forgot what this commit is about

src/main.rs

@@ -223,7 +223,8 @@ fn main() {
         if step < minim_steps && step_counter % 5000 == 0 && step != 0 {
             let tries_per_step : f64 = step_counter as f64 /accept_counter as f64;
             let acceptance_rate = 1.0/tries_per_step * 100.0;
-            println_stderr!("Minim {:<10} Energy: {:<30.3} Accept.: {:<4.1}%   dr: {:.3}", step+1, energy, acceptance_rate, displacement);
+            let avg_energy = energy_sum / step_counter as f64;
+            println_stderr!("Minim {:<10} Energy: {:<30.3} Accept.: {:<4.1}%   dr: {:.3}", step+1, avg_energy, acceptance_rate, displacement);
 
             if SCALE {
                 let scale_factor = (TRIES_INTENDED/tries_per_step * DISP_SCALE_FACTOR).abs();
@@ -234,6 +235,7 @@ fn main() {
                 }
                 step_counter = 0;
                 accept_counter = 0;
+                energy_sum = 0.0;
             }
         }
 

src/trajectory.rs

@@ -6,7 +6,7 @@ use std::error::Error;
 use std::io::prelude::*;
 use std::fs::File;
 use std::path::Path;
-
+use std::fmt;
 use std::io::BufReader;
 
 
@@ -60,6 +60,21 @@ pub struct Frame {
     pub lj_cutoff: f64,
 }
 
+impl fmt::Debug for Frame {
+    fn fmt(&self, fmt: &mut fmt::Formatter) -> fmt::Result {
+        fmt.debug_struct("Frame")
+            .field("num_particles", &self.num_particles)
+            .field("box_x", &self.box_x)
+            .field("box_y", &self.box_y)
+            .field("box_z", &self.box_z)
+            .field("temperature", &self.temperature)
+            .field("lj_eps", &self.lj_eps)
+            .field("lj_sig", &self.lj_sig)
+            .field("lj_cutoff", &self.lj_cutoff)
+            .finish()
+    }
+}
+
 pub struct TrjReader {
     pub reader: BufReader<File>,
 }

src/widom.rs

@@ -4,6 +4,7 @@ mod energy;
 use energy::*;
 extern crate rand;
 use rand::Rng;
+use std::env;
 
 const LJ_EPS : f64 = 1.0;
 const LJ_SIG : f64 = 1.0;
@@ -11,22 +12,104 @@ const LJ_SIG : f64 = 1.0;
 static MKSA_PLANCKS_CONSTANT_H : f64 = 1.0;
 static MASS : f64 = 1.0;
 
-const INSERTIONS_PER_STEP : usize = 10;
+const INSERTIONS_PER_STEP : usize = 1000;
-const RUN_AVG_SIZE : usize = 100;
+const RUN_AVG_SIZE : usize = 10;
 
 const SHIFT : bool = true;
 
