diff options
Diffstat (limited to 'bh20seqanalyzer/main.py')
| -rw-r--r-- | bh20seqanalyzer/main.py | 12 |
1 files changed, 7 insertions, 5 deletions
diff --git a/bh20seqanalyzer/main.py b/bh20seqanalyzer/main.py index f18a93a..b3a439d 100644 --- a/bh20seqanalyzer/main.py +++ b/bh20seqanalyzer/main.py @@ -240,24 +240,26 @@ class SeqAnalyzer: def move_fastq_to_fasta_results(self): projects = self.api.groups().list(filters=[['owner_uuid', '=', self.fastq_project], ["properties.moved_output", "!=", True]], - order="created_at desc",).execute() + order="created_at asc",).execute() for p in projects["items"]: wf = self.get_workflow_output_from_project(p["uuid"]) if not wf: continue logging.info("Moving completed fastq2fasta result %s back to uploader project", wf["output_uuid"]) - self.api.collections().update(uuid=wf["output_uuid"], - body={"owner_uuid": self.uploader_project}).execute() col = arvados.collection.Collection(wf["output_uuid"], api_client=self.api, keep_client=self.keepclient) with col.open("metadata.yaml") as md: metadata_content = ruamel.yaml.round_trip_load(md) + colprop = col.get_properties() + colprop["sequence_label"] = metadata_content["sample"]["sample_id"] + self.api.collections().update(uuid=wf["output_uuid"], + body={"owner_uuid": self.uploader_project, + "properties": colprop}).execute() + p["properties"]["moved_output"] = True - p["properties"]["sequence_label"] = metadata_content["sample"]["sample_id"] self.api.groups().update(uuid=p["uuid"], body={"properties": p["properties"]}).execute() - break def upload_schema(self): |