I am trying to read s2p files in using Python scikit-rf library. The s2p file in not in S parameter. I converted it to Z parameter. Looks like scikit-rf can read only S parameter file. Is there any other library or way to read s2p files with Z parameter. Below is how I am reading the file:
import skrf as rf
ntwk = rf.Network('ZTEST5_SHORTED.s10p')
s = ntwk.s
print(s)
Below is the error:
Traceback (most recent call last):
File "C:\Users\pujai\PycharmProjects\SIIntegration\practice.py", line 26, in <module>
ntwk = rf.Network('ZTEST5_SHORTED_DCfitted.s10p')
File "C:\Users\pujai\PycharmProjects\SIIntegration\venv\lib\site-packages\skrf\network.py", line 457, in __init__
self.read_touchstone(filename, self.encoding)
File "C:\Users\pujai\PycharmProjects\SIIntegration\venv\lib\site-packages\skrf\network.py", line 2050, in read_touchstone
raise NotImplementedError('only s-parameters supported for now.')
NotImplementedError: only s-parameters supported for now.
If I try to read an S parameter file, it works fine. Any help?
Related
I'm trying to load an ontology that imports some other ontologies. These other ontologies are located on my machine and not on the web. If I try my_ontology.load() it tries to load these other ontologies from their URI. But that fails.
How can I tell owlready2 where these ontologies are located?
The traceback looks like this:
Traceback (most recent call last):
File "~Software/PyOntologyChecker/app.py", line 12, in <module>
covid_onto = get_ontology_from_file(COVID_ONTOLOGY)
File "~Software/PyOntologyChecker/app.py", line 8, in get_ontology_from_file
return get_ontology("file://" + file_path).load()
File "~.local/lib/python3.8/site-packages/owlready2/namespace.py", line 813, in load
imported_ontologies = [self.world.get_ontology(self._unabbreviate(abbrev_iri)).load() for abbrev_iri in self.world._get_obj_triples_sp_o(self.storid, owl_imports)]
File "~.local/lib/python3.8/site-packages/owlready2/namespace.py", line 813, in <listcomp>
imported_ontologies = [self.world.get_ontology(self._unabbreviate(abbrev_iri)).load() for abbrev_iri in self.world._get_obj_triples_sp_o(self.storid, owl_imports)]
File "~.local/lib/python3.8/site-packages/owlready2/namespace.py", line 773, in load
except: raise OwlReadyOntologyParsingError("Cannot download '%s'!" % f)
owlready2.base.OwlReadyOntologyParsingError: Cannot download 'http://ontofox.hegroup.org/CHEBI_module11.owl'!
Assuming you have a local copy of CHEBI_module11.owl dependence (ex. SOME_DIR/HEBI_module11.owl), add its location into onto_path (as stated in the docs):
onto_path.append("SOME_DIR")
before doing my_ontology.load(). That tells Owlready2 to look for files in SOME_DIR. The path can be relative or absolute (like c:/data/ontologies).
The current Python's working directory is not scanned by default but can be set so with onto_path.append(".").
If a required ontology is described by URI not ending with a usual filename, like "http://rdf.webofcode.org/woc/", the local filename (woc in this case) should not have an extension.
I have installed pyreadr and would like to use it to read .RData. I have followed the direction given from the previous comment on here Loading RData but that did not work for me.
When I try the following line (with the path pointing to the right file):
result = pyreadr.read_r('/path/to/file.RData')
I get this error:
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/usr/local/apps/bioapps/python/Python-3.6.1/lib/python3.6/site-packages/pyreadr/pyreadr.py",
line 80, in list_objects
parser.parse(path)
File "pyreadr/librdata.pyx", line 117, in pyreadr.librdata.Parser.parse
File "pyreadr/librdata.pyx", line 142, in pyreadr.librdata.Parser.parse
pyreadr.custom_errors.LibrdataError: Unable to read from file
Please let me know if you have any suggestions.
Thanks!
