Different starting indices for slices in NumPy - python

I'm wondering if it's possible without iterating with a for loop to do something like this:
a = np.array([[1, 2, 5, 3, 4],
[4, 5, 6, 7, 8]])
cleaver = np.argmax(a == 5, axis=1) # np.array([2, 1])
foo(a, cleaver)
>>> np.array([False, False, True, True, True],
[False, True, True, True, True])
Is there a way to accomplish this through slicing or some other non-iterative function? The arrays I'm using are quite large and iterating over them row by row is prohibitively expensive.

You can use some broadcasting magic -
cleaver[:,None] <= np.arange(a.shape[1])
Sample run -
In [60]: a
Out[60]:
array([[1, 2, 5, 3, 4],
[4, 5, 6, 7, 8]])
In [61]: cleaver
Out[61]: array([2, 1])
In [62]: cleaver[:,None] <= np.arange(a.shape[1])
Out[62]:
array([[False, False, True, True, True],
[False, True, True, True, True]], dtype=bool)

Related

is there a method for finding the indexes of a 2d-array based on a given array

suppose we have two arrays like these two:
A=np.array([[1, 4, 3, 0, 5],[6, 0, 7, 12, 11],[20, 15, 34, 45, 56]])
B=np.array([[4, 5, 6, 7]])
I intend to write a code in which I can find the indexes of an array such as A based on values in
the array B
for example, I want the final results to be something like this:
C=[[0 1]
[0 4]
[1 0]
[1 2]]
can anybody provide me with a solution or a hint?
Do you mean?
In [375]: np.isin(A,B[0])
Out[375]:
array([[False, True, False, False, True],
[ True, False, True, False, False],
[False, False, False, False, False]])
In [376]: np.argwhere(np.isin(A,B[0]))
Out[376]:
array([[0, 1],
[0, 4],
[1, 0],
[1, 2]])
B shape of (1,4) where the initial 1 isn't necessary. That's why I used B[0], though isin, via in1d ravels it anyways.
where is result is often more useful
In [381]: np.where(np.isin(A,B))
Out[381]: (array([0, 0, 1, 1]), array([1, 4, 0, 2]))
though it's a bit harder to understand.
Another way to get the isin array:
In [383]: (A==B[0,:,None,None]).any(axis=0)
Out[383]:
array([[False, True, False, False, True],
[ True, False, True, False, False],
[False, False, False, False, False]])
You can try in this way by using np.where().
index = []
for num in B:
for nums in num:
x,y = np.where(A == nums)
index.append([x,y])
print(index)
>>array([[0,1],
[0,4],
[1,0],
[1,2]])
With zip and np.where:
>>> list(zip(*np.where(np.in1d(A, B).reshape(A.shape))))
[(0, 1), (0, 4), (1, 0), (1, 2)]
Alternatively:
>>> np.vstack(np.where(np.isin(A,B))).transpose()
array([[0, 1],
[0, 4],
[1, 0],
[1, 2]], dtype=int64)

Identifying all consecutive positive triplets in a 1D numpy array

Consider the 1D array arr shown below, and assume n = 3.
I want to identify all 'islands' holding >= n consecutive positive values.
The following code succesfully finds the FIRST set of 3 consecutive positive numbers by determining the initial index, but it does not find all such sets.
import numpy as np
arr = np.array([1, -1, 5, 6, 3, -4, 2, 5, 9, 2, 1, -6, 8])
def find_consec_pos(arr, n):
mask = np.convolve(np.greater(arr,0), np.ones(n, dtype=int)) >= n
if mask.any():
return mask.argmax() - n + 1
else:
return None
find_consec_pos(arr, 3)
This gives output 2, the index of the 1st triplet of consecutive positive values.
I want to know how to modify the code to get the output [2, 6, 7, 8], identifying all consecutive positive triples.
This code does the job and is simple while being relatively efficient:
positive = arr > 0
np.where(positive[:-2] & positive[1:-1] & positive[2:])
You could use sliding_window_view:
In [1]: from numpy.lib.stride_tricks import sliding_window_view
In [2]: sliding_window_view(arr, 3) > 0
Out[2]:
array([[ True, False, True],
[False, True, True],
[ True, True, True],
[ True, True, False],
[ True, False, True],
[False, True, True],
[ True, True, True],
[ True, True, True],
[ True, True, True],
[ True, True, False],
[ True, False, True]])
Turning this into your desired function (and assuming you want a list as output):
def find_consec_pos(arr, n):
all_n_positive = np.all(sliding_window_view(arr > 0, n), axis=1)
return np.argwhere(all_n_positive).flatten().tolist()
Demo of some different "window" sizes:
In [4]: arr
Out[4]: array([ 1, -1, 5, 6, 3, -4, 2, 5, 9, 2, 1, -6, 8])
In [5]: find_consec_pos(arr, 3)
Out[5]: [2, 6, 7, 8]
In [6]: find_consec_pos(arr, 4)
Out[6]: [6, 7]
In [7]: find_consec_pos(arr, 2)
Out[7]: [2, 3, 6, 7, 8, 9]

