I want to split this string in several substrings:
BAA33520.2|/gene="vpf402",/product="Vpf402"|GI:8272373|AB012574|join{7347:7965,
0:591}
The separator is | (ascii 124).
It works with all other separators but not with this one.
?regex
Two regular expressions may be joined by the infix operator |; the resulting regular expression matches any string matching either subexpression. For example, abba|cde matches either the string abba or the string cde. Note that alternation does not work inside character classes, where | has its literal meaning.
The fundamental building blocks are the regular expressions that match a single character. Most characters, including all letters and digits, are regular expressions that match themselves. Any metacharacter with special meaning may be quoted by preceding it with a backslash. The metacharacters in extended regular expressions are . \ | ( ) [ { ^ $ * + ?, but note that whether these have a special meaning depends on the context.
Thus:
stringr::str_split('BAA33520.2|/gene="vpf402",/product="Vpf402"|GI:8272373|AB012574|join{7347:7965, 0:591}', "\\|")
As #Frank noted, you can do this in base::strsplit() by adding the fixed=TRUE:
strsplit('BAA33520.2|/gene="vpf402",/product="Vpf402"|GI:8272373|AB012574|join{7347:7965, 0:591}',"|", fixed=TRUE)
However, you can also do this with stringr::str_split() by decorating the regular expression for the separator:
stringr::str_split('BAA33520.2|/gene="vpf402",/product="Vpf402"|GI:8272373|AB012574|join{7347:7965, 0:591}',
regex("|", literal=TRUE))
Incidentally, stringr is pretty much just a slightly friendlier wrapper to stringi functions at this point and I highly recommend studying the stringi package as it contains some wonderful gems outside of string spiltting.
Related
I want to add a space between two punctuation characters (+ and -).
I have this code:
s <- "-+"
str_replace(s, "([:punct:])([:punct:])", "\\1\\s\\2")
It does not work.
May I have some help?
There are several issues here:
[:punct:] pattern in an ICU regex flavor does not match math symbols (\p{S}), it only matches punctuation proper (\p{P}), if you still want to match all of them, combine the two classes, [\p{P}\p{S}]
"\\1\\s\\2" replacement contains a \s regex escape sequence, and these are not supported in the replacement patterns, you need to use a literal space
str_replace only replaces one, first occurrence, use str_replace_all to handle all matches
Even if you use all the above suggestions, it still won't work for strings like -+?/. You need to make the second part of the regex a zero-width assertion, a positive lookahead, in order not to consume the second punctuation.
So, you can use
library(stringr)
s <- "-+?="
str_replace_all(s, "([\\p{P}\\p{S}])(?=[\\p{P}\\p{S}])", "\\1 ")
str_replace_all(s, "(?<=[\\p{P}\\p{S}])(?=[\\p{P}\\p{S}])", " ")
gsub("(?<=[[:punct:]])(?=[[:punct:]])", " ", s, perl=TRUE)
See the R demo online, all three lines yield [1] "- + ? =" output.
Note that in PCRE regex flavor (used with gsub and per=TRUE) the POSIX character class must be put inside a bracket expression, hence the use of double brackets in [[:punct:]].
Also, (?<=[[:punct:]]) is a positive lookbehind that checks for the presence of its pattern immediately on the left, and since it is non-consuming there is no need of any backreference in the replacement.
I need to identify matching course number that have xx.3xxxxxx.
These are some examples of the course numbers.
26.3730004
27.0210000
26.3730009
26.7114001
23.9610071
26.0A34430
23.3670005
26.0B05430
I tried many patterns one example I used is the pattern below. It did not get any match.
"[^0-9]{2}\Q.\E3[^0-9]+$"
I tried using grep and grepl. I actually need the code to return indexes.
This code shows my attempt to tag the rows that have matches.
Teacher$virtual[
which(
grepl("[^0-9]{2}\\Q.\\E3[^0-9]+$",Teacher$CourseNumber))]
<- "1"
I need to remove any row from my dataframe that have the course number with that pattern. XX.3XXXXXX
But, my code did not find any match. Can you please help me?
