September 2011 - Pharo-dev - lists.pharo.org

Re: [Pharo-project] about Shout default to shout any text?

by Alain Plantec

> right now the separation is bogus because to me a model should not refer to methods that cretae the UI. :) > anyway. we will see that later. yes, it is a bit strange to be allowed to directly manipulate a view element from them model. Alain

Sept. 5, 2011

Re: [Pharo-project] about Shout default to shout any text?

by StÃ©phane Ducasse

On Sep 4, 2011, at 11:54 PM, Alain Plantec wrote: > On 04/09/2011 22:26, StÃ©phane Ducasse wrote: >> Alain >> >> it means that we should define shoutAboutToStyle: to certain places like inspector pane. >> Isn't? >> :) >> > arrggh, I've tried and it exhibits a problem. see the end of the answer. > > yes, you can do it with a shoutAboutToStyle: > > something like: > > Inspector>>shoutAboutToStyle: aPluggableTextMorph > ^ (aPluggableTextMorph getTextSelector = #contents) not > > because an inspector is made of two text views. > The one for the contents should not be styled. > Only the one for coding should. > > But this solution is not so good because the model is making an asumptions about the view. It considers that the argument responds to #getTextSelector and that #contents can be the value of the result. > > Another solution should be to directly set the text editors as not styled when the view is built. > Regarding Inspector view, it is built by > MorphicUIManager>>openInspector: asMorphOn: withLabel: > Normally, sending #styled: to a PluggableTextMorph with true as argument set it as styled. right now the separation is bogus because to me a model should not refer to methods that cretae the UI. :) anyway. we will see that later. I do not like that Morphic UIMAnager define creation method of widgets > I prefer this solution because of the separation of concern between the model and its view(s). > But now that the default is "not styled", this solution is broken. > Maybe we should re-introduce a 'styled' inst var and revise the #okToStyle implementation. > I open an issue. :) > > Alain > > > >

Sept. 5, 2011

Re: [Pharo-project] data set

by Lukas Renggli

Stanford has many large graph-like datasets to download: social networks, web graphs, peer-to-peer networks, shopping networks, road networks, wikipedia networks, etc. http://snap.stanford.edu/data/ Lukas On 5 September 2011 06:24, Guillermo Polito <guillermopolito(a)gmail.com> wrote: > I've used as an example of datamining a dataset about car accidents we got > from here http://www.nhtsa.gov/NASS . > > Hope it helps :) > Guille > > On Sun, Sep 4, 2011 at 11:58 PM, HernÃ¡n Morales Durand > <hernan.morales(a)gmail.com> wrote: >> >> 2011/9/4 Tudor Girba <tudor(a)tudorgirba.com>: >> > Hi, >> > >> > Thanks, but I am looking for data sets that contained graphs of entities >> > with properties, rather then numbers. >> > >> >> Oh, that was just the top of the iceberg, look at cellular interaction >> networks like protein-protein interactions, relations between genes >> and QTLs, phylogenetic trees, gene ontology classifications, etc. >> probably they have more "properties" and relationships than you ever >> imagined. Check for example >> http://www.nature.com/msb/journal/v3/n1/fig_tab/msb4100166_F2.html or >> the one from the Human Interactome here >> http://www.blog.republicofmath.com/archives/2005, or >> http://www.biomedcentral.com/content/supplementary/1471-2164-9-96-s6.jpeg >> for Gene Ontology "objects". Also PubMed have thousands of related >> papers about real case studies. >> >> > To give an idea, an example would be a set of persons that have multiple >> > properties, such as age or function, and have various kinds of relationships >> > with other persons. Ideally, it should be something containing some more >> > than 5-10 types of entities. >> > >> > Cheers, >> > Doru >> > >> > >> > On 5 Sep 2011, at 02:51, HernÃ¡n Morales Durand wrote: >> > >> >> Hi Tudor, >> >> >> >> I don't know if you want few data sets or many ones, but for each case >> >> I found "Selecting genes with dissimilar discrimination strength for >> >> sample class prediction", report case studies in two real cancer >> >> microarray datasets (CAR and LUNG) for gene expression profiling. The >> >> Lymphoma case study in humans contains 30 case study genes, you may >> >> read about it in "Examples and Applications of Fuzzy Measure >> >> Similarity Using GO Terms". In general you can find many case studies >> >> from SNP data experiments doing all kind of predictions, for example >> >> from protein structure prediction studies that use LiveBench data sets >> >> (http://en.wikipedia.org/wiki/LiveBench) search for "Consensus fold >> >> recognition by predicting model quality". >> >> If you need more or something more specific just ask :) >> >> Cheers, >> >> >> >> HernÃ¡n >> >> >> >> 2011/9/4 Tudor Girba <tudor(a)tudorgirba.com>: >> >>> Hi, >> >>> >> >>> To show how Moose can support the analysis of various data sets, I am >> >>> looking for a case study containing a complex data structure that does not >> >>> represent a software system, and a set of questions associated with it. >> >>> Ideally, the data should be freely available and it should contain a set of >> >>> entities with various properties and various relationships with other >> >>> entities. >> >>> >> >>> Anyone has any idea regarding such a case study? >> >>> >> >>> Cheers, >> >>> Doru >> >>> >> >>> -- >> >>> www.tudorgirba.com >> >>> >> >>> "There are no old things, there are only old ways of looking at them." >> >>> >> >> >> > >> > -- >> > www.tudorgirba.com >> > >> > "Every successful trip needs a suitable vehicle." >> > >> > > -- Lukas Renggli www.lukas-renggli.ch