Mask from max values in numpy array, specific axis

Input example:
I have a numpy array, e.g.
a=np.array([[0,1], [2, 1], [4, 8]])
Desired output:
I would like to produce a mask array with the max value along a given axis, in my case axis 1, being True and all others being False. e.g. in this case
mask = np.array([[False, True], [True, False], [False, True]])
Attempt:
I have tried approaches using np.amax but this returns the max values in a flattened list:
>>> np.amax(a, axis=1)
array([1, 2, 8])
and np.argmax similarly returns the indices of the max values along that axis.
>>> np.argmax(a, axis=1)
array([1, 0, 1])
I could iterate over this in some way but once these arrays become bigger I want the solution to remain something native in numpy.
Method #1
Using broadcasting, we can use comparison against the max values, while keeping dims to facilitate broadcasting -
a.max(axis=1,keepdims=1) == a
Sample run -
In [83]: a
Out[83]:
array([[0, 1],
[2, 1],
[4, 8]])
In [84]: a.max(axis=1,keepdims=1) == a
Out[84]:
array([[False, True],
[ True, False],
[False, True]], dtype=bool)
Method #2
Alternatively with argmax indices for one more case of broadcasted-comparison against the range of indices along the columns -
In [92]: a.argmax(axis=1)[:,None] == range(a.shape[1])
Out[92]:
array([[False, True],
[ True, False],
[False, True]], dtype=bool)
Method #3
To finish off the set, and if we are looking for performance, use intialization and then advanced-indexing -
out = np.zeros(a.shape, dtype=bool)
out[np.arange(len(a)), a.argmax(axis=1)] = 1
Create an identity matrix and select from its rows using argmax on your array:
np.identity(a.shape[1], bool)[a.argmax(axis=1)]
# array([[False, True],
# [ True, False],
# [False, True]], dtype=bool)
Please note that this ignores ties, it just goes with the value returned by argmax.
You're already halfway in the answer. Once you compute the max along an axis, you can compare it with the input array and you'll have the required binary mask!
In [7]: maxx = np.amax(a, axis=1)
In [8]: maxx
Out[8]: array([1, 2, 8])
In [12]: a >= maxx[:, None]
Out[12]:
array([[False, True],
[ True, False],
[False, True]], dtype=bool)
Note: This uses NumPy broadcasting when doing the comparison between a and maxx
in on line : np.equal(a.max(1)[:,None],a) or np.equal(a.max(1),a.T).T .
But this can lead to several ones in a row.
In a multi-dimensional case you can also use np.indices. Let's suppose you have an array:
a = np.array([[
[0, 1, 2],
[3, 8, 5],
[6, 7, -1],
[9, 5, 8]],[
[5, 2, 8],
[7, 6, -3],
[-1, 2, 1],
[3, 5, 6]]
])
you can access argmax values calculated for axis 0 like so:
k = np.zeros((2, 4, 3), np.bool)
k[a.argmax(0), ind[0], ind[1]] = 1
The output would be:
array([[[False, False, False],
[False, True, True],
[ True, True, False],
[ True, True, True]],
[[ True, True, True],
[ True, False, False],
[False, False, True],
[False, False, False]]])

