maltewillmes / isofishr Goto Github PK

We want the user to be able to select the analysis parameters on the project page (where right now the input value table is created). This should be a one-way sync: The values on the project page should set the default for the analysis page. The values on the analysis page should determine the graph and should be changeable for a single file without influencing the default settings

I think we solved this before but it is back now. Padding between some of the boxes is too large leading to text overflow. I fixed the left padding but there is something still missing.

-Warning appears in R console (mainly when creating plots with ggplot)

Maybe try something like: https://stackoverflow.com/questions/16194212/how-to-suppress-warnings-globally-in-an-r-script

• More dynamic trimming
• Auto detect background (stable value near zero?)
• Auto identify regions (changepoint analysis? Advanced filters?)
• GGVIS?
• De-spiking
• More advanced Error propagation
• Visualizer tab with ggplots for the project summary and data reporting scripts

This has something to do with the DT package renderDataTable returning NULL if no comments file exists for a project.

output$comments <-  DT::renderDataTable({
   input$comment
   t <- try(comments <- read.csv(file.path("Projects",input$project.name,paste0(input$project.name,"_comments.csv")),header=TRUE),silent=TRUE)
   if ("try-error" %in% class(t)){
     return()
   } else {
     DT::datatable(comments, options = list(pageLength = 20,searching=FALSE))
   }
 })

See also: ramnathv/htmlwidgets#269

Hi,

in the Data Analysis window I get the Error: Graphics API-Version missmatching

Any idea how to solve this?

Started a new tab that will include our small script files and some plots for data exploration of the summary.csv file.

Comments box does not decrease in size when a new project is selected with no comments after display of a project with comments.

Add the ability for a user to set custom lines at specific y values for plot1 similar to the ocean line (0.70918) that we have right now.

Since energy was not recorded in the files previously, it is missing from both the default summary and example full profile.

We should add a new parameter to the change parameters tab called "Analysis type" with the choices of either "spot" or "line" and record this to all exported data files.

If you change the moving average value from any value other than 10, even if you manually edit the average_num value in the settings file, the Moving Average reverts to 10 every time a new profile is loaded.

Add a “flag for review” checkbox next to sample comment. This should be reported as yes or no in the summary and individual csv output files

Laser energy is currently only recorded in the settings file, which has a single value of each parameter for a project. Laser energy occasionally changes for different slides or even individual otoliths within a project so it would be useful to record it at least in the summary file for each profile if not the individual data files.

The runspeed setting is not reset when uploading a new runfile. Rest of the parameters seem to reset fine

I think we need some functionality that a user can update the settings of a project (e.g. the spot size, fluency, laser energy) after first saving the project. Maybe we move these to the input parameters in the analysis tab and make them update the default settings just as the other parameters do?

Right now the settings.csv holds the default settings for the project. When a project is opened everything gets set to the values in the file. File to file within a project, the settings all default back to what’s in the csv each time a new file is uploaded. The user can still change the settings for an individual file, but those changes get reverted back to the defaults when a new runfile is uploaded.