VirSorter Alignment input open failed.

Dear author,

I have found that in my log file, there are some errors like: Alignment input open failed. couldn't open 53meta_virus/r_1/clusts/Phage_cluster_102-r_1.ali_faa for reading Alignment input open failed. couldn't open 53meta_virus/r_1/clusts/Phage_cluster_10-r_1.ali_faa for reading Alignment input open failed. couldn't open 53meta_virus/r_1/clusts/Phage_cluster_12-r_1.ali_faa for reading After checking, the files existed. I am not sure whether it will affect the results.

Best, jiaojiao

Feb 28 '25 02:02 jiaojiaoguan

Dear Jiaojiao, I've never seen this error, but I suspect it would have only a minor impact on the results. That being said, I highly recommend updating from VirSorter1 to one of the most modern tools,e.g. VirSorter 2, or geNomad, as the viral contig prediction will be much more accurate. Best, Simon

Feb 28 '25 16:02 simroux

Dear Jiaojiao, I've never seen this error, but I suspect it would have only a minor impact on the results. That being said, I highly recommend updating from VirSorter1 to one of the most modern tools,e.g. VirSorter 2, or geNomad, as the viral contig prediction will be much more accurate. Best, Simon

Thanks so much. I am using the DRAM for protein annotation. It mentioned that I should input a file named "VIRSorter_affi-contigs.tab" from VirSorter.

Mar 01 '25 05:03 jiaojiaoguan

Right, in that case I would recommend looking into MVP https://gitlab.com/ccoclet/mvp that can also prepare DRAM input file

Mar 01 '25 17:03 simroux