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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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Step 1.3 error #53

Closed DNADoubleFelix closed 4 years ago

DNADoubleFelix commented 5 years ago

I just installed Virsorter on a new machine. Whenever I try to run it (on a file that worked before, a couple months ago) I get this error after step 1.3:

No file output/Pa_PAO1_107/r_0/Contigs_prots_vs_New_unclustered.tab, nothing new to add to output/Pa_PAO1_107/Contigs_prots_vs_Phage_Gene_unclustered.tab

I am using the following command : wrapper_phage_contigs_sorter_iPlant.pl -f test/Pa_PAO1_107.fna --db 1 --wdir output/Pa_PAO1_107 --ncpu 4 --data-dir virsorter-data

Bin : /home/felix/miniconda2/envs/virsorter/bin Dataset : VIRSorter Input file : test/Pa_PAO1_107.fna Db : 1 Working dir : output/Pa_PAO1_107 Custom phages : Data dir : virsorter-data Num CPUs : 4 blastp : blastp

I have attached my log files here. I made sure all my dependencies were installed correctly, I'm going through the conda environment. Do you have any idea what's happening? Let me know if I can give you more information.

Thanks for any help!

err.txt out.txt

simroux commented 5 years ago

Hmm this is weird, and may related to one of the errors in https://github.com/simroux/VirSorter/issues/52.

Would it be possible for you to bundle the whole output directory as a tar.gz or a zip and send it to me ? Unfortunately, the logs alone just complain about a blast file missing but don't say why this blast (apparently) failed :-/

genomics-pixel commented 5 years ago

Dear Simon and DNADoubleFelix,

Sorry to interrupt your conversation.

I noticed that my issue was referenced and wanted to let you know that I was using the "--diamond" to run my analyses.

Sincerely, genomics-pixel