Numpy element-wise in operation

Suppose I have a column vector y with length n, and I have a matrix X of size n*m. I want to check for each element i in y, whether the element is in the corresponding row in X. What is the most efficient way of doing this?
For example:
y = [1,2,3,4].T
and
X =[[1, 2, 3],[3, 4, 5],[4, 3, 2],[2, 2, 2]]
Then the output should be
[1, 0, 1, 0] or [True, False, True, False]
which ever is easier.
Of course we can use a for loop to iterate through both y and X, but is there any more efficient way of doing this?
Vectorized approach using broadcasting -
((X == y[:,None]).any(1)).astype(int)
Sample run -
In [41]: X # Input 1
Out[41]:
array([[1, 2, 3],
[3, 4, 5],
[4, 3, 2],
[2, 2, 2]])
In [42]: y # Input 2
Out[42]: array([1, 2, 3, 4])
In [43]: X == y[:,None] # Broadcasted comparison
Out[43]:
array([[ True, False, False],
[False, False, False],
[False, True, False],
[False, False, False]], dtype=bool)
In [44]: (X == y[:,None]).any(1) # Check for any match along each row
Out[44]: array([ True, False, True, False], dtype=bool)
In [45]: ((X == y[:,None]).any(1)).astype(int) # Convert to 1s and 0s
Out[45]: array([1, 0, 1, 0])

