VCF-kit

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calculate Tajima'D on haploid

2

Dear developers, My fungi strains are haploidy and I would like to calculate Tajima'D via vk tajima. When I read [doc](https://vcf-kit.readthedocs.io/en/latest/tajima/), it says that require vcf file be diploid sites...

AlexWanghaoming

`conda install -c bioconda vcfkit` or `conda install -c bioconda vcfkit=0.1.6` gives the following error 

danrlu

The 'VCF-kit==0.1.6' distribution was not found and is required by the application

2

Hello, I have been trying to install for the past couple of days. The first few errors dealt with ascii code issues, and a couple missing dev libraries. I was...

DallasThomas

The recent version of VCF-kit is unusable right after the installation: ``` [nknyazeva@head02 silwer]$ vk Traceback (most recent call last): File "/home/nknyazeva/.local/bin/vk", line 9, in load_entry_point('VCF-kit==0.1.6', 'console_scripts', 'vk')() File "/home/tools/python/Python-2.7/lib/python2.7/site-packages/pkg_resources/__init__.py",...

aozalevsky

problems with PyFPE

2

I have some problems using vk phylo software. I installed all the dependencies and I have this error: Traceback (most recent call last): File "/home/luca/miniconda2/bin/vk", line 7, in from vcfkit.vk...

lroma84

Hi, I've tried running the docker image of vk primer, but so far without success. I keep getting the error in the title. The command I use is: `docker run...

thomvesiri

When I use --print-header option, it gets a error that the variable fill_field is not defined. I look into the code, it looks like it apears 3 times, but is...

huipan1973

i have tried installing VCF-kit as you mentioned in github site and i downloaded the reference genome as mentioned. run1: command: vk primer indel --ref=WBcel235 QX1211.indels.vcf.gz Using reference located at...

shanmugavadivelps

I'm a PhD student hoping to use this software! I installed through docker (docker run -it andersenlab/vcf-kit vk). Then I tried to run the hmm command and got a "Error...

ariellerjohnson

Hello I tried to install following https://vcf-kit.readthedocs.io/en/latest/#installation but vk setup does not work, here is the error I got ImportError: dlopen(/Users/sboutry/miniforge3/lib/python3.10/site-packages/cyvcf2/cyvcf2.cpython-310-darwin.so, 0x0002): symbol not found in flat namespace '_bcf_float_missing' How...

boutrys