-// returns number of particles in liquid and gas phase as tuble
+fn main() {
-fn count_particles(rz: &[f64], num_particles: usize, liquid_height: f64) -> (usize, usize) {
+    // open file
-    let mut liquid_count = 0;
+    let args: Vec<String> = env::args().collect();
-    let mut gas_count = 0;
+    let mut trj_reader = TrjReader::new(&args[1]);
-    for i in 0..num_particles {
+
-        if rz[i] < liquid_height { liquid_count += 1; }
+    let mut frame = trj_reader.next_frame();
-        else { gas_count += 1; }
+    println!("{:?}", frame);
+    // get some non changing values
+    let volume = frame.box_x * frame.box_y * frame.box_z;
+    let beta = 1.0/frame.temperature;
+    let cutoff_sqr = frame.lj_cutoff * frame.lj_cutoff;
+
+    // account for gas phase slab
+    let gas_slab = args[2].parse::<f64>().unwrap();
+    let liquid_height = frame.box_z / (gas_slab + 1.0);
+    let liquid_volume = volume / (gas_slab + 1.0);
+    let gas_volume = volume - liquid_volume;
+
+    let wave = MKSA_PLANCKS_CONSTANT_H / (2.0 * std::f64::consts::PI * MASS * frame.temperature / frame.lj_eps).sqrt();
+    let e_shift = if SHIFT { 4.0 * LJ_EPS * ( (LJ_SIG/frame.lj_cutoff).powi(12) - (LJ_SIG/frame.lj_cutoff).powi(6) ) } else { 0.0 };
+
+    let mut rng = rand::thread_rng();
+
+
+    // average counters
+    let mut frame_count = 0;
+    let mut widom_sum_gas = 0.0;
+    let mut ideal_sum_gas = 0.0;
+    let mut widom_sum_liquid = 0.0;
+    let mut ideal_sum_liquid = 0.0;
+
+    // loop over frames
+    let mut avg_count = 0;
+    loop  {
+        frame_count += 1;
+
+        // calculate number of particles in each phase
+        let mut liquid_count = 0.0;
+        let mut gas_count = 0.0;
+        for i in 0..frame.num_particles {
+            if frame.rz[i] < liquid_height { liquid_count += 1.0; }
+            else { gas_count += 1.0; }
+        }
+
+        // test particle insertion multiple times
+        for i in 0..INSERTIONS_PER_STEP {
+            avg_count += 1;
+
+            // liquid test partciles
+            let lx = frame.box_x * rng.gen::<f64>();
+            let ly = frame.box_y * rng.gen::<f64>();
+            let lz = liquid_height * rng.gen::<f64>();
+
+            let widom_e_liquid = get_particle_insertion_energy(&frame.rx, &frame.ry, &frame.rz, frame.num_particles, lx, ly, lz, frame.box_x, frame.box_y, frame.box_z, cutoff_sqr, e_shift);
+            widom_sum_liquid += (-beta*widom_e_liquid).exp();
+
+            // test particle gas energy
+            let gx = frame.box_x * rng.gen::<f64>();
+            let gy = frame.box_y * rng.gen::<f64>();
+            let gz = ((frame.box_z - liquid_height) * rng.gen::<f64>()) + liquid_height;
+            let widom_e_gas = get_particle_insertion_energy(&frame.rx, &frame.ry, &frame.rz, frame.num_particles, gx, gy, gz, frame.box_x, frame.box_y, frame.box_z, cutoff_sqr, e_shift);
+            widom_sum_gas += (-beta*widom_e_gas).exp();
+
+            // calculate ideal gas potential for both phases
+            ideal_sum_gas += frame.temperature / frame.lj_eps * (gas_volume/(wave.powi(3)* gas_count)).ln();
+            ideal_sum_liquid += frame.temperature / frame.lj_eps * (liquid_volume/(wave.powi(3)* liquid_count)).ln();
+
+        }
+
+        // print running averages
+        if avg_count / INSERTIONS_PER_STEP > RUN_AVG_SIZE {
+            let ideal_gas = ideal_sum_gas / avg_count as f64;
+            let ideal_liquid = ideal_sum_liquid / avg_count as f64;
+            let excess_gas = -(widom_sum_gas/avg_count as f64).ln()/beta;
+            let excess_liquid = -(widom_sum_liquid/avg_count as f64).ln()/beta;
+            println!("Frame {}\tgas {}\tliquid {}\t particles gas/liquid:{}/{}", frame_count, ideal_gas + excess_gas, ideal_liquid + excess_liquid, gas_count, liquid_count);
+
+            // reset averages for next round
+            avg_count = 0;
+            ideal_sum_gas = 0.0;
+            ideal_sum_liquid = 0.0;
+            widom_sum_gas = 0.0;
+            widom_sum_liquid = 0.0;
+        }
+
+        if !trj_reader.update_with_next(&mut frame) {
+            break;
+        }
     }
-    return (liquid_count, gas_count);
+
 }
 
+
 fn get_particle_insertion_energy(rx: &[f64], ry: &[f64], rz: &[f64], num_particles: usize, x: f64, y: f64, z: f64, l_x: f64,l_y: f64, l_z: f64, cutoff_sqr: f64, e_shift: f64) -> f64 {
     let mut energy = 0.0;
     let half_l_x = l_x/2.0;
@@ -36,103 +119,8 @@ fn get_particle_insertion_energy(rx: &[f64], ry: &[f64], rz: &[f64], num_particl
 
