thanks so much,here you have the error:
---------------------------------------------------------------------------
NameError Traceback (most recent call last)
<ipython-input-16-64f0293cca64> in <module>()
43 status = line[-4:] #
and overall status pass/warn/fail
44 sql = "insert into
fastqc_summary(fileid,module,status,total,duplicate) values(?,?,?,?,?);"
---> 45 data = (fileid,module,
status,total,dup)
46 cursor.execute(sql,
data)
47 elif (line[:2] != ">>" and line
[:2] != "##"): # grab details under each module
NameError: name 'total' is not defined
The problem It is I need to write only if exist that names and values.
So from the original file each time I have this rows:
##FastQC 0.10.1
>>Basic Statistics pass
#Measure Value
Filename R05_CTTGTA_L004_R1_001.fastq.gz
File type Conventional base calls
Encoding Sanger / Illumina 1.9
Total Sequences 27868496
Filtered Sequences 0
Sequence length 50
%GC 50
>>END_MODULE
So they need to be defined. So know I need to do: if Total and if Filename
and Total then do the script?
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