Sept. 5, 2011

Re: [Pharo-project] data set

by Guillermo Polito

I've used as an example of datamining a dataset about car accidents we got from here http://www.nhtsa.gov/NASS . Hope it helps :) Guille On Sun, Sep 4, 2011 at 11:58 PM, HernÃ¡n Morales Durand < hernan.morales(a)gmail.com> wrote: > 2011/9/4 Tudor Girba <tudor(a)tudorgirba.com>: > > Hi, > > > > Thanks, but I am looking for data sets that contained graphs of entities > with properties, rather then numbers. > > > > Oh, that was just the top of the iceberg, look at cellular interaction > networks like protein-protein interactions, relations between genes > and QTLs, phylogenetic trees, gene ontology classifications, etc. > probably they have more "properties" and relationships than you ever > imagined. Check for example > http://www.nature.com/msb/journal/v3/n1/fig_tab/msb4100166_F2.html or > the one from the Human Interactome here > http://www.blog.republicofmath.com/archives/2005, or > http://www.biomedcentral.com/content/supplementary/1471-2164-9-96-s6.jpeg > for Gene Ontology "objects". Also PubMed have thousands of related > papers about real case studies. > > > To give an idea, an example would be a set of persons that have multiple > properties, such as age or function, and have various kinds of relationships > with other persons. Ideally, it should be something containing some more > than 5-10 types of entities. > > > > Cheers, > > Doru > > > > > > On 5 Sep 2011, at 02:51, HernÃ¡n Morales Durand wrote: > > > >> Hi Tudor, > >> > >> I don't know if you want few data sets or many ones, but for each case > >> I found "Selecting genes with dissimilar discrimination strength for > >> sample class prediction", report case studies in two real cancer > >> microarray datasets (CAR and LUNG) for gene expression profiling. The > >> Lymphoma case study in humans contains 30 case study genes, you may > >> read about it in "Examples and Applications of Fuzzy Measure > >> Similarity Using GO Terms". In general you can find many case studies > >> from SNP data experiments doing all kind of predictions, for example > >> from protein structure prediction studies that use LiveBench data sets > >> (http://en.wikipedia.org/wiki/LiveBench) search for "Consensus fold > >> recognition by predicting model quality". > >> If you need more or something more specific just ask :) > >> Cheers, > >> > >> HernÃ¡n > >> > >> 2011/9/4 Tudor Girba <tudor(a)tudorgirba.com>: > >>> Hi, > >>> > >>> To show how Moose can support the analysis of various data sets, I am > looking for a case study containing a complex data structure that does not > represent a software system, and a set of questions associated with it. > Ideally, the data should be freely available and it should contain a set of > entities with various properties and various relationships with other > entities. > >>> > >>> Anyone has any idea regarding such a case study? > >>> > >>> Cheers, > >>> Doru > >>> > >>> -- > >>> www.tudorgirba.com > >>> > >>> "There are no old things, there are only old ways of looking at them." > >>> > >> > > > > -- > > www.tudorgirba.com > > > > "Every successful trip needs a suitable vehicle." > > > >

