// skate-reduce takes prepared inputs (e.g. from skate-map or skate-cluster)
// and applies various verification and conversion functions. The output will
// often be a stream of biblioref schema docs.
//
// Support various "modes", e.g. exact, verify, ref, bref, wiki. Each mode may
// work on one or two files, and may need extra args.
//
// * exact     | takes two (key, doc) TSV files (one for releases, one for refs) and
//             | will emit biblioref docs relating *one* element from releases with *all*
//             | elements from ref; this is for "doi", "pmid" and other id matches, where no
//             | further checks are necessary. The match reason, e.g. "doi" needs to be
//             | supplied.
//             |
//             | $ skate-reduce -m exact -r doi -F a.tsv -L b.tsv
//             |
//             |
// * fuzzy     | takes two (key, doc) TSV files (one for release, one for refs),
//             | runs verification within a group and will emit biblioref.
//             |
//             | $ skate-reduce -m fuzzy -F a.tsv -L b.tsv
//             |
//             |
// * ref       | takes a single file with clusters containing releases and refs and
//             | will emit verification results (deprecated).
//             |
//             | $ skate-reduce -m ref < a.ndj
//             |
//             |
// * bref      | same as ref, but generate a biblioref file as output (deprecated).
//             |
//             | $ skate-reduce -m bref < a.ndj
//             |
//             |
// * wiki      | zippy mode for releases and wikipedia inputs.
//             |
//             | $ skate-reduce -m wiki -L a.ndj -W b.ndj
//             |
//             |
// * oledt     | zippy mode for releases and OL inputs, dumps table for debugging.
//             |
//             | $ skate-reduce -m oled -F a.ndj -O b.ndj
//             |
//             |
// * oled      | zippy mode for releases and OL inputs, emit biblioref.
//             |
//             | $ skate-reduce -m oled -F a.ndj -O b.ndj
//             |
//             |
// * rere      | zippy mode for OL release and ref (as release) inputs, emit biblioref.
//             |
//             | $ skate-reduce -m rere -O a.ndj -F b.ndj
//             |
//             |
// * unmatched | join matched and unmatched reference data; do deduplicate on the fly
//             |
//             | $ skate-reduce -m unmatched -B a.ndj -F b.ndj
//
package main

import (
	"bufio"
	"flag"
	"io/ioutil"
	"log"
	"os"
	"runtime"

	"git.archive.org/martin/cgraph/skate"
	"git.archive.org/martin/cgraph/skate/parallel"
	"git.archive.org/martin/cgraph/skate/xio"
)

var (
	numWorkers = flag.Int("w", runtime.NumCPU(), "number of workers")
	batchSize  = flag.Int("b", 10000, "batch size")
	mode       = flag.String("m", "ref", "mode, e.g. exact, fuzzy, ref, bref, wiki, oled, oledt, unmatched")
	quite      = flag.Bool("q", false, "be quite")
	logFile    = flag.String("log", "", "log filename (stderr, if empty)")

	// Possible inputs -- we could switch to a subcommand cli parser?
	bref        = flag.String("B", "", "path to bref file")
	refs        = flag.String("F", "", "path to refs input")
	releases    = flag.String("L", "", "path to release input")
	wiki        = flag.String("W", "", "path to wiki input")
	openLibrary = flag.String("O", "", "path to open library input") // XXX: Too generic name.

	// Extra args.
	reason    = flag.String("r", "", "reason for match: doi, pmid, pmcid, arxiv, unknown")
	reasonMap = map[string]skate.MatchResult{
		"doi":     skate.MatchResult{Status: skate.StatusExact, Reason: skate.ReasonDOI},
		"pmid":    skate.MatchResult{Status: skate.StatusExact, Reason: skate.ReasonPMID},
		"pmcid":   skate.MatchResult{Status: skate.StatusExact, Reason: skate.ReasonPMCID},
		"arxiv":   skate.MatchResult{Status: skate.StatusExact, Reason: skate.ReasonArxiv},
		"unknown": skate.MatchResult{Status: skate.StatusUnknown, Reason: skate.ReasonUnknown},
		"isbn":    skate.MatchResult{Status: skate.StatusExact, Reason: skate.ReasonISBN},
	}
)

func main() {
	flag.Parse()
	if *logFile != "" {
		f, err := os.OpenFile(*logFile, os.O_APPEND|os.O_CREATE|os.O_WRONLY, 0644)
		if err != nil {
			log.Fatal(err)
		}
		defer f.Close()
		log.SetOutput(f)
	}
	if *quite {
		log.SetOutput(ioutil.Discard)
	}
	bw := bufio.NewWriter(os.Stdout)
	defer bw.Flush()
	switch *mode {
	case "exact":
		l, f, err := xio.OpenTwo(*releases, *refs)
		if err != nil {
			log.Fatal(err)
		}
		r, ok := reasonMap[*reason]
		if !ok {
			log.Fatalf("unknown reason: %v", *reason)
		}
		if err := skate.ZippyExact(l, f, r, bw); err != nil {
			log.Fatal(err)
		}
	case "fuzzy":
		l, f, err := xio.OpenTwo(*releases, *refs)
		if err != nil {
			log.Fatal(err)
		}
		if err := skate.ZippyVerifyRefs(l, f, bw); err != nil {
			log.Fatal(err)
		}
	case "ref":
		pp := parallel.NewProcessor(os.Stdin, os.Stdout, skate.RefClusterVerify)
		pp.NumWorkers = *numWorkers
		pp.BatchSize = *batchSize
		if err := pp.Run(); err != nil {
			log.Fatal(err)
		}
	case "bref":
		pp := parallel.NewProcessor(os.Stdin, os.Stdout, skate.RefClusterToBiblioRef)
		pp.NumWorkers = *numWorkers
		pp.BatchSize = *batchSize
		if err := pp.Run(); err != nil {
			log.Fatal(err)
		}
	case "wiki":
		l, w, err := xio.OpenTwo(*releases, *wiki)
		if err != nil {
			log.Fatal(err)
		}
		if err := skate.ZippyExactWiki(l, w, reasonMap["doi"], bw); err != nil {
			log.Fatal(err)
		}
	case "oledt":
		o, f, err := xio.OpenTwo(*openLibrary, *refs)
		if err != nil {
			log.Fatal(err)
		}
		if err := skate.ZippyVerifyRefsOpenLibraryTable(o, f, bw); err != nil {
			log.Fatal(err)
		}
	case "oled":
		o, f, err := xio.OpenTwo(*openLibrary, *refs)
		if err != nil {
			log.Fatal(err)
		}
		if err := skate.ZippyVerifyRefsOpenLibrary(o, f, bw); err != nil {
			log.Fatal(err)
		}
	case "rere":
		o, f, err := xio.OpenTwo(*releases, *refs)
		if err != nil {
			log.Fatal(err)
		}
		r, ok := reasonMap[*reason]
		if !ok {
			log.Fatalf("unknown reason: %v", *reason)
		}
		if err := skate.ZippyExactReleases(o, f, r, bw); err != nil {
			log.Fatal(err)
		}
	case "unmatched":
		b, f, err := xio.OpenTwo(*bref, *refs)
		if err != nil {
			log.Fatal(err)
		}
		if err := skate.ZippyBrefAugment(b, f, bw); err != nil {
			log.Fatal(err)
		}
	default:
		log.Fatalf("invalid mode")
	}
}