Jared Simpson
Jared Simpson
Can you make the input file available to me so I can look into this?
I just tested your file and it worked for me: ``` >make -f nanocorrect/nanocorrect-overlap.make INPUT=all2Dbutyricum.fasta NAME=test.v1 nanocorrect-preprocess.pl all2Dbutyricum.fasta > test.v1.pp.fasta fasta2DB test.v1 test.v1.pp.fasta DBsplit -s50 test.v1 DBdust test.v1 HPCdaligner -t5...
Ok. What OS are you running and what versions of python/daligner?
Can you run the exact command that I pasted above and send me the md5sums of all files?
They match my files except for .test.v1.dust.anno, .test.v1.dust.data and .test.v1.idx. I don't know why running DBdust on the same file (test.v1.pp.fasta) would give different results.
Have you tried running DAZZ_DB/DBrm in between runs? Its the proper way of cleaning up the hidden files, which I think might be the problem
I've just noticed that daligner and dazz_db were recently updated. Would you mind trying the versions that we used in our earlier paper to see if the old code works...
Thanks for testing that. It looks like I'll have to modify nanocorrect to be compatible with the latest daligner
Hi @duspriya, As noted in the README, this software is deprecated and should not be used. I suggest using racon for error correction instead. In case you are curious though...