i want to edit a string after removing nonalpha chars, then move them in the proper place again.
eg:
import re
string = input()
alphastring = re.sub('[^0-9a-zA-Z]+', '', string)
alphastring = alphastring[::2]
i want it to be as following:
string = "heompuem ykojua'rje awzeklvl."
alphastring = heompuemykojuarjeawzeklvl
alphastring = hopeyourewell
?????? = hope you're well.
I tried fixing the problem with different sollutions but none give me the right output. I resorted to using RegEx which I'm not very familiar with.
Any help would be greatly welcomed.
I can't think of any reasonable way to do this with a regexp. Just use a loop that copies from input to output, skipping every other alphanumeric character.
copy_flag = True
string = input()
alphastring = ''
for c in string:
if c.isalnum():
if copy_flag:
alphastring += c
copy_flag = not copy_flag
else:
alphastring += c
Here is an approach:
string = "heompuem ykojua'rje awzeklvl."
result, i = "", 0
for c, alph in ((c, c.isalnum()) for c in string)
if not (alph and i%2): # skip odd alpha-numericals
result += c
i += alph # only increment counter for alpha-numericals
result
# "hope you're well."
Let's say I have a string 'gfgfdAAA1234ZZZuijjk' and I want to extract just the '1234' part.
I only know what will be the few characters directly before AAA, and after ZZZ the part I am interested in 1234.
With sed it is possible to do something like this with a string:
echo "$STRING" | sed -e "s|.*AAA\(.*\)ZZZ.*|\1|"
And this will give me 1234 as a result.
How to do the same thing in Python?
Using regular expressions - documentation for further reference
import re
text = 'gfgfdAAA1234ZZZuijjk'
m = re.search('AAA(.+?)ZZZ', text)
if m:
found = m.group(1)
# found: 1234
or:
import re
text = 'gfgfdAAA1234ZZZuijjk'
try:
found = re.search('AAA(.+?)ZZZ', text).group(1)
except AttributeError:
# AAA, ZZZ not found in the original string
found = '' # apply your error handling
# found: 1234
>>> s = 'gfgfdAAA1234ZZZuijjk'
>>> start = s.find('AAA') + 3
>>> end = s.find('ZZZ', start)
>>> s[start:end]
'1234'
Then you can use regexps with the re module as well, if you want, but that's not necessary in your case.
regular expression
import re
re.search(r"(?<=AAA).*?(?=ZZZ)", your_text).group(0)
The above as-is will fail with an AttributeError if there are no "AAA" and "ZZZ" in your_text
string methods
your_text.partition("AAA")[2].partition("ZZZ")[0]
The above will return an empty string if either "AAA" or "ZZZ" don't exist in your_text.
PS Python Challenge?
Surprised that nobody has mentioned this which is my quick version for one-off scripts:
>>> x = 'gfgfdAAA1234ZZZuijjk'
>>> x.split('AAA')[1].split('ZZZ')[0]
'1234'
you can do using just one line of code
>>> import re
>>> re.findall(r'\d{1,5}','gfgfdAAA1234ZZZuijjk')
>>> ['1234']
result will receive list...
import re
print re.search('AAA(.*?)ZZZ', 'gfgfdAAA1234ZZZuijjk').group(1)
You can use re module for that:
>>> import re
>>> re.compile(".*AAA(.*)ZZZ.*").match("gfgfdAAA1234ZZZuijjk").groups()
('1234,)
In python, extracting substring form string can be done using findall method in regular expression (re) module.
>>> import re
>>> s = 'gfgfdAAA1234ZZZuijjk'
>>> ss = re.findall('AAA(.+)ZZZ', s)
>>> print ss
['1234']
text = 'I want to find a string between two substrings'
left = 'find a '
right = 'between two'
print(text[text.index(left)+len(left):text.index(right)])
Gives
string
>>> s = '/tmp/10508.constantstring'
>>> s.split('/tmp/')[1].split('constantstring')[0].strip('.')
With sed it is possible to do something like this with a string:
echo "$STRING" | sed -e "s|.*AAA\(.*\)ZZZ.*|\1|"
And this will give me 1234 as a result.
You could do the same with re.sub function using the same regex.
>>> re.sub(r'.*AAA(.*)ZZZ.*', r'\1', 'gfgfdAAA1234ZZZuijjk')
'1234'
In basic sed, capturing group are represented by \(..\), but in python it was represented by (..).
