Hi Saskia, I have an issue that Im not sure how to solve.
After installing decona I ran the following code:
decona -d -l 300 -m 2000 -q 10 -c 0.80 -n 100 -M
The output file was as follows (error can be found at the bottom):
Filtering data...
Data filtered with NanoFilt
total raw sequences = 303896
total filtered sequences = 224966
Demultiplexing...
Multi threading is not yet supported in epi2mme mode. Falling back to using a single thread.
Adapters detected in 3288 of 224966 reads
PBK004/LWB001 2552: | | 1.13 %
RAB204/RAB214 736: | | 0.33 %
none 191852: | ################# | 85.28 %
Barcodes detected in 3288 of 224966 adapters
BC01 124: | | 0.06 %
BC02 163: | | 0.07 %
BC03 103: | | 0.05 %
BC04 158: | | 0.07 %
BC05 186: | | 0.08 %
BC11 2: | | 0.00 %
barcode01 35: | | 0.02 %
barcode02 133: | | 0.06 %
barcode03 2251: | | 1.00 %
barcode04 70: | | 0.03 %
barcode05 63: | | 0.03 %
none 191852: | ################# | 85.28 %
29826 reads were skipped due to the min. length filter.
Demultiplexing finished in 260.19s
Data demultiplexed, working directory changed to:
/mnt/scratch2/users/40266190/Decona/decona/demultiplexed_data
Fastq reads are being transformed to fasta
cat: barcode01: Is a directory
cat: barcode02: Is a directory
cat: barcode03: Is a directory
cat: barcode04: Is a directory
cat: barcode05: Is a directory
Transforming fastq to fasta Complete
Clustering reads...
Clustering barcode01/...
Clustering barcode02/...
Clustering barcode03/...
Clustering barcode04/...
Clustering barcode05/...
Clustering result/...
Clustering complete.
Done
Done
cat: consensus_medaka_159-60.fa: Is a directory
cat: consensus_medaka_191-37.fa: Is a directory
cat: consensus_medaka_239-64.fa: Is a directory
Aligning and making draft assembly of 0-consensus_medaka_159-60.fa.fa...
tail: error reading ‘0-consensus_medaka_159-60.fa.fa’: Is a directory
Hi Saskia, I have an issue that Im not sure how to solve.
After installing decona I ran the following code:
decona -d -l 300 -m 2000 -q 10 -c 0.80 -n 100 -MThe output file was as follows (error can be found at the bottom):
The version of decona I am running in 0.1.3,
Any help with this would be really appreciated,
Thank you.