You should use
grepl("^[0-9]{2}\\.3", Teacher$CourseNumber)
See the regex graph:
Details:
^ - start of a string
[0-9]{2} - two digits
\\. - a dot (note that a regex escape is a literal backslash, but inside a string literal, "...", a single backslash is used to form string escape sequences, hence the backslash must be double to obtain a literal backslash char necessary for a regex escape)
3 - a 3 char.
NOTE: If you want to use in-pattern quoting with \Q and \E (in between which all chars are treated literally) you need to use PCRE regex, add perl=TRUE and use
grepl("^[0-9]{2}\\Q.\\E3", Teacher$CourseNumber, perl=TRUE)
Now, the dot is treated as a literal dot, not a . metacharacter that matches any char but a line break char (in a PCRE regex, . does not match line break chars by default).
Here, this simple expression would likely cover that:
^[0-9]{2}\.[3].+$
which has a [3] boundary right after the .. It would probably work without start and end anchors:
[0-9]{2}\.[3].+
Demo
We can add or reduce the boundaries, if it'd be necessary.
I would like to achieve this result : "raster(B04) + raster(B02) - raster(A10mB03)"
Therefore, I created this regex: B[0-1][0-9]|A[1,2,6]0m/B[0-1][0-9]"
I am now trying to replace all matches of the string "B04 + B02 - A10mB03" with gsub("B[0-1][0-9]]|[A[1,2,6]0mB[0-1][0-9]", "raster()", string)
How could I include the original values B01, B02, A10mB03?
PS: I also tried gsub("B[0-1][0-9]]|[A[1,2,6]0mB[0-1][0-9]", "raster(\\1)", string) but it did not work.
Basically, you need to match some text and re-use it inside a replacement pattern. In base R regex methods, there is no way to do that without a capturing group, i.e. a pair of unescaped parentheses, enclosing the whole regex pattern in this case, and use a \\1 replacement backreference in the replacement pattern.
However, your regex contains some issues: [A[1,2,6] gets parsed as a single character class that matches A, [, 1, ,, 2 or 6 because you placed a [ before A. Also, note that , inside character classes matches a literal comma, and it is not what you expected. Another, similar issue, is with [0-9]] - it matches any ASCII digit with [0-9] and then a ] (the ] char does not have to be escaped in a regex pattern).
So, a potential fix for you expression can look like
gsub("(B[0-1][0-9]|A[126]0mB[0-1][0-9])", "raster(\\1)", string)
Or even just matching 1 or more word chars (considering the sample string you supplied)
gsub("(\\w+)", "raster(\\1)", string)
might do.
See the R demo online.
Simple regex question. I have a string on the following format:
this is a [sample] string with [some] special words. [another one]
What is the regular expression to extract the words within the square brackets, ie.
sample
some
another one
Note: In my use case, brackets cannot be nested.
You can use the following regex globally:
\[(.*?)\]
Explanation:
\[ : [ is a meta char and needs to be escaped if you want to match it literally.
(.*?) : match everything in a non-greedy way and capture it.
\] : ] is a meta char and needs to be escaped if you want to match it literally.
(?<=\[).+?(?=\])
Will capture content without brackets
(?<=\[) - positive lookbehind for [
.*? - non greedy match for the content
(?=\]) - positive lookahead for ]
EDIT: for nested brackets the below regex should work:
(\[(?:\[??[^\[]*?\]))
This should work out ok:
\[([^]]+)\]
Can brackets be nested?
If not: \[([^]]+)\] matches one item, including square brackets. Backreference \1 will contain the item to be match. If your regex flavor supports lookaround, use
(?<=\[)[^]]+(?=\])
This will only match the item inside brackets.
To match a substring between the first [ and last ], you may use
\[.*\] # Including open/close brackets
\[(.*)\] # Excluding open/close brackets (using a capturing group)
(?<=\[).*(?=\]) # Excluding open/close brackets (using lookarounds)
See a regex demo and a regex demo #2.
