object '[Data Included]' not found

[jaredraynes]

Hi there, thanks for writing the package.

I installed and followed your instructions, trying the example first which imports the data like it should. When I go to import my own data i get the following error:

data.file <- "~/Caseinate_NTA/Caseinates_Nanosight/A1A1/A1_35.csv"
data <- nanoimport(data.file)
NTA version: 3
Sample name: Sample 35 caseinates 1500x dil
Error in .f(.x[[i]], ...) : object '[Data Included]' not found

I checked my file and it looks exactly like your example file, and the [Data Included] line is
my file. Help!

I attach my file as a .txt so I could upload it. Just change it back to .csv to use.

A1_35 - Copy.txt

[jaredraynes]

Opening your beads.csv example in Notepad shows that there are a lot more commars so this may be my problem. But My file is how it is saved off my machine.. E.g the [Data included] isn't wrapped by commars.

[nguyens7]

Thanks for submitting an issue, I think the problem is because nanoimport() was written to accommodate NTA software v2.3, 3.1, and 3.2 since those were the versions I could get my hands on to create protoype/beta test tidyNano. Looks like I can try to fix the nanoimport() function to import NTA v3.0 within the next couple days.

[jaredraynes]

Thanks for your prompt responce. I can also see if I can save it through software V3.2 and if that changes the commars.

[nguyens7]

I've updated nanoimport() to be more robust and it should be able to automatically import your data now. Just install the new version (0.1.2) of tidyNano and it should fix the problem. See if the following code works for you. The custom_name argument is to account for your sample dilution. I also updated the README.md to highlight some suggestions for naming samples to make it easier to process with tidyNano in the future.

nanoimport("A1_35.-.Copy.csv", auto_name = TRUE, custom_name = "1500") %>% nanotidy(sep_var = c("Tech_rep", "Dilution", "Sample")) %>% ggplot(aes(x = particle_size, y = True_count, color = Tech_rep )) + geom_line()

Hope this helps!

[nguyens7]

@jaredraynes, did the new update allow you to import the data?

[jaredraynes]

@nguyens7 yes that update worked, thank you! I am also thinking about whether the addition of a function to calculate total surface area and volume would be a good addition? This was originally available in software version 2.1 before the instrument and software were purchased by Malvern.

[nguyens7]

Great, I'm glad that it's working for you! I'll create another issue to see if I can work on a way to import and calculate the surface area and volume data.