-
```
Linux-amd64/bin/canu obtovlMemory=1G obtovlThreads=2 useGrid=false -p ecoli -d ecoli-auto genomeSize=4.8m -pacbio-raw ecoli_p6_25x.filtered.fastq
```
```
-- Canu 1.8
--
-- CITATIONS
--
-…
-
**Submitting author:** @holtgrewe (Manuel Holtgrewe)
**Repository:** https://github.com/bihealth/altamisa
**Version:** v0.2.0
**Editor:** @lpantano
**Reviewers:** @tleonardi, @dsurujon, @dmnfarrell
…
-
**planning**
before new year
- in memory index to speed up Unipept database construction from Uniprot + NCBI Taxonomy
- use new indexing in Unipept database construction scripts
- ship rails platform…
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The interval tree (IntervalTrees.jl) seems to be much slower than the nested containment list (NCList), especially for short intervals.
The NCList is a data structure specialized for the interval que…
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Could you please provide descriptions of the output of `msa2profile`? I couldn't find them anywhere in the documentation.
Specifically, I have the following questions:
1) What is the difference be…
-
* [Graph Data-management Experiences & Systems](https://event.cwi.nl/grades/2017/scope.shtml)
* [The International Workshop on Graph Data Management and Analysis (GDMA)](http://www.comp.hkbu.edu.hk/~…
-
I tried to test pangenomic workflow with `anvi-self-test --suite pangenomics` and got an error. Based on log-file, it was appeared due to the use of deprecated static method `pd.DataFrame.from_csv`.
…
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Hello,
I am running Canu in a High Performance Computing cluster.
I used Canu for a bacterial genome assembly (draft) successfully.
I am trying to assemble another genome, but the job has failed…
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The `useGrid=remote` parameter is ignored (see below). The default behavior (`useGrid=true`) submits a job as expected.
```
icarroll@sshgw02:test$ ../bin/canu genomeSize=4.8m useGrid=remote -p eco…
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SnpEff failed in one out of dozens of tests I've ran, the log file is below. It also does not appear to have any options for automatically zipping the output VCF and I'll have to add that to the task.…