add new datastreams

Author: LoriLuers-PIFSC

_data/navigation.yml

@@ -28,9 +28,8 @@ docs:
         url: /surveys/sfm
       - title: "Subsurface Temperature Recorders (STR)"
         url: /surveys/str 
-
-    #  - title: "Vital Rates"
-    #    url: /surveys/vital_rates
+      - title: "Vital Rates"
+        url: /surveys/vital_rates
 
 #      - title: "Subsurface Temperature Recorders (STR)"
 #        url: /surveys/strs

assets/images/sfm_model_fixed.png

@@ -2,12 +2,13 @@
 layout: survey_template_single
 title: "NCRMP: Coral Demography"
 permalink: /surveys/coral_demography
-main_image: "https://www.arcgis.com/sharing/rest/content/items/4976333fbf884f26b2fdc9ac51a20576/resources/correct_resize_4000x2740-surge-DTP-PIFSC.jpg?v=1764785896406" # default image
-main_image_caption: "A coral biologist measures the size and condition of corals encountered along a transect. Credit: NOAA NMFS"
+main_image: "https://www.fisheries.noaa.gov/s3/2023-04/5472x3648-Count-coral-JDG-PIFSC-0.JPG" # default image
+main_image_caption: "A diver measures a coral along the transect during the 2023 NCRMP field work in American Samoa. The team counted over 25,000 coral colonies ranging in size from less than an inch to over 24 feet! Big thank you to the crew of the NOAA Ship Rainier for the vital support provided and to the American Sāmoan community for sharing their beautiful islands and culture with us. Credit: NOAA Fisheries/Joao Garriques"
 header:
   overlay_color: "#000"
-  overlay_filter: linear-gradient(rgba(255, 0, 0, 0.5), rgba(0, 255, 255, 0.5))
-
+  overlay_filter: linear-gradient(rgba(0, 0, 0, 0.5), rgba(255, 255, 255, 0.5))
+  overlay_image: https://media.fisheries.noaa.gov/dam-migration/4000x3000-alamagan-cots-keisha-bahr.jpg
+  caption: "Photo credit: NOAA Fisheries/Keisha Bahr"
 survey_type: Monitoring Coral Demography
 survey_description: Data is collected on the size, species, and health of young and adult corals, using in-water diver surveys and advanced 3D imagery analysis.  Surveys are conducted in hard-bottom habitat in water <30 m, following a stratified-random sampling site design (StRS). Random sites are generated across islands using reef zone, depth zone, pre-determined sectors, and locations of known hard-bottom habitat (typically from backscatter data), using the R project <a href = "https://github.com/krtanaka/ncrmp_common_map" target = "_blank">ncrmp_common_map</a>. Site-level data should be used with caution as the data is intended to be combined and adjusted with multiple sites within a region to provide an accurate picture of coral populations across the whole area. Access more details and data visualization on the <a href = "https://ncrmp.coralreef.noaa.gov/pages/ncrmp-data" target ="_blank">NCRMP Data Viz Tool</a>. 
 # description: "Template sample description"

assets/images/sfm_spiral.png

@@ -5,8 +5,10 @@ permalink: /surveys/str
 main_image: "https://media.fisheries.noaa.gov/2023-07/5472x3648-Diver-collectS-STR-ARI-Halperin-PIFSC.JPG" 
 main_image_caption: "Diver deploying and collecting a subsurface-temperature recorder (STR). Credit: NOAA Fisheries"
 header:
-  overlay_color: "#000"
-  overlay_filter: 0.5 
+ # overlay_color: "#000"
+  overlay_filter: linear-gradient(rgba(0, 0, 0, 0.5), rgba(255, 255, 255, 0.5))
+  overlay_image: https://www.fisheries.noaa.gov/s3/2023-07/1440x960-07012023-STR-installedited-PIFSC.jpg
+  caption: "Credit: NOAA Fisheries"
 
 survey_type: Water Temperature
 survey_description: Water temperature time series data are collected using high-accuracy Subsurface Temperature Recorders (STRs) deployed at permanent coral reef monitoring sites across the U.S. Pacific. The STRs are attached to the reef using zip ties and weights and are typically deployed for 3 years at depths ranging from 0 to 30 meters. STRs provide accurate temperature data at depth, and temperature time series can be used to assess thermal stress experienced by coral reefs during bleaching events.

surveys/coral_demography.md

@@ -2,14 +2,14 @@
 layout: survey_template_single
 title: "NCRMP: Vital Rates"
 permalink: /surveys/vital_rates
-main_image: /assets/images/vital_rates.png # default image
-main_image_caption: "Sample of how a coral colony is traced and tracked over time, and conclusions from that data. Credit: NOAA NMFS"
+main_image: /assets/images/sfm_model_fixed.png # default image
+main_image_caption: "Example of the 3D model produced from imagery collected in a spiral, which will be annotated. Credit: NOAA Fisheries"
 header:
   overlay_color: "#080808ff"
-  overlay_filter: linear-gradient(rgba(255, 0, 0, 0.5), rgba(0, 255, 255, 0.5))
-
+  overlay_image: /assets/images/sfm_spiral.png
+  caption: "Two divers use tools to image a fixed site. Credit: NOAA Fisheries"
 survey_type: Measuring Coral Colony Growth and Mortality
-survey_description: Vital Rates Annotations are the annotations of 3D coral reef models generated with Structure-from-Motion photogrammetric imagery since 2014. Annotations include the size and species of each coral colony within an established site. These 'fixed' sites are revisited and re-imaged over the years. This assists with tracking coral colony survivorship and growth over time and has allowed a better understanding of coral response to environmental conditions, such as how colony size relates to the probability of their survival after coral bleaching events. Refer to InPort metadata records or SOP for more details.
+survey_description: The Vital Rates dataset contains annotations  of 2D and 2.5D coral reef models generated using Structure-from-Motion photogrammetry, with  imagery dating back to 2014. Annotations include information such as size and species of targeted coral colonies within multiple permanent monitoring sites throughout the Pacific Basin. These 'fixed' sites are revisited and re-imaged over periods of 1-5 years. This dataset assists with tracking coral colony recruitment, survivorship and growth over time and provides a better understanding of how corals respond to environmental conditions, such as how colony size impacts the likelihood of survival after a coral bleaching event. Refer to the InPort metadata record or SOP for more details.
 # description: "Template sample description"
 sidebar:
   nav: "docs"