I am able to compile an invoice with the following command:
pandoc details.yml -o output.pdf --template=invoice.tex --latex-engine=xelatex
But when I write the same thing in Python, I get an error complaning about the input format:
>>> pypandoc.convert_file('details.yml', 'pdf', outputfile='pyout.pdf', extra_args=['--latex-engine=xelatex', '--template=invoice.tex'])
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/usr/local/lib/python3.6/site-packages/pypandoc/__init__.py", line 140, in convert_file
outputfile=outputfile, filters=filters)
File "/usr/local/lib/python3.6/site-packages/pypandoc/__init__.py", line 262, in _convert_input
format, to = _validate_formats(format, to, outputfile)
File "/usr/local/lib/python3.6/site-packages/pypandoc/__init__.py", line 223, in _validate_formats
_get_base_format(format), ', '.join(from_formats)))
RuntimeError: Invalid input format! Got "yml" but expected one of
these: commonmark, docbook, docx, epub, haddock, html, json, latex, markdown, markdown_github, markdown_mmd, markdown_phpextra, markdown_strict, mediawiki, native, odt, opml, org, rst, t2t, textile, twiki
What am I doing wrong here? Why is yml not accepted?
Figured it out by reading the source.
So it turns out that this is due to a design decision made by the pypandoc developers. The program infers the type of the input from the file extension, so the only way to pass a yaml file is to rename it with a .md-extension.
https://github.com/bebraw/pypandoc/blob/ffe82646d2ab6cc4e732960a1e1af6bfcb760bb1/pypandoc/init.py#L202
I am creating a program that loads and runs python scripts from a compressed file. Along with those python scripts, I have a config file that I previously used configparser to load info from in an uncompressed version of the program.
Is it possible to directly read config files in zip files directly with configparser? or do I have to unzip it into a temp folder and load it from there?
I have tried directly giving the path:
>>> sysconf = configparser.ConfigParser()
>>> sysconf.read_file("compressed.zip/config_data.conf")
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/usr/local/lib/python3.4/configparser.py", line 691, in read_file
self._read(f, source)
File "/usr/local/lib/python3.4/configparser.py", line 1058, in _read
raise MissingSectionHeaderError(fpname, lineno, line)
configparser.MissingSectionHeaderError: File contains no section headers.
file: '<???>', line: 1
Didn't work. no surprises there.
Then I tried using zipfile
>>> zf = zipfile.ZipFile("compressed.zip")
>>> data = zf.read("config_data.conf")
>>> sysconf = configparser.ConfigParser()
>>> sysconf.read_file(data)
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/usr/local/lib/python3.4/configparser.py", line 691, in read_file
self._read(f, source)
File "/usr/local/lib/python3.4/configparser.py", line 1009, in _read
if line.strip().startswith(prefix):
AttributeError: 'int' object has no attribute 'strip'
and found that it didn't work either.
so I've resorted to creating a temp folder, uncompressing to it, and reading the conf file there. I would really like to avoid this if possible as the conf files are the only limiting factor. I can (and am) loading the python modules from the zip file just fine at this point.
I can get the raw text of the file if there's a way to pass that directly to configparser, but searching the docs I came up empty handed.
Update:
I tried using stringIO as a file object, and it seems to work somewhat.
configparser doesn't reject it, but it doesn't like it either.
>>> zf = zipfile.ZipFile("compressed.zip")
>>> data = zf.read(config_data.conf)
>>> confdata = io.StringIO(str(data))
>>> sysconf = configparser.ConfigParser()
>>> sysconf.readfp(confdata)
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/usr/local/lib/python3.4/configparser.py", line 736, in readfp
self.read_file(fp, source=filename)
File "/usr/local/lib/python3.4/configparser.py", line 691, in read_file
self._read(f, source)
File "/usr/local/lib/python3.4/configparser.py", line 1058, in _read
raise MissingSectionHeaderError(fpname, lineno, line)
configparser.MissingSectionHeaderError: File contains no section headers.
file: '<???>', line: 1
(continues to spit out the entire contents of the file)
If I use read_file instead, it doesn't error out, but doesn't load anything either.
