Installation: CLI

External Dependencies

Add these two softwares to your system PATH

• Samtools (>=1.9).
• NCBI BLAST+ (>=2.2.18)

Install

Install it in a new python environment such as python3 -m venv or a new Conda environment is preferred.

Via PIP (release only)

$ pip3 install primerserver2

Via Github

$ git clone https://github.com/billzt/PrimerServer2.git
$ cd PrimerServer2
$ python3 setup.py install

Run testing commands

** (if installed from pip,) tests/query_design_multiple and tests/example.fa can be obtained from this github repository. ** 

** full mode: design primers and check specificity
$ primertool full tests/query_design_multiple tests/example.fa

** design mode: design primers only
$ primertool design tests/query_design_multiple tests/example.fa

** check mode: check specificity only
$ primertool check tests/query_check_multiple tests/example.fa