You can find first substring with this function in your code (by character index). Also, you can find what is after a substring.
def FindSubString(strText, strSubString, Offset=None):
try:
Start = strText.find(strSubString)
if Start == -1:
return -1 # Not Found
else:
if Offset == None:
Result = strText[Start+len(strSubString):]
elif Offset == 0:
return Start
else:
AfterSubString = Start+len(strSubString)
Result = strText[AfterSubString:AfterSubString + int(Offset)]
return Result
except:
return -1
# Example:
Text = "Thanks for contributing an answer to Stack Overflow!"
subText = "to"
print("Start of first substring in a text:")
start = FindSubString(Text, subText, 0)
print(start); print("")
print("Exact substring in a text:")
print(Text[start:start+len(subText)]); print("")
print("What is after substring \"%s\"?" %(subText))
print(FindSubString(Text, subText))
# Your answer:
Text = "gfgfdAAA1234ZZZuijjk"
subText1 = "AAA"
subText2 = "ZZZ"
AfterText1 = FindSubString(Text, subText1, 0) + len(subText1)
BeforText2 = FindSubString(Text, subText2, 0)
print("\nYour answer:\n%s" %(Text[AfterText1:BeforText2]))
Using PyParsing
import pyparsing as pp
word = pp.Word(pp.alphanums)
s = 'gfgfdAAA1234ZZZuijjk'
rule = pp.nestedExpr('AAA', 'ZZZ')
for match in rule.searchString(s):
print(match)
which yields:
[['1234']]
One liner with Python 3.8 if text is guaranteed to contain the substring:
text[text.find(start:='AAA')+len(start):text.find('ZZZ')]
Just in case somebody will have to do the same thing that I did. I had to extract everything inside parenthesis in a line. For example, if I have a line like 'US president (Barack Obama) met with ...' and I want to get only 'Barack Obama' this is solution:
regex = '.*\((.*?)\).*'
matches = re.search(regex, line)
line = matches.group(1) + '\n'
I.e. you need to block parenthesis with slash \ sign. Though it is a problem about more regular expressions that Python.
Also, in some cases you may see 'r' symbols before regex definition. If there is no r prefix, you need to use escape characters like in C. Here is more discussion on that.
also, you can find all combinations in the bellow function
s = 'Part 1. Part 2. Part 3 then more text'
def find_all_places(text,word):
word_places = []
i=0
while True:
word_place = text.find(word,i)
i+=len(word)+word_place
if i>=len(text):
break
if word_place<0:
break
word_places.append(word_place)
return word_places
def find_all_combination(text,start,end):
start_places = find_all_places(text,start)
end_places = find_all_places(text,end)
combination_list = []
for start_place in start_places:
for end_place in end_places:
print(start_place)
print(end_place)
if start_place>=end_place:
continue
combination_list.append(text[start_place:end_place])
return combination_list
find_all_combination(s,"Part","Part")
result:
['Part 1. ', 'Part 1. Part 2. ', 'Part 2. ']
In case you want to look for multiple occurences.
content ="Prefix_helloworld_Suffix_stuff_Prefix_42_Suffix_andsoon"
strings = []
for c in content.split('Prefix_'):
spos = c.find('_Suffix')
if spos!=-1:
strings.append( c[:spos])
print( strings )
Or more quickly :
strings = [ c[:c.find('_Suffix')] for c in content.split('Prefix_') if c.find('_Suffix')!=-1 ]
Here's a solution without regex that also accounts for scenarios where the first substring contains the second substring. This function will only find a substring if the second marker is after the first marker.
def find_substring(string, start, end):
len_until_end_of_first_match = string.find(start) + len(start)
after_start = string[len_until_end_of_first_match:]
return string[string.find(start) + len(start):len_until_end_of_first_match + after_start.find(end)]
Another way of doing it is using lists (supposing the substring you are looking for is made of numbers, only) :
string = 'gfgfdAAA1234ZZZuijjk'
numbersList = ['0', '1', '2', '3', '4', '5', '6', '7', '8', '9']
output = []
for char in string:
if char in numbersList: output.append(char)
print(f"output: {''.join(output)}")
### output: 1234
Typescript. Gets string in between two other strings.
