issues Search Results · repo:BigDataBiology/argNorm language:Python

Filter by

• • Code... (...)results
  • Issues

    results
  • Pull requests

    results
  • Discussions

    results
  • Commits

    results
  • Packages

    results
  • Wikis

    results

• State

  • Open
  • Closed

• Advanced

  • Owner
  • State
  • Close reason
  • Has linked pull request
  • Author
  • Assignee
  • Mentioned user
  • Mentioned team
  • Commenter
  • Involved user
  • Label
  • Milestone
  • Number of comments
  • Number of interactions
• Advanced search

Issues0 (0)

0 results

 (64 ms)

0 results

inBigDataBiology/argNorm (press backspace or delete to remove)

Sort by: Best match

Filter

BigDataBiology/argNorm

Bad error message if no output file is specified

For example argnorm deeparg -i examples/raw/deeparg.deeparg.orfs.tsv produces None: 100.00% ARGs mapped. Traceback (most recent call last): File /home/luispedro/.miniconda3/envs/py3.11/bin/argnorm ...

• luispedro
·
• Opened 
  on Jan 30
·
• #82

BigDataBiology/argNorm

Option to summarize multiple tool outputs into a single report

Hi! First of all, great software, I was looking for something like this a few weeks ago to consolidate some resistance and recently saw a presentation by Dr. Coelho of argnorm. Maybe I missed this in the ...

• Matt-BF
·
• 1
·
• Opened 
  on Jul 25, 2024
·
• #59

BigDataBiology/argNorm

argNorm should accept inputs in case-independent way (on command line)

enhancement

good first issue

• luispedro
·
• 2
·
• Opened 
  on May 3, 2024
·
• #40

BigDataBiology/argNorm

AttributeError: module 'collections' has no attribute 'Mapping'

Hello everyone, I was trying to run argNorm on data coming from amrfinderplus. Nevertheless, I am encountering an error. I tried also cloning this repo and using the examples files to run the analysis, ...

• VittoriaOssanna
·
• 6
·
• Opened 
  on Apr 8, 2024
·
• #34

BigDataBiology/argNorm

manual_curation data missing in pypi v0.1.0

Hi, the pypi release references the .._manual_curation files (e.g. data/manual_curation/resfinder_manual_curation.tsv) but doesn t include them in the setup.py package_data. This is fixed in main but should ...

• danielpodlesny
·
• 1
·
• Opened 
  on Feb 22, 2024
·
• #14

BigDataBiology/argNorm

amrfinderplus support & conda installation

Hi there, Thank you very much for this package, it looks really promising. I have seen in the documentation here in github that amrfinderplus is supporte but when installing package via pip latest version ...

• JFsanchezherrero
·
• 3
·
• Opened 
  on Nov 3, 2023
·
• #10

BigDataBiology/argNorm

input for argNorm for ARGs-OAP

Hi Developers! Thanks for this amazing effort in standardization! I learned about this work in your talk in EMBARK! My question is the input for argNorm for ARGs-OAP outputs. ARGs-OAP has a bunch of ...

• ellyyuyang
·
• 1
·
• Opened 
  on May 17, 2023
·
• #7

BigDataBiology/argNorm

Resfinderfg support

Preprocess: Need to remove in output files and then do exact match. Name correction: Use resfinderfg instead of resfinder_fg. Include the mapping table only after the resfinderfg is preprinted.

enhancement

• AdeBC
·
• 1
·
• Opened 
  on Jun 2, 2022
·
• #1

Learn how you can use GitHub Issues to plan and track your work.

Save views for sprints, backlogs, teams, or releases. Rank, sort, and filter issues to suit the occasion. The possibilities are endless.Learn more about GitHub Issues

ProTip! 

Restrict your search to the title by using the in:title qualifier.

Learn how you can use GitHub Issues to plan and track your work.

Save views for sprints, backlogs, teams, or releases. Rank, sort, and filter issues to suit the occasion. The possibilities are endless.Learn more about GitHub Issues

ProTip! 

Restrict your search to the title by using the in:title qualifier.