Change timing field from elapsed_ns to elapsed_s

- SimInfo.elapsed_s::Float64 (was elapsed_ns::UInt64)
- ImageInfo.elapsed_s::Float64 (was elapsed_ns::UInt64)
- Time now stored directly in seconds for convenience

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

Author: kalidke

api_overview.md

@@ -127,7 +127,7 @@ Metadata and intermediate results from simulation functions. Returned as the sec
 
 ```julia
 struct SimInfo
-    elapsed_ns::UInt64              # Wall-clock time in nanoseconds
+    elapsed_s::Float64              # Wall-clock time in nanoseconds
     backend::Symbol                 # Computation backend (:cpu)
     device_id::Int                  # Device identifier (-1 for CPU)
     seed::Union{UInt64, Nothing}    # RNG seed for reproducibility
@@ -146,7 +146,7 @@ Metadata from image generation functions. Returned as the second element of the
 
 ```julia
 struct ImageInfo
-    elapsed_ns::UInt64              # Wall-clock time in nanoseconds
+    elapsed_s::Float64              # Wall-clock time in nanoseconds
     backend::Symbol                 # Computation backend (:cpu)
     device_id::Int                  # Device identifier (-1 for CPU)
     frames_generated::Int           # Number of frames generated
@@ -372,7 +372,7 @@ smld, info = simulate(
 )
 
 # Check timing
-println("Simulation took $(info.elapsed_ns / 1e9) seconds")
+println("Simulation took $(info.elapsed_s) seconds")
 ```
 
 #### kinetic_model
@@ -440,7 +440,7 @@ images, info = gen_images(
 )
 
 # Access image metadata
-println("Generated $(info.frames_generated) frames in $(info.elapsed_ns / 1e9) seconds")
+println("Generated $(info.frames_generated) frames in $(info.elapsed_s) seconds")
 println("Total photons: $(info.n_photons_total)")
 
 # The support parameter controls PSF computation region:
@@ -738,7 +738,7 @@ images, img_info = gen_images(smld_model, psf;
 )
 
 println("Generated $(length(smld_noisy.emitters)) localizations and $(img_info.frames_generated) images.")
-println("Simulation took $(info.elapsed_ns / 1e9) seconds")
+println("Simulation took $(info.elapsed_s) seconds")
 ```
 
 ### Diffusion with Dimer Analysis

src/camera_images/gen_images.jl

@@ -131,11 +131,11 @@ function gen_images(smld::SMLD, psf::AbstractPSF;
         end
     end
 
-    elapsed_ns = time_ns() - start_time
+    elapsed_s = (time_ns() - start_time) / 1e9
 
     # Build ImageInfo
     info = ImageInfo(
-        elapsed_ns=elapsed_ns,
+        elapsed_s=elapsed_s,
         backend=:cpu,
         device_id=-1,
         frames_generated=length(frames),

src/diffusion/smoluchowski.jl

@@ -488,14 +488,14 @@ function simulate(params::DiffusionSMLMParams;
     # Convert to SMLD
     smld = create_smld(camera_emitters, camera, params)
 
-    elapsed_ns = time_ns() - start_time
+    elapsed_s = (time_ns() - start_time) / 1e9
 
     # Calculate number of frames
     n_frames = isempty(smld.emitters) ? 0 : maximum(e.frame for e in smld.emitters)
 
     # Build SimInfo (diffusion doesn't have smld_true/smld_model)
     info = SimInfo(
-        elapsed_ns=elapsed_ns,
+        elapsed_s=elapsed_s,
         backend=:cpu,
         device_id=-1,
         seed=nothing,

src/static/simulation.jl

@@ -228,11 +228,11 @@ function simulate(params::StaticSMLMParams;
     # Add localization noise with appropriate PSF scaling
     smld_noisy = apply_noise(smld_model, σ_scaled)
 
-    elapsed_ns = time_ns() - start_time
+    elapsed_s = (time_ns() - start_time) / 1e9
 
     # Build SimInfo
     info = SimInfo(
-        elapsed_ns=elapsed_ns,
+        elapsed_s=elapsed_s,
         backend=:cpu,
         device_id=-1,
         seed=nothing,

src/types.jl

@@ -11,7 +11,7 @@ following the tuple-pattern convention: (primary_output, info).
 Metadata and intermediate results from simulation functions.
 
