I'm running python2.5 and trying to use the astLib library to analyse WCS information in astronomical images. I try and get the object instanciated with the following skeleton code:
from astLib import astWCS
w = astWCS.WCS('file.fits') # error here
where file.fits is a string pointing to a valid fits file.
I have tried using the alternate method of passing a pyfits header object and this fails also:
import pyfits
from astLib import astWCS
f = pyfits.open('file.fits')
header = f[0].header
f.close()
w = astWCS.WCS(header, mode='pyfits') # error here also
The error is this:
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/home/astro/phrfbf/build/lib/python2.6/site-packages/astLib/astWCS.py", line 79, in __init__
self.updateFromHeader()
File "/home/astro/phrfbf/build/lib/python2.6/site-packages/astLib/astWCS.py", line 119, in updateFromHeader
self.WCSStructure=wcs.wcsinit(cardstring)
File "/home/astro/phrfbf/build/lib/python2.6/site-packages/PyWCSTools/wcs.py", line 70, in wcsinit
return _wcs.wcsinit(*args)
TypeError: in method 'wcsinit', argument 1 of type 'char *'
When I run in ipython, I get the full error here on the pastebin
I know the astWCS module is a wrapped version of WCStools but i'd prefer to use the Python module as the rest of my code is in Python
Can anyone help with this problem?
Just found out the updated version of this library has fixed the problem, thanks for everyone's help
Oh sorry, I should have seen. Looking at the pastebin in more detail, the only error I can think of is that, for some reason the header has unicode in it. It can't be converted to char *, and you get the error. I tried searching for something in the header, but everything looks okay. Can you do this and post the output in another pastebin?
import pyfits
f = pyfits.open('file.fits')
header = f[0].header
f.close()
for x, i in enumerate(header.iteritems()):
if len(str(i[1])) >= 70:
print x, str(i[1])
cardlist = header.ascardlist()
cardstring = ""
for card in cardlist:
cardstring = cardstring + str(card)
print repr(cardstring)
Or, if you can check the header of your fits file for "funny" characters, getting rid of them should solve the issue.
Related
I am trying to make the call
from azure.storage.fileshare import ShareDirectoryClient
shrdDirClient = ShareDirectoryClient.from_directory_url
(detailedFileURI,snapshot=None, credential=None)
but resulted in the error above.
I tried
if hasattr(ShareDirectoryClient, 'from_directory_url'):
print("Present")
But it did not go into the loop.
My full code is too long. This is another approach I tried resulting in 'str' object is not callable error
from azure.storage.fileshare import ShareDirectoryClient
from datetime import timedelta,datetime
now = datetime.now(timezone('UTC'))
sasToken = generate_share_sas(accountName, shareName, accountKey,\
permission=AccountSasPermissions(read=True, \
write=False, \
delete=False, \
list=True, create=True), expiry=now + timedelta(days=3650)\
)
accountURL = "https://nsclusterhdistorage.file.core.windows.net"
shareName = "dev-archived-data"
detailedFileURI = accountURL+'/'+shareName
sh = ShareDirectoryClient()
sh.from_directory_url(detailedFileURI,snapshot=None, credential=sasToken)
I am relatively new to python azure storage file share.
can someone help
Sorry, I can't reproduce this.
I ran the following code:
from azure.storage.fileshare import ShareDirectoryClient
detailedFileURI = "Something"
shrdDirClient = ShareDirectoryClient.from_directory_url(detailedFileURI,snapshot=None, credential=None)
and it generated the following error:
Traceback (most recent call last):
File "D:\StackOverflow\azure_storage_test.py", line 4, in <module>
shrdDirClient = ShareDirectoryClient.from_directory_url(detailedFileURI,snapshot=None, credential=None)
File "C:\Python37\lib\site-packages\azure\storage\fileshare\_directory_client.py", line 164, in from_directory_url
credential=credential, **kwargs)
File "C:\Python37\lib\site-packages\azure\storage\fileshare\_directory_client.py", line 96, in __init__
raise ValueError("Please specify a share name.")
ValueError: Please specify a share name.
Now clearly this isn't successful execution. If I'm honest, I don't know what to set detailedFileURI to. But that's not the point. The point is that the code sample above is enough to prove that I can get in to the from_directory_url method, and this is clear from the traceback.
