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Hi Jon - I'm using funannotate v1.7.1 with the sample data:
`$funannotate test -t all --cpus 16`
`$funannotate compare` test failed (NB. but successfully completes everything prior)
[01:07 PM]: M…
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I installed Squeezemeta using conda and downloaded the databases using download_databases.pl
I then attempted running the test samples using:
SqueezeMeta.pl -m coassembly -p Hadza -s test.sample…
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I use `interproscan.sh -appl Pfam,TIGRFAM -i bin2.fa -cpu 20` to annotate my sequences. But I find in the `hmmsearch` step only one thread was used. What should I do to call multi-thread.
Thanks in …
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Hi,
I was doing a metagenome assembly and due to its size the blast part took a few days.
I found out recently about https://github.com/bbuchfink/diamond which is a blast-like 20,000 faster.
Could …
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(python2) [root@localgc 1Genome_quast_introduction]# funannotate test -t annotate
#########################################################
Running `funannotate annotate` unit testing
Downloading: …
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Hello,
I am trying to use a custom hmm database using the --hmms option and encountering an error
`prokka --compliant --outdir ./vHIT317 --prefix vHIT317 --locustag vHIT314 --increment 5 --genu…
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`esl-shuffle -A` (alignment shuffling and bootstrapping) fails, saying `no such option --boot`. Problem appears to be that the code is testing for `--boot`, but the option is `-b`.
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Hi
I am trying to install hmmer 3.3 on some sandybridge servers. The configure script detects arch:
```
checking build system type... x86_64-pc-linux-gnu
checking host system type... x86_64-p…
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Hello,
I came across the Bioconda hmmer package (https://bioconda.github.io/recipes/hmmer/README.html). It contains all the hmmer binaries and works nicely. But unfortunately it does not contain the …
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I tried both command line to install hmmer, every looks okay. Just command not found. Here is the information
(base) campus-040-014:~ dklabuser$ conda install -c biocore hmmer
/Users/dklabuser/minic…