new microm dps run sh script, test for dps

maap_runtime/creek_global_esa_lct/algorithm_config.yaml

@@ -16,7 +16,7 @@ queue: "maap-dps-worker-8gb"
 description: "Use ESA Global Land Cover Dataset for Creek Sample Run."
 # path to the wrapper script for running the algorithm
 # Command starts with repository name
-run_command: "fireatlas_nrt/run_dps_micro.sh"
+run_command: "fireatlas_nrt/run_micro_dps.sh"
 # build_command: my-build-script.sh
 # set a storage value in GB or MB or KB, e.g. "100GB", "20MB", "10KB"
 disk_space: "10GB"

run_dps_micro.sh

@@ -8,9 +8,9 @@ echo "Initial working directory: $(pwd -P)"
 
 # install micromamba
 curl micro.mamba.pm/install.sh | bash
-export MAMBA_ROOT_PREFIX="/projects/micromamba"  # optional, defaults to ~/micromamba
-eval "$(/projects/.local/bin/micromamba shell hook -s posix)"
-echo "micromamba version: $(micromamba --version)"
+# export MAMBA_ROOT_PREFIX="/projects/micromamba"  # optional, defaults to ~/micromamba
+eval "$($basedir/.local/bin/micromamba shell hook -s posix)"
+# echo "micromamba version: $(micromamba --version)"
 echo "conda: $(which conda)"
 
 
@@ -19,7 +19,7 @@ echo "conda: $(which conda)"
 
 
 if [ ! -d "/projects/micromamba/envs/rio-tiler-new" ]; then
-    micromamba create -f "/projects/rio-tiler-new.yml" -p "/projects/micromamba/envs/rio-tiler-new"
+    micromamba create -f "$basedir/rio-tiler-new.yml" -p "/projects/micromamba/envs/rio-tiler-new"
 fi
 
 # conda prefix check

run_micro_dps.sh

+#!/bin/bash
+# set -euxo pipefail
+set -eo pipefail
+
+# base dir set
+basedir=$( cd "$(dirname "$0")"; pwd -P )
+echo "Basedir: $basedir"
+echo "Initial working directory: $(pwd -P)"
+
+# install micromamba
+curl micro.mamba.pm/install.sh | bash
+# set variables
+MAMBA_EXE="$basedir/micromamba" # path to micromamba binary
+MY_MAMBA_ENV="$basedir/micromamba/envs/rio-tiler-new"
+
+# flag - may need to modify order of arguments
+"$MAMBA_EXE" create -p "$MY_MAMBA_ENV" "$basedir/rio-tiler-new.yml"
+
+# creek sample run with exec
+"$MAMBA_EXE" run -p "$MY_MAMBA_ENV" python -u -c "import FireRun; FireRun.CreekSamplerun()"
+
+echo "Done!"
+
+exit
\ No newline at end of file