Searches shortest string between prefixes and postfixes
prefixes - string / array of strings / null (means search from the start).
postfixes - string / array of strings / null (means search until the end).
public getStringInBetween(str: string, prefixes: string | string[] | null,
postfixes: string | string[] | null): string {
if (typeof prefixes === 'string') {
prefixes = [prefixes];
}
if (typeof postfixes === 'string') {
postfixes = [postfixes];
}
if (!str || str.length < 1) {
throw new Error(str + ' should contain ' + prefixes);
}
let start = prefixes === null ? { pos: 0, sub: '' } : this.indexOf(str, prefixes);
const end = postfixes === null ? { pos: str.length, sub: '' } : this.indexOf(str, postfixes, start.pos + start.sub.length);
let value = str.substring(start.pos + start.sub.length, end.pos);
if (!value || value.length < 1) {
throw new Error(str + ' should contain string in between ' + prefixes + ' and ' + postfixes);
}
while (true) {
try {
start = this.indexOf(value, prefixes);
} catch (e) {
break;
}
value = value.substring(start.pos + start.sub.length);
if (!value || value.length < 1) {
throw new Error(str + ' should contain string in between ' + prefixes + ' and ' + postfixes);
}
}
return value;
}
a simple approach could be the following:
string_to_search_in = 'could be anything'
start = string_to_search_in.find(str("sub string u want to identify"))
length = len("sub string u want to identify")
First_part_removed = string_to_search_in[start:]
end_coord = length
Extracted_substring=First_part_removed[:end_coord]
One liners that return other string if there was no match.
Edit: improved version uses next function, replace "not-found" with something else if needed:
import re
res = next( (m.group(1) for m in [re.search("AAA(.*?)ZZZ", "gfgfdAAA1234ZZZuijjk" ),] if m), "not-found" )
My other method to do this, less optimal, uses regex 2nd time, still didn't found a shorter way:
import re
res = ( ( re.search("AAA(.*?)ZZZ", "gfgfdAAA1234ZZZuijjk") or re.search("()","") ).group(1) )
my problem is that I need to find multiple elements in one string.
For example I got one string that looks like this:
line = if ((var.equals("INPUT")) || (var.equals("OUTPUT"))
and then i got this code to find everything between ' (" ' and ' ") '
char1 = '("'
char2 = '")'
add = line[line.find(char1)+2 : line.find(char2)]
list.append(add)
The current result is just:
['INPUT']
but I need the result to look like this:
['INPUT','OUTPUT', ...]
after it got the first match it stopped searching for other matches, but I need to find everything in that string that matches this search.
I also need to append every single match to the list.
The simplest:
>>> import re
>>> s = """line = if ((var.equals("INPUT")) || (var.equals("OUTPUT"))"""
>>> r = re.compile(r'\("(.*?)"\)')
>>> r.findall(s)
['INPUT', 'OUTPUT']
The trick is to use .*? which is a non-greedy *.
You should look into regular expressions because that's a perfect fit for what you're trying to achieve.
Let's examine a regular expression that does what you want:
import re
regex = re.compile(r'\("([^"]+)"\)')
It matches the string (" then captures anything that isn't a quotation mark and then matches ") at the end.
By using it with findall you will get all the captured groups:
In [1]: import re
In [2]: regex = re.compile(r'\("([^"]+)"\)')
In [3]: line = 'if ((var.equals("INPUT")) || (var.equals("OUTPUT"))'
In [4]: regex.findall(line)
Out[4]: ['INPUT', 'OUTPUT']
If you don't want to use regex, this will help you.
line = 'if ((var.equals("INPUT")) || (var.equals("OUTPUT"))'
char1 = '("'
char2 = '")'
add = line[line.find(char1)+2 : line.find(char2)]
list.append(add)
line1=line[line.find(char2)+1:]
add = line1[line1.find(char1)+2 : line1.find(char2)]
list.append(add)
print(list)
just add those 3 lines in your code, and you're done
if I understand you correct, than something like that is help you:
line = 'line = if ((var.equals("INPUT")) || (var.equals("OUTPUT"))'
items = []
start = 0
end = 0
c = 0;
while c < len(line):
if line[c] == '(' and line[c + 1] == '"':
start = c + 2
if line[c] == '"' and line[c + 1] == ')':
end = c
if start and end:
items.append(line[start:end])
start = end = None
c += 1
print(items) # ['INPUT', 'OUTPUT']
I want to add a space between Arabic/Farsi and English words in my text.
It should be with regular expression in python.
for example:
input: "علیAli" output: "علی Ali"
input: "علیAliرضا" output: "علی Ali رضا"
input: "AliعلیRezaرضا" output: "Ali علی Reza رضا"
and what ever like them.
