From 4092a62bb03cd6e72b3f197e753593f6ee626182 Mon Sep 17 00:00:00 2001
From: Bryan Newbold <bnewbold@archive.org>
Date: Wed, 21 Nov 2018 17:54:21 -0800
Subject: many improvements to kafka HBase inserter

---
 python/kafka_grobid_hbase.py | 58 ++++++++++++++++++++++----------------------
 1 file changed, 29 insertions(+), 29 deletions(-)

(limited to 'python')

diff --git a/python/kafka_grobid_hbase.py b/python/kafka_grobid_hbase.py
index e6a53a1..986448b 100755
--- a/python/kafka_grobid_hbase.py
+++ b/python/kafka_grobid_hbase.py
@@ -46,6 +46,25 @@ class KafkaGrobidHbaseWorker:
         self.hbase_table = kwargs['hbase_table']
         self.hb_table = None  # connection initialized in run()
 
+    def convert_tei(self, info):
+
+        # Convert TEI XML to JSON
+        try:
+            info['grobid0:tei_json'] = teixml2json(info['grobid0:tei_xml'], encumbered=True)
+        except xml.etree.ElementTree.ParseError:
+            info['grobid0:status'] = dict(status="fail", reason="GROBID 200 XML parse error")
+            return info, info['grobid0:status']
+        except ValueError:
+            info['grobid0:status'] = dict(status="fail", reason="GROBID 200 XML non-TEI content")
+            return info, info['grobid0:status']
+
+        tei_metadata = info['grobid0:tei_json'].copy()
+        for k in ('body', 'annex'):
+            # Remove fulltext (copywritted) content
+            tei_metadata.pop(k, None)
+        info['grobid0:metadata'] = tei_metadata
+        return info, None
+
     def do_work(self, raw_line):
         """
         1. parse info JSON (with XML inside)
@@ -64,32 +83,20 @@ class KafkaGrobidHbaseWorker:
 
         # Note: this may not get "cleared" correctly
         sentry_client.extra_context(dict(row_key=key))
+        print("inserting line to HBase: {}".format(key))
 
-        # Need to decode 'str' back in to 'bytes' (from JSON serialization)
         if info.get('grobid0:tei_xml'):
+            # Need to decode 'str' back in to 'bytes' (from JSON serialization)
             info['grobid0:tei_xml'] = info['grobid0:tei_xml'].encode('utf-8')
 
-        # Convert TEI XML to JSON
-        try:
-            info['grobid0:tei_json'] = teixml2json(info['grobid0:tei_xml'], encumbered=True)
-        except xml.etree.ElementTree.ParseError:
-            info['grobid0:status'] = dict(status="fail", reason="GROBID 200 XML parse error")
-            return info, info['grobid0:status']
-        except ValueError:
-            info['grobid0:status'] = dict(status="fail", reason="GROBID 200 XML non-TEI content")
-            return info, info['grobid0:status']
-
-        tei_metadata = info['grobid0:tei_json'].copy()
-        for k in ('body', 'annex'):
-            # Remove fulltext (copywritted) content
-            tei_metadata.pop(k, None)
-        info['grobid0:metadata'] = tei_metadata
+        if info.get('grobid0:status') == 200 and info.get('grobid0:tei_xml'):
+            info, status = self.convert_tei(info)
 
         # Decide what to bother inserting back into HBase
         # Basically, don't overwrite backfill fields.
         grobid_status_code = info.get('grobid0:status_code', None)
         for k in list(info.keys()):
-            if k.encode('utf-8') in ('f:c', 'file:mime', 'file:cdx'):
+            if k in ('f:c', 'file:mime', 'file:cdx'):
                 info.pop(k)
 
         # Convert fields to binary
@@ -110,14 +117,8 @@ class KafkaGrobidHbaseWorker:
         self.hb_table.put(key, info)
         #self.increment_counter('lines', 'success')
 
-        if extraction_status is not None:
-            return info, dict(status="partial", key=key,
-                grobid_status_code=grobid_status_code,
-                reason=extraction_status['reason'])
-        else:
-            return info, dict(status="success",
-                grobid_status_code=grobid_status_code, key=key,
-                extra=extraction_status)
+        return info, dict(status="success",
+            grobid_status_code=grobid_status_code, key=key)
 
     def run(self):
 
@@ -132,9 +133,8 @@ class KafkaGrobidHbaseWorker:
                 protocol="compact")
         except Exception:
             raise Exception("Couldn't connect to HBase using host: {}".format(host))
-        self.hb_table = hb_conn.table(self.options.hbase_table)
+        self.hb_table = hb_conn.table(self.hbase_table)
 
-        self.hb_table = hb_conn.table(self.options.hbase_table)
         kafka = pykafka.KafkaClient(hosts=self.kafka_hosts, broker_version="1.0.0")
         consume_topic = kafka.topics[self.consume_topic]
 
@@ -146,12 +146,12 @@ class KafkaGrobidHbaseWorker:
             auto_commit_enable=True,
             compacted_topic=True)
         for msg in consumer:
-            print("got a line! ")
+            #print("got a line! ")
             grobid_output, status = self.do_work(msg.value.decode('utf-8'))
             if grobid_output:
                 sequential_failures = 0
             else:
-                print("failed to extract: {}".format(status))
+                print("failed to process: {}".format(status))
                 sequential_failures += 1
                 if sequential_failures > 20:
                     print("too many failures in a row, bailing out")
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