Thomas Cokelaer comments

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                                            Thomas Cokelaer

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Possible regression bugs from 6.8.0 to 6.9.X

@johanneskoester looks like it works with version 7.12.0 and 7.18.0 so I believe we can close the issue. Nevertheless, here is a simple example in case it is usefule for...

Some questions about the command bioconvert --help

Closing since this is working on different platforms / conda environment

Error in parse_kgml_pathway -- examples/plot_kegg_relations.py

Just try again. It works with current version 1.11.2. Closing due to inactivity. I believe this issue was a temporary slow request, or issue within one of the dependency (beautiflsoup,...

The values of Column database(Ensembl) are not complete

New uniprot API has been released last year. Redoing the example above, the syntax is now: print(u.search("Q91UZ8", columns = "id,accession,xref_ensembl")) Entry Name Entry Ensembl Q91UZ8_MOUSE Q91UZ8 ENSMUST00000053073.6; still only one...

request for convenience in KEGG.lookfor_organism

closing (no activity)

When importing UniProt from bioservices I get this TypeError: init() got an unexpected keyword argument 'text_color'

several update of the uniprot API. closing for now since I believe this is fixed.

New loguru logging seems not to play nice with Python logging.

dear @sarusso thanks for reporting this issue. indeed, I naively used loguru and I believe this is not really what I wanted. I need to look a bit more at...

Bug: get_best() returns worst fitting distribution when method is set to the ks_statistic

@andymd26 do you have a simple example to fix the potential issue ? thanks in advance

[Feature Request]: Compact set of most diverse distributions to try on a limited budget

@fingoldo YES ! I'm interested. You are completely right. The set of distributions is redundant and having a subset that is representative would be very useful. If in addition, it...

NameError: name 'logger' is not defined

@hummm310 not sure where it comes from. Do you have an example. What version of fitter did you use ?