However, if I run the following code:
from azure.storage.fileshare import ShareDirectoryClient
ShareDirectoryClient = "some string"
detailedFileURI = "Something"
shrdDirClient = ShareDirectoryClient.from_directory_url(detailedFileURI,snapshot=None, credential=None)
then I do encounter the same error:
Traceback (most recent call last):
File "D:\StackOverflow\azure_storage_test.py", line 5, in <module>
shrdDirClient = ShareDirectoryClient.from_directory_url(detailedFileURI,snapshot=None, credential=None)
AttributeError: 'str' object has no attribute 'from_directory_url'
Of course, there's not a lot of point in importing ShareDirectoryClient if you're then going to assign a string to it. You may as well remove the import statement. However, doing this reproduces your error message. In the absence of any further code in your question I can only conclude that your code does the same as this, although perhaps more subtly.
The only other suggestion I have is that your installation of the azure-storage-file-share package has somehow got broken. If you run a Python script containing the following two lines only, you should get either <class 'type'> or <class 'str'> as output. I get <class 'type'>, and I would expect that anyone else using this package would get the same. However, if you get <class 'str'>, then it is likely that the package has got corrupted and you may want to try reinstalling it.
from azure.storage.fileshare import ShareDirectoryClient
print(type(ShareDirectoryClient))
For some reason ‘ ShareDirectoryClient’ is of type {string}. You either import it as a string, i.e. ‘ azure.storage.fileshare’ simply has this defined as a string, or, you assign it to a string later in your code (not visible in the part that has been shared). Please try this:
X = ‘some_string’
X()
… and you will get the string-is-not-callable error which means a string cannot be invoked (i.e. it is not a function one can call)
Then another experiment:
Y = ‘another_string’
Y.bla()
… and you get the other error that a string object has no attribute named ‘bla’.
In Python everything is an object. If you define
class MyClass()
pass
And then try ‘MyClass.bla()’ you will get MyClass does does not have attribute ‘bla’.
Can you try to import ShareDirectoryClient and then type(ShareDirectoryClient) and we’ll see what type of object gets imported.
I'm running a code and it gives me an error I can't solve !
how can I add the missing attribute?
the relevant part of the code :
ALL_FILES = provider.getDataFiles('indoor3d_sem_seg_hdf5_data/all_files.txt') #line 63
room_filelist = [line.rstrip() for line in open('indoor3d_sem_seg_hdf5_data/room_filelist.txt')]
The error:
Traceback (most recent call last):
File "E:\Research\Codes\pointnet\pointnet-master\sem_seg\train.py", line 63, in <module>
ALL_FILES = provider.getDataFiles('indoor3d_sem_seg_hdf5_data/all_files.txt')
AttributeError: module 'provider' has no attribute 'getDataFiles'
First, check if you have import provider in your code, you can also do from model import *
I found out that you are using pointnet. So I search the source code and I found this method is:
def getDataFiles(list_filename):
return [line.rstrip() for line in open(list_filename)]
You can search your library for this method. It might not be in the provider.py
You could just added this method to your code. But the best idea is to search for it.
For you case, the provider.py should be at \pointnet\pointnet-master\, and there is also a train.py at that location.
Problem solved ! All I had to do is to copy the provider.py file into the sem.seg.py file which I used. It appears it couldn't find it in the previous file.
I recently made a program using an external document with pickle. But when it tries to load the file with pickle, I got this error (the file is already existing but it also fails when the file in't existing):
python3.6 check-graph_amazon.py
a
b
g
URL to follow www.amazon.com
Product to follow Pool_table
h
i
[' www.amazon.com', ' Pool_table', []]
p
Traceback (most recent call last):
File "check-graph_amazon.py", line 17, in <module>
tab_simple = pickle.load(doc_simple)
io.UnsupportedOperation: read
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "check-graph_amazon.py", line 42, in <module>
pickle.dump(tab_simple, 'simple_data.dat')
TypeError: file must have a 'write' attribute
Here is the code :
import pickle5 as pickle
#import os
try:
print("a")
with open('simple_data.dat', 'rb') as doc_simple:
print("b")
tab_simple = pickle.load(doc_simple)
print("c")
print(tab_simple)
print("d")
URL = tab_simple[0]
produit_nom = tab_simple[1]
tous_jours = tab_simple[2]
print("f")
except :
print("g")
URL = str(input("URL to follow"))
produit_nom = str(input("Product to follow"))
with open('simple_data.dat', 'wb+') as doc_simple:
print("h")
#os.system('chmod +x simple_data.dat')
tab_simple = []
tab_simple.append(URL)
tab_simple.append(produit_nom)
tab_simple.append([])
print(tab_simple)
print("c'est le 2")
print("p")
pickle.dump(tab_simple, 'simple_data.dat')
print("q")
The prints are here to show which lines are executed. The os.system is here to allow writing on the file but the error is persisting.
I don't understand why it's said that the document doesn't have a write attribute because I opened it in writing mode. And I neither understand the first error where it can't load the file.
