Re: [Pharo-users] [Moose-dev] Re: Re: Re: Plotting genome scale values with Roassal

[Alexandre Bergel via Pharo-users]

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Hi Hernán,

> was reading a bit on the subject of plotting billions of points, and it seems 
> there are libraries which can do it:
> 
> http://holoviews.org/user_guide/Large_Data.html
> 
> This is based on a technique they call datashading.
> 
> However since I don't know Roassal internals, I cannot tell what's the 
> fundamental difference. 
> Is it a big change to reproduce the datashading principles in Roassal?

Sounds interesting. I do not think there is any showstopper to have this 
behavior in Roassal. I went through the documentation you’ve sent. The idea is 
to select a subset of the points to visualize. So, yes, this is easy :-)

> If I correctly understood the idea. I could reduce my collection of x values:
> 
> #(15 15 15 15 15 15 15 15 20 20 20 20 32 32 32 45 45 45 45 45 45)
> 
> having repetitions count of 8 4 3 6 respectively, and set a threshold, for 
> example 4 to obtain: 
> 
> #(15 15 20 45)
> 
> Is that correct?

Yes. You got the point.

Alexandre

> On Oct 28, 2018, at 5:10 PM, Hernán Morales Durand <hernan.mora...@gmail.com> 
> wrote:
> 
> Hi Alex,
> 
> El vie., 12 oct. 2018 a las 19:37, Alexandre Bergel 
> (<alexandre.ber...@me.com>) escribió:
> Hi Hernán,
> 
> Sorry for the late reply.
> 
> 
> No problem, my replay is even more delayed!
>  
> Regarding your first question, you can do:
> -=-=-=-=-=-=
> g := RTGrapher new.
> 
> d := RTData new.
> d connectColor: Color blue.
> d noDot.
> d points: (-3.14 to: 3.14 by: 0.1).
> d y: #sin.
> d x: #yourself.
> g add: d.
> 
> g axisX numberOfTicks: 10; numberOfLabels: 5.
> g
> -=-=-=-=-=-=
> 
> As you can see, the line "g axisX numberOfTicks: 10; numberOfLabels: 5.” 
> allows you to set the number of ticks and the number of labels.
> 
> 
> Thanks, with you and Milton's help I could set up the labels as I needed.
>  
> Regarding your second question, where can I find the file 
> OrderedCollection_3712516797.obj ?
> 
> I think the attachment was truncated in the moose-dev mailing list because I 
> received: Message body is too big: 3346796 bytes with a limit of 1000 KB
> However it should be accessible through the pharo-users mailing list. Let me 
> know if you cannot download it.
> 
> Or, how can I reproduce it. 
> Anyway, I believe the problem is that you have too many points. In this case, 
> I suggest you to reduce the number of points. 
> 
> 
> I was reading a bit on the subject of plotting billions of points, and it 
> seems there are libraries which can do it:
> 
> http://holoviews.org/user_guide/Large_Data.html
> 
> This is based on a technique they call datashading.
> 
> However since I don't know Roassal internals, I cannot tell what's the 
> fundamental difference. 
> Is it a big change to reproduce the datashading principles in Roassal?
> 
>  
> For example, a slight variation of the previous example [DO NOT RUN IT]:
> -=-=-=-=-=-=
> points := -3.14 to: 3.14 by: 0.000001.
> 
> g := RTGrapher new.
> 
> d := RTData new.
> d connectColor: Color blue.
> d noDot.
> d points: points.
> d y: #sin.
> d x: #yourself.
> g add: d.
> 
> g axisX numberOfTicks: 10; numberOfLabels: 5.
> g
> -=-=-=-=-=-=
> 
> The script tries to build the same graph but with  6 280 001 points. Which 
> obviously, is way too many.
> 
> Instead, you can do something like:
> -=-=-=-=-=-=
> points := SortedCollection new.
> 1000 timesRepeat: [ points add: (-3.14 to: 3.14 by: 0.000001) atRandom ].
> 
> g := RTGrapher new.
> 
> d := RTData new.
> d connectColor: Color blue.
> d noDot.
> d points: points.
> d y: #sin.
> d x: #yourself.
> g add: d.
> 
> g axisX numberOfTicks: 10; numberOfLabels: 5.
> g
> -=-=-=-=-=-=
> 
> Which only display the graph with 1000 points.
> 
> 
> If I correctly understood the idea. I could reduce my collection of x values:
> 
> #(15 15 15 15 15 15 15 15 20 20 20 20 32 32 32 45 45 45 45 45 45)
> 
> having repetitions count of 8 4 3 6 respectively, and set a threshold, for 
> example 4 to obtain: 
> 
> #(15 15 20 45)
> 
> Is that correct?
> 
> Cheers,
> 
> Hernán
> 
> Cheers,
> Alexandre
> 
> 
>> On Oct 4, 2018, at 12:49 AM, Hernán Morales Durand 
>> <hernan.mora...@gmail.com> wrote:
>> 
>> This is weird, could you check:
>> 
>> http://lists.pharo.org/pipermail/pharo-users_lists.pharo.org/2018-October/040771.html
>> 
>> Hernán
>> 
>> El mié., 3 oct. 2018 a las 22:41, Alexandre Bergel
>> (<alexandre.ber...@me.com>) escribió:
>>> 
>>> I am lost. What are the questions? I do not see them in the mailing list.
>>> 
>>> Alexandre
>>> 
>>>> On Oct 3, 2018, at 11:11 AM, Hernán Morales Durand 
>>>> <hernan.mora...@gmail.com> wrote:
>>>> 
>>>> Hi Alex,
>>>> 
>>>> Thanks. Please note there are two questions related to Roassal :)
>>>> I have isolated the script so you don't need to load BioSmalltalk
>>>> 
>>>> Maybe someone can check or give a hint?
>>>> 
>>>> El mar., 2 oct. 2018 a las 22:31, Alexandre Bergel
>>>> (<alexandre.ber...@me.com>) escribió:
>>>>> 
>>>>> Pretty cool!
>>>>> 
>>>>> Alexandre
>>>>> 
>>>>>> On Oct 2, 2018, at 2:21 AM, Hernán Morales Durand 
>>>>>> <hernan.mora...@gmail.com> wrote:
>>>>>> 
>>>>>> <a TRMorph(28411392).png><skew_diagram_ecoli.png>
>>>>> 
>>>>> _______________________________________________
>>>>> Moose-dev mailing list
>>>>> moose-...@list.inf.unibe.ch
>>>>> https://www.list.inf.unibe.ch/listinfo/moose-dev
>>>> 
>>> 
>>> _______________________________________________
>>> Moose-dev mailing list
>>> moose-...@list.inf.unibe.ch
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>> 
> 
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> <Screenshot 2018-10-12 19.35.44.png><Screenshot 2018-10-12 19.35.44.png>

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