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Delete existing dirs on each run in order to keep only newly indexed files and remove previously indexed files #6

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Apr 9, 2024
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Delete existing dirs on each run in order to keep only newly indexed files and remove previously indexed files #6

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8 changes: 8 additions & 0 deletions sts_synindex_internal.R
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Original file line number Diff line number Diff line change
Expand Up @@ -62,6 +62,14 @@ junk <- invisible(lapply(list.dirs(AWS_PARQUET_DOWNLOAD_LOCATION), replace_equal

# Generate manifest of existing files -------------------------------------

existing_dirs <- synapser::synGetChildren(PARQUET_FOLDER) %>% synapser::as.list()

if(length(existing_dirs)>0) {
for (i in seq_along(existing_dirs)) {
synapser::synDelete(existing_dirs[[i]]$id)
}
}

SYNAPSE_AUTH_TOKEN <- Sys.getenv('SYNAPSE_AUTH_TOKEN')
manifest_cmd <- glue::glue('SYNAPSE_AUTH_TOKEN="{SYNAPSE_AUTH_TOKEN}" synapse manifest --parent-id {SYNAPSE_PARENT_ID} --manifest ./current_manifest.tsv {AWS_PARQUET_DOWNLOAD_LOCATION}')
system(manifest_cmd)
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