diff --git a/wetb/fast/fast_io.py b/wetb/fast/fast_io.py
index 7d331df5903f74899c1a329c8989f2bbbc8799fd..78e4859f016d3e1ff218fed3b532d16aba65e909 100644
--- a/wetb/fast/fast_io.py
+++ b/wetb/fast/fast_io.py
@@ -37,7 +37,7 @@ def load_output(filename):
"""
assert os.path.isfile(filename), "File, %s, does not exists" % filename
- with open(filename, 'r') as f:
+ with open(filename, 'r', encoding='utf-8') as f:
try:
f.readline()
except UnicodeDecodeError:
@@ -45,7 +45,7 @@ def load_output(filename):
return load_ascii_output(filename)
def load_ascii_output(filename):
- with open(filename) as f:
+ with open(filename, encoding='utf-8') as f:
info = {}
info['name'] = os.path.splitext(os.path.basename(filename))[0]
try:
diff --git a/wetb/hawc2/ascii2bin/ascii2bin.py b/wetb/hawc2/ascii2bin/ascii2bin.py
index 11a09717917ec135e58de913e94dca69ac2d3d8b..f8280ae9ada6c572eb4c207591e8995786e0bf63 100644
--- a/wetb/hawc2/ascii2bin/ascii2bin.py
+++ b/wetb/hawc2/ascii2bin/ascii2bin.py
@@ -24,7 +24,7 @@ class TextUI(object):
sys.path.append(".")
def size_from_file(selfilename):
- with open(selfilename) as f:
+ with open(selfilename, encoding='utf-8') as f:
info = f.readlines()[8].split()
scans = int(info[0])
no_sensors = int(info[1])
@@ -39,7 +39,7 @@ def ascii2bin(ascii_selfilename, bin_selfilename=None, ui=TextUI()):
# Read, convert and write sel file
- with open(ascii_selfilename) as f:
+ with open(ascii_selfilename, encoding='utf-8') as f:
lines = f.readlines()
if "BINARY" in lines[8]:
@@ -54,7 +54,7 @@ def ascii2bin(ascii_selfilename, bin_selfilename=None, ui=TextUI()):
scale_factors = pandas_dat_ascii2bin(ascii_datfilename, bin_selfilename.replace('.sel', '.dat'), ui)
for sf in scale_factors:
lines.append(" %.5E\n" % sf)
- with open(bin_selfilename, 'w') as f:
+ with open(bin_selfilename, 'w', encoding='utf-8') as f:
f.writelines(lines)
if ui is not None:
ui.show_message("Finish converting %s to %s" % (ascii_selfilename, bin_selfilename))
diff --git a/wetb/hawc2/at_time_file.py b/wetb/hawc2/at_time_file.py
index bc1bb4f241bec4f4a211d5a239b7f927904aab42..38cbff60dd6c82d728fc53c2d3ab1a1bcb5418d9 100644
--- a/wetb/hawc2/at_time_file.py
+++ b/wetb/hawc2/at_time_file.py
@@ -27,7 +27,7 @@ class AtTimeFile(object):
-5.34743208242399
"""
def __init__(self, filename):
- with open(filename) as fid:
+ with open(filename, encoding='utf-8') as fid:
lines = fid.readlines()
self.attribute_names = lines[2].lower().replace("#", "").split()
data = np.array([[float(l) for l in lines[i].split() ] for i in range(3, len(lines))])
diff --git a/wetb/hawc2/cmp_test_cases.py b/wetb/hawc2/cmp_test_cases.py
index b1d4f1a2140d5078104e2e84115d53e0b4567baa..1745aa455e66087649a605f2586c76d150fca2e4 100644
--- a/wetb/hawc2/cmp_test_cases.py
+++ b/wetb/hawc2/cmp_test_cases.py
@@ -32,9 +32,9 @@ class CompareTestCases(unittest.TestCase):
def compare_lines(self, ref_file, test_file, skip_first=0):
- with open(ref_file) as ref:
+ with open(ref_file, encoding='utf-8') as ref:
ref_lines = ref.readlines()
- with open(test_file) as test:
+ with open(test_file, encoding='utf-8') as test:
test_lines = test.readlines()
self.assertEqual(len(ref_lines), len(test_lines), "\nNumber of lines differs in: '%s' and '%s'" % (ref_file, test_file))
for i, (ref_l, test_l) in enumerate(zip(ref_lines[skip_first:], test_lines[skip_first:])):
diff --git a/wetb/hawc2/htc_file.py b/wetb/hawc2/htc_file.py