Sept. 5, 2011

Re: [Pharo-project] [Moose-dev] data set

by Alexandre Bergel

Hi Doru! I like swimming. Swimovate is a watch that makes a geek swimmer happy: it records set and provides numerous data. Data is structured as a tree, not really a graph, even thought this is not impossible to find a graph structure. I worked on analyzing swimming sets in moose. I haven't released the code yet. Does this go in what you're asking for? Cheers, Alexandre Le 4 sept. 2011 Ã 19:46, Tudor Girba <tudor(a)tudorgirba.com> a Ã©crit : > Hi, > > To show how Moose can support the analysis of various data sets, I am looking for a case study containing a complex data structure that does not represent a software system, and a set of questions associated with it. Ideally, the data should be freely available and it should contain a set of entities with various properties and various relationships with other entities. > > Anyone has any idea regarding such a case study? > > Cheers, > Doru > > -- > www.tudorgirba.com > > "There are no old things, there are only old ways of looking at them." > > > > > _______________________________________________ > Moose-dev mailing list > Moose-dev(a)iam.unibe.ch > https://www.iam.unibe.ch/mailman/listinfo/moose-dev

Sept. 5, 2011

Re: [Pharo-project] data set

by HernÃ¡n Morales Durand

2011/9/4 Tudor Girba <tudor(a)tudorgirba.com>: > Hi, > > Thanks, but I am looking for data sets that contained graphs of entities with properties, rather then numbers. > Oh, that was just the top of the iceberg, look at cellular interaction networks like protein-protein interactions, relations between genes and QTLs, phylogenetic trees, gene ontology classifications, etc. probably they have more "properties" and relationships than you ever imagined. Check for example http://www.nature.com/msb/journal/v3/n1/fig_tab/msb4100166_F2.html or the one from the Human Interactome here http://www.blog.republicofmath.com/archives/2005, or http://www.biomedcentral.com/content/supplementary/1471-2164-9-96-s6.jpeg for Gene Ontology "objects". Also PubMed have thousands of related papers about real case studies. > To give an idea, an example would be a set of persons that have multiple properties, such as age or function, and have various kinds of relationships with other persons. Ideally, it should be something containing some more than 5-10 types of entities. > > Cheers, > Doru > > > On 5 Sep 2011, at 02:51, HernÃ¡n Morales Durand wrote: > >> Hi Tudor, >> >> I don't know if you want few data sets or many ones, but for each case >> I found "Selecting genes with dissimilar discrimination strength for >> sample class prediction", report case studies in two real cancer >> microarray datasets (CAR and LUNG) for gene expression profiling. The >> Lymphoma case study in humans contains 30 case study genes, you may >> read about it in "Examples and Applications of Fuzzy Measure >> Similarity Using GO Terms". In general you can find many case studies >> from SNP data experiments doing all kind of predictions, for example >> from protein structure prediction studies that use LiveBench data sets >> (http://en.wikipedia.org/wiki/LiveBench) search for "Consensus fold >> recognition by predicting model quality". >> If you need more or something more specific just ask :) >> Cheers, >> >> HernÃ¡n >> >> 2011/9/4 Tudor Girba <tudor(a)tudorgirba.com>: >>> Hi, >>> >>> To show how Moose can support the analysis of various data sets, I am looking for a case study containing a complex data structure that does not represent a software system, and a set of questions associated with it. Ideally, the data should be freely available and it should contain a set of entities with various properties and various relationships with other entities. >>> >>> Anyone has any idea regarding such a case study? >>> >>> Cheers, >>> Doru >>> >>> -- >>> www.tudorgirba.com >>> >>> "There are no old things, there are only old ways of looking at them." >>> >> > > -- > www.tudorgirba.com > > "Every successful trip needs a suitable vehicle." >

