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// Filter to parse out a correctly looking DOI, URL, etc from a field.
//
// $ echo "1,xxx 10.123/12312 xxx,3" | skate-to-doi -c doi -d , -f 2
// 1,10.123/12312,3k
//
// We can use this to sanitize fields in the reference dataset.
package main
import (
"flag"
"log"
"os"
"runtime"
"strings"
"git.archive.org/martin/cgraph/skate"
"git.archive.org/martin/cgraph/skate/parallel"
)
var (
numWorkers = flag.Int("w", runtime.NumCPU(), "number of workers")
batchSize = flag.Int("b", 100000, "batch size")
delimiter = flag.String("d", "\t", "delimiter")
index = flag.Int("f", 1, "one field to cleanup up a doi, 1-indexed")
bestEffort = flag.Bool("B", false, "only log errors, but do not stop")
skipNonMatches = flag.Bool("S", false, "do not emit a line for non-matches")
what = flag.String("c", "doi", "what to clean: doi, url, ref")
extendedCleanup = flag.Bool("X", false, "extended (and slower) cleanup for urls")
allow = flag.String("allow", "http,https", "comma separted list of schemas to allow for urls")
allowedSchemas []string // parsed from allow flag
)
func main() {
flag.Parse()
for _, v := range strings.Split(*allow, ",") {
allowedSchemas = append(allowedSchemas, strings.TrimSpace(v))
}
var f func([]byte) ([]byte, error)
switch *what {
case "ref":
filter := skate.FilterRawRef{}
f = filter.Run
case "url":
filter := skate.FilterURL{
Delimiter: *delimiter,
Index: *index,
BestEffort: *bestEffort,
Aggressive: *extendedCleanup,
SkipNonMatches: *skipNonMatches,
AllowedSchemas: allowedSchemas,
}
f = filter.Run
default:
filter := skate.FilterDOI{
Delimiter: *delimiter,
Index: *index,
BestEffort: *bestEffort,
Aggressive: *extendedCleanup,
SkipNonMatches: *skipNonMatches,
}
f = filter.Run
}
pp := parallel.NewProcessor(os.Stdin, os.Stdout, f)
pp.NumWorkers = *numWorkers
pp.BatchSize = *batchSize
if err := pp.Run(); err != nil {
log.Fatal(err)
}
}
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