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simroux / VirSorter

Source code of the VirSorter tool, also available as an App on CyVerse/iVirus (https://de.iplantcollaborative.org/de/)
GNU General Public License v2.0
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VirSorter: empty "VIRSorter_global-phage-signal.csv" and files in "Predicted_viral_sequences" have 0 size #29

Closed Sapsanas closed 6 years ago

Sapsanas commented 6 years ago

Hi!

I have VirSorter installed using conda, it seems to be installed correctly (it is running and creating all output files), however, all output files are empty: VIRSorter_global-phage-signal.csv and files in "Predicted_viral_sequences".

Example of the command:

wrapper_phage_contigs_sorter_iPlant.pl -f ./metaSPAdes/contigs.fasta --db 1 --wdir ./VirSorter --ncpu 8 --data-dir /path/to/virsorter-data

I tried it on three different metagenomic contig assemblies, in all three viruses were detected by other tools (Metaphlan and VirusSeeker).

Have you ever met this problem? Are there any solutions?

Thank you in advance!

simroux commented 6 years ago

Hi ! Empty output files actually suggests that VirSorter was not installed successfully. Could you share the output folder as a zip file on this thread ? Then we could look into which steps seems to be causing the issue.

Thanks, Best, Simon

Sapsanas commented 6 years ago

Thank you for your response.

Please, find attached the archive with VirSorter output. VirSorter.zip