site_chars:
pw.simple_warning(
"To delimit sites by character, you must provide the delimiter, (eg. \"-\" or \"_\")!"
)
return
# name output files
if self.data_model_num == 2:
meas_out = "magic_measurements_{}.txt".format(i)
spec_out = "er_specimens_{}.txt".format(i)
samp_out = "er_samples_{}.txt".format(i)
site_out = "er_sites_{}.txt".format(i)
loc_out = "er_locations_{}.txt".format(i)
else:
meas_out = "measurements_{}.txt".format(i)
spec_out = "specimens_{}.txt".format(i)
samp_out = "samples_{}.txt".format(i)
site_out = "sites_{}.txt".format(i)
loc_out = "locations_{}.txt".format(i)
# do conversion
convert.livdb(dir_name, self.WD, meas_out, spec_out, samp_out,
site_out, loc_out, samp_con, samp_chars, site_con,
site_chars, location_name)
meas_files.append(meas_out)
spec_files.append(spec_out)
samp_files.append(samp_out)
site_files.append(site_out)
loc_files.append(loc_out)
if self.data_model_num == 2:
res = ipmag.combine_magic(meas_files, "magic_measurements.txt", 2)
ipmag.combine_magic(spec_files, "er_specimens.txt", 2)
else:
res = ipmag.combine_magic(meas_files, "measurements.txt", 3)
ipmag.combine_magic(spec_files, "specimens.txt", 3)
ipmag.combine_magic(samp_files, "samples.txt", 3)
ipmag.combine_magic(site_files, "sites.txt", 3)
ipmag.combine_magic(loc_files, "locations.txt", 3)
pmag.remove_files(meas_files)
pmag.remove_files(spec_files)
pmag.remove_files(samp_files)
pmag.remove_files(site_files)
pmag.remove_files(loc_files)
if res:
self.after_convert_dia()
else:
pw.simple_warning(
"Something when wrong with one or more of your files.\nSee Terminal/Command Prompt output for more details"
)
def tearDown(self):
os.chdir(WD)
filelist = ['er_samples.txt']
pmag.remove_files(filelist, WD)
def tearDown(self):
filelist = ['sio_af_example.magic']
directory = os.path.join(WD, 'data_files', 'convert_2_magic',
'sio_magic')
pmag.remove_files(filelist, directory)
os.chdir(WD)
def tearDown(self):
filelist = ['magic_measurements.txt', 'er_specimens.txt',
'er_samples.txt', 'er_sites.txt']
pmag.remove_files(filelist, WD)
os.chdir(WD)
def tearDown(self):
filelist = ['sio_af_example.magic']
directory = os.path.join(WD, 'data_files', 'Measurement_Import',
'sio_magic')
pmag.remove_files(filelist, directory)
os.chdir(WD)
def tearDown(self):
filelist = ['magic_measurements.txt', 'er_specimens.txt', 'er_samples.txt', 'er_sites.txt', 'er_locations.txt']
#directory = os.path.join(WD)
pmag.remove_files(filelist, WD)
os.chdir(WD)
def tearDown(self):
filelist = ['sio_af_example.magic']
directory = os.path.join(WD, 'data_files', 'convert_2_magic',
'sio_magic')
pmag.remove_files(filelist, directory)
os.chdir(WD)
def tearDown(self):
outfiles = ['custom_outfile.txt']
pmag.remove_files(outfiles, self.input_dir)
pmag.remove_files(['custom.out'], WD)
def tearDown(self):
filelist = ['magic_measurements.txt', 'my_magic_measurements.txt', 'er_specimens.txt', 'er_samples.txt', 'my_er_samples.txt', 'er_sites.txt', 'rmag_anisotropy.txt', 'my_rmag_anisotropy.txt', 'rmag_results.txt', 'my_rmag_results.txt', 'agm_magic_example.magic']
pmag.remove_files(filelist, WD)
pmag.remove_files(filelist, os.path.join(WD, 'data_files', 'agm_magic'))
os.chdir(WD)
def tearDown(self):
os.chdir(WD)
filelist = ['er_samples.txt']
pmag.remove_files(filelist, WD)