You can do it using re.sub likes the following in python 3:
rx = r'[a-zA-Z]+'
output = re.sub(rx, r' \g<0> ', input)
Instead of regular expression , I think this can be done by comparing unicodes. I tried to code the same but didn't know how to again split /r/n to get the required output. This code might be useful for some one.
import codecs,string
def detect_language(character):
maxchar = max(character)
if u'\u0041' <= maxchar <= u'\u007a':
return 'eng'
with codecs.open('letters.txt', encoding='utf-8') as f:
eng_list = []
eng_var =0
arab_list = []
arab_var=0
input = f.read()
for i in input:
isEng = detect_language(i)
if isEng == "eng":
eng_list.append(i)
eng_var = eng_var + 1
elif '\n' in i or '\r' in i:
eng_list.append(i)
arab_list.append(i)
else:
arab_list.append(i)
arab_var =arab_var +1
temp = str(eng_list)
temp1 = temp.encode('ascii','ignore')
I have string of some length consisting of only 4 characters which are 'A,T,G and C'. I have pattern 'GAATTC' present multiple times in the given string. I have to cut the string at intervals where this pattern is..
For example for a string, 'ATCGAATTCATA', I should get output of
string one - ATCGA
string two - ATTCATA
I am newbie in using Python but I have come up with the following (incomplete) code:
seq = seq.upper()
str1 = "GAATTC"
seqlen = len(seq)
seq = list(seq)
for i in range(0,seqlen-1):
site = seq.find(str1)
print(site[0:(i+2)])
Any help would be really appreciated.
First lets develop your idea of using find, so you can figure out your mistakes.
seq = 'ATCGAATTCATAATCGAATTCATAATCGAATTCATA'
seq = seq.upper()
pattern = "GAATTC"
split_at = 2
seqlen = len(seq)
i = 0
while i < seqlen:
site = seq.find(pattern, i)
if site != -1:
print(seq[i: site + split_at])
i = site + split_at
else:
print seq[i:]
break
Yet python string sports a powerful replace method that directly replaces fragments of string. The below snippet uses the replace method to insert separators when needed:
seq = 'ATCGAATTCATAATCGAATTCATAATCGAATTCATA'
seq = seq.upper()
pattern = "GA","ATTC"
pattern1 = ''.join(pattern) # 'GAATTC'
pattern2 = ' '.join(pattern) # 'GA ATTC'
splited_seq = seq.replace(pattern1, pattern2) # 'ATCGA ATTCATAATCGA ATTCATAATCGA ATTCATA'
print (splited_seq.split())
I believe it is more intuitive and should be faster then RE (which might have lower performance, depending on library and usage)
Here is a simple solution :
seq = 'ATCGAATTCATA'
seq_split = seq.upper().split('GAATTC')
result = [
(seq_split[i] + 'GA') if i % 2 == 0 else ('ATTC' + seq_split[i])
for i in range(len(seq_split)) if len(seq_split[i]) > 0
]
Result :
print(result)
['ATCGA', 'ATTCATA']
BioPython has a restriction enzyme package to do exactly what you're asking.
from Bio.Restriction import *
from Bio.Alphabet.IUPAC import IUPACAmbiguousDNA
print(EcoRI.site) # You will see that this is the enzyme you listed above
test = 'ATCGAATTCATA'.upper() # This is the sequence you want to search
my_seq = Seq(test, IUPACAmbiguousDNA()) # Create a biopython Seq object with our sequence
cut_sites = EcoRI.search(my_seq)
cut_sites contain a list of exactly where to cut the input sequence (such that GA is in the left sequence and ATTC is in the right sequence.
You can then split the sequence into contigs using:
cut_sites = [0] + cut_sites # We add a leading zero so this works for the first
# contig. This might not always be needed.
contigs = [test[i:j] for i,j in zip(cut_sites, cut_sites[1:]+[None])]
You can see this page for more details about BioPython.
My code is a bit sloppy, but you could try something like this when you want to iterate over multiple occurrences of the string
def split_strings(seq):
string1 = seq[:seq.find(str1) +2]
string2 = seq[seq.find(str1) +2:]
return string1, string2
test = 'ATCGAATTCATA'.upper()
str1 = 'GAATTC'
seq = test
while str1 in seq:
string1, seq = split_strings(seq)
print string1
print seq
Here's a solution using the regular expression module:
import re
seq = 'ATCGAATTCATA'
restriction_site = re.compile('GAATTC')
subseq_start = 0
for match in restriction_site.finditer(seq):
print seq[subseq_start:match.start()+2]
subseq_start = match.start()+2
print seq[subseq_start:]
Output:
ATCGA
ATTCATA