Describe the bug
When exporting a plot from the "import" tab, the folowing error message is displayed, with no plot produced

Warning: Error in ggsave: impossible de trouver la fonction "ggsave"
  [No stack trace available]

Is your feature request related to a problem? Please describe.
It is not possible to export graph on the "energy calibration" tab

Describe the solution you'd like
A button to be able to export the graph.

Describe alternatives you've considered
A screenshot is a terrible alternative ^^

At the moment, when trying to energy-calibrate multiple spectra at a time (formal class "GammaSpetra") using the function energy_calibrate(), one receives the following error message:

Error in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function ‘energy_calibrate’ for signature ‘"GammaSpectra", "PeakPosition"

Is it possible to enable this functionality?
Thank you!

Suggested packages should be used conditionally: see §1.1.3.1 of 'Writing R Extensions'. Some of the requirements of vdiffr are hard to install on a platform without X11 such as M1 Macs: see the logs at https://www.stats.ox.ac.uk/pub/bdr/M1mac/.

In some cases there are other suggested packages not used conditionally: you can check all of them by setting environment variable R_CHECK_DEPENDS_ONLY=true -- see https://cran.r-project.org/doc/manuals/r-devel/R-ints.html#Tools .

It would be really cool to have a "publication-ready" plot export option. I mean by that a standardized export of plot with the following pre-defined settings :

1. A more exploitable (and fixed) plot size.
2. A relevant font size (8pt ?).

See testthat documentation.

Add some reference about the method in the Description field in the form Authors (year) doi:10..... or arXiv:.....

In order to improve the user experience here are some feature request for this section :

• change tab section to : " 1 - file import"
• allow user to display one or more spectra on the plot (tick box ?)

To prevent users from forgetting to select the relevant calibration curve, it would be desirable that no calibration curve be selected by default.
This would force the user to knowingly select the correct curve so that the dose rate table does not remain empty.

This package needs a new maintainer.

Import methods for signal processing (baseline estimation, smoothing...) from alkahest instead of defining our owns.

Is your feature request related to a problem? Please describe.
There is actually no way to know that we can perform zoom on the plot of the energy calibration tab, moreover, once we have zoomed, there is no way to go back to the full view (or it is so unnatural that I was not able to find how to do it).

Describe the solution you'd like
Change the cursor to a magnifying glass when hoovering the plot, and put a "reset zoom" button

Is your feature request related to a problem? Please describe.
A table is displayed in the Shiny interface, tab "import", but it is not possible to export it

Describe the solution you'd like
A button allowing us to export this table as a .csv file

Is your feature request related to a problem? Please describe.
There is no possibility to zoomon the plot of the import tab

Describe the solution you'd like
Add the same zoom function on this tab as in the energy calibration tab

Describe the bug
No plot is produced in the dose rate estimation tab. Instead, thie message is displayed : "Error: impossible to find the function "geom_pointrange"

Screenshots

In order to improve the user experience here are some feature request for this section :

• Change tab name to : "3 - Dose rate calculation"
• add measurement time value in the table
• add the ability display only selected samples in the table
• add the ability to control the number of significant digits displayed
• add the ability to export the results as .xls

Describe the bug

The plot method for the PeakPosition-class seems to always just return the observed peak positions and not the expected peak positions. This might be correct, but then I would expect that the calibration is applied automatically when plotting. This is not the case. We can use the vignette example to reproduce the issue:

To Reproduce

library(gamma)

tka_test <- system.file("extdata/LaBr.TKA", package = "gamma")
spc_tka <- read(tka_test)

pks <- spc_tka |>
  signal_slice() |>
  signal_stabilize(f = sqrt) |>
  signal_smooth(method = "savitzky", m = 21) |>
  signal_correct(method = "SNIP", decreasing = TRUE, n = 100) |>
  peaks_find()

# Set the energy values (in keV)
set_energy(pks) <- c(238, NA, NA, NA, 1461, NA, NA, 2615)

# Calibrate the energy scale
cal <- energy_calibrate(spc_tka, pks)

# Plot spectrum
plot(cal, pks)

Expected behavior

I would expect that after the peaks are known, the energy peaks are shown correctly:

# Plot spectrum
plot(cal, pks)

Additional context

Personally I think that this line:

Should be modified to:

peak_energy <- if (all(is.na(pks$energy_expected))) pks$energy_observed else pks$energy_expected

This obviously depends on the wanted behaviour, which is not entirely clear to me. I can generate a PR if needed.

See roxygen2 documentation.