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docs: typos fixed, print statements removed

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Fabian Joswig 2022-02-08 13:48:55 +00:00
parent 3c990b2e1f
commit b8b3d6191f
3 changed files with 3 additions and 26 deletions
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3
pyerrors/input/bdio.py
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@ -1,6 +1,3 @@
#!/usr/bin/env python
# coding: utf-8
import ctypes import ctypes
import hashlib import hashlib
import autograd.numpy as np # Thinly-wrapped numpy import autograd.numpy as np # Thinly-wrapped numpy

1
pyerrors/input/openQCD.py
View file

@ -573,7 +573,6 @@ def read_qtop(path, prefix, c, dtr_cnfg=1, version="1.2", **kwargs):
found = [] found = []
files = [] files = []
for (dirpath, dirnames, filenames) in os.walk(path + "/"): for (dirpath, dirnames, filenames) in os.walk(path + "/"):
# print(filenames)
found.extend(filenames) found.extend(filenames)
break break
for f in found: for f in found:

25
pyerrors/input/sfcf.py
View file

@ -1,6 +1,3 @@
#!/usr/bin/env python
# coding: utf-8
import os import os
import fnmatch import fnmatch
import re import re
@ -39,7 +36,7 @@ def read_sfcf(path, prefix, name, quarks='.*', corr_type='bi', noffset=0, wf=0,
replaces the name of the ensemble replaces the name of the ensemble
version: str version: str
version of SFCF, with which the measurement was done. version of SFCF, with which the measurement was done.
if the compact output option (-c) was spectified, if the compact output option (-c) was specified,
append a "c" to the version (e.g. "1.0c") append a "c" to the version (e.g. "1.0c")
if the append output option (-a) was specified, if the append output option (-a) was specified,
append an "a" to the version append an "a" to the version
@ -47,7 +44,7 @@ def read_sfcf(path, prefix, name, quarks='.*', corr_type='bi', noffset=0, wf=0,
list of replica to be read, default is all list of replica to be read, default is all
files: list files: list
list of files to be read per replica, default is all. list of files to be read per replica, default is all.
for non-conpact ouztput format, hand the folders to be read here. for non-compact output format, hand the folders to be read here.
check_configs: check_configs:
list of list of supposed configs, eg. [range(1,1000)] list of list of supposed configs, eg. [range(1,1000)]
for one replicum with 1000 configs for one replicum with 1000 configs
@ -69,17 +66,12 @@ def read_sfcf(path, prefix, name, quarks='.*', corr_type='bi', noffset=0, wf=0,
else: else:
b2b = False b2b = False
single = False single = False
# due to higher usage in current projects,
# compact file format is default
compact = True compact = True
appended = False appended = False
# get version string
known_versions = ["0.0", "1.0", "2.0", "1.0c", "2.0c", "1.0a", "2.0a"] known_versions = ["0.0", "1.0", "2.0", "1.0c", "2.0c", "1.0a", "2.0a"]
if version not in known_versions: if version not in known_versions:
raise Exception("This version is not known!") raise Exception("This version is not known!")
# if the letter c is appended to the version,
# the compact fileformat is used (former read_sfcf_c)
if(version[-1] == "c"): if(version[-1] == "c"):
appended = False appended = False
compact = True compact = True
@ -127,8 +119,6 @@ def read_sfcf(path, prefix, name, quarks='.*', corr_type='bi', noffset=0, wf=0,
if len(new_names) != replica: if len(new_names) != replica:
raise Exception('Names does not have the required length', replica) raise Exception('Names does not have the required length', replica)
else: else:
# Adjust replica names to new bookmarking system
new_names = [] new_names = []
if not appended: if not appended:
for entry in ls: for entry in ls:
@ -149,7 +139,6 @@ def read_sfcf(path, prefix, name, quarks='.*', corr_type='bi', noffset=0, wf=0,
