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-rw-r--r--qc_app/parse.py9
1 files changed, 3 insertions, 6 deletions
diff --git a/qc_app/parse.py b/qc_app/parse.py
index 795cc01..baad9a6 100644
--- a/qc_app/parse.py
+++ b/qc_app/parse.py
@@ -19,8 +19,7 @@ from quality_control.parsing import (
FileType,
parse_file,
strain_names,
- parse_errors,
- parse_strains)
+ parse_errors)
parsebp = Blueprint("parse", __name__)
@@ -34,8 +33,7 @@ def queued_parse(
try:
job_meta = jobs.update_meta(
dbconn, job_id, status = "in-progress", progress = 0)
- parsed = parse_file(
- filepath, filetype, strain_names(parse_strains(strainsfile)))
+ parsed = parse_file(filepath, filetype, strain_names(strainsfile))
for line, curr_size in parsed:
job_meta = jobs.update_meta(
dbconn, job_id,
@@ -174,11 +172,10 @@ def queued_collect_errors(
dbconn = sqlite3.connect(dbpath)
job_meta = jobs.retrieve_meta(dbconn, job.get_id())
for error in parse_errors(
- filepath, filetype, strain_names(parse_strains(strainsfile)),
+ filepath, filetype, strain_names(strainsfile),
seek_pos):
count = count + 1
progress = ((error["position"] / job_meta["filesize"]) * 100)
- print(f"CURRENT PROGRESS: {progress}")
job_meta = jobs.update_meta(
dbconn, job_id, message = f"Collected {count} errors",
progress = progress)