Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / gem-pasteur/PanACoTA issues and pull requests

#48 - Conda installation conflict

Issue - State: open - Opened by ASUQ 5 months ago

#45 - [Enhancement] using bakta instead of prokka

Issue - State: open - Opened by rdenise 8 months ago - 1 comment

#44 - PanACoTA align There is not any protein for genome X

Issue - State: closed - Opened by AlperYurtseven 10 months ago - 5 comments

#43 - >mash sketch error

Issue - State: closed - Opened by sujeetpowar 10 months ago - 3 comments

#42 - PanACoTA prepare command download from NCBI error

Issue - State: closed - Opened by lear-711 about 1 year ago - 2 comments

#41 - running only formating of annotation step

Issue - State: closed - Opened by aymericola about 1 year ago - 3 comments

#40 - Error while trying to run prokka on

Issue - State: closed - Opened by aymericola over 1 year ago - 2 comments

#39 - Alignment fails when using gembase format

Issue - State: closed - Opened by jeanrjc over 1 year ago - 1 comment

#38 - Broken in conda with python > 3.6

Issue - State: closed - Opened by psydvl almost 2 years ago - 1 comment

#37 - cpu count vs available cpus

Issue - State: closed - Opened by EricDeveaud about 2 years ago - 3 comments

#36 - No distance matrix in output of FastME tree building

Issue - State: closed - Opened by rasedb00 about 2 years ago - 3 comments
Labels: enhancement

#35 - Protein ortho for separate branch

Pull Request - State: closed - Opened by RedSnail over 2 years ago

#34 - Error at alignment

Issue - State: closed - Opened by ryobon-dev over 2 years ago - 4 comments

#33 - L90 filtering

Issue - State: closed - Opened by Sirbius over 2 years ago - 1 comment

#32 - Issue 31

Issue - State: closed - Opened by asetGem over 2 years ago - 1 comment

#30 - Protein ortho

Pull Request - State: closed - Opened by RedSnail almost 3 years ago - 4 comments

#29 - Add a Gitter chat badge to README.md

Pull Request - State: closed - Opened by gitter-badger about 3 years ago

#24 - The prepare step misses genomes

Issue - State: closed - Opened by asetGem about 3 years ago

#20 - The prepare step misses genomes

Issue - State: closed - Opened by RedSnail about 3 years ago - 3 comments

#19 - Prokka error

Issue - State: closed - Opened by ryobon-dev about 3 years ago - 4 comments

#18 - Feature: passing strains list to ncbi-genome-download

Pull Request - State: closed - Opened by oxygen311 about 3 years ago - 4 comments
Labels: enhancement

#17 - Feature request: pass `-S/--strains` to `ncbi-genome-download`

Issue - State: closed - Opened by oxygen311 about 3 years ago - 11 comments
Labels: enhancement

#16 - Bootstrapping with `PanACoTA all`

Issue - State: closed - Opened by oxygen311 over 3 years ago - 2 comments
Labels: bug

#15 - the error about "The core genome contains 0 families"

Issue - State: closed - Opened by albertzhuo over 3 years ago - 6 comments
Labels: help wanted, question

#14 - Problem with mmseq

Issue - State: closed - Opened by yoshikal over 3 years ago - 5 comments
Labels: bug

#13 - Problem with iqtree2

Issue - State: closed - Opened by genomesandMGEs over 3 years ago - 6 comments

#12 - Combining step1 and step2 on the prepare module

Issue - State: closed - Opened by genomesandMGEs over 3 years ago - 2 comments

#11 - PanACoTA all skips cutn parametr

Issue - State: closed - Opened by oxygen311 over 3 years ago - 5 comments
Labels: bug

#10 - query/target coverage

Issue - State: closed - Opened by ramiroricardo over 3 years ago - 1 comment
Labels: question

#9 - prokka installed with PanACoTA under conda environment did not work for me.

Issue - State: closed - Opened by Happyalisa over 3 years ago - 5 comments

#8 - IQtree error: -quiet does not exist

Issue - State: closed - Opened by IsabelFE almost 4 years ago - 2 comments

#7 - Download individual assemblies with prepare

Issue - State: closed - Opened by IsabelFE almost 4 years ago - 5 comments
Labels: good first issue

#6 - 'utf-8' codec can't decode byte 0x80 in position 3131: invalid start byte

Issue - State: closed - Opened by IsabelFE almost 4 years ago - 15 comments
Labels: bug

#5 - Combining genomes from several sources in one analysis

Issue - State: closed - Opened by IsabelFE almost 4 years ago - 5 comments
Labels: good first issue, help wanted

#4 - Choosing assembly level in `prepare` module

Issue - State: closed - Opened by oxygen311 almost 4 years ago - 1 comment
Labels: enhancement

#3 - annotate error: Uh oh! Sequence file 'XXXXX_genomic.fna_prepare-split5N.fna' contains duplicate sequence ID

Issue - State: closed - Opened by IsabelFE almost 4 years ago - 5 comments
Labels: new dependency format

#2 - Error using annotate: unexpected keyword argument 'max_value'

Issue - State: closed - Opened by IsabelFE almost 4 years ago - 22 comments

#1 - Logger Error

Issue - State: closed - Opened by TorresRC about 4 years ago - 5 comments
Labels: bug