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CHECK-112-exclude-long-read-fastq-name-check
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ottojolanki authored Oct 2, 2024
2 parents 55c8d5c + 5fbb208 commit 360aa89
Showing 1 changed file with 11 additions and 3 deletions.
14 changes: 11 additions & 3 deletions checkfiles.py
Original file line number Diff line number Diff line change
Expand Up @@ -323,11 +323,11 @@ def validate_crispr(job, filePath):

except subprocess.CalledProcessError as e:
errors['CRISPR_PAM_info_extraction'] = 'Failed to extract information from ' + \
local_path
filePath

except subprocess.CalledProcessError as e:
errors['CRISPR_guide_info_extraction'] = 'Failed to extract information from ' + \
local_path
filePath


def process_illumina_read_name_pattern(read_name,
Expand Down Expand Up @@ -607,7 +607,15 @@ def process_fastq_file(job, fastq_data_stream, session, url):

# may be from here deliver a flag about the presence/absence of the readnamedetails

if platform_uuid not in ['25acccbd-cb36-463b-ac96-adbac11227e6']:
if platform_uuid not in ['ced61406-dcc6-43c4-bddd-4c977cc676e8', #pacbio sequel
'c7564b38-ab4f-4c42-a401-3de48689a998', #pacbio rs2
'e2be5728-5744-4da4-8881-cb9526d0389e', #pacbio sequel 2
'7cc06b8c-5535-4a77-b719-4c23644e767d', #ON SmidgION
'8f1a9a8c-3392-4032-92a8-5d196c9d7810', #ON promethion
'6c275b37-018d-4bf8-85f6-6e3b830524a9', #ON minion
'6ce511d5-eeb3-41fc-bea7-8c38301e88c1', #ON gridionx5
'25acccbd-cb36-463b-ac96-adbac11227e6', #Ultima
]:
old_illumina_current_prefix = \
process_read_name_line(
line,
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