liflab/labpal

Easily run experiments on a computer

labpal's Issues

Send experiment results from a lab to another lab instance via HTTP

Status page should show currently running experiment

Zip lab contents and allow upload of zip file

Editable experiment

Add a feature in the GUI to edit the input parameters of an experiment live while the lab is running

Catch OutOfMemory errors

Since experiments in a lab will likely have a high load, one should catch out of memory exceptions and gracefully deal with them (currently, LabPal simply crashes when this happens).

Create subgroups

...i.e. groups within a group.

Stopping the assistant does not stop the running experiment

...it only stops the assistant from starting new experiments. The assistant should also kill the current thread.

Get rid of JSON in experiment parameters

This is a remnant from the time where experiments were serialized "by hand"; imposing experiment parameters to be a JSON map facilitated its serialization. Now that LabPal uses Azrael, there is no reason to force the user to use a JSON map for parameters; it should simply be a Map<String,Object>.

Auto-merge experiments from multiple lab instances

Refactor method isEnvironmentOK

Currently, the method is expected to return null when everything is OK, and a string when there is a problem with the environment. That is quite an odd way of implementing it.

Suggestion:

• make method output type void
• method simply returns when everything is OK
• method throws an EnvironmentException when a problem is detected. The exception's message describes the problem.

This requires:

• creating the class EnvironmentException
• changing the bit in the Laboratory class where isEnvironmentOk() is called (to take into account this refactoring)

CLI stops if environment conditions not met

It should display the warning, but still start

Beautify file upload button

https://tympanus.net/codrops/2015/09/15/styling-customizing-file-inputs-smart-way/

Set a color scheme to the GUI

If you run the same experiments on multiple machines, it may become confusing to know what window corresponds to what host. One could start LabPal and, optionally, select a "color scheme" so that the GUI would display using a slightly different shade.

Check if each experiment has an empty constructor

If it doesn't, the Azrael serialization library cannot deserialize a lab and will throw an error message like "method MyExperiment() does not exist".

When one adds an experiment to a lab, the lab should check if the class of that experiment has an empty constructor. If not, a warning should be displayed in the Status page, saying something like "Loading this lab from a file won't work".

Lab assistant does not remember its cumulative running time

Once its queue runs out, the total running time goes back to 0

Implement multi-thread lab assistant

Experiment warnings are not saved

If field m_warnings in class Experimentcontains elements (of type Exception), the Azrael serializer falls into an infinite loop trying to serialize these objects. The current workaround is to declare this field transient, but this means that experiment warnings are not preserved when saving/loading.

Cannot remove experiments from assistant

The Remove button does not seem to work

"Start the assistant" in info div does not work

When addding experiments to an assistant, the page reloads with the message "x experiments added; start the assistant". The "start" link in the message does lead to the assistant page, but the assistant does not start.

This is caused by the fact that the assistant page looks for the "start" parameter only in a POST HTTP request. That link loads the page with the correct parameter, but in a GET request.

Loading labs does not work

Exception in thread "main" java.lang.NullPointerException
	at pattheminer.MainLab.setup(MainLab.java:124)
	at ca.uqac.lif.labpal.Laboratory.loadFromJson(Laboratory.java:651)
	at ca.uqac.lif.labpal.Laboratory.loadFromString(Laboratory.java:634)
	at ca.uqac.lif.labpal.Laboratory.loadFromZip(Laboratory.java:760)
	at ca.uqac.lif.labpal.Laboratory.loadFromFilename(Laboratory.java:791)
	at ca.uqac.lif.labpal.Laboratory.initialize(Laboratory.java:943)
	at ca.uqac.lif.labpal.Laboratory.initialize(Laboratory.java:891)
	at pattheminer.MainLab.main(MainLab.java:525)

CommandRunner should catch standard error

And there should be a method for retrieving what the command sent there

Kill time includes prerequisites

When an experiment has to generate prerequisites before running, its execution time includes that process. This means that an experiment may get killed by the assistant while it is still generating the prerequisites.

An experiment should have two "start" times: the start of the whole process, and the start of the run method. Timeout should apply to the second, not the first.

Export lab UI to static HTML bundle

Button Clean in GUI does nothing

Solution is obvious ;-)

Change LDI numbering scheme

Currently, the LDI is a sequential number. This means that the same experiment may be assigned a different LDI in a lab, depending on what other experiments there are and the order in which they were added. (The same applies for a plot or a table.)

For an experiment, the LDI should rather be based on its type and the values of its input parameters. Maybe some form of hash?

What should a proper LDI be for a table or a plot?

Ignore input files that don't end by .labo

Progress bar: special color for running experiments

In the progress bar of the status page, an experiment that is running is categorized in "Other". There should be a special category (and color) for the running experiments.

Cannot set port from command line

Defaults to 21212

Auto-escape replacement patterns in template pages

Instead of manually calling Matcher.quoteReplacement() when replacing placeholders with content in every template page (and potentially forget to do it), create a replacePlaceholder method that would do it automatically.

Responsive GUI

Running LabPal on a phone is a bit hard. There should be a responsive GUI, or at least (using media queries) a different template for small screens.

Sign experiments results

In the GUI (or somewhere else), an author could provide its private key, and include in the saved lab an encrypted hash of the lab's results. See #4 for one possible use.

CommandRunner: give it an InputStream

There should be a method in CommandRunner where the contents sent to the command's standard input come from an InputStream instead of a String.