 # Fields
-- `elapsed_ns::UInt64`: Wall-clock time for simulation in nanoseconds
+- `elapsed_s::Float64`: Wall-clock time for simulation in seconds
 - `backend::Symbol`: Computation backend (`:cpu`)
 - `device_id::Int`: Device identifier (-1 for CPU)
 - `seed::Union{UInt64, Nothing}`: RNG seed for reproducibility (if applicable)
@@ -25,7 +25,7 @@ Metadata and intermediate results from simulation functions.
 # Example
 ```julia
 smld_noisy, info = simulate(params)
-println("Simulation took \$(info.elapsed_ns / 1e9) seconds")
+println("Simulation took \$(info.elapsed_s) seconds")
 println("Generated \$(info.n_localizations) localizations from \$(info.n_emitters) emitters")
 
 # Access intermediate results for analysis
@@ -36,7 +36,7 @@ end
 """
 struct SimInfo
     # Common fields (ecosystem convention)
-    elapsed_ns::UInt64
+    elapsed_s::Float64
     backend::Symbol
     device_id::Int
 
@@ -56,7 +56,7 @@ end
 
 # Convenience constructor with defaults
 function SimInfo(;
-    elapsed_ns::UInt64=UInt64(0),
+    elapsed_s::Float64=0.0,
     backend::Symbol=:cpu,
     device_id::Int=-1,
     seed::Union{UInt64, Nothing}=nothing,
@@ -67,7 +67,7 @@ function SimInfo(;
     n_localizations::Int=0,
     n_frames::Int=0
 )
-    SimInfo(elapsed_ns, backend, device_id, seed, smld_true, smld_model,
+    SimInfo(elapsed_s, backend, device_id, seed, smld_true, smld_model,
             n_patterns, n_emitters, n_localizations, n_frames)
 end
 
@@ -77,7 +77,7 @@ end
 Metadata from image generation functions.
 
 # Fields
-- `elapsed_ns::UInt64`: Wall-clock time for image generation in nanoseconds
+- `elapsed_s::Float64`: Wall-clock time for image generation in seconds
 - `backend::Symbol`: Computation backend (`:cpu`)
 - `device_id::Int`: Device identifier (-1 for CPU)
 - `frames_generated::Int`: Number of frames generated
@@ -87,13 +87,13 @@ Metadata from image generation functions.
 # Example
 ```julia
 images, info = gen_images(smld, psf)
-println("Generated \$(info.frames_generated) frames in \$(info.elapsed_ns / 1e9) seconds")
+println("Generated \$(info.frames_generated) frames in \$(info.elapsed_s) seconds")
 println("Total photons: \$(info.n_photons_total)")
 ```
 """
 struct ImageInfo
     # Common fields
-    elapsed_ns::UInt64
+    elapsed_s::Float64
     backend::Symbol
     device_id::Int
 
@@ -105,12 +105,12 @@ end
 
 # Convenience constructor with defaults
 function ImageInfo(;
-    elapsed_ns::UInt64=UInt64(0),
+    elapsed_s::Float64=0.0,
     backend::Symbol=:cpu,
     device_id::Int=-1,
     frames_generated::Int=0,
     n_photons_total::Float64=0.0,
     output_size::Tuple{Int,Int,Int}=(0,0,0)
 )
-    ImageInfo(elapsed_ns, backend, device_id, frames_generated, n_photons_total, output_size)
+    ImageInfo(elapsed_s, backend, device_id, frames_generated, n_photons_total, output_size)
 end

test/test_camera_images.jl

@@ -24,7 +24,7 @@
 
     # Check ImageInfo
     @test isa(info, ImageInfo)
-    @test info.elapsed_ns > 0
+    @test info.elapsed_s > 0
     @test info.backend == :cpu
     @test info.frames_generated == 2
     @test info.n_photons_total == 3800.0  # 1000 + 2000 + 800
@@ -160,7 +160,7 @@ end
     @test smld_scmos.camera isa SCMOSCamera
     @test !isempty(smld_scmos.emitters)
     @test isa(info_scmos, SimInfo)
-    @test info_scmos.elapsed_ns > 0
+    @test info_scmos.elapsed_s > 0
 
     # Test default behavior (should create IdealCamera)
     smld_default, info_default = simulate(params; override_count=5)

test/test_diffusion.jl

@@ -59,7 +59,7 @@
 
     # Check SimInfo
     @test isa(info, SimInfo)
-    @test info.elapsed_ns > 0
+    @test info.elapsed_s > 0
     @test info.backend == :cpu
     @test info.n_emitters > 0
 

test/test_static.jl

@@ -33,7 +33,7 @@
             @test isa(smld_model, BasicSMLD)
 
             # Check info fields
-            @test info.elapsed_ns > 0
+            @test info.elapsed_s > 0
             @test info.backend == :cpu
             @test info.n_frames == 20