problem with primer3 in both conda and docker

[shanmugavadivelps]

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 /home/shanmu/.genome/WBcel235/WBcel235.fa.gz
   --size ignored; size is set dynamically when genotyping indels.

Applied 2 variants

Cannot find thermo path '/primer3_config/

similarly i have installed vcfkit through docker and ran the programme as below Run2:

sudo docker run -v /root/.genome/:/data -v /media/shanmu/shanmu_hdd1/chickpea_minicore/merged_298/filtered_passed/docker/VCF-kit/test_data:/datapath -it andersenlab/vcf-kit vk primer indel /datapath/QX1211.indels.vcf.gz --ref=/data/WBcel235

Genome 'WBcel235' does not exist

run 3: sudo docker run -v /home/shanmu/.genome/:/data -v /media/shanmu/shanmu_hdd1/chickpea_minicore/merged_298/filtered_passed/docker/VCF-kit/test_data:/datapath -it andersenlab/vcf-kit vk primer indel /datapath/QX1211.indels.vcf.gz --ref=/data/WBcel235

--size ignored; size is set dynamically when genotyping indels.

[E::fai_build3_core] Failed to open the file /data/WBcel235 [faidx] Could not load fai index of /data/WBcel235 [E::fai_build3_core] Failed to open the file /data/WBcel235 [faidx] Could not load fai index of /data/WBcel235 Note: the --sample option not given, applying all records regardless of the genotype Applied 0 variants

Cannot find thermo path '/primer3_config/