changed to htings

plot.sh

@@ -4,7 +4,7 @@
 # document-rady plots.
 
 # Only analyses with this error type will be represented in the atlas
-errtype="LF"
+errtype=$(cat err_type)
 ref_band="1367Å"
 
 case $1 in

run_analysis.sh

@@ -5,22 +5,27 @@
 # dataset(lightcurve directory), more?
 
 ref_band=$(cat ref_band)
-ref_curve="/lightcurves/${ref_band}.lc"
+ref_curve="lightcurves/${ref_band}.lc"
 err_str=$(cat err_type)
 
 mkdir -p analyses/tables
 
-#for analysis in analyses/*
-for echo_curve in "lightcurves/*"
+for echo_curve in lightcurves/*
 do
     # Grab and determine labels of analyses, skip if over the same band.
     echo_band=$(basename $echo_curve|sed 's|\(.*\)\.lc|\1|')
     if [[ $ref_band == $echo_band ]]; then continue; fi
 
-echo "Running analysis for $echo_band ≺ $ref_band"
+echo "Analysing $echo_band ≺ $ref_band."
 
-    python scripts/analyze_lightcurve.py "$ref_curve $echo_curve" >> "analyses/${ref_band}_≺_${echo_band}"
-    scripts/extract_tables.pl
+    if [[ -e "analyses/${ref_band}_≺_${echo_band}/" ]]; then
+        echo "Results already exists. Create tables from stored results."
+        cp analyses/${ref_band}_≺_${echo_band}/*.out .
+    else
+        python scripts/analyze_lightcurve.py $ref_curve $echo_curve >> /dev/null
+        mkdir -p "analyses/${ref_band}_≺_${echo_band}"
+        cp *.out analyses/${ref_band}_≺_${echo_band}/
+    fi
 
 echo "Tabling PSD and time lags referred to ${ref_band} for $echo_band{${err_str}}."
 
@@ -31,10 +36,11 @@ echo "Tabling PSD and time lags referred to ${ref_band} for $echo_band{${err_str
 
     # Output curves to temporary files using perl script, move tables to
     # permanent location. This just assumes there are no conflicts.
-    scripts/extract_tables.pl $analysis > /dev/null
+    scripts/extract_tables.pl
     mv tmp.echoPSD $echoPSD_tabfile
     mv tmp.refPSD $refPSD_tabfile
     mv tmp.timelag $timelag_tabfile
+    rm *.out
 done
 
-rm tmp.*
+rm tmp.*

scripts/analyze_lightcurve.py

@@ -47,11 +47,12 @@ lc1_strength_err = [lc1_table[i, 2] for i in index]
 #### Get the psd for the first light curve ####
 
 # These bin values determined summer 2016 for STORM III optical/UV lightcurves
-fqL = np.array([0.0049999999, 0.018619375, 0.044733049, 0.069336227, 0.10747115, 0.16658029, 0.25819945, 0.40020915, 0.62032418])
+# fqL = np.array([0.0049999999, 0.018619375, 0.044733049, 0.069336227, 0.10747115, 0.16658029, 0.25819945, 0.40020915, 0.62032418])
 
 # using utilities to set up frequency bins #
-# fqL = np.logspace(np.log10(1.1/seg_length),np.log10(.5/dt),7)
-# fqL = np.concatenate(([0.5/seg_length], fqL))
+seg_length = 256;
+fqL = np.logspace(np.log10(1.1/seg_length),np.log10(.5/dt),7)
+fqL = np.concatenate(([0.5/seg_length], fqL))
 
 nfq = len(fqL) - 1
 

scripts/extract_tables.pl

@@ -16,6 +16,8 @@ use constant PI    => 4 * atan2(1, 1);
 our $verbose=1;
 our $debug=0;
 
+if ($debug) { $verbose=1; }
+
 
 # This section locates the output data of interest in a
 # psdlab output file.
@@ -68,19 +70,19 @@ foreach (@bin_bounds) {
     #say ($μ,":",$Δ);
     # push(@freq_coords_mean,$μ);
     # push(@freq_coords_σ,$Δ);
-    $function_bin{$μ} = {"Δ" => $Δ};
-    $function_bin{$μ}{"ref_PSD_μ"} = $ref_psd[$count];
-    $function_bin{$μ}{"ref_PSD_σ"} = $ref_psd_σ[$count];
-    $function_bin{$μ}{"echo_PSD_μ"} = $echo_psd[$count];
-    $function_bin{$μ}{"echo_PSD_σ"} = $echo_psd_σ[$count];
-    $function_bin{$μ}{"crsspctrm_μ"} = $crosssp_psd[$count];
-    $function_bin{$μ}{"crsspctrm_σ"} = $crosssp_psd_σ[$count];
+    $function_bin{$μ} = {"Δ" => $Δ,
+                        "ref_PSD_μ" => $ref_psd[$count],
+                        "ref_PSD_σ" => $ref_psd_σ[$count],
+                        "echo_PSD_μ" => $echo_psd[$count],
+                        "echo_PSD_σ" => $echo_psd_σ[$count],
+                        "crsspctrm_μ" => $crosssp_psd[$count],
+                        "crsspctrm_σ" => $crosssp_psd_σ[$count],
+                        "timelag_μ" => $timelag[$count],
+                        "timelag_σ" => $timelag_σ[$count]};
     # $function_bin{$μ}{"φdiff_μ"} = $μ;
     # $function_bin{$μ}{"φdiff_σ"} = $σ;
     # $μ = $μ/(2*PI*$μ);
     # $σ = $σ/(2*PI*$μ);
-    $function_bin{$μ}{"timelag_μ"} = $timelag[$count];
-    $function_bin{$μ}{"timelag_σ"} = $timelag_σ[$count];
     $count = $count + 1;
 }
 
@@ -94,10 +96,20 @@ $numbins = keys %function_bin;
 say encode($charset,"$numbins frequency bins captured in output.");
 
 if($verbose) {
-    say encode($charset,"freq μ        freq σ");
-    while (each %function_bin ) {
+    say encode($charset,"freq μ        freq σ      ref_PSD_μ      ref_PSD_σ      echo_PSD_μ      echo_PSD_σ      timelag_μ      timelag_σ");
+
+    foreach (sort { $a <=> $b } keys %function_bin) {
         say encode($charset,
-            sprintf("%f      %f",$_,$function_bin{$_}{"Δ"}));
+            sprintf("%f      %f      %f      %f      %f      %f      %f      %f      ",
+                $_,
+                $function_bin{$_}{"Δ"},
+                $function_bin{$_}{"ref_PSD_μ"},
+                $function_bin{$_}{"ref_PSD_σ"},
+                $function_bin{$_}{"echo_PSD_μ"},
+                $function_bin{$_}{"echo_PSD_σ"},
+                $function_bin{$_}{"timelag_μ"},
+                $function_bin{$_}{"timelag_σ"}
+        ));
     }
 }
 

scripts/templates/psd_atlas.gp

@@ -35,9 +35,14 @@ set logscale x
 set xtics auto font 'Times,9' offset 0,.5
 set ytics auto font 'Times,9'
 set ytics add ('' -0.5 1,'' -1.5 1,'' -2.5 1,'' -3.5 1,'' -4.5 1)
-set xrange [0.005:0.620];
+
+# xrange from 2016 REU freq bins
+#set xrange [0.005:0.620];
 set yrange [-5.5:0.5]
 
+# xrange pulled from example.py from first version of clag
+set xrange [0.001:5]
+set yrange [-5.5:0.5]
 
 set multiplot layout 6,3 rowsfirst