Output files

[domenico-simone]

Hello, I have run SPAdes on a bunch of samples. Processes didn't return any error, but I don't get the contigs.fasta and scaffolds.fasta files in the <output_dir>, they're located in a subfolder called misc. Are they the same files? This is the content of the output folder (with the last edit time):

20 nov 21.38 spades.log
20 nov 09.06 misc
20 nov 09.01 mismatch_corrector
20 nov 09.01 tmp
20 nov 09.01 assembly_graph.fastg
20 nov 09.01 assembly_graph_with_scaffolds.gfa
20 nov 09.01 before_rr.fasta
20 nov 09.01 contigs.paths
20 nov 09.01 scaffolds.paths
20 nov 09.01 K127
20 nov 08.50 K99
20 nov 08.41 K77
20 nov 08.31 K55
20 nov 08.23 K33
20 nov 08.16 K21
20 nov 08.04 corrected
20 nov 08.04 dataset.info
20 nov 06.55 configs
20 nov 06.55 input_dataset.yaml
20 nov 06.55 params.txt

Thanks,

Domenico

[asl]

Hello

Please attach the spades.log file from this run.

[domenico-simone]

Hi Anton,

please find it here: https://bit.ly/34b53DL

Thanks,

Domenico

[asl]

Per log – SPAdes is still running. So either someone killed it in very rude fashion, or it's still up and running.

[Keyth-ru]

Hi, can you sort out your problem? I'm miss scarffolds.fasta file

[asl]

@Keyth-ru You already opened an issue. Please do not hijack other threads.