>>> zf = zipfile.ZipFile("compressed.zip")
>>> data = zf.read(config_data.conf)
>>> confdata = io.StringIO(str(data))
>>> sysconf = configparser.ConfigParser()
>>> sysconf.read_file(confdata)
>>> sysconf.items("General") #(this is the main section in the file)
Traceback (most recent call last):
File "/usr/local/lib/python3.4/configparser.py", line 824, in items
d.update(self._sections[section])
KeyError: 'General'
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/usr/local/lib/python3.4/configparser.py", line 827, in items
raise NoSectionError(section)
configparser.NoSectionError: No section: 'General'
can get the raw text of the file if there's a way to pass that directly to configparser
Try configparser.ConfigParser.read_string
When coupled with an appropriate ZIP file, this code works for me:
import zipfile
import configparser
zf = zipfile.ZipFile("compressed.zip")
zf_config = zf.open("config_data.conf", "rU")
zf_config_data = zf_config.read().decode('ascii')
config = configparser.ConfigParser()
config.read_string(zf_config_data)
assert config['today']['lunch']=='cheeseburger'
Upon reflection, the following might be more appropriate:
import zipfile
import configparser
import io
zf = zipfile.ZipFile("compressed.zip")
zf_config = zf.open("config_data.conf", "rU")
zf_config = io.TextIOWrapper(zf_config)
config = configparser.ConfigParser()
config.read_file(zf_config)
assert config['today']['lunch']=='cheeseburger'
As written in comments, #matthewatabet answer won't work with Python 3.4 (and newer vesions). It's because ZipFile.open now returns a "bytes-like" object and not a "file-like" object anymore. You can use:
codecs.getreader("utf-8")(config_file)
To convert the config_file bytes-like object into a file-like object using the UTF-8 encoding. The code is now:
import zipfile, configparser, codecs
# Python >= 3.4
with zipfile.ZipFile("compressed.zip") as zf:
config_file = zf.open("config_data.conf") # binary mode
sysconfig = configparser.ConfigParser()
sysconfig.read_file(codecs.getreader("utf-8")(config_file))
That seems more satisfactory than creating a string, but I don't know if it's more efficient...
EDIT Since Python 3.9, the zipfile module provides a zipfile.Path.open method that can handle text and binary modes. Default is text mode. The following code works fine:
# Python >= 3.9
with zipfile.ZipFile("compressed.zip") as zf:
zip_path = zipfile.Path(zf)
config_path = zip_path / "config_data.conf"
config_file = config_path.open() # text mode
sysconfig = configparser.ConfigParser()
sysconfig.read_file(config_file)
ZipFile not only supports read but also open, which returns a file-like object. So, you could do something like this:
zf = zipfile.ZipFile("compressed.zip")
config_file = zf.open("config_data.conf")
sysconfig = configparser.ConfigParser()
sysconfig.readfp(config_file)
I've got PyPDF2 lib from here:
https://github.com/mstamy2/PyPDF2/tree/Python3-3
When trying to run script "Example 1:" from from there see it:
PyPDF2 python versions (2.5 - 3.3) compatibility branch
Traceback (most recent call last):
File "1.py", line 6, in <module>
input1 = PdfFileReader(open("document1.pdf", "rb"))
File "C:\Python33\lib\site-packages\PyPDF2\pdf.py", line 595, in __init__
self.read(stream)
File "C:\Python33\lib\site-packages\PyPDF2\pdf.py", line 1097, in read
streamData = StringIO(xrefstream.getData())
TypeError: initial_value must be str or None, not bytes
What is wrong?
It was a problem related to the compatibility within PyPDF2 and Python 3.
In my case, I have solved it by replacing pdf.py and utils.py with the ones you will find here, where they basically control if you are running Python 3 and, in case you are, receive data as bytes instead of strings.