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Hi,
Hopefully this is not a known bug, but I couldn't find any issues mentioning it...
I deleted isolates from the sample.tab file and ran make again in the nullarbor project. The deleted isolates…
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Hi, I keep getting the above error:
`ERROR: Could not find .aligned.fa/.vcf in PC0086b-S0390
make: *** [Makefile:108: core.aln] Error 2
make: *** Waiting for unfinished jobs....
make: Leaving dir…
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Hi,
I am running Nullarbor on a Singularity based container system and I have run this numerous times using make preview and eliminated any possible contaminants. I have also used seqtk sample to …
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Hi,
The pipeline completes and generates the html report however the resistome and virulome data is not displaying. The data is generated but it does not appear to be in the final resistome.csv thoug…
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Hi,
I am new to bacterial genomes and have a few questions on how to interpret the results from MLST.
1. For a contig, I got these results:
ref.fa suberis - arcC(1) ddl(1) gki(1) recP(1,1) tdk(1)…
ramay updated
4 years ago
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Hi ,
I have run nullarbor on 24 Ecoli. The report failed to generate because it couldn't find the core.txt. Reading through other comments. I found out that I should run make preview to quickly look …
ramay updated
4 years ago
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abricate --summary option is returning the following for each entry:
> Use of uninitialized value in hash element at /home/sharb/miniconda3/bin/abricate line 223, line 1.
> Use of uninitialized v…
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I've finally managed to install Nullarbor on Bio-Linux 8 with the help of Stephen's install script and if I run 'nullarbor.pl --check' then it all looks ok but if I run the makefile against the demo d…
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I've run Nullarbor successfully a few times, including all of these isolates except one, but these 7 isolates (of a total 402) don't seem to be processing and appear to be stopping the program this ti…
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Hi, I tried to install the nullarbor on python 3.7 but it says this conflict with the current python so I created an environment for it and activate it but upon check I got this error:
ERROR: Coul…