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Author: cdsferreira

production_mode_scripts/step01_preprocess_ALL.cmd

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+#! /bin/bash
+#-------------------------------------------------------------------------------
+#
+# MB-System processing of R/V Merian multibeam data
+#   - Kongsberg EM712 multibeam echosounders
+#
+# David W. Caress, Jenny Paduan
+# Monterey Bay Aquarium Research Institute
+# 5 March 2023
+#
+# Christian d. S. Ferreira
+# MARUM
+# 9 January 2025
+#
+#-------------------------------------------------------------------------------
+#
+# These notes pertain to Kongsberg multibeam data logged in files with suffixes
+# of ".all". These data are supported by MB-System format:
+#   MBF_EM710RAW 58 => *.all files, current Kongsberg format for EM122, EM302, EM710/EM712, EM2040
+#
+#-------------------------------------------------------------------------------
+# Preprocess Stage: Format 58 files with *.all suffix
+#-------------------------------------------------------------------------------
+#
+# MB-System now recognizes files with the *.all suffix as format 58.
+# Preprocessing is required, and there is a format conversion - the raw files
+# are translated in format 59. Therefore, there is a need to extract and specify a
+# platform model.
+#
+# Get datalist of the logged swath files using
+chmod -x *all
+mbm_makedatalist -S.all -Odatalistl.mb-1 -P
+#
+# create platform file
+mbmakeplatform --swath=datalistl.mb-1 --verbose --platform-type-surface-vessel \
+	--output=Merian_EM712.plf 
+#
+# On R/V Falkor (too) the rsync obtaining the kmall files always resets the timestamp of
+# pre-existing kmall files. To avoid remaking the pre-existing ancillary files, reset 
+# those timestamps using touch before making ancillary files with mbdatalist
+touch *.all.*
+mbdatalist -I datalistl.mb-1 -O -V
+#
+# Preprocess the data - merge asynchronous data (position, depth, heading, attitude)
+# from navigation post processing
+mbpreprocess \
+    --input=datalistl.mb-1 \
+    --verbose --platform-file=Merian_EM712.plf \
+    --ignore-water-column \
+	--skip-existing
+#
+# Get datalist of raw *.mb59 files
+mbm_makedatalist -S.mb59 -P -V
+mbdatalist -Z
+
+#-------------------------------------------------------------------------------
+# Processing: tide correction only, no bathymetry editing, backscatter correction
+#-------------------------------------------------------------------------------
+
+# Get tide models and set for use by mbprocess
+mbotps -I datalist.mb-1 -M -D60.0 -V
+
+# Process the data
+mbprocess
+
+#-------------------------------------------------------------------------------

production_mode_scripts/step01_preprocess_KMALL.cmd

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+#! /bin/bash
+#-------------------------------------------------------------------------------
+#
+# MB-System processing of R/V Falkor (too) multibeam data
+#   - Kongsberg EM124 and EM712 multibeam echosounders
+#
+# David W. Caress and Jenny Paduan
+# Monterey Bay Aquarium Research Institute
+# 5 March 2023
+#
+# Christian d. Santos Ferreira
+# MARUM
+# 9 January 2025
+#
+#-------------------------------------------------------------------------------
+#
+# These notes pertain to Kongsberg multibeam data logged in files with suffixes
+# of ".kmall". These data are supported by MB-System format:
+#   MBF_KEMKMALL 261 => *.kmall files, current Kongsberg format for EM124, EM304, EM712, EM2040
+#
+#-------------------------------------------------------------------------------
+# Preprocess Stage: Format 261 files with *.kmall suffix
+#-------------------------------------------------------------------------------
+#
+# MB-System now recognizes files with the *.kmall suffix as format 261.
+# Preprocessing is required, but there is no format conversion - the raw files
+# are still in format 261. Also, there is no need to extract or specify a
+# platform model.
+#
+# Get datalist of the logged swath files using
+chmod -x *kmall
+mbm_makedatalist -S.kmall -Odatalistl.mb-1 -P
+#
+# On R/V Falkor (too) the rsync obtaining the kmall files always resets the timestamp of
+# pre-existing kmall files. To avoid remaking the pre-existing ancillary files, reset 
+# those timestamps using touch before making ancillary files with mbdatalist
+touch *.kmall.*
+mbdatalist -I datalistl.mb-1 -O -V
+#
+# Preprocess the data - merge asynchronous data (position, depth, heading, attitude)
+# from navigation post processing
+mbpreprocess \
+    --input=datalistl.mb-1 \
+    --verbose
+#
+# Get datalist of raw *.mb261 files
+mbm_makedatalist -S.mb261 -P -V
+mbdatalist -Z
+
+#-------------------------------------------------------------------------------
+# Processing: tide correction only, no bathymetry editing, backscatter correction
+#-------------------------------------------------------------------------------
+
+# Get tide models and set for use by mbprocess
+mbotps -I datalist.mb-1 -M -D60.0 -V
+
+# Process the data and apply tide correction
+mbprocess
+
+#-------------------------------------------------------------------------------

production_mode_scripts/step02_postprocess.cmd

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+#!/bin/bash
+#-------------------------------------------------------------------------------
+#
+# MB-System processing of R/V Falkor (too) multibeam data
+#   - Kongsberg EM124 and EM712 multibeam echosounders
+#
+# David W. Caress and Jenny Paduan
+# Monterey Bay Aquarium Research Institute
+# 5 March 2023
+#
+# Christian d. Santos Ferreira
+# MARUM
+# 9 January 2025
+#
+#-------------------------------------------------------------------------------
+#
+# 2D bathymetry editor
+# mbedit
+
+# 3D bathymetry editor
+mbeditviz -I datalist.mb-1
+
+rm *.lck
+
+#
+# If mbeditviz did not finish sucessfully (crashed), then say "no" and run the script again
+#
+echo
+echo -n "If the 3D editor crashed say no and please run the script again"
+echo
+
+read -p "Do you want to proceed? (yes/no) " yn
+
+case $yn in 
+	yes ) echo ok, we will proceed;;
+	no ) echo exiting...;
+		exit;;
+	* ) echo invalid response;
+		exit 1;;
+esac
+
+# Apply soundings edits also to sidescan data
+mbset -PSSRECALCMODE:1
+
+# Process the data
+mbprocess -C4
+
+# Create grid for backscatter slope correction
+mbgrid -I datalistp.mb-1 \
+    -A2 -F5 -N -C20/2 \
+    -O ZTopoInt -V
+#mbgrdviz -I ZTopoInt.grd &
+
+# process amplitude and sidescan
+mbbackangle -I datalist.mb-1 \
+            -A1 -A2 -Q -V \
+            -N87/86.0 -R50 -G2/85/1500.0/85/100 \
+            -T ZTopoInt.grd
+mbset -PAMPCORRFILE:datalist.mb-1_tot.aga
+mbset -PSSCORRFILE:datalist.mb-1_tot.sga
+mbset -PAMPSSCORRTOPOFILE:ZTopoInt.grd
+
+# Process the data
+mbprocess -C4
+
+# Filter the sidescan 
+mbfilter -Idatalistp.mb-1 -S2/5/3 -V
+