I have a question: If I have already configured #minX and #maxX in my grapher to specific Numbers (as in my case). Why do you perform #datasetComputeMinAndMax in RTGrapher>>renderIn: ?

If I manually set RTAbstractData>>computeMinAndMaxForX

    ..
    minX := self builder minX.
    maxX := self builder maxX.

    ...

then nothing is displayed.

2017-07-13 16:44 GMT-03:00 Alexandre Bergel <alexandre.bergel@me.com>:

Consider the example:

-=-=-=-=-=-=-=-=-=

g := RTGrapher new.

ds := RTData new.
ds barShape.
ds points: #(1 2 3 -2).
ds maxX: 10.
g add: ds.

g configureForBarCharts.
g axisX 
numberOfLabels: 4;
labelConversion: [ :value | value + 500 ].

g
-=-=-=-=-=-=-=-=-=

<Screenshot 2017-07-13 21.44.20.png>

Does this solve your problem?

Cheers,

Alexandre

-- 
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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
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