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sanger-pathogens / iva

de novo virus assembler of Illumina paired reads
http://sanger-pathogens.github.io/iva/
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Could not retrieve index file #108

Open manisenthils opened 1 year ago

manisenthils commented 1 year ago

Hello All, This is Mani. I have downloaded iva and tried to assemble viral genome using the basic command. I am getting this particular error and I tried run the test command there also I got the same error I pasted this error because this is small and I can paste the complete error that the tool is giving. I have tried run the tool in different environment using conda there also I got the same. Can anyone help me with this? and explain what I am doing wrong here?

iva -f /home/jncasr/Assembly/10000FS1_R1.fastq -r /home/jncasr/Assembly/10000FS1_R2.fastq /home/jncasr/Assembly/out3 [E::idx_find_and_load] Could not retrieve index file for '/home/jncasr/Assembly/out3/tmp.common_kmers.ojoyvaqg/map.bam' [E::idx_find_and_load] Could not retrieve index file for '/home/jncasr/Assembly/out3/tmp.common_kmers.euu5g4nh/map.bam' [E::idx_find_and_load] Could not retrieve index file for '/home/jncasr/Assembly/out3/tmp.common_kmers.0xrz17tl/map.bam' [E::idx_find_and_load] Could not retrieve index file for '/home/jncasr/Assembly/out3/tmp.common_kmers.em0i3o9k/map.bam' [E::idx_find_and_load] Could not retrieve index file for '/home/jncasr/Assembly/out3/tmp.common_kmers.2jwlxggi/map.bam' [E::idx_find_and_load] Could not retrieve index file for '/home/jncasr/Assembly/out3/tmp.common_kmers._z8m8dz0/map.bam' [E::idx_find_and_load] Could not retrieve index file for '/home/jncasr/Assembly/out3/tmp.common_kmers.a8se87pz/map.bam' [E::idx_find_and_load] Could not retrieve index file for '/home/jncasr/Assembly/out3/tmp.common_kmers.ixckra93/map.bam' [E::idx_find_and_load] Could not retrieve index file for '/home/jncasr/Assembly/out3/tmp.common_kmers.qijajw4g/map.bam' Failed to make first seed. Cannot continue

Thanks, Manisenthil Shanmugam.