ls.sort(key=lambda x: int(re.findall(r'\d+', x)[-1])) ls.sort(key=lambda x: int(re.findall(r'\d+', x)[-1]))
for entry in ls: for entry in ls:
myentry = entry[:-len(name) - 1] myentry = entry[:-len(name) - 1]
# print(myentry)
try: try:
idx = myentry.index('r') idx = myentry.index('r')
except Exception: except Exception:
@ -159,7 +148,6 @@ def read_sfcf(path, prefix, name, quarks='.*', corr_type='bi', noffset=0, wf=0,
new_names.append(kwargs.get('ens_name') + '|' + myentry[idx:]) new_names.append(kwargs.get('ens_name') + '|' + myentry[idx:])
else: else:
new_names.append(myentry[:idx] + '|' + myentry[idx:]) new_names.append(myentry[:idx] + '|' + myentry[idx:])
# print(new_names)
idl = [] idl = []
if not appended: if not appended:
for i, item in enumerate(ls): for i, item in enumerate(ls):
@ -174,8 +162,6 @@ def read_sfcf(path, prefix, name, quarks='.*', corr_type='bi', noffset=0, wf=0,
else: else:
sub_ls.extend(dirnames) sub_ls.extend(dirnames)
break break
# print(sub_ls)
if compact: if compact:
for exc in sub_ls: for exc in sub_ls:
if not fnmatch.fnmatch(exc, prefix + '*'): if not fnmatch.fnmatch(exc, prefix + '*'):
@ -186,7 +172,6 @@ def read_sfcf(path, prefix, name, quarks='.*', corr_type='bi', noffset=0, wf=0,
if not fnmatch.fnmatch(exc, 'cfg*'): if not fnmatch.fnmatch(exc, 'cfg*'):
sub_ls = list(set(sub_ls) - set([exc])) sub_ls = list(set(sub_ls) - set([exc]))
sub_ls.sort(key=lambda x: int(x[3:])) sub_ls.sort(key=lambda x: int(x[3:]))
# print(sub_ls)
rep_idl = [] rep_idl = []
no_cfg = len(sub_ls) no_cfg = len(sub_ls)
for cfg in sub_ls: for cfg in sub_ls:
@ -201,7 +186,7 @@ def read_sfcf(path, prefix, name, quarks='.*', corr_type='bi', noffset=0, wf=0,
# maybe there is a better way to print the idls # maybe there is a better way to print the idls
print(item, ':', no_cfg, ' configurations') print(item, ':', no_cfg, ' configurations')
idl.append(rep_idl) idl.append(rep_idl)
# here we have found all the files we need to look into. # here we have found all the files we need to look into.
if i == 0: if i == 0:
# here, we want to find the place within the file, # here, we want to find the place within the file,
# where the correlator we need is stored. # where the correlator we need is stored.
@ -255,8 +240,6 @@ def read_sfcf(path, prefix, name, quarks='.*', corr_type='bi', noffset=0, wf=0,
for t in range(T): for t in range(T):
deltas[t].append(np.zeros(no_cfg)) deltas[t].append(np.zeros(no_cfg))
# ...the actual parsing can start.
# we iterate through all measurement files in the path given...
if compact: if compact:
for cfg in range(no_cfg): for cfg in range(no_cfg):
with open(path + '/' + item + '/' + sub_ls[cfg]) as fp: with open(path + '/' + item + '/' + sub_ls[cfg]) as fp:
@ -312,7 +295,6 @@ def read_sfcf(path, prefix, name, quarks='.*', corr_type='bi', noffset=0, wf=0,
data_starts.append(linenumber) data_starts.append(linenumber)
if len(set([data_starts[i] - data_starts[i - 1] for i in range(1, len(data_starts))])) > 1: if len(set([data_starts[i] - data_starts[i - 1] for i in range(1, len(data_starts))])) > 1:
raise Exception("Irregularities in file structure found, not all runs have the same output length") raise Exception("Irregularities in file structure found, not all runs have the same output length")
# first chunk of data
chunk = content[:data_starts[1]] chunk = content[:data_starts[1]]
for linenumber, line in enumerate(chunk): for linenumber, line in enumerate(chunk):
if line.startswith("gauge_name"): if line.startswith("gauge_name"):
@ -340,7 +322,6 @@ def read_sfcf(path, prefix, name, quarks='.*', corr_type='bi', noffset=0, wf=0,
start = data_starts[cnfg] start = data_starts[cnfg]
stop = start + data_starts[1] stop = start + data_starts[1]
chunk = content[start:stop] chunk = content[start:stop]
# meta_data = {}
try: try:
rep_idl.append(int(chunk[gauge_line].split("n")[-1])) rep_idl.append(int(chunk[gauge_line].split("n")[-1]))
except Exception: except Exception: