Re: TEXT-77 | String palindrome API
> On Jun 22, 2017, at 4:38 AM, Amey Jadiye wrote: > > +1 agreed with Emmanuel, better we park/close this issue for now. Its very > trivial and can be pull whenever there will be actual requirement. > > Regards, > Amey > >> On Thu, Jun 22, 2017, 1:50 PM Emmanuel Bourg wrote: >> >>> Le 22/06/2017 à 06:28, Bruno P. Kinoshita a écrit : >>> >>> But would be good to find someone, maybe a bioinformatician, that could >> confirm if it would be useful, and give a few use cases, for that. >> >> What about waiting for someone with an actual and sensible use case to >> request the inclusion of palindrome functions in [text] instead? If we >> try to include whatever text processing function we can imagine in >> [text], even if they aren't used, we'll end up with an oversized and >> bloated API. I think the development should be driven by actual needs >> and not by hypothetical usage. I think I would take the tactic of searching across Apache code bases to see if such a functionality is written. If it's in two or more different projects then think about bringing it in? -Rob >> >> Emmanuel Bourg >> >> - >> To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org >> For additional commands, e-mail: dev-h...@commons.apache.org >> >> - To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org For additional commands, e-mail: dev-h...@commons.apache.org
Re: TEXT-77 | String palindrome API
+1 agreed with Emmanuel, better we park/close this issue for now. Its very trivial and can be pull whenever there will be actual requirement. Regards, Amey On Thu, Jun 22, 2017, 1:50 PM Emmanuel Bourg wrote: > Le 22/06/2017 à 06:28, Bruno P. Kinoshita a écrit : > > > But would be good to find someone, maybe a bioinformatician, that could > confirm if it would be useful, and give a few use cases, for that. > > What about waiting for someone with an actual and sensible use case to > request the inclusion of palindrome functions in [text] instead? If we > try to include whatever text processing function we can imagine in > [text], even if they aren't used, we'll end up with an oversized and > bloated API. I think the development should be driven by actual needs > and not by hypothetical usage. > > Emmanuel Bourg > > - > To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org > For additional commands, e-mail: dev-h...@commons.apache.org > >
Re: TEXT-77 | String palindrome API
Le 22/06/2017 à 06:28, Bruno P. Kinoshita a écrit : > But would be good to find someone, maybe a bioinformatician, that could > confirm if it would be useful, and give a few use cases, for that. What about waiting for someone with an actual and sensible use case to request the inclusion of palindrome functions in [text] instead? If we try to include whatever text processing function we can imagine in [text], even if they aren't used, we'll end up with an oversized and bloated API. I think the development should be driven by actual needs and not by hypothetical usage. Emmanuel Bourg - To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org For additional commands, e-mail: dev-h...@commons.apache.org
Re: TEXT-77 | String palindrome API
Palindromes (and other algorithms like De Bruijn graphs, lcs) are normally taught in most introductory bioinformatics courses. Not sure how much palindromes are used though. I know use cases for De Bruijn and lcs. Maybe taking a look at BioJava could help - https://github.com/biojava/biojava-legacy/blob/a909c76131400e6f60048566e33a03f45da2f492/core/src/main/java/org/biojava/bio/molbio/RestrictionEnzyme.java#L291 Palindromes in bioinformatics are not normally used as in text processing. If we had tokenizers, then I think maybe we could identify palindromes in words, in sentences, and in proteins, though not entirely sure. But would be good to find someone, maybe a bioinformatician, that could confirm if it would be useful, and give a few use cases, for that. Cheers Bruno ps: BioJava is an interesting project, that could maybe someday use [text]. They already use [dbcp], [cli] (transitive from jmol I think), and [math] From: Amey Jadiye To: Commons Developers List Sent: Thursday, 22 June 2017 3:51 PM Subject: Re: TEXT-77 | String palindrome API Hi, With little research I found[1] we do have use cases for it like in biology (I think Bruno might be referring the same fields for its application) "Palindrome recognition is important in computational biology. Palindromic structures can frequently be found in proteins and identifying them gives researchers hints about the structure of nucleic acids. For example, in nucleic acid secondary structure prediction, one is interested in complementary palindromes which are considered in the full version." [1]http://drops.dagstuhl.de/opus/volltexte/2014/4454/pdf/12.pdf Regards, Amey On Jun 22, 2017 12:42 AM, "Emmanuel Bourg" wrote: > Le 21/06/2017 à 19:17, Amey Jadiye a écrit : > > > Though its very trivial to build, by any chance we should have palindrome > > method in Apache Commons API ? there is nothing bad having this tool in > > our arsenal, preferably in StringUtils ? > > Like sebb I fail to see the use case for this. Checking palindromes > looks more like an academic exercise to me than a useful feature of a > text oriented library. > > Emmanuel Bourg > > - > To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org > For additional commands, e-mail: dev-h...@commons.apache.org > > - To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org For additional commands, e-mail: dev-h...@commons.apache.org
Re: TEXT-77 | String palindrome API
Hi, With little research I found[1] we do have use cases for it like in biology (I think Bruno might be referring the same fields for its application) "Palindrome recognition is important in computational biology. Palindromic structures can frequently be found in proteins and identifying them gives researchers hints about the structure of nucleic acids. For example, in nucleic acid secondary structure prediction, one is interested in complementary palindromes which are considered in the full version." [1]http://drops.dagstuhl.de/opus/volltexte/2014/4454/pdf/12.pdf Regards, Amey On Jun 22, 2017 12:42 AM, "Emmanuel Bourg" wrote: > Le 21/06/2017 à 19:17, Amey Jadiye a écrit : > > > Though its very trivial to build, by any chance we should have palindrome > > method in Apache Commons API ? there is nothing bad having this tool in > > our arsenal, preferably in StringUtils ? > > Like sebb I fail to see the use case for this. Checking palindromes > looks more like an academic exercise to me than a useful feature of a > text oriented library. > > Emmanuel Bourg > > - > To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org > For additional commands, e-mail: dev-h...@commons.apache.org > >
Re: TEXT-77 | String palindrome API
> On Jun 21, 2017, at 3:22 PM, Gary Gregory wrote: > > On Jun 21, 2017 12:12, "Emmanuel Bourg" wrote: > >> Le 21/06/2017 à 19:17, Amey Jadiye a écrit : >> >> Though its very trivial to build, by any chance we should have palindrome >> method in Apache Commons API ? there is nothing bad having this tool in >> our arsenal, preferably in StringUtils ? > > Like sebb I fail to see the use case for this. Checking palindromes > looks more like an academic exercise to me than a useful feature of a > text oriented library. I can see this point fairly clearly, but I also would also be curious to see if openNLP or lucene/solr has such a function. It wouldn't surprise me. That being said, we should indeed be careful about creating code with no obvious use case. So until we can unearth folks doing palindromic operations let's hold off. I do recall Bruno saying he might have some use cases though. -Rob > > +1. > > Gary > > > Emmanuel Bourg > > - > To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org > For additional commands, e-mail: dev-h...@commons.apache.org - To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org For additional commands, e-mail: dev-h...@commons.apache.org
Re: TEXT-77 | String palindrome API
On Jun 21, 2017 12:12, "Emmanuel Bourg" wrote: Le 21/06/2017 à 19:17, Amey Jadiye a écrit : > Though its very trivial to build, by any chance we should have palindrome > method in Apache Commons API ? there is nothing bad having this tool in > our arsenal, preferably in StringUtils ? Like sebb I fail to see the use case for this. Checking palindromes looks more like an academic exercise to me than a useful feature of a text oriented library. +1. Gary Emmanuel Bourg - To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org For additional commands, e-mail: dev-h...@commons.apache.org
Re: TEXT-77 | String palindrome API
Le 21/06/2017 à 19:17, Amey Jadiye a écrit : > Though its very trivial to build, by any chance we should have palindrome > method in Apache Commons API ? there is nothing bad having this tool in > our arsenal, preferably in StringUtils ? Like sebb I fail to see the use case for this. Checking palindromes looks more like an academic exercise to me than a useful feature of a text oriented library. Emmanuel Bourg - To unsubscribe, e-mail: dev-unsubscr...@commons.apache.org For additional commands, e-mail: dev-h...@commons.apache.org
