x.md

$ cat /tmp/x
        declare -a config;
        if [[ "$TRIAL_NAME" ]]; then
          config+=(
            deploy_url="s3://nextstrain-staging/avian-flu_trials_${TRIAL_NAME}_"
          )
        fi;
        if [[ "$BUILDS" = "h5n1-d1.1" ]]; then
          config+=(
            builds='[{"subtype": ["h5n1-d1.1"],"segment": ["genome"]}]'
          )
        else if [[ "$BUILDS" = "h5n1-cattle-outbreak" ]]; then
          config+=(
            builds='[{"subtype": ["h5n1-cattle-outbreak"],"segment": ["genome","pb2","pb1","pa","ha","np","na","mp","ns"]}]'
          )
        fi;
        printf '<%s>\n' nextstrain build \
          --detach \
          --no-download \
          --cpus 16 \
          --memory 28800mib \
          . \
            deploy_all \
            --snakefile genome-focused/Snakefile \
            --config "${config[@]}"

$ TRIAL_NAME=glob-configs-2025-03-05 BUILDS=h5n1-d1.1 bash /tmp/x
/tmp/x: line 25: syntax error: unexpected end of file

$ perl -pi -e 's/else if/elif/' /tmp/x

$ TRIAL_NAME=glob-configs-2025-03-05 BUILDS=h5n1-d1.1 bash /tmp/x
<nextstrain>
<build>
<--detach>
<--no-download>
<--cpus>
<16>
<--memory>
<28800mib>
<.>
<deploy_all>
<--snakefile>
<genome-focused/Snakefile>
<--config>
<deploy_url=s3://nextstrain-staging/avian-flu_trials_glob-configs-2025-03-05_>
<builds=[{"subtype": ["h5n1-d1.1"],"segment": ["genome"]}]>