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| author | Adam Novak | 2020-04-09 15:52:23 -0700 |
|---|---|---|
| committer | Adam Novak | 2020-04-09 15:52:23 -0700 |
| commit | 2cd6623aa0ddfe4e42b2d434e0523773bb3536ef (patch) | |
| tree | 6c8a99afdf03837dba83e9d956f60316c09391d3 /bh20sequploader | |
| parent | ec6f3ad6268f576c1302101c7f0761fbf1d3dc55 (diff) | |
| download | bh20-seq-resource-2cd6623aa0ddfe4e42b2d434e0523773bb3536ef.tar.gz bh20-seq-resource-2cd6623aa0ddfe4e42b2d434e0523773bb3536ef.tar.lz bh20-seq-resource-2cd6623aa0ddfe4e42b2d434e0523773bb3536ef.zip | |
Copy over/combine top-level project components
Diffstat (limited to 'bh20sequploader')
| -rw-r--r-- | bh20sequploader/main.py | 7 |
1 files changed, 2 insertions, 5 deletions
diff --git a/bh20sequploader/main.py b/bh20sequploader/main.py index 8b8fefe..d3ebc0c 100644 --- a/bh20sequploader/main.py +++ b/bh20sequploader/main.py @@ -6,7 +6,6 @@ import json import urllib.request import socket import getpass -from .qc_metadata import qc_metadata ARVADOS_API_HOST='lugli.arvadosapi.com' ARVADOS_API_TOKEN='2fbebpmbo3rw3x05ueu2i6nx70zhrsb1p22ycu3ry34m4x4462' @@ -20,8 +19,6 @@ def main(): api = arvados.api(host=ARVADOS_API_HOST, token=ARVADOS_API_TOKEN, insecure=True) - qc_metadata(args.metadata.name) - col = arvados.collection.Collection(api_client=api) print("Reading FASTA") @@ -32,8 +29,8 @@ def main(): f.write(r) r = args.sequence.read(65536) - print("Reading metadata") - with col.open("metadata.yaml", "w") as f: + print("Reading JSONLD") + with col.open("metadata.jsonld", "w") as f: r = args.metadata.read(65536) print(r[0:20]) while r: |