[R] element wise pattern recognition and string substitution
Jun Shen
jun.shen.ut at gmail.com
Wed Sep 7 00:59:18 CEST 2016
Hi Bert,
I still couldn't make the multiple patterns to work. Here is an example. I
make the pattern as follows
final.pattern <-
"(240\\.m\\.g)\\.(>50-70\\.kg)\\.(.*)|(3\\.mg\\.kg)\\.(>50-70\\.kg)\\.(.*)|(240\\.m\\.g)\\.(>70-90\\.kg)\\.(.*)|(3\\.mg\\.kg)\\.(>70-90\\.kg)\\.(.*)|(240\\.m\\.g)\\.(>90-110\\.kg)\\.(.*)|(3\\.mg\\.kg)\\.(>90-110\\.kg)\\.(.*)|(240\\.m\\.g)\\.(50\\.kg\\.or\\.less)\\.(.*)|(3\\.mg\\.kg)\\.(50\\.kg\\.or\\.less)\\.(.*)|(240\\.m\\.g)\\.(>110\\.kg)\\.(.*)|(3\\.mg\\.kg)\\.(>110\\.kg)\\.(.*)"
test.string <- c('240.m.g.>110.kg.geo.mean', '3.mg.kg.>110.kg.P05',
'240.m.g.>50-70.kg.geo.mean')
sub(final.pattern, '\\1', test.string)
sub(final.pattern, '\\2', test.string)
sub(final.pattern, '\\3', test.string)
Only the third string has been correctly parsed, which matches the
first pattern. It seems the rest of the patterns are not called.
Jun
On Mon, Sep 5, 2016 at 10:21 PM, Bert Gunter <bgunter.4567 at gmail.com> wrote:
> Just noticed: My clumsy do.call() line in my previously posted code
> below should be replaced with:
> pat <- paste(pat,collapse = "|")
>
>
> > pat <- c(pat1,pat2)
> > paste(pat,collapse="|")
> [1] "a+\\.*a+|b+\\.*b+"
>
> ************ replace this **************************
> > pat <- do.call(paste,c(as.list(pat), sep="|"))
> ********************************************
> > sub(paste0("^[^b]*(",pat,").*$"),"\\1",z)
> [1] "a.a" "bb" "b.bbb"
>
>
> -- Bert
> Bert Gunter
>
> "The trouble with having an open mind is that people keep coming along
> and sticking things into it."
> -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )
>
>
> On Mon, Sep 5, 2016 at 12:11 PM, Bert Gunter <bgunter.4567 at gmail.com>
> wrote:
> > Jun:
> >
> > You need to provide a clear specification via regular expressions of
> > the patterns you wish to match -- at least for me to decipher it.
> > Others may be smarter than I, though...
> >
> > Jeff: Thanks. I have now convinced myself that it can be done (a
> > "proof" of sorts): If pat1, pat2,..., patn are m different patterns
> > (in a vector of patterns) to be matched in a vector of n strings,
> > where only one of the patterns will match in any string, then use
> > paste() (probably via do.call()) or otherwise to paste them together
> > separated by "|" to form the concatenated pattern, pat. Then
> >
> > sub(paste0("^.*(",pat, ").*$"),"\\1",thevector)
> >
> > should extract the matching pattern in each (perhaps with a little
> > fiddling due to precedence rules); e.g.
> >
> >> z <-c(".fg.h.g.a.a", "bb..dd.ef.tgf.", "foo...b.bbb.tgy")
> >
> >> pat1 <- "a+\\.*a+"
> >> pat2 <-"b+\\.*b+"
> >> pat <- c(pat1,pat2)
> >
> >> pat <- do.call(paste,c(as.list(pat), sep="|"))
> >> pat
> > [1] "a+\\.*a+|b+\\.*b+"
> >
> >> sub(paste0("^[^b]*(",pat,").*$"), "\\1", z)
> > [1] "a.a" "bb" "b.bbb"
> >
> > Cheers,
> > Bert
> >
> >
> > Bert Gunter
> >
> > "The trouble with having an open mind is that people keep coming along
> > and sticking things into it."
> > -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )
> >
> >
> > On Mon, Sep 5, 2016 at 9:56 AM, Jun Shen <jun.shen.ut at gmail.com> wrote:
> >> Thanks for the reply, Bert.
> >>
> >> Your solution solves the example. I actually have a more general
> situation
> >> where I have this dot concatenated string from multiple variables. The
> >> problem is those variables may have values with dots in there. The
> number of
> >> dots are not consistent for all values of a variable. So I am thinking
> to
> >> define a vector of patterns for the vector of the string and hopefully
> to
> >> find a way to use a pattern from the pattern vector for each value of
> the
> >> string vector. The only way I can think of is "for" loop, which can be
> slow.
> >> Also these are happening in a function I am writing. Just wonder if
> there is
> >> another more efficient way. Thanks a lot.
> >>
> >> Jun
> >>
> >> On Mon, Sep 5, 2016 at 1:41 AM, Bert Gunter <bgunter.4567 at gmail.com>
> wrote:
> >>>
> >>> Well, he did provide an example, and...
> >>>
> >>>
> >>> > z <- c('TX.WT.CUT.mean','mg.tx.cv')
> >>>
> >>> > sub("^.+?\\.(.+)\\.[^.]+$","\\1",z)
> >>> [1] "WT.CUT" "tx"
> >>>
> >>>
> >>> ## seems to do what was requested.
> >>>
> >>> Jeff would have to amplify on his initial statement however: do you
> >>> mean that separate patterns can always be combined via "|" ? Or
> >>> something deeper?
> >>>
> >>> Cheers,
> >>> Bert
> >>> Bert Gunter
> >>>
> >>> "The trouble with having an open mind is that people keep coming along
> >>> and sticking things into it."
> >>> -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )
> >>>
> >>>
> >>> On Sun, Sep 4, 2016 at 9:30 PM, Jeff Newmiller <
> jdnewmil at dcn.davis.ca.us>
> >>> wrote:
> >>> > Your opening assertion is false.
> >>> >
> >>> > Provide a reproducible example and someone will demonstrate.
> >>> > --
> >>> > Sent from my phone. Please excuse my brevity.
> >>> >
> >>> > On September 4, 2016 9:06:59 PM PDT, Jun Shen <jun.shen.ut at gmail.com
> >
> >>> > wrote:
> >>> >>Dear list,
> >>> >>
> >>> >>I have a vector of strings that cannot be described by one pattern.
> So
> >>> >>let's say I construct a vector of patterns in the same length as the
> >>> >>vector
> >>> >>of strings, can I do the element wise pattern recognition and string
> >>> >>substitution.
> >>> >>
> >>> >>For example,
> >>> >>
> >>> >>pattern1 <- "([^.]*)\\.([^.]*\\.[^.]*)\\.(.*)"
> >>> >>pattern2 <- "([^.]*)\\.([^.]*)\\.(.*)"
> >>> >>
> >>> >>patterns <- c(pattern1,pattern2)
> >>> >>strings <- c('TX.WT.CUT.mean','mg.tx.cv')
> >>> >>
> >>> >>Say I want to extract "WT.CUT" from the first string and "tx" from
> the
> >>> >>second string. If I do
> >>> >>
> >>> >>sub(patterns, '\\2', strings), only the first pattern will be used.
> >>> >>
> >>> >>looping the patterns doesn't work the way I want. Appreciate any
> >>> >>comments.
> >>> >>Thanks.
> >>> >>
> >>> >>Jun
> >>> >>
> >>> >> [[alternative HTML version deleted]]
> >>> >>
> >>> >>______________________________________________
> >>> >>R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> >>> >>https://stat.ethz.ch/mailman/listinfo/r-help
> >>> >>PLEASE do read the posting guide
> >>> >>http://www.R-project.org/posting-guide.html
> >>> >>and provide commented, minimal, self-contained, reproducible code.
> >>> >
> >>> > ______________________________________________
> >>> > R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> >>> > https://stat.ethz.ch/mailman/listinfo/r-help
> >>> > PLEASE do read the posting guide
> >>> > http://www.R-project.org/posting-guide.html
> >>> > and provide commented, minimal, self-contained, reproducible code.
> >>
> >>
>
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