pan-genome-analysis

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Hello, When I try to run step 12 I get the following error: Traceback (most recent call last): File "./panX.py", line 334, in from SF12_create_panGenome import ete_tree_split ImportError: No module...

delavegapab

[Errno 2] No such file or directory: -> tmp_core_diversity.txt

2

Hello everyone, I am trying to run pan-genome analysis on 32 AOA species using the full genebanks I obtained from the NCBI and this code ./panX.py -fn data/genebanks -sl pratice...

Calvin2077

extract collection date without time

1

Modified 'collection_date' handling to accommodate (two) time formats; otherwise, there occurs an error in step 4. This update ensures panX processes 'collection_date' correctly by ignoring time and proceeds solely with...

Ha-nn-ah

Bumps [scipy](https://github.com/scipy/scipy) from 0.16.1 to 1.10.0. Release notes Sourced from scipy's releases. SciPy 1.10.0 Release Notes SciPy 1.10.0 is the culmination of 6 months of hard work. It contains many...

dependabot[bot]

IOError: [Errno 2] No such file or directory: '/home/a/Desktop/pan-genome-analysis/data/geneCluster/old_clusters_longSplit.txt'

1

Anyone who has run it without a problem please help me in this problem. thanks in advance

faraziAnindo

Hi, I am running panX tool for pangenome analysis and it create directory but output like json file and other are not there. What this mean. Please help me if...

neelam19051

run-TestSet.sh: 25: ./panX.py: Permission denied

1

I have installed it as mentioned in the given link https://github.com/neherlab/pan-genome-analysis/blob/master/README.md step 1 Installed:- git clone https://github.com/neherlab/pan-genome-analysis.git unzip step 2 wget https://repo.continuum.io/miniconda/Miniconda2-latest-Linux-x86_64.sh bash Miniconda2-latest-Linux-x86_64.sh export PATH=~/miniconda2/bin:$PATH conda env create -f...

Dimpledavray287

Hi. I am testing panX in my laptop. I already had miniconda3 installed so I tried the py3 branch, after failing to install the main branch and reading #27 ....

themudo

Bumps [numpy](https://github.com/numpy/numpy) from 1.10.4 to 1.22.0. Release notes Sourced from numpy's releases. v1.22.0 NumPy 1.22.0 Release Notes NumPy 1.22.0 is a big release featuring the work of 153 contributors spread...

dependabot[bot]

I have the question of when is the archive all_protein_seq.cpk generated. Because if I run the steps one by one this archive is not generated. and when I want to...

GitHublilo