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read_json almost never work for me. Here is for instance a json that is totally valid but breaks read_json
```
{
"id" : "GSM1698568",
"gse" : [
"GSE69360"
],
"title" : "Biochain_Adu…
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I have been trying to provide hits to blobtools via blastx search of BUSCO gene regions vs Uniprot, however all contigs are being assigned to no-hit despite there being taxid hit info in the input fil…
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CE8eSpRY.fasta
报错:I0910 11:42:53.106589 139985805367104 hhsearch.py:76] Launching subprocess "hhsearch -i /tmp/tmpd42j2lo8/query.a3m -o /tmp/tmpd42j2lo8/output.hhr -maxseq 1000000 -d /mnt/pdb70/pdb70…
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Trying to install centrifuge using the quick install guide. I am using WSL with Ubuntu 22.04 - each time I try to use it it just provides the following output:
dirname: missing operand
Try 'dirname…
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Hi, I have some trouble with using pgap. First, it works well with sample files. But it doesn't work with my own contig.
PGAP version 2024-07-18.build7555 is up to date.
PGAP failed, docker exited…
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Definitions:
"new method" = use a very large k-mer size, put in ternary search trie, use prefix matches to infer smaller k-mer size containment values
"old method" = train and re-run CMash on each i…
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Dear PathoScope developers, @kacrandall @ecastron @mlbendall @rgranit,
first of all I would like to thank you for developing and maintaining Pathoscope but also offering a tutorial explaining this …
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Hello,
I have a problem running the following command : `m2m recon -g rocks -o rocks_m2m -c 16`
Here is the error message :
```
######### Running metabolic network reconstruction with Pathway T…
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Publishers need to locate and disambiguate identifiers for natural persons and legal entities.
- Legal identifier _lists_ can be found on org-id.guide. This includes both single-jurisdiction, cano…
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Hey,
I realized that downloading the phage genomes from NCBI via (eutils.ncbi.nlm.nih.gov) is not working with the perl module (LWP::SIMPLE). I'm not sure why, is it because https ?? I could solve …