Suggestion:

• Create such a method
• Change the current method runAndGet into a delegate to the new method, simply wrapping the String into a StringInputStream

The "assistant started" page should not show the button "Start the assistant"

When visiting the URL "assistant?start" with a GET request, the resulting page shows the message "Assistant started", but the button "Start the assistant" is also present. It should rather be the Stop button.

Shadow experiments

Checkbox over a group selects all experiments

When viewing experiments in a group, clicking on the checkbox in the list header selects all experiments in all groups; it should select all experiments in the group only.

Add box for selecting a batch of experiments by number

In the experiments page

NoSuchMethodException when running from JAR

There's something wrong with the build script. Running from Eclipse is OK, but calling the plots page when running from a compiled jar leads to:

java.lang.NoSuchMethodError: ca.uqac.lif.labpal.table.Table.getDataTable()Lca/uqac/lif/labpal/table/DataTable;
	at ca.uqac.lif.labpal.plot.gnuplot.Scatterplot.toGnuplot(Scatterplot.java:130)
	at ca.uqac.lif.labpal.plot.gnuplot.GnuPlot.toGnuplot(GnuPlot.java:90)
	at ca.uqac.lif.labpal.plot.gnuplot.GnuPlot.getImage(GnuPlot.java:107)
	at ca.uqac.lif.labpal.plot.Plot.getImage(Plot.java:321)

Broken pipe on HTTP request

Should be fixed by addressing sylvainhalle/Jerrydog#2

Fix the select-all checkbox

Currently, it assumes that the experiments page has experiments with IDs 1 to the length of the list in a single contiguous interval. If you use a filter, this is no longer the case.

Experiment checkbox does not uncheck

In the experiments page, checking the top checkbox selects all experiments. Checking it again does not unselect all experiments (it does nothing).

The --help command line option prints the program info twice

Enough said

Bug in PiePlot

Try to show the third plot in BrowserLab. You get this:

java.lang.ClassCastException: ca.uqac.lif.mtnp.table.PrimitiveValue cannot be cast to java.lang.Number
	at de.erichseifert.gral.plots.PiePlot$PiePlotLegend.getEntries(SourceFile:783)
	at de.erichseifert.gral.plots.legends.AbstractLegend.add(SourceFile:275)
	at de.erichseifert.gral.plots.legends.ValueLegend.add(SourceFile:86)
	at de.erichseifert.gral.plots.AbstractPlot.add(SourceFile:581)
	at de.erichseifert.gral.plots.PiePlot.add(SourceFile:917)
	at de.erichseifert.gral.plots.AbstractPlot.add(SourceFile:564)
	at de.erichseifert.gral.plots.AbstractPlot.add(SourceFile:554)
	at de.erichseifert.gral.plots.PiePlot.(SourceFile:854)
	at ca.uqac.lif.mtnp.plot.gral.PieChart.getPlot(PieChart.java:42)
	at ca.uqac.lif.mtnp.plot.gral.GralPlot.getPlot(GralPlot.java:119)
	at ca.uqac.lif.mtnp.plot.gral.GralPlot.getImage(GralPlot.java:87)
	at ca.uqac.lif.mtnp.plot.Plot.getImage(Plot.java:311)
	at ca.uqac.lif.labpal.server.PlotImageCallback.process(PlotImageCallback.java:93)
	at ca.uqac.lif.jerrydog.Server.handle(Server.java:252)
	at com.sun.net.httpserver.Filter$Chain.doFilter(Filter.java:79)
	at sun.net.httpserver.AuthFilter.doFilter(AuthFilter.java:83)
	at com.sun.net.httpserver.Filter$Chain.doFilter(Filter.java:82)
	at sun.net.httpserver.ServerImpl$Exchange$LinkHandler.handle(ServerImpl.java:675)
	at com.sun.net.httpserver.Filter$Chain.doFilter(Filter.java:79)
	at sun.net.httpserver.ServerImpl$Exchange.run(ServerImpl.java:647)
	at sun.net.httpserver.ServerImpl$DefaultExecutor.execute(ServerImpl.java:158)
	at sun.net.httpserver.ServerImpl$Dispatcher.handle(ServerImpl.java:431)
	at sun.net.httpserver.ServerImpl$Dispatcher.run(ServerImpl.java:396)
	at java.lang.Thread.run(Thread.java:748)

Plots: don't show key when there is only one data series

The title says it all

Inconsistency in FileHelper API

The methods to read a file accept a path relative to the location of the class given in parameter. The method to list the contents of a directory disregards the location of the class and expects an absolute path from the root of the project.

Plot download button does not work in Lynx

In the text browser Lynx, the "Download all plots" button does not work. It says "Bad HTML! No form action defined". Individual plot buttons work, through.

Sort macros by name in macros page

Not straightforward, as the MacroMap object creates multiple macros and they will not necessarily be displayed in sequence among other macros.

Web console does not work in Elinks

Elinks does not know what to do with the HTTP response. Is its Content-type correct? Lynx does not have this problem.

File upload does not restore groups and descriptions

When experiments are re-uploaded from a JSON file:

1. They are not put back into their respective experiment groups
2. Their description seems to be missing (creates a null pointer when displaying the experiment's page)
3. Plots made from these experiments are empty, so very probably they are not associated back to the proper experiment tables

Enable caching on the server

Hyperlinks in LaTeX tables

Containing the datapoint ID of each cell