If it can help you the goal of this script is to initialise the program, with a try. It tries to open the document in reading mode in the try part and then set variables. If the document doesn't exist (because the program is lauched for the first time) it goes in the except part and create the document, before writing informations on it.
I hope you will have any clue, including changing the architecture of the code if you have a better way to make an initialisation for the 1st time the program is launched.
Thanks you in advance and sorry if the code isn't well formated, I'm a beginner with this website.
Quote from the docs for pickle.dump:
pickle.dumps(obj, protocol=None, *, fix_imports=True)
Write a pickled representation of obj to the open file object file. ...
...
The file argument must have a write() method that accepts a single bytes argument. It can thus be an on-disk file opened for binary writing, an io.BytesIO instance, or any other custom object that meets this interface.
So, you should pass to this function a file object, not a file name, like this:
with open("simple_data.dat", "wb"): as File:
pickle.dump(tab_simple, File)
Yeah, in your case the file has already been opened, so you should write to doc_simple.
Up until last week, I had a piece of code for calculating the odds of something occurring for a series of events, but starting this week the code doesn't work.
The code is the following:
import numpy as np
import pysal
import os
dbf = pysal.open('file.csv','r')
y = np.array([dbf.by_col('result')]).T
names_to_extract = ['dist', 'angle']
x = np.array([dbf.by_col(name) for name in names_to_extract]).T
id = np.array([dbf.by_col('incidenceId')]).T
model = pysal.spreg.probit.Probit(y, x, w=None, name_y='result', name_x=['dist','angle'], name_w=None, name_ds=None)
fin = np.column_stack((id, model.y, model.predy))
os.chdir("/destinyfolder")
np.savetxt('xg.csv', fin, delimiter=',', fmt='%d, %d, %f')
And I get this error:
/usr/local/lib/python3.7/site-packages/pysal/__init__.py:65: VisibleDeprecationWarning: PySAL's API will be changed on 2018-12-31. The last release made with this API is version 1.14.4. A preview of the next API version is provided in the `pysalnext` package. The API changes and a guide on how to change imports is provided at https://migrating.pysal.org
), VisibleDeprecationWarning)
Traceback (most recent call last):
File "xg.py", line 14, in <module>
model = pysal.spreg.probit.Probit(y, x, w=None, name_y='result', name_x=['dist','angle'], name_w=None, name_ds=None)
File "/usr/local/lib/python3.7/site-packages/pysal/spreg/probit.py", line 807, in __init__
n = USER.check_arrays(y, x)
File "/usr/local/lib/python3.7/site-packages/pysal/spreg/user_output.py", line 359, in check_arrays
if not spu.spisfinite(i):
File "/usr/local/lib/python3.7/site-packages/pysal/spreg/sputils.py", line 267, in spisfinite
return np.isfinite(a.sum())
File "/usr/local/lib/python3.7/site-packages/numpy/core/_methods.py", line 36, in _sum
return umr_sum(a, axis, dtype, out, keepdims, initial)
TypeError: cannot perform reduce with flexible type
Usually, I only got the DeprecationWarning, but the code worked. Since today, the code doesn't work. Consider that I am currently using pysal 1.14.4, numpy 1.16.2 and scipy 1.2.1. I have not updated my code to pysal 2.0 because I couldn't figure out how to port this code to the new version (and that's why I got the DeprecationWarning in the first place).
Here's the file: file.csv
Can you help me to make this work?
Entries in your x are strings, convert them to float:
x = np.array(...).T.astype(np.float)
This will fail at first because of "NULL" values in file.csv, you need to either filter these out or specify what float value they should be converted to.
Before posting a question, try first a simple google search for an immediate answer. If you google this error along with "pysal 1.14.4", you will immediately find this solution:
TypeError: cannot perform reduce with flexible type
This is the code snippet causing the problem:
if str(sys.argv[2]) + '.pickle' in os.listdir(os.curdir): #os.path.isfile(str(sys.argv[2]) + '.pickle'):
path = sys.argv[2] + '.pickle'
#print path
instance = cPickle.load(open(str(path)))
This is the traceback:
Traceback (most recent call last):
File "parent_cls.py", line 92, in <module>
instance = cPickle.load(open(str(path)))
EOFError
If this keeps happening because of file.close() is not performed or some other ridiculous mistake, please let me know if there is a way to access the pickle file using subprocess. Thanks.
UPDATE: Another thing I notice. The filename.pickle to check if its there or not using the if condition actually is creating a filename.pickle although it wasn't there first.
I dont want to create it but to check its existence. is this some other problem?
Open it in binary mode :
open(str(path), 'rb')