[Moose-dev] Re: Roassal histogram bars left shifted

-- _,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;: Alexandre Bergel http://www.bergel.eu ^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;. > On Jul 13, 2017, at 7:22 PM, Hernán Morales Durand hernan.morales@gmail.com wrote: > > Hi Alex, > > Thank you for taking care of this issue. > The problem is partially fixed. I saw you implemented > > >>configureForBarCharts > > self datasets do: #offsetForBarCharts. > self minX: 0.5. > self maxX: self getMaxNumberOfPoints. > self axisX noTick. > > However, I want to display the ticks, so I borrowed the first 3 lines for my plot method : > > >>plotHistogramBins: binNumber xAxisLabel: axisXLabel yAxisLabel: axixYLabel color: aColor barWidth: barWidth > > | bins minPoint g ds | > > bins := self groupedBySeqLengthDistribution: binNumber. > minPoint := ((bins reject: #isEmpty) detectMin: #size) anyOne size. > > " Build diagram " > g := RTGrapher new > extent: 500 @ 200; > minX: minPoint; > withoutOrigin; > yourself. > ds := RTData new > points: bins; > x: [ : c | c ifEmpty: [ minPoint ] ifNotEmpty: [ : d | d anyOne size ] ]; > y: #size. > ds barShape > borderColor: Color black; > color: aColor; > width: barWidth. > g add: ds. > > " Configure axis settings " > g axisY > title: axixYLabel; > color: Color black; > noDecimal. > g axisX > noDecimal; > fromPoint: minPoint; > color: Color black; > title: axisXLabel. > > g datasets do: #offsetForBarCharts. > g minX: 0. > g maxX: g getMaxNumberOfPoints. > > " Open visualization in a new window " > g open. > > > Now the shift problem is fixed, but I lost the sequence lengths in the X axis. Please see the two attached screenshots. > > Cheers, > > Hernán > > > > 2017-07-09 5:20 GMT-03:00 Alexandre Bergel alexandre.bergel@me.com: > Hi Hernán, > > Sorry to reply to late. > > Can you update Roassal and try: > > -=-=-=-=-=-=-=-=-= > g := RTGrapher new. > > ds := RTData new. > ds barShape. > ds points: #(1 2 3 -2). > ds maxX: 10. > g add: ds. > > g configureForBarCharts. > > g > -=-=-=-=-=-=-=-=-= > > The call configureforBarCharts should do what you expect. > > Cheers, > Alexandre > <Screenshot 2017-07-09 10.20.26.png> > -- > _,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;: > Alexandre Bergel http://www.bergel.eu > ^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;. > > > >> On Jun 16, 2017, at 4:35 PM, Hernán Morales Durand hernan.morales@gmail.com wrote: >> >> Hi Alex >> >> I attached another screenshot which describes exactly the problem. >> >> 2017-06-16 10:40 GMT-03:00 Alexandre Bergel alexandre.bergel@me.com: >> Hi Hernán, >> >> I am not sure what exactly is the problematic situation you describe. Why you cannot simply with with #minX: and #maxX: ? >> >> >> My script actually sets minX: but it is wrongly drawn in the histogram >> >> For example, I tried to reuse the code you have provided. I can have: >> >> bins := #(#(1 1 1 1 ) #(2 2 2) #(5 5 5 5 5)). >> minPoint := ((bins reject: #isEmpty) detectMin: [ : c | c size ]) anyOne. >> >> " Build diagram " >> g := RTGrapher new >> extent: 500 @ 200; >> minX: 0; >> maxX: 6; >> withoutOrigin; >> yourself. >> ds := RTData new >> points: bins; >> x: [ : c | c ifEmpty: [ minPoint ] ifNotEmpty: [ : d | d anyOne ] ]; >> y: #size. >> ds barShape >> borderColor: Color black; >> color: Color red trans; >> width: 30. >> g add: ds. >> >> g >> <Screenshot 2017-06-16 09.39.25.png> >> >> >> But you can have "minX: 1", which in that case, the first bar is above the Y-Axis. This is what one would expect. >> >> >> The problem is not positioning the bars above the Y-Axis, but positioning them in the X-Axis. >> >> Which rendering do you wish to have? Can you provide a self-contained piece of code that I can run on my machine? >> >> >> If you have some time you could install BioSmalltalk in Pharo 5 (I haven't tested Pharo 6 yet) and evaluate the problematic expression: >> Metacello new >> smalltalkhubUser: 'hernan' project: 'BioSmalltalk'; >> configuration: 'BioSmalltalk'; >> version: #bleedingEdge; >> load >> >> (BioParser parseMultiFastaFile: BioObject testFilesDirectoryName asFileReference / 'ls_orchid.fasta') >> plotHistogramBins: 20 >> xAxisLabel: 'Sequence lengths (bp)' >> yAxisLabel: 'Count' >> color: Color red >> >> Cheers, >> >> Hernán >> >> Cheers, >> Alexandre >> -- >> _,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;: >> Alexandre Bergel http://www.bergel.eu >> ^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;._,.;:~^~:;. >> >> >> >>> On Jun 15, 2017, at 1:16 AM, Hernán Morales Durand hernan.morales@gmail.com wrote: >>> >>> Hi guys, >>> >>> I am experiencing a problem visualizing histograms in Roassal with Pharo 5. In the attached image you can observe the first bar shape starts from a negative X axis value, where I want to start from 0. Besides, some bars are gapped but I don't know why. >>> >>> I am using with the following code: >>> >>> | bins minPoint g ds | >>> >>> bins := self groupedBySeqLengthDistribution: binNumber. >>> minPoint := ((bins reject: #isEmpty) detectMin: [ : c | c size ]) anyOne size. >>> >>> " Build diagram " >>> g := RTGrapher new >>> extent: 500 @ 200; >>> minX: minPoint; >>> withoutOrigin; >>> yourself. >>> ds := RTData new >>> points: bins; >>> x: [ : c | c ifEmpty: [ minPoint ] ifNotEmpty: [ : d | d anyOne size ] ]; >>> y: #size. >>> ds barShape >>> borderColor: Color black; >>> color: aColor; >>> width: barWidth. >>> g add: ds. >>> >>> " Configure axis settings " >>> g axisY >>> title: axixYLabel; >>> color: Color black; >>> noDecimal. >>> g axisX >>> noDecimal; >>> fromPoint: minPoint; >>> color: Color black; >>> title: axisXLabel. >>> " Open visualization in a new window " >>> g open. >>> >>> Any idea what I am missing? >>> >>> Cheers, >>> >>> Hernán >>> <Roassal.jpeg>_______________________________________________ >>> Moose-dev mailing list >>> Moose-dev@list.inf.unibe.ch >>> https://www.list.inf.unibe.ch/listinfo/moose-dev >> >> >> _______________________________________________ >> Moose-dev mailing list >> Moose-dev@list.inf.unibe.ch >> https://www.list.inf.unibe.ch/listinfo/moose-dev >> >> >> <unnamed.jpg>_______________________________________________ >> Moose-dev mailing list >> Moose-dev@list.inf.unibe.ch >> https://www.list.inf.unibe.ch/listinfo/moose-dev > > > _______________________________________________ > Moose-dev mailing list > Moose-dev@list.inf.unibe.ch > https://www.list.inf.unibe.ch/listinfo/moose-dev > > > <Grapher1.jpg><Grapher2.jpg>_______________________________________________ > Moose-dev mailing list > Moose-dev@list.inf.unibe.ch > https://www.list.inf.unibe.ch/listinfo/moose-dev