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During the refinement stage, the --cpu X argument is used to start X phmmer processes, but phmmer's own --cpu argument is left unspecified. By default phmmer will use all available cores and X such in…
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Dear Carol,
I had optimised and the scripts were working fine. Today when I am trying with a new set of phage genomes. I get the following error. Please help.
phate_blast says, Running VOG Gene …
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On CentOS 8 with gcc 8.3.1 there is a compiler warning during the build:
```
export LD_LIBRARY_PATH=/opt/ompi401/lib
export LD_RUN_PATH=/opt/ompi401/bin
export PATH=$PATH:/opt/ompi401/bin #or it…
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I'm trying to track down [an issue with HMMER and SIMDe](https://github.com/simd-everywhere/simde/issues/430), but on my (Fedora 33, x86_64) a bunch of tests just fail with "FAILED [@@ substitution]" …
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Dear authors
I have a question when I try running
emapper.py -m diamond -i GCF_000196095.1_ASM19609v1_translated_cds.faa --itype CDS -o a1
/Users/jlk666/Documents/Project/Vibrio_project/annotati…
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Check performance of getDBs.py due to possible changes in NCBI's files on their ftp server.
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Hello!
I set 6 for --cpu when I qsub my hmmscan command, but it was running only with 1 cpu. Does anyone know why and how to run the command parallelly? Thanks a lot for help.
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That would allow apply common blast filters on top of orthology restrictions. Currently only taxonomic restrictions can be applied.
Implementation would consist on phmmer searches occurring always a…
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Hi ,
I get the following error 👍
`Error executing process > 'bacannot_nf:digis (Scanning for Insertion Sequences with digIS)'
See shot below:
`
![image](https://user-images.githubusercontent.…
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Hi,
I got an error when consensus or superset is used as the primary gene caller after the gene calling is completed. I have attached the terminal output here. Similarly, the phate_runPipeline.log s…