Mercurial > repos > greg > validate_affy_metadata
changeset 2:72e79ed7ca41 draft
Uploaded
| author | greg |
|---|---|
| date | Tue, 17 Sep 2019 12:45:57 -0400 |
| parents | b5f5c3d0f349 |
| children | 7f95329251f0 |
| files | validate_affy_metadata.py |
| diffstat | 1 files changed, 11 insertions(+), 1 deletions(-) [+] |
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--- a/validate_affy_metadata.py Fri Sep 13 13:55:24 2019 -0400 +++ b/validate_affy_metadata.py Tue Sep 17 12:45:57 2019 -0400 @@ -63,6 +63,14 @@ return accumulated_msgs +def validate_integer(line_no, integer_string, column, accumulated_msgs): + try: + integer_string.isdigit() + return accumulated_msgs + except Exception: + return add_error_msg(accumulated_msgs, "Line %d contains an incorrect integer value (%s) for column %s." % (line_no, integer_string, column)) + + accumulated_msgs = "" # Parse the input file, skipping the header, and validating # that each data line consists of 31 comma-separated items. @@ -107,8 +115,10 @@ geographic_origin = items[8] # Optional. colony_location = items[9] - # Optional. depth = items[10] + # If depth has a value, then it must be integer. + if len(depth) > 0: + accumulated_msgs = validate_integer(line_no, depth, "depth", accumulated_msgs) # Optional. disease_resist = items[11] # Optional.