Sept. 5, 2011

Re: [Pharo-project] data set

by Tudor Girba

Hi, Thanks, but I am looking for data sets that contained graphs of entities with properties, rather then numbers. To give an idea, an example would be a set of persons that have multiple properties, such as age or function, and have various kinds of relationships with other persons. Ideally, it should be something containing some more than 5-10 types of entities. Cheers, Doru On 5 Sep 2011, at 02:51, HernÃ¡n Morales Durand wrote: > Hi Tudor, > > I don't know if you want few data sets or many ones, but for each case > I found "Selecting genes with dissimilar discrimination strength for > sample class prediction", report case studies in two real cancer > microarray datasets (CAR and LUNG) for gene expression profiling. The > Lymphoma case study in humans contains 30 case study genes, you may > read about it in "Examples and Applications of Fuzzy Measure > Similarity Using GO Terms". In general you can find many case studies > from SNP data experiments doing all kind of predictions, for example > from protein structure prediction studies that use LiveBench data sets > (http://en.wikipedia.org/wiki/LiveBench) search for "Consensus fold > recognition by predicting model quality". > If you need more or something more specific just ask :) > Cheers, > > HernÃ¡n > > 2011/9/4 Tudor Girba <tudor(a)tudorgirba.com>: >> Hi, >> >> To show how Moose can support the analysis of various data sets, I am looking for a case study containing a complex data structure that does not represent a software system, and a set of questions associated with it. Ideally, the data should be freely available and it should contain a set of entities with various properties and various relationships with other entities. >> >> Anyone has any idea regarding such a case study? >> >> Cheers, >> Doru >> >> -- >> www.tudorgirba.com >> >> "There are no old things, there are only old ways of looking at them." >> > -- www.tudorgirba.com "Every successful trip needs a suitable vehicle."

Sept. 5, 2011

Re: [Pharo-project] data set

by HernÃ¡n Morales Durand

Hi Tudor, I don't know if you want few data sets or many ones, but for each case I found "Selecting genes with dissimilar discrimination strength for sample class prediction", report case studies in two real cancer microarray datasets (CAR and LUNG) for gene expression profiling. The Lymphoma case study in humans contains 30 case study genes, you may read about it in "Examples and Applications of Fuzzy Measure Similarity Using GO Terms". In general you can find many case studies from SNP data experiments doing all kind of predictions, for example from protein structure prediction studies that use LiveBench data sets (http://en.wikipedia.org/wiki/LiveBench) search for "Consensus fold recognition by predicting model quality". If you need more or something more specific just ask :) Cheers, HernÃ¡n 2011/9/4 Tudor Girba <tudor(a)tudorgirba.com>: > Hi, > > To show how Moose can support the analysis of various data sets, I am looking for a case study containing a complex data structure that does not represent a software system, and a set of questions associated with it. Ideally, the data should be freely available and it should contain a set of entities with various properties and various relationships with other entities. > > Anyone has any idea regarding such a case study? > > Cheers, > Doru > > -- > www.tudorgirba.com > > "There are no old things, there are only old ways of looking at them." >

Sept. 5, 2011

[Pharo-project] data set

by Tudor Girba

Hi, To show how Moose can support the analysis of various data sets, I am looking for a case study containing a complex data structure that does not represent a software system, and a set of questions associated with it. Ideally, the data should be freely available and it should contain a set of entities with various properties and various relationships with other entities. Anyone has any idea regarding such a case study? Cheers, Doru -- www.tudorgirba.com "There are no old things, there are only old ways of looking at them."

Sept. 4, 2011

Re: [Pharo-project] Glamour configuration doesn't load in Pharo 1.3

by Alain Plantec

On 04/09/2011 21:56, Tudor Girba wrote: > Hi, > > On 4 Sep 2011, at 20:59, Alain Plantec wrote: > >> On 04/09/2011 11:13, Lukas Renggli wrote: >>>> Strange indeed. The thing is that in my image, these methods are not extensions. So, I cannot see why they would not load. >>>> >>>> In any case, Glamour was always loaded in the Dev image. >>> >>> Ok, I do not use the "official" dev image, but then again it worked up >>> until a few days ago. Something must have changed in some of the >>> dependent packages. >>> >>> Lukas >>> >> Hi lukas, >> You are using the first slice I pushed in the tracker for testing. >> Now, these bad dependencies should be removed because all #shoutAboutToStyle: are in the Shout package (*Shout-Styling meth. cat.). > > The problem was that some classes, like LessonView, are not in the Core. As such, if the LessonView>>shoutAboutToStyle: is packaged in Shout, it means you cannot load Shout in the Core anymore without loading these other classes. > > I do not have time to check right now, but we would not want to have it like that. ok, I understand. I will remove all this bad dependencies. Alain > > Cheers, > Doru > > >> Cheers >> Alain >> > > -- > www.tudorgirba.com > > "If you interrupt the barber while he is cutting your hair, > you will end up with a messy haircut." > > >

Sept. 4, 2011