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authorBryan Newbold <bnewbold@robocracy.org>2019-01-25 18:41:33 -0800
committerBryan Newbold <bnewbold@robocracy.org>2019-01-25 18:41:33 -0800
commitf6f7450903bdbe36bd5fff146b942e34ad221557 (patch)
treec50332c832f414b5c0070e58a42ceb4751ed4d81 /python
parent16256f8ed119c072c09b13b0b1a6d4a56bed5113 (diff)
downloadfatcat-f6f7450903bdbe36bd5fff146b942e34ad221557.tar.gz
fatcat-f6f7450903bdbe36bd5fff146b942e34ad221557.zip
transform and import fixes/tweaks
Diffstat (limited to 'python')
-rwxr-xr-xpython/fatcat_export.py45
-rw-r--r--python/fatcat_tools/__init__.py4
-rw-r--r--python/fatcat_tools/importers/common.py4
-rw-r--r--python/fatcat_tools/importers/journal_metadata.py10
-rw-r--r--python/fatcat_tools/transforms.py51
5 files changed, 92 insertions, 22 deletions
diff --git a/python/fatcat_export.py b/python/fatcat_export.py
index cf8bf1c3..027d6c0a 100755
--- a/python/fatcat_export.py
+++ b/python/fatcat_export.py
@@ -12,9 +12,10 @@ import json
import argparse
import fatcat_client
from fatcat_client.rest import ApiException
-from fatcat_client import ReleaseEntity
+from fatcat_client import ReleaseEntity, ContainerEntity, ChangelogEntry
from fatcat_tools import uuid2fcid, entity_from_json, entity_to_dict, \
- release_to_elasticsearch, public_api
+ release_to_elasticsearch, container_to_elasticsearch, \
+ changelog_to_elasticsearch, public_api
def run_export_releases(args):
@@ -30,9 +31,27 @@ def run_transform_releases(args):
line = line.strip()
if not line:
continue
- release = entity_from_json(line, ReleaseEntity)
+ entity = entity_from_json(line, ReleaseEntity)
args.json_output.write(
- json.dumps(release_to_elasticsearch(release)) + '\n')
+ json.dumps(release_to_elasticsearch(entity)) + '\n')
+
+def run_transform_containers(args):
+ for line in args.json_input:
+ line = line.strip()
+ if not line:
+ continue
+ entity = entity_from_json(line, ContainerEntity)
+ args.json_output.write(
+ json.dumps(container_to_elasticsearch(entity)) + '\n')
+
+def run_transform_changelogs(args):
+ for line in args.json_input:
+ line = line.strip()
+ if not line:
+ continue
+ entity = entity_from_json(line, ChangelogEntry)
+ args.json_output.write(
+ json.dumps(changelog_to_elasticsearch(entity)) + '\n')
def run_export_changelog(args):
api = args.api
@@ -74,6 +93,24 @@ def main():
help="where to send output",
default=sys.stdout, type=argparse.FileType('w'))
+ sub_transform_containers = subparsers.add_parser('transform-containers')
+ sub_transform_containers.set_defaults(func=run_transform_containers)
+ sub_transform_containers.add_argument('json_input',
+ help="JSON-per-line of container entities",
+ default=sys.stdin, type=argparse.FileType('r'))
+ sub_transform_containers.add_argument('json_output',
+ help="where to send output",
+ default=sys.stdout, type=argparse.FileType('w'))
+
+ sub_transform_changelogs = subparsers.add_parser('transform-changelogs')
+ sub_transform_changelogs.set_defaults(func=run_transform_changelogs)
+ sub_transform_changelogs.add_argument('json_input',
+ help="JSON-per-line of changelog entries",
+ default=sys.stdin, type=argparse.FileType('r'))
+ sub_transform_changelogs.add_argument('json_output',
+ help="where to send output",
+ default=sys.stdout, type=argparse.FileType('w'))
+
sub_changelog = subparsers.add_parser('changelog')
sub_changelog.set_defaults(func=run_export_changelog)
sub_changelog.add_argument('--start',
diff --git a/python/fatcat_tools/__init__.py b/python/fatcat_tools/__init__.py
index e2b1e3a2..64c45062 100644
--- a/python/fatcat_tools/__init__.py
+++ b/python/fatcat_tools/__init__.py
@@ -1,4 +1,6 @@
from .api_auth import authenticated_api, public_api
from .fcid import fcid2uuid, uuid2fcid
-from .transforms import entity_to_dict, entity_from_json, release_to_elasticsearch
+from .transforms import entity_to_dict, entity_from_json, \
+ release_to_elasticsearch, container_to_elasticsearch, \
+ changelog_to_elasticsearch
diff --git a/python/fatcat_tools/importers/common.py b/python/fatcat_tools/importers/common.py