Use the following expressions to match strings between the closest square brackets:
Including the brackets:
\[[^][]*] - PCRE, Python re/regex, .NET, Golang, POSIX (grep, sed, bash)
\[[^\][]*] - ECMAScript (JavaScript, C++ std::regex, VBA RegExp)
\[[^\]\[]*] - Java, ICU regex
\[[^\]\[]*\] - Onigmo (Ruby, requires escaping of brackets everywhere)
Excluding the brackets:
(?<=\[)[^][]*(?=]) - PCRE, Python re/regex, .NET (C#, etc.), JGSoft Software
\[([^][]*)] - Bash, Golang - capture the contents between the square brackets with a pair of unescaped parentheses, also see below
\[([^\][]*)] - JavaScript, C++ std::regex, VBA RegExp
(?<=\[)[^\]\[]*(?=]) - Java regex, ICU (R stringr)
(?<=\[)[^\]\[]*(?=\]) - Onigmo (Ruby, requires escaping of brackets everywhere)
NOTE: * matches 0 or more characters, use + to match 1 or more to avoid empty string matches in the resulting list/array.
Whenever both lookaround support is available, the above solutions rely on them to exclude the leading/trailing open/close bracket. Otherwise, rely on capturing groups (links to most common solutions in some languages have been provided).
If you need to match nested parentheses, you may see the solutions in the Regular expression to match balanced parentheses thread and replace the round brackets with the square ones to get the necessary functionality. You should use capturing groups to access the contents with open/close bracket excluded:
\[((?:[^][]++|(?R))*)] - PHP PCRE
\[((?>[^][]+|(?<o>)\[|(?<-o>]))*)] - .NET demo
\[(?:[^\]\[]++|(\g<0>))*\] - Onigmo (Ruby) demo
If you do not want to include the brackets in the match, here's the regex: (?<=\[).*?(?=\])
Let's break it down
The . matches any character except for line terminators. The ?= is a positive lookahead. A positive lookahead finds a string when a certain string comes after it. The ?<= is a positive lookbehind. A positive lookbehind finds a string when a certain string precedes it. To quote this,
Look ahead positive (?=)
Find expression A where expression B follows:
A(?=B)
Look behind positive (?<=)
Find expression A where expression B
precedes:
(?<=B)A
The Alternative
If your regex engine does not support lookaheads and lookbehinds, then you can use the regex \[(.*?)\] to capture the innards of the brackets in a group and then you can manipulate the group as necessary.
How does this regex work?
The parentheses capture the characters in a group. The .*? gets all of the characters between the brackets (except for line terminators, unless you have the s flag enabled) in a way that is not greedy.
Just in case, you might have had unbalanced brackets, you can likely design some expression with recursion similar to,
\[(([^\]\[]+)|(?R))*+\]
which of course, it would relate to the language or RegEx engine that you might be using.
RegEx Demo 1
Other than that,
\[([^\]\[\r\n]*)\]
RegEx Demo 2
or,
(?<=\[)[^\]\[\r\n]*(?=\])
RegEx Demo 3
are good options to explore.
If you wish to simplify/modify/explore the expression, it's been explained on the top right panel of regex101.com. If you'd like, you can also watch in this link, how it would match against some sample inputs.
RegEx Circuit
jex.im visualizes regular expressions:
Test
const regex = /\[([^\]\[\r\n]*)\]/gm;
const str = `This is a [sample] string with [some] special words. [another one]
This is a [sample string with [some special words. [another one
This is a [sample[sample]] string with [[some][some]] special words. [[another one]]`;
let m;
while ((m = regex.exec(str)) !== null) {
// This is necessary to avoid infinite loops with zero-width matches
if (m.index === regex.lastIndex) {
regex.lastIndex++;
}
// The result can be accessed through the `m`-variable.
m.forEach((match, groupIndex) => {
console.log(`Found match, group ${groupIndex}: ${match}`);
});
}
Source
Regular expression to match balanced parentheses
(?<=\[).*?(?=\]) works good as per explanation given above. Here's a Python example:
import re
str = "Pagination.go('formPagination_bottom',2,'Page',true,'1',null,'2013')"
re.search('(?<=\[).*?(?=\])', str).group()
"'formPagination_bottom',2,'Page',true,'1',null,'2013'"
The #Tim Pietzcker's answer here
(?<=\[)[^]]+(?=\])
is almost the one I've been looking for. But there is one issue that some legacy browsers can fail on positive lookbehind.
So I had to made my day by myself :). I manged to write this:
/([^[]+(?=]))/g
Maybe it will help someone.
console.log("this is a [sample] string with [some] special words. [another one]".match(/([^[]+(?=]))/g));
if you want fillter only small alphabet letter between square bracket a-z
(\[[a-z]*\])
if you want small and caps letter a-zA-Z
(\[[a-zA-Z]*\])
if you want small caps and number letter a-zA-Z0-9
(\[[a-zA-Z0-9]*\])
if you want everything between square bracket
if you want text , number and symbols
(\[.*\])
This code will extract the content between square brackets and parentheses
(?:(?<=\().+?(?=\))|(?<=\[).+?(?=\]))
(?: non capturing group
(?<=\().+?(?=\)) positive lookbehind and lookahead to extract the text between parentheses
| or
(?<=\[).+?(?=\]) positive lookbehind and lookahead to extract the text between square brackets
In R, try:
x <- 'foo[bar]baz'
str_replace(x, ".*?\\[(.*?)\\].*", "\\1")
[1] "bar"
([[][a-z \s]+[]])
Above should work given the following explaination
characters within square brackets[] defines characte class which means pattern should match atleast one charcater mentioned within square brackets
\s specifies a space
+ means atleast one of the character mentioned previously to +.
I needed including newlines and including the brackets
\[[\s\S]+\]
If someone wants to match and select a string containing one or more dots inside square brackets like "[fu.bar]" use the following:
(?<=\[)(\w+\.\w+.*?)(?=\])
Regex Tester
I would like to split strings like the following:
x <- "abc-1230-xyz-[def-ghu-jkl---]-[adsasa7asda12]-s-[klas-bst-asdas foo]"
by dash (-) on the condition that those dashes must not be contained inside a pair of []. The expected result would be
c("abc", "1230", "xyz", "[def-ghu-jkl---]", "[adsasa7asda12]", "s",
"[klas-bst-asdas foo]")
Notes:
There is no nesting of square brackets inside each other.
The square brackets can contain any characters / numbers / symbols except square brackets.
The other parts of the string are also variable so that we can only assume that we split by - whenever it's not inside [].
There's a similar question for python (How to split a string by commas positioned outside of parenthesis?) but I haven't yet been able to accurately adjust that to my scenario.
You could use look ahead to verify that there is no ] following sooner than a [:
-(?![^[]*\])
So in R:
strsplit(x, "-(?![^[]*\\])", perl=TRUE)
Explanation:
-: match the hyphen
(?! ): negative look ahead: if that part is found after the previously matched hyphen, it invalidates the match of the hyphen.
[^[]: match any character that is not a [
*: match any number of the previous
\]: match a literal ]. If this matches, it means we found a ] before finding a [. As all this happens in a negative look ahead, a match here means the hyphen is not a match. Note that a ] is a special character in regular expressions, so it must be escaped with a backslash (although it does work without escape, as the engine knows there is no matching [ preceding it -- but I prefer to be clear about it being a literal). And as backslashes have a special meaning in string literals (they also denote an escape), that backslash itself must be escaped again in this string, so it appears as \\].
Instead of splitting, extract the parts:
library(stringr)
str_extract_all(x, "(\\[[^\\[]*\\]|[^-])+")
I am not familiar with r language, but I believe it can do regex based search and replace. Instead of struggling with one single regex split function, I would go in 3 steps:
replace - in all [....] parts by a invisible char, like \x99
split by -
for each element in the above split result(array/list), replace \x99 back to -
For the first step, you can find the parts by \[[^]]