I'm building a graph which allows edges to be toggled on/off. I need to be able to add and remove them repeatedly. I have noticed this error with node degrees with nodes attached to toggled edges. I've included an example.
My code:
allElements = cy.elements();
....
var allEdges = allElements.filter('edge');
var allNodes = allElements.filter('node');
for(var i=0; i<5; i++){
// DELETE
var printThis = [];
allNodes.filter(function(i,ele){
printThis.push(ele.degree());
});
console.log(printThis);
cy.remove(allEdges);
cy.add(allEdges);
}
Returns:
[1, 1, 1, 1, 1, 3, 1, 1, 1, 1, 1, 6, 1, 2, 1, 1, 1, 36, 8, 3, 4, 4, 2, 1, 1, 1, 1, 1, 1, 2]
[1, 1, 1, 1, 1, 3, 1, 1, 1, 1, 1, 6, 1, 2, 1, 1, 1, 36, 8, 3, 4, 4, 2, 1, 1, 1, 1, 1, 1, 2]
[2, 2, 2, 2, 2, 6, 2, 2, 2, 2, 2, 12, 2, 4, 2, 2, 2, 72, 16, 6, 8, 8, 4, 2, 2, 2, 2, 2, 2, 4]
[3, 3, 3, 3, 3, 9, 3, 3, 3, 3, 3, 18, 3, 6, 3, 3, 3, 108, 24, 9, 12, 12, 6, 3, 3, 3, 3, 3, 3, 6]
[4, 4, 4, 4, 4, 12, 4, 4, 4, 4, 4, 24, 4, 8, 4, 4, 4, 144, 32, 12, 16, 16, 8, 4, 4, 4, 4, 4, 4, 8]
Which shows that removing edges after the first time dont decrease the degree of the nodes they're attached to.
How can I have cytoscape return the correct degree?
Thank you for notifying us of the issue. We will get a fix in for 2.0.3 -M
https://github.com/cytoscape/cytoscape.js/issues/360
Related
I'm trying to create an empty pandas.Dataframe with a Multi-Index that I can later fill columnwise with my data. I've looked at other answers (here and here), but they all work with data that does not fill in columnwise, or that is somehow connected in the different columns.
The information I want to be contained in the Multi-Index looks like this:
GCM_list = ['BCC-CSM2-MR', 'CAMS-CSM1-0', 'CESM2', 'CESM2-WACCM', 'CMCC-CM2-SR5', 'EC-Earth3', 'EC-Earth3-Veg', 'FGOALS-f3-L', 'GFDL-ESM4', 'INM-CM4-8', 'INM-CM5-0', 'MPI-ESM1-2-HR', 'MRI-ESM2-0', 'NorESM2-MM', 'TaiESM1']
SSP_list = ['SSP_126', 'SSP_245', 'SSP_370', 'SSP_585']
index_years = [2030, 2040, 2050, 2060, 2070, 2080, 2090, 2100]
And I want it to look somewhat like this (for the three first items in GCM_list):
BCC-CSM2-MR CAMS-CSM1-0 CESM2
SSP_126 SSP_245 SSP_370 SSP_585 SSP_126 SSP_245 SSP_370 SSP_585 SSP_126 SSP_245 SSP_370 SSP_585
2030 | |
2040 | |
2050 V V
2060 1 2
2070
2080
2090
2100
The "arrows" in the first two columns should represent how and in what order I want to fill the Dataframe after the Index is created - if that's important for this question.
I've tried building the index like this, but I'm not sure what to make of the result. How should I proceed? Is there a way to build this empty dataframe so that I can fill it column after column?
arrays = [GCM_list, SSP_list]
index = pd.MultiIndex.from_arrays(arrays, names=('GCM', 'SSP'))
>>> index
MultiIndex(levels=[[u'BCC-CSM2-MR', u'CAMS-CSM1-0', u'CESM2', u'CESM2-WACCM', u'CMCC-CM2-SR5', u'EC-Earth3', u'EC-Earth3-Veg', u'FGOALS-f3-L', u'GFDL-ESM4', u'INM-CM4-8', u'INM-CM5-0', u'MPI-ESM1-2-HR', u'MRI-ESM2-0', u'NorESM2-MM', u'TaiESM1'], [u'SSP_126', u'SSP_245', u'SSP_370', u'SSP_585']],
labels=[[0, 0, 0, 0, 1, 1, 1, 1, 2, 2, 2, 2, 3, 3, 3, 3, 4, 4, 4, 4, 5, 5, 5, 5, 6, 6, 6, 6, 7, 7, 7, 7, 8, 8, 8, 8, 9, 9, 9, 9, 10, 10, 10, 10, 11, 11, 11, 11, 12, 12, 12, 12, 13, 13, 13, 13, 14, 14, 14, 14], [0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3, 0, 1, 2, 3]],
names=[u'GCM', u'SSP'])
Use MultiIndex.from_product:
arrays = [GCM_list, SSP_list]
mux = pd.MultiIndex.from_product(arrays, names=('GCM', 'SSP'))
df = pd.DataFrame(columns=mux, index=index_years)
Edit: example DataFrame for the original error-message found and posted.
