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#!/bin/bash
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2
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# Imports all inputs at once
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3
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4
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import_all_main ()
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{
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local self="${BASH_SOURCE[0]}"
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7
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local selfDir="$(dirname -- "$self")"
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8
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cd "$selfDir/.."
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9
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if test "${BASH_LINENO[1]}" = 0; then # was run without initial "."
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echo "Usage: [version=...;] . $self [vars...] (note initial \".\")"\
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|fold -s >&2
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return 2
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fi
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15
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: ${version=$(make -s version)}
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local dump_opts=${dump_opts---exclude-schema=public} public_import=1
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export version dump_opts public_import
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18
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19
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make inputs/.TNRS/tnrs+accepted/reinstall
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make inputs/.TNRS/tnrs_accepted/reinstall
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make inputs/.TNRS/tnrs_other/reinstall
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make schemas/$version/install
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24
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local all=1; . "$selfDir/with_all" Source/import by_col=1 "$@"
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# note that this isn't affected by $import_source
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27
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wait # wait for asynchronous commands
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28
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unset all
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29
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local import_source= # Source tables have already been imported
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export import_source # must come after local
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32
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make inputs/.herbaria/import "$@" &
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34
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sleep 5 # wait for make commands to scroll by
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35
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36
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make inputs/.geoscrub/import "$@" &
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37
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sleep 5 # wait for make commands to scroll by
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38
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39
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make inputs/.NCBI/import by_col=1 "$@"
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40
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# Must come after NCBI for cross links to be made
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make inputs/.TNRS/tnrs_accepted/import "$@"
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make inputs/.TNRS/tnrs_other/import "$@"
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wait # wait for asynchronous commands
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45
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46
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. "$selfDir/with_all" import "$@"
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make inputs/.TNRS/tnrs/tnrs-remake wait=1 "$@" &
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48
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make inputs/.TNRS/public.unscrubbed_taxondetermination_view/scrub-remake \
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wait=1 "$@" &
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50
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51
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after_import ()
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52
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{
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53
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bin/make_analytical_db
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54
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55
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make backups/TNRS.backup-remake &
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56
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make backups/vegbien.$version.backup/test & # uses $dump_opts
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wait # wait for asynchronous commands
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}
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59
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60
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local jobs="$(jobs -p)"
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(bin/waitpid $jobs; after_import) &
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}
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63
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import_all_main "$@"
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