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add log to per_sample_FASTQ #44

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Merged
merged 2 commits into from
Nov 8, 2022
Merged

add log to per_sample_FASTQ #44

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8722987
add log to per_sample_FASTQ
antgonza Nov 8, 2022
7e71994
do not summarize log files
antgonza Nov 8, 2022
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2 changes: 1 addition & 1 deletion qtp_sequencing/summary.py
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Original file line number Diff line number Diff line change
Expand Up @@ -136,7 +136,7 @@ def _summary_not_demultiplexed(artifact_type, filepaths):
errors = []
df = None
for fps_type, fps in sorted(filepaths.items()):
if fps_type in {'html_summary'}:
if fps_type in {'html_summary', 'log'}:
continue
# Step 2: generate HTML summary
# md5, from http://stackoverflow.com/a/3431838
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3 changes: 2 additions & 1 deletion qtp_sequencing/validate.py
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Expand Up @@ -253,7 +253,8 @@ def _validate_per_sample_FASTQ(qclient, job_id, prep_info, files, test=False):
# Check if there is any filepath type that is not supported
unsupported_fp_types = set(files) - {'raw_forward_seqs',
'raw_reverse_seqs',
'preprocessed_fastq'}
'preprocessed_fastq',
'log'}
if unsupported_fp_types:
error_msg = ("Filepath type(s) %s not supported by artifact "
"type per_sample_FASTQ. Supported filepath types: "
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