index ebdce56f..a29b3019 100644
--- a/python/fatcat_tools/importers/common.py
+++ b/python/fatcat_tools/importers/common.py
@@ -236,8 +236,8 @@ class EntityImporter:
self._entity_queue.append(entity)
if len(self._entity_queue) >= self.edit_batch_size:
self.insert_batch(self._entity_queue)
- self.counts['insert'] += len(_entity_queue)
- self._entity_queue = 0
+ self.counts['insert'] += len(self._entity_queue)
+ self._entity_queue = []
def want(self, raw_record):
"""
diff --git a/python/fatcat_tools/importers/journal_metadata.py b/python/fatcat_tools/importers/journal_metadata.py
index 7f6b1ee8..be62d63a 100644
--- a/python/fatcat_tools/importers/journal_metadata.py
+++ b/python/fatcat_tools/importers/journal_metadata.py
@@ -44,7 +44,7 @@ class JournalMetadataImporter(EntityImporter):
editgroup_extra=eg_extra)
def want(self, raw_record):
- if raw_record.get('issnl'):
+ if raw_record.get('issnl') and raw_record.get('name'):
return True
return False
@@ -55,6 +55,10 @@ class JournalMetadataImporter(EntityImporter):
returns a ContainerEntity (or None if invalid or couldn't parse)
"""
+ if not row.get('name'):
+ # Name is required (by schema)
+ return None
+
extra = dict()
for key in ('issne', 'issnp', 'languages', 'country', 'urls', 'abbrev',
'coden', 'aliases', 'original_name', 'first_year', 'last_year',
@@ -76,8 +80,10 @@ class JournalMetadataImporter(EntityImporter):
extra_ia = dict()
# TODO: would like an ia.longtail_ia flag
if row.get('sim'):
+ # NB: None case of the .get() here is blech, but othrwise
+ # extra['ia'].get('sim') would be false-y, breaking 'any_ia_sim' later on
extra_ia['sim'] = {
- 'year_spans': row['sim']['year_spans'],
+ 'year_spans': row['sim'].get('year_spans'),
}
if extra_ia:
extra['ia'] = extra_ia
diff --git a/python/fatcat_tools/transforms.py b/python/fatcat_tools/transforms.py
index a85c877c..7bb75c3e 100644
--- a/python/fatcat_tools/transforms.py
+++ b/python/fatcat_tools/transforms.py
@@ -231,20 +231,12 @@ def container_to_elasticsearch(entity):
container_type = entity.container_type,
issnl = entity.issnl,
wikidata_qid = entity.wikidata_qid,
-
- entity_status = entity.entity_status,
- language = entity.language,
- license = entity.license_slug,
- doi = entity.doi,
- pmid = entity.pmid,
- isbn13 = entity.isbn13,
- core_id = entity.core_id,
- arxiv_id = entity.core_id,
- jstor_id = entity.jstor_id,
)
# TODO: region, discipline
# TODO: single primary language?
+ if not entity.extra:
+ entity.extra = dict()
for key in ('country', 'languages', 'mimetypes', 'first_year', 'last_year'):
if entity.extra.get(key):
t[key] = entity.extra[key]
@@ -285,13 +277,46 @@ def container_to_elasticsearch(entity):
if extra['ia'].get('sim'):
any_ia_sim = True
- t['in_doaj'] = is_doaj
- t['in_road'] = is_road
+ t['in_doaj'] = in_doaj
+ t['in_road'] = in_road
t['in_doi'] = in_doi
t['in_sherpa_romeo'] = in_sherpa_romeo
- t['is_oa'] = in_doaj or in_road or is_longtail_oa or ia_oa
+ t['is_oa'] = in_doaj or in_road or is_longtail_oa or is_oa
t['is_longtail_oa'] = is_longtail_oa
t['any_kbart'] = any_ia_sim
t['any_jstor'] = any_ia_sim
t['any_ia_sim'] = bool(any_ia_sim)
return t
+
+
+def changelog_to_elasticsearch(entity):
+
+ editgroup = entity.editgroup
+ t = dict(
+ index=entity.index,
+ editgroup_id=entity.editgroup_id,
+ timestamp=entity.timestamp,
+ editor_id=editgroup.editor_id,
+ )
+
+ extra = editgroup.extra or dict()
+ if extra.get('agent'):
+ t['agent'] = extra['agent']
+
+ t['containers'] = len(editgroup.edits.containers)
+ t['creators'] = len(editgroup.edits.containers)
+ t['files'] = len(editgroup.edits.containers)
+ t['filesets'] = len(editgroup.edits.containers)
+ t['webcaptures'] = len(editgroup.edits.containers)
+ t['releases'] = len(editgroup.edits.containers)
+ t['works'] = len(editgroup.edits.containers)
+
+ # TODO: parse and pull out counts
+ #created = 0
+ #updated = 0
+ #deleted = 0
+ #t['created'] = created
+ #t['updated'] = updated
+ #t['deleted'] = deleted
+ #t['total'] = created + updated + deleted
+ return t