Using numpy.where() to iterate through a matrix

There's something about numpy.where() I do not understand:
Let's say I have a 2D numpy ndarray:
import numpy as np
twodim = np.array([[1, 2, 3, 4], [1, 6, 7, 8], [1, 1, 1, 12], [17, 3, 15, 16], [17, 3, 18, 18]])
Now, would like to create a function which "checks" this numpy array for a variety of conditions.
array([[ 1, 2, 3, 4],
[ 1, 6, 7, 8],
[ 1, 1, 1, 12],
[17, 3, 15, 16],
[17, 3, 18, 18]])
For example, which entries in this array have (A) even numbers (B) greater than 7 (C) divisible by 3?
I would like to use numpy.where() for this, and iterate through each entry of this array, finally finding the elements which match all conditions (if such an entry exists):
even_entries = np.where(twodim % 2 == 0)
greater_seven = np.where(twodim > 7 )
divisible_three = np.where(twodim % 3 == 0)
How does one do this? I am not sure how to iterate through Booleans...
I could access the indices of the matrix (i,j) via
np.argwhere(even_entries)
We could do something like
import numpy as np
twodim = np.array([[1, 2, 3, 4], [1, 6, 7, 8], [1, 1, 1, 12], [17, 3, 15, 16], [17, 3, 18, 18]])
even_entries = np.where(twodim % 2 == 0)
greater_seven = np.where(twodim > 7 )
divisible_three = np.where(twodim % 3 == 0)
for row in even_entries:
for item in row:
if item: #equivalent to `if item == True`
for row in greater_seven:
for item in row:
if item: #equivalent to `if item == True`
for row in divisible_three:
for item in row:
if item: #equivalent to `if item == True`
# something like print(np.argwhere())
Any advice?
EDIT1: Great ideas below. As #hpaulj mentions "Your tests produce a boolean matrix of the same shape as twodim"
This is a problem I'm running into as I toy around---not all conditionals produce matrices the same shape as my starting matrix. For instance, let's say I'm comparing whether the array element has a matching array to the left or right (i.e. horizontally)
twodim[:, :-1] == twodim[:, 1:]
That results in a (5,3) Boolean array, whereas our original matrix is a (5,4) array
array([[False, False, False],
[False, False, False],
[ True, True, False],
[False, False, False],
[False, False, True]], dtype=bool)
If we do the same vertically, that results in a (4,4) Boolean array, whereas the original matrix is (5,4)
twodim[:-1] == twodim[1:]
array([[ True, False, False, False],
[ True, False, False, False],
[False, False, False, False],
[ True, True, False, False]], dtype=bool)
If we wished to know which entries have both vertical and horizontal pairs, it is non-trivial to figure out which dimension we are in.
Your tests produce a boolean matrix of the same shape as twodim:
In [487]: mask3 = twodim%3==0
In [488]: mask3
Out[488]:
array([[False, False, True, False],
[False, True, False, False],
[False, False, False, True],
[False, True, True, False],
[False, True, True, True]], dtype=bool)
As other answers noted you can combine tests logically - with and and or.
np.where is the same as np.nonzero (in this use), and just returns the coordinates of the True values - as a tuple of 2 arrays.
In [489]: np.nonzero(mask3)
Out[489]:
(array([0, 1, 2, 3, 3, 4, 4, 4], dtype=int32),
array([2, 1, 3, 1, 2, 1, 2, 3], dtype=int32))
argwhere returns the same values, but as a transposed 2d array.
In [490]: np.argwhere(mask3)
Out[490]:
array([[0, 2],
[1, 1],
[2, 3],
[3, 1],
[3, 2],
[4, 1],
[4, 2],
[4, 3]], dtype=int32)
Both the mask and tuple can be used to index your array directly:
In [494]: twodim[mask3]
Out[494]: array([ 3, 6, 12, 3, 15, 3, 18, 18])
In [495]: twodim[np.nonzero(mask3)]
Out[495]: array([ 3, 6, 12, 3, 15, 3, 18, 18])
The argwhere can't be used directly for indexing, but may be more suitable for iteration, especially if you want the indexes as well as the values:
In [496]: for i,j in np.argwhere(mask3):
.....: print(i,j,twodim[i,j])
.....:
0 2 3
1 1 6
2 3 12
3 1 3
3 2 15
4 1 3
4 2 18
4 3 18
The same thing with where requires a zip:
for i,j in zip(*np.nonzero(mask3)): print(i,j,twodim[i,j])
BUT in general in numpy we try to avoid iteration. If you can use twodim[mask] directly your code will be much faster.
Logical combinations of the boolean masks are easier to produce than combinations of the where indices. To use the indices I'd probably resort to set operations (union, intersect, difference).
As for a reduced size test, you have to decide how that maps on to the original array (and other tests). e.g.
A (5,3) mask (difference between columns):
In [505]: dmask=np.diff(twodim, 1).astype(bool)
In [506]: dmask
Out[506]:
array([[ True, True, True],
[ True, True, True],
[False, False, True],
[ True, True, True],
[ True, True, False]], dtype=bool)
It can index 3 columns of the original array
In [507]: twodim[:,:-1][dmask]
Out[507]: array([ 1, 2, 3, 1, 6, 7, 1, 17, 3, 15, 17, 3])
In [508]: twodim[:,1:][dmask]
Out[508]: array([ 2, 3, 4, 6, 7, 8, 12, 3, 15, 16, 3, 18])
It can also be combined with 3 columns of another mask:
In [509]: dmask & mask3[:,:-1]
Out[509]:
array([[False, False, True],
[False, True, False],
[False, False, False],
[False, True, True],
[False, True, False]], dtype=bool)
It is still easier to combine tests in the boolean array form than with where indices.
import numpy as np
twodim = np.array([[1, 2, 3, 4], [1, 6, 7, 8], [1, 1, 1, 12], [17, 3, 15, 16], [17, 3, 18, 18]])
condition = (twodim % 2. == 0.) & (twodim > 7.) & (twodim % 3. ==0.)
location = np.argwhere(condition == True)
for i in location:
print i, twodim[i[0],i[1]],
>>> [2 3] 12 [4 2] 18 [4 3] 18
If you want to find where all three conditions are satisfied:
import numpy as np
twodim = np.array([[1, 2, 3, 4], [1, 6, 7, 8], [1, 1, 1, 12], [17, 3, 15, 16], [17, 3, 18, 18]])
mask = (twodim % 2 == 0) & (twodim > 7) & (twodim % 3 =0)
print(twodim[mask])
[12 18 18]
Not sure what you want in the end whether all elements in the row must satisfy the condition and to find those rows or if you want individual elements.

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