index 54a742a53645cb1425e658c9dcbb62c3c141db3f..7893858db89cd7587f141775dc6702bf1b018f17 100644
--- a/wetb/hawc2/htc_file.py
+++ b/wetb/hawc2/htc_file.py
@@ -59,7 +59,7 @@ class HTCFile(HTCContents, HTCDefaults):
def readlines(self, filename):
self.htc_inputfiles.append(filename)
htc_lines = []
- with open(filename) as fid:
+ with open(filename, encoding='utf-8') as fid:
lines = fid.readlines()
for l in lines:
if l.lower().lstrip().startswith('continue_in_file'):
@@ -85,7 +85,7 @@ class HTCFile(HTCContents, HTCDefaults):
# exist_ok does not exist in Python27
if not os.path.exists(os.path.dirname(filename)):
os.makedirs(os.path.dirname(filename))#, exist_ok=True)
- with open(filename, 'w') as fid:
+ with open(filename, 'w', encoding='utf-8') as fid:
fid.write(str(self))
def set_name(self, name, folder="htc"):
diff --git a/wetb/hawc2/log_file.py b/wetb/hawc2/log_file.py
index d8cde89f98bb058bb549937dbc1b6c6370bf2d9e..fec59087fb398479ed90fe18e49ed113250d5263 100644
--- a/wetb/hawc2/log_file.py
+++ b/wetb/hawc2/log_file.py
@@ -70,7 +70,7 @@ class LogFile(object):
# exist_ok does not exist in Python27
if not os.path.exists(os.path.dirname(self.filename)):
os.makedirs(os.path.dirname(self.filename))#, exist_ok=True)
- with open(self.filename, 'w'):
+ with open(self.filename, 'w', encoding='utf-8'):
pass
self.reset()
diff --git a/wetb/hawc2/sel_file.py b/wetb/hawc2/sel_file.py
index a01c0183a505c6dec40ba98fa6775a878f2180cf..891bc13a8805a8945f72b8bab972387048bd1154 100644
--- a/wetb/hawc2/sel_file.py
+++ b/wetb/hawc2/sel_file.py
@@ -48,7 +48,7 @@ class SelFile(object):
def __init__(self, sel_filename):
if not os.path.isfile(sel_filename) or os.path.splitext(sel_filename)[1] != ".sel":
raise Warning("%s cannot be found or is not a legal *.sel file" % os.path.realpath(sel_filename))
- with open(sel_filename) as f:
+ with open(sel_filename, encoding='utf-8') as f:
lines = f.readlines()
@@ -139,6 +139,6 @@ def save(sel_filename, version, time, scans, no_sensors, duration, sensors, scal
for sf in scale_factors:
lines.append(" %.5E" % sf)
- with open(sel_filename, 'w') as f:
+ with open(sel_filename, 'w', encoding='utf-8') as f:
f.write("\n".join(lines))
diff --git a/wetb/hawc2/shear_file.py b/wetb/hawc2/shear_file.py
index 04a768beb4d20d2832604c2d08f3264aca16c8f0..4cccd759f56599d6d625137294b254cf975478fa 100644
--- a/wetb/hawc2/shear_file.py
+++ b/wetb/hawc2/shear_file.py
@@ -54,7 +54,7 @@ def save(filename, y_coordinates, z_coordinates, u=None, v=None, w=None):
# exist_ok does not exist in Python27
if not os.path.exists(os.path.dirname(filename)):
os.makedirs(os.path.dirname(filename))#, exist_ok=True)
- with open(filename, 'w') as fid:
+ with open(filename, 'w', encoding='utf-8') as fid:
fid.write(" # autogenerated shear file\n")
fid.write(" %d %d\n" % (len(y_coordinates), len(z_coordinates)))
for i, l in enumerate(['v', 'u', 'w']):
diff --git a/wetb/hawc2/simulation.py b/wetb/hawc2/simulation.py
index f4d38e7003da64372460d12e266db75c2720d8ba..151f29b0a8fff5a0ae4b470d8bc2916ab1248181 100644
--- a/wetb/hawc2/simulation.py
+++ b/wetb/hawc2/simulation.py
@@ -116,7 +116,7 @@ class Simulation(object):
additional_files_file = os.path.join(self.modelpath, 'additional_files.txt')
additional_files = {}
if os.path.isfile(additional_files_file):
- with open(additional_files_file) as fid:
+ with open(additional_files_file, encoding='utf-8') as fid:
additional_files = json.load(fid)
return additional_files
