Changed Rhyacotriton cascadae to Rhyacotriton kezeri

maxent_outputs/maxent.html

@@ -1,6 +1,6 @@
 <title>Maxent model</title>
 <CENTER><H1>Maxent model</H1></CENTER>
-<br> This page contains some analysis of the Maxent model result, created Tue Apr 16 16:37:58 UTC 2024 using 'dismo' version  1.3-14 & Maxent version 3.4.3.  If you would like to do further analyses, the raw data used here is linked to at the end of this page.<br>
+<br> This page contains some analysis of the Maxent model result, created Tue Apr 16 16:55:52 UTC 2024 using 'dismo' version  1.3-14 & Maxent version 3.4.3.  If you would like to do further analyses, the raw data used here is linked to at the end of this page.<br>
 <br><HR><H2>Analysis of omission/commission</H2>
 The following picture shows the omission rate and predicted area as a function of the cumulative threshold.  The omission rate is is calculated both on the training presence records, and (if test data are used) on the test records.  The omission rate should be close to the predicted omission, because of the definition of the cumulative threshold.
 <br><img src="plots/species_omission.png"><br>

maxent_outputs/maxent.log

@@ -1,9 +1,9 @@
-Tue Apr 16 16:37:58 UTC 2024
+Tue Apr 16 16:55:51 UTC 2024
 MaxEnt version 3.4.3
 Reading file absence
-readGrid: max memory 536870912, total allocated 270532608, free 104312496, used 166220112, increment 38187728
+readGrid: max memory 536870912, total allocated 270532608, free 149309280, used 121223328, increment 102237792
 Reading samples from presence
-Read samples: max memory 536870912, total allocated 270532608, free 259935680, used 10596928, increment -155623184
+Read samples: max memory 536870912, total allocated 270532608, free 146163552, used 124369056, increment 3145728
 Adding samples to background in feature space
 Command line used:  autorun -e maxent_outputs/absence -o maxent_outputs -s maxent_outputs/presence -z
 Command line to repeat: java density.MaxEnt nowarnings noprefixes outputdirectory=maxent_outputs samplesfile=maxent_outputs/presence environmentallayers=maxent_outputs/absence autorun novisible
@@ -16,18 +16,18 @@ environmentallayers: maxent_outputs/absence
 autorun: true
 visible: false
 
-getSamples: max memory 536870912, total allocated 270532608, free 255741376, used 14791232, increment 4194304
+getSamples: max memory 536870912, total allocated 270532608, free 141969248, used 128563360, increment 4194304
 Making features
-makeFeatures: max memory 536870912, total allocated 270532608, free 254165008, used 16367600, increment 1576368
+makeFeatures: max memory 536870912, total allocated 270532608, free 140920672, used 129611936, increment 1048576
 species: 
 Regularization values: linear/quadratic/product: 0.050, categorical: 0.250, threshold: 1.000, hinge: 0.500
 234 samples
-Density: max memory 536870912, total allocated 270532608, free 251547072, used 18985536, increment 2617936
-linearPredictor: max memory 536870912, total allocated 270532608, free 251547072, used 18985536, increment 0
-FeaturedSpace: max memory 536870912, total allocated 270532608, free 251547072, used 18985536, increment 0
-Sequential: max memory 536870912, total allocated 270532608, free 251547072, used 18985536, increment 0
+Density: max memory 536870912, total allocated 270532608, free 139349856, used 131182752, increment 1570816
+linearPredictor: max memory 536870912, total allocated 270532608, free 139349856, used 131182752, increment 0
+FeaturedSpace: max memory 536870912, total allocated 270532608, free 139349856, used 131182752, increment 0
+Sequential: max memory 536870912, total allocated 270532608, free 139349856, used 131182752, increment 0
 Initial loss: 6.077642243349034
-500: time = 0.447000 loss = 5.847453
+500: time = 0.445000 loss = 5.847453
 Resulting gain: 0.2301887690288824
 Projecting...
 Writing file maxent_outputs/species.csv

maxent_outputs/species.html

@@ -1,6 +1,6 @@
 <title>Maxent model for species</title>
 <CENTER><H1>Maxent model for species</H1></CENTER>
-<br> This page contains some analysis of the Maxent model for species, created Tue Apr 16 16:37:58 UTC 2024 using Maxent version 3.4.3.  If you would like to do further analyses, the raw data used here is linked to at the end of this page.<br>
+<br> This page contains some analysis of the Maxent model for species, created Tue Apr 16 16:55:52 UTC 2024 using Maxent version 3.4.3.  If you would like to do further analyses, the raw data used here is linked to at the end of this page.<br>
 <br><HR><H2>Analysis of omission/commission</H2>
 The following picture shows the omission rate and predicted area as a function of the cumulative threshold.  The omission rate is is calculated both on the training presence records, and (if test data are used) on the test records.  The omission rate should be close to the predicted omission, because of the definition of the cumulative threshold.
 <br><img src="plots/species_omission.png"><br>

src/CurrentSdm.R

@@ -163,7 +163,7 @@ ggplot() +
   scale_size_area() +
   borders("state") +
   borders("world", colour = "black", fill = NA) + 
-  labs(title = "SDM of Rhyacotriton cascadae Under Current Climate Conditions",
+  labs(title = "SDM of Rhyacotriton kezeri Under Current Climate Conditions",
        x = "longitude",
        y = "latitude",
        fill = "Environmental Suitability")+ 

src/FutureSdm.R

@@ -42,7 +42,7 @@ ggplot() +
   scale_size_area() +
   borders("state") +
   borders("world", colour = "black", fill = NA) + 
-  labs(title = "Future SDM of Rhyacotriton cascadae Under CMIP6",
+  labs(title = "Future SDM of Rhyacotriton kezeri Under CMIP6 ",
        x = "longitude",
        y = "latitude",
        fill = "Env Suitability") +