         let dist_squared = get_particle_distance_squared(x, y, z, rx[i],ry[i],rz[i], l_x, l_y, l_z, half_l_x, half_l_y, half_l_z);
         if dist_squared < cutoff_sqr {
-            let (e,v) = eval_pair_energy(dist_squared, e_shift);
+            energy += eval_pair_energy(dist_squared, e_shift).0;
-            energy += e;
         }
     }
     return energy;
-}
-
-fn main() {
-
-    let mut trj_reader = TrjReader::new(&"2phases/10k_1step.xyz".to_string());
-    let mut frame = trj_reader.next_frame();
-
-    let volume = frame.box_x * frame.box_y * frame.box_z;
-    let beta = 1.0/frame.temperature;
-    let cutoff_sqr = frame.lj_cutoff * frame.lj_cutoff;
-
-    let mut gas_slab = 2.0;
-    let mut liquid_height = frame.box_z / (gas_slab + 1.0);
-    let liquid_volume = volume / (gas_slab + 1.0);
-    let gas_volume = volume - liquid_volume;
-
-    let wave = MKSA_PLANCKS_CONSTANT_H / (2.0 * std::f64::consts::PI * MASS * frame.temperature / frame.lj_eps).sqrt();
-
-
-    let mut rng = rand::thread_rng();
-
-    let e_shift = if SHIFT { 4.0 * LJ_EPS * ( (LJ_SIG/frame.lj_cutoff).powi(12) - (LJ_SIG/frame.lj_cutoff).powi(6) ) } else { 0.0 };
-
-    let mut frame_count = 0;
-    let mut widom_sum_gas = 0.0;
-    let mut ideal_sum_gas = 0.0;
-    let mut widom_sum_liquid = 0.0;
-    let mut ideal_sum_liquid = 0.0;
-
-    let mut avg_count = 0;
-    loop  {
-        frame_count += 1;
-        avg_count += 1;
-
-
-        // test particle liquid energy
-        let lx = frame.box_x * rng.gen::<f64>();
-        let ly = frame.box_y * rng.gen::<f64>();
-        let lz = liquid_height * rng.gen::<f64>();
-        let widom_e_liquid = get_particle_insertion_energy(&frame.rx, &frame.ry, &frame.rz, frame.num_particles, lx, ly, lz, frame.box_x, frame.box_y, frame.box_z, cutoff_sqr, e_shift);
-        widom_sum_liquid += (-beta*widom_e_liquid).exp();
-
-        // test particle gas energy
-        let gx = frame.box_x * rng.gen::<f64>();
-        let gy = frame.box_y * rng.gen::<f64>();
-        let gz = ((frame.box_z - liquid_height) * rng.gen::<f64>()) + liquid_height;
-        let widom_e_gas = get_particle_insertion_energy(&frame.rx, &frame.ry, &frame.rz, frame.num_particles, gx, gy, gz, frame.box_x, frame.box_y, frame.box_z, cutoff_sqr, e_shift);
-        widom_sum_gas += (-beta*widom_e_gas).exp();
-
-        // calculate number of particles in each phase
-        let mut liquid_count = 0.0;
-        let mut gas_count = 0.0;
-        for i in 0..frame.num_particles {
-            if frame.rz[i] < liquid_height { liquid_count += 1.0; }
-            else { gas_count += 1.0; }
-        }
-
-        // calculate ideal gas potential for both phases
-        let wave = MKSA_PLANCKS_CONSTANT_H / (2.0 * std::f64::consts::PI * MASS * frame.temperature / frame.lj_eps).sqrt();
-        ideal_sum_gas += frame.temperature / frame.lj_eps * (gas_volume/(wave.powi(3)* gas_count)).ln();
-        ideal_sum_liquid += frame.temperature / frame.lj_eps * (liquid_volume/(wave.powi(3)* liquid_count)).ln();
-
-
-
-        if avg_count == RUN_AVG_SIZE {
-            let ideal_gas = ideal_sum_gas / avg_count as f64;
-            let ideal_liquid = ideal_sum_liquid / avg_count as f64;
-            let excess_gas = -(widom_sum_gas/avg_count as f64).ln()/beta;
-            let excess_liquid = -(widom_sum_liquid/avg_count as f64).ln()/beta;
-            println!("Frame {}   gas {}   liquid {}  particlecount:{}/{}", frame_count, ideal_gas + excess_gas, ideal_liquid + excess_liquid, gas_count, liquid_count);
-            avg_count = 0;
-            ideal_sum_gas = 0.0;
-            ideal_sum_liquid = 0.0;
-            widom_sum_gas = 0.0;
-            widom_sum_liquid = 0.0;
-
-        }
-
-        //            liquid_gas_sum = 0.0;
-        //            excess_liquid_sum = 0.0;
-        //            gas_gas_sum = 0.0;
-        //            excess_gas_sum = 0.0;
-        //            avg_count = 0;
-
-
-
-
-        if !trj_reader.update_with_next(&mut frame) { break }
-    }
-
-
-
-
-
 }