@@ -124,7 +124,7 @@ class Simulation(object):
additional_files = self.additional_files()
additional_files['input'] = additional_files.get('input', []) + [file]
additional_files_file = os.path.join(self.modelpath, 'additional_files.txt')
- with open(additional_files_file, 'w') as fid:
+ with open(additional_files_file, 'w', encoding='utf-8') as fid:
json.dump(additional_files, fid)
def prepare_simulation(self):
@@ -304,7 +304,7 @@ class SimulationThread(Thread):
p.set_nice(psutil.BELOW_NORMAL_PRIORITY_CLASS)
self.process.communicate()
errorcode = self.process.returncode
- with open(self.modelpath + self.sim.stdout_filename) as fid:
+ with open(self.modelpath + self.sim.stdout_filename, encoding='utf-8') as fid:
stdout = fid.read()
self.res = errorcode, stdout
diff --git a/wetb/prepost/Simulations.py b/wetb/prepost/Simulations.py
index 5d5b2a0320623aefec3476e433f5f247bc069ab9..5594417c413749e25830ed6d1c088c860fe155d2 100755
--- a/wetb/prepost/Simulations.py
+++ b/wetb/prepost/Simulations.py
@@ -433,7 +433,7 @@ def run_local(cases, silent=False, check_log=True):
"""
# remember the current working directory
- cwd = os.getcwd()
+ cwd = str(os.getcwd())
nr = len(cases)
if not silent:
print('')
diff --git a/wetb/prepost/dlcdefs.py b/wetb/prepost/dlcdefs.py
index 21dd670070e012023e77d73ea45e43cb2f019198..2d439c148b1fbed8854e6cc9353c1e59b280e54c 100644
--- a/wetb/prepost/dlcdefs.py
+++ b/wetb/prepost/dlcdefs.py
@@ -32,7 +32,7 @@ def configure_dirs(verbose=False):
Automatically configure required directories to launch simulations
"""
- P_RUN = os.getcwd()
+ P_RUN = str(os.getcwd())
p_run_root = os.sep.join(P_RUN.split(os.sep)[:-2])
# MODEL SOURCES, exchanche file sources
P_SOURCE = P_RUN
diff --git a/wetb/utils/cython_compile/cython_compile.py b/wetb/utils/cython_compile/cython_compile.py
index 02213aee94cbdb50211d595a9a501def2955fad9..f05fe5d4570f37ec404298f4372e01f84089a8d7 100644
--- a/wetb/utils/cython_compile/cython_compile.py
+++ b/wetb/utils/cython_compile/cython_compile.py
@@ -42,7 +42,7 @@ def wrap(f, autodeclare, *args, **kwargs):
# Generate name: "c:\documents\project\mymodule.py" -> mymodule_myfunction
# When called from ipython notebooks, filename is an object e.g: "<ipython-input-12-e897f9fefc0c>"
# therefore <,>,- is removed to make it a legal python module name
- name = os.path.relpath(inspect.getabsfile(f), os.getcwd()).replace(".py", "")
+ name = os.path.relpath(inspect.getabsfile(f), str(os.getcwd())).replace(".py", "")
name = name.replace("<", "").replace(">", "").replace("-", "")
name = "%s_%s" % (name, f.__name__)
if name.startswith(".."):
@@ -70,7 +70,7 @@ def wrap(f, autodeclare, *args, **kwargs):
# Write pyrex code lines to .pyx file
pyx_filename = name.replace("\\", "/") + ".pyx"
- with open(pyx_filename, 'w') as fid:
+ with open(pyx_filename, 'w', encoding='utf-8') as fid:
fid.writelines(pyx_lines)
# compile, import compiled module_name and delete temporary files
@@ -151,7 +151,7 @@ def cython_import(import_module_name, compiler=None):
fid.close()
# compile, import compiled module and delete temporary files
- module_relname = os.path.relpath(eval(module_name).__file__, os.getcwd()).replace(os.path.sep, ".")[:-3]
+ module_relname = os.path.relpath(eval(module_name).__file__, str(os.getcwd())).replace(os.path.sep, ".")[:-3]
return compile_and_cleanup(import_module_name, pyx_filename, module_relname, compiler)
return eval(module_name)