(As I just recognized, the Error does only appear, if the tuple has a certain length. The example is now adapted.)
Original text:
I need to group by tuple of different length.
For the grouping I'm applying a summary_function.
import pandas as pd
def summary_function(df):
value_mean = df['value'].mean()
df1 = pd.DataFrame({'value_mean':[value_mean]
})
return df1
tuple_list = [(1,2,1,1,1,1,1,1,1,1,1,1,1),(2,3,1,1,1,1,1,1,1,1,1,1,1), \
(1,2,1,1,1,1,1,1,1,1,1,1,1), \
(2,3,4,4,4,4,4,4,4,4,4,4,4,4,4,1,1,1,1,1,1,1,1,1,1,1)]
value = [1,2,3,4]
letter = list('abab')
df = pd.DataFrame({'letter':letter, 'tuple':tuple_list, 'value':value})
df
> letter tuple value
>0 a (1, 2, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1) 1
>1 b (2, 3, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1) 2
>2 a (1, 2, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1) 3
>3 b (2, 3, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, ... 4
If I'm using a direct mean() function, the result is how expected:
df.groupby(['letter','tuple']).mean()
> value
>letter tuple
>a (1, 2, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1) 2
>b (2, 3, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1) 2
> (2, 3, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, ...) 4
But if I apply the function. (which I need to use since I have dozens of summaries) The tupel is empty while using the simple
df.groupby(['letter','tuple']).apply(lambda x:summary_function(x))
I get a ValueError:
>ValueError: Values not found in passed level: MultiIndex([(2, 3, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4)],
)
It would be awesome to get some ideas on how to solve this.
In your case, do not return the dataframe, return the series.
When you return the series, Pandas will align the series horizontally. For example:
def summary_function(df):
return df['value'].agg(['min','mean','max'])
df.groupby(['letter','tuple']).apply(summary_function)
Output:
value min mean max
letter tuple
a (1, 2, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1) 1.0 2.0 3.0
b (2, 3, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1) 2.0 2.0 2.0
(2, 3, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 1... 4.0 4.0 4.0
The even shorter solution was just to replace "pd.DataFrame" with "pd.Series".
def summary_function(df):
value_mean = df['value'].mean()
df1 = pd.Series({'value_mean':[value_mean]
})
(Inspired by the answer of Quang Hoang)
I have an array
a = np.arange(0, 100)
and another array with some cut-off points
b = np.array([5, 8, 15, 35, 76])
I want to create an array such that
c = [0, 0, 0, 0, 1, 1, 1, 2, 2, ..., 4, 4, 5]
Is there an elegant / fast way to do this? Possible in Pandas?
Here's a compact way -
(a[:,None]>=b).sum(1)
Another with cumsum -
p = np.zeros(len(a),dtype=int)
p[b] = 1
out = p.cumsum()
Another with searchsorted -
np.searchsorted(b,a,'right')
Another with repeat -
np.repeat(range(len(b)+1),np.ediff1d(b,to_begin=b[0],to_end=len(a)-b[-1]))
Another with isin and cumsum -
np.isin(a,b).cumsum()
Here is one way cut
pd.cut(a,[-np.Inf]+b.tolist()+[np.Inf]).codes
Out[383]:
array([0, 0, 0, 0, 0, 0, 1, 1, 1, 2, 2, 2, 2, 2, 2, 2, 3, 3, 3, 3, 3, 3,
3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 3, 4, 4, 4, 4, 4, 4, 4, 4,
4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4,
4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 4, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5,
5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5, 5], dtype=int8)
I keep getting the following error: "Uncaught Requested parser does not exist" from the devtool console
and no chart is displayed on my dashboard.
JS Code:
var chart = new Keen.Dataviz()
.el('#chart-01')
.height(280)
.title('Registered CSRs')
.type('bar')
.prepare();
// Fetch data from my server's API
var json = $.ajax({
url: "/api/v1.0/registered_csrs/nwg",
dataType: "json",
success: function (jsonData) {
chart
.data(jsonData)
.render();
}
});
Here is the format of jsonData
$ curl -GET http://localhost:4000/api/v1.0/registered_csrs/nwg
[["Date", "Total", "Emergency", "High", "Medium", "Low"],
["2016-02-01", 1, 0, 0, 1, 0],
["2016-03-01", 6, 0, 0, 6, 0],
["2016-04-01", 11, 0, 1, 7, 3],
["2016-05-01", 19, 0, 1, 16, 2],
["2016-06-01", 27, 0, 12, 13, 2],
["2016-07-01", 27, 3, 12, 12, 0],
["2016-08-01", 25, 3, 8, 11, 3],
["2016-09-01", 21, 4, 10, 5, 2],
["2016-10-01", 19, 3, 4, 11, 1],
["2016-11-01", 29, 4, 12, 12, 1],
["2016-12-01", 26, 2, 9, 14, 1],
["2017-01-01", 16, 1, 3, 11, 1],
["2017-02-01", 22, 2, 8, 11, 1],
["2017-03-01", 28, 2, 10, 14, 2],
["2017-04-01", 15, 2, 6, 5, 2],
["2017-05-01", 28, 2, 7, 18, 1],
["2017-06-01", 22, 1, 11, 8, 2],
["2017-07-01", 10, 1, 4, 5, 0]]
Take a look
Keen.io Dataviz to draw graph but keep getting error "Uncaught Requested parser does not exist"
https://keen.io/docs/visualize/visualize-your-own-data/
Code below should work fine in your app
chart
.data({result: jsonData})
.render();
Consider a numpy array A of shape (7,6)
A = array([[0, 1, 2, 3, 5, 8],
[4, 100, 6, 7, 8, 7],
[8, 9, 10, 11, 5, 4],
[12, 13, 14, 15, 1, 2],
[1, 3, 5, 6, 4, 8],
[12, 23, 12, 24, 4, 3],
[1, 3, 5, 7, 89, 0]])
together with a second numpy array r of the same shape which contains the radius of A starting from a central point A(3,2)=0:
r = array([[3, 3, 3, 3, 3, 4],
[2, 2, 2, 2, 2, 3],
[2, 1, 1, 1, 2, 3],
[2, 1, 0, 1, 2, 3],
[2, 1, 1, 1, 2, 3],
[2, 2, 2, 2, 2, 3],
[3, 3, 3, 3, 3, 4]])
I would like to pick up all the elements of A which are located at the position 1 of r, i.e. [9,10,11,15,4,6,5,13], all the elements of A located at position 2 of r and so on. I there some numpy function to do that?
Thank you
You can select a section of A by doing something like A[r == 1], to get all the sections as a list you could do [A[r == i] for i in range(r.max() + 1)]. This will work, but may be inefficient depending on how big the values in r go because you need to compute r == i for every i.
You could also use this trick, first sort A based on r, then simply split the sorted A array at the right places. That looks something like this:
r_flat = r.ravel()
order = r_flat.argsort()
A_sorted = A.ravel()[order]
r_sorted = r_flat[order]
edges = r_sorted.searchsorted(np.arange(r_sorted[-1] + 1), 'right')
sections = []
start = 0
for end in edges:
sections.append(A_sorted[start:end])
start = end
I get a different answer to the one you were expecting (3 not 4 from the 4th row) and the order is slightly different (strictly row then column), but:
>>> A
array([[ 0, 1, 2, 3, 5, 8],
[ 4, 100, 6, 7, 8, 7],
[ 8, 9, 10, 11, 5, 4],
[ 12, 13, 14, 15, 1, 2],
[ 1, 3, 5, 6, 4, 8],
[ 12, 23, 12, 24, 4, 3],
[ 1, 3, 5, 7, 89, 0]])
>>> r
array([[3, 3, 3, 3, 3, 4],
[2, 2, 2, 2, 2, 3],
[2, 1, 1, 1, 2, 3],
[2, 1, 0, 1, 2, 3],
[2, 1, 1, 1, 2, 3],
[2, 2, 2, 2, 2, 3],
[3, 3, 3, 3, 3, 4]])
>>> A[r==1]
array([ 9, 10, 11, 13, 15, 3, 5, 6])
Alternatively, you can get column then row ordering by transposing both arrays:
>>> A.T[r.T==1]
array([ 9, 13, 3, 10, 5, 11, 15, 6])