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authorPjotr Prins2021-01-08 10:33:13 +0000
committerPjotr Prins2021-01-08 10:33:13 +0000
commitb112b3203e34ea61dfdf802bce5036f938eaa774 (patch)
treeda2ed8f18fcb7263fcec6f77f27ae40a51e6321d /workflows/tools/normalize-yamlfa.py
parent5d941e47e27a3cd2c47f8ee51f5523d180f8a5b2 (diff)
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GenBank: Fix normalization and depth differences with original records
Diffstat (limited to 'workflows/tools/normalize-yamlfa.py')
-rwxr-xr-xworkflows/tools/normalize-yamlfa.py6
1 files changed, 3 insertions, 3 deletions
diff --git a/workflows/tools/normalize-yamlfa.py b/workflows/tools/normalize-yamlfa.py
index 20c2feb..55a8848 100755
--- a/workflows/tools/normalize-yamlfa.py
+++ b/workflows/tools/normalize-yamlfa.py
@@ -19,10 +19,10 @@ directory are parsed using the state.json file. It is possible
to select a subset of IDs.
This tool has two modes of operation. It can validate with the
-`--validate` switch which stops at a warning and does no rewriting.
+--validate switch which stops at a warning and does no rewriting.
This mode is typically used in troubleshooting.
-The other mode is `--rewrite` which rewrites the JSON files after
+The other mode is --rewrite which rewrites the JSON files after
making a backup (.bak) of the original. This mode updates files and
won't stop - it is used for (automated) uploads.
@@ -92,6 +92,6 @@ for id in ids:
os.rename(fn,fn+".bak")
with open(fn, 'w') as outfile:
print(f" Writing {fn}")
- json.dump(rec.__dict__, outfile, indent=4)
+ json.dump(rec.__dict__